Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold122
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: 766530
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.29
Warning! 93190 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:8358 original size:10 final size:10
Alignment explanation
Indices: 8343--8369 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
8333 ATGTATCAAG
8343 CAAAAACAAA
1 CAAAAACAAA
8353 CAAAAACAAA
1 CAAAAACAAA
8363 CAAAAAC
1 CAAAAAC
8370 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:12583 original size:52 final size:51
Alignment explanation
Indices: 12498--12621 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
12488 ATATGAAAAG
* *
12498 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
12549 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
12601 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
12622 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:12634 original size:51 final size:51
Alignment explanation
Indices: 12498--12641 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
12488 ATATGAAAAG
*
12498 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
12550 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
12601 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
12642 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 34 0.40
52 48 0.57
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:12648 original size:13 final size:13
Alignment explanation
Indices: 12630--12654 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12620 CAAAGATCAG
12630 TGTATCGATACAA
1 TGTATCGATACAA
12643 TGTATCGATACA
1 TGTATCGATACA
12655 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:12732 original size:33 final size:33
Alignment explanation
Indices: 12695--12761 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
12685 AGTAGCTTAA
12695 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
12728 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
12761 A
1 A
12762 AATCGTTGAA
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:12735 original size:13 final size:13
Alignment explanation
Indices: 12717--12741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12707 CAAAAAAATA
12717 TGTATCGATACAT
1 TGTATCGATACAT
12730 TGTATCGATACA
1 TGTATCGATACA
12742 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:13113 original size:35 final size:35
Alignment explanation
Indices: 13065--13222 Score: 307
Period size: 35 Copynumber: 4.5 Consensus size: 35
13055 GGTGTCTACA
13065 CCATGCCTTCATTTTTATATTCCATGCCCATCATT
1 CCATGCCTTCATTTTTATATTCCATGCCCATCATT
*
13100 CCATGCCTCCATTTTTATATTCCATGCCCATCATT
1 CCATGCCTTCATTTTTATATTCCATGCCCATCATT
13135 CCATGCCTTCATTTTTATATTCCATGCCCATCATT
1 CCATGCCTTCATTTTTATATTCCATGCCCATCATT
13170 CCATGCCTTCATTTTTATATTCCATGCCCATCATT
1 CCATGCCTTCATTTTTATATTCCATGCCCATCATT
13205 CCATGCCTTCATTTTTAT
1 CCATGCCTTCATTTTTAT
13223 TATTTTTTTT
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 121 1.00
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.43
Consensus pattern (35 bp):
CCATGCCTTCATTTTTATATTCCATGCCCATCATT
Found at i:13122 original size:21 final size:21
Alignment explanation
Indices: 13097--13197 Score: 68
Period size: 21 Copynumber: 5.5 Consensus size: 21
13087 CATGCCCATC
13097 ATTCCATGCCTCCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
13118 ATTCCATG-C-CCA----T-C
1 ATTCCATGCCTCCATTTTTAT
*
13132 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
13153 ATTCCATG-C-CCA----T-C
1 ATTCCATGCCTCCATTTTTAT
*
13167 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
13188 ATTCCATGCC
1 ATTCCATGCC
13198 CATCATTCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 28
0.63 0.07 0.30
Matches are distributed among these distances:
14 16 0.27
15 4 0.07
16 4 0.07
19 5 0.08
20 4 0.07
21 26 0.44
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.43
Consensus pattern (21 bp):
ATTCCATGCCTCCATTTTTAT
Found at i:13719 original size:40 final size:41
Alignment explanation
Indices: 13675--13778 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 41
13665 GTCCCACTTT
*
13675 TTGAGGACAAAGAAAAAGAG-AATGAAATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAAGAGAAAAGAAA-AGTGTCCTGCTCC
* * *
13715 TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGAAAAAG-AGAAAAGAAAAGTGTCCTGCTCC
13757 TTGAGGACAAAGTGAAAAAGAG
1 TTGAGGACAAA--GAAAAAGAG
13779 TACGTCTCGT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
40 17 0.31
41 4 0.07
42 25 0.46
43 2 0.04
44 6 0.11
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (41 bp):
TTGAGGACAAAGAAAAAGAGAAAAGAAAAGTGTCCTGCTCC
Found at i:13894 original size:120 final size:117
Alignment explanation
Indices: 13678--13894 Score: 246
Period size: 120 Copynumber: 1.8 Consensus size: 117
13668 CCACTTTTTG
* * *
13678 AGGACAAAGAAAAAGAGAATGAAATAGGTCCTGCTCCTTGAGGACAAAGGAAAAGAAGAAAAGGA
1 AGGACAAAGAAAAAGAGAACGAAATACGTCCTGCTCCTTAAGGACAAAGGAAAAGAAGAAAAGGA
* * *
13743 AAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCTCGTTTTTCA
66 AAGTGTCCTACTTCTTGAGGAAAAAGAGAAAAAGAGTACGTCTCGTTTTTCA
* *
13795 AGGACAAAGGAAAAAAGGGAAACGAAATACGTCCTGCT-CTCTAAGGACAAA-GAAAA-AGGAAA
1 AGGACAAA-G-AAAAAGAG-AACGAAATACGTCCTGCTCCT-TAAGGACAAAGGAAAAGAAGAAA
*
13857 A-TAAAGTGCGTCCTAC-TCTTTGAGGATAAAAGAGAAAA
62 AGGAAAGT--GTCCTACTTC-TTGAGGA-AAAAGAGAAAA
13895 GAAGGGAAAG
Statistics
Matches: 83, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
117 13 0.16
118 9 0.11
119 27 0.33
120 34 0.41
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (117 bp):
AGGACAAAGAAAAAGAGAACGAAATACGTCCTGCTCCTTAAGGACAAAGGAAAAGAAGAAAAGGA
AAGTGTCCTACTTCTTGAGGAAAAAGAGAAAAAGAGTACGTCTCGTTTTTCA
Found at i:14013 original size:61 final size:60
Alignment explanation
Indices: 13918--14284 Score: 375
Period size: 61 Copynumber: 6.2 Consensus size: 60
13908 TGTGTCTTGT
* * * *
13918 TCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAGGAAAAAGCGTCCTAC
1 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAAGCATCCTGC
* * *
13979 TCTTTGAGGACTG-GAAGATGCCACCAACTAGTGTGGGATTTGCAAA-AAGAAAGCATCCTGC
1 TCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTTG-AAAGAA-AAAGCATCCTGC
* * *
14040 TTTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGCAAA-AAGAAAGCATCCTGC
1 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGAA-AAAGCATCCTGC
* * *
14101 TCTTTAAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG-----GCATCCTGC
1 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGCATCCTGC
* * ** * *
14156 TCTTTGAAGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGAAGGCGTCCTGC
1 TCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAAGCATCCTGC
*
14217 TCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCATCCTGC
1 TCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGCATCCTGC
14273 TCTTTGAGGACT
1 TCTTTGAGGACT
14285 AAAGGGCGAA
Statistics
Matches: 270, Mismatches: 22, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
54 3 0.01
55 47 0.17
56 24 0.09
60 8 0.03
61 154 0.57
62 30 0.11
63 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (60 bp):
TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGCATCCTGC
Found at i:14137 original size:122 final size:116
Alignment explanation
Indices: 13918--14284 Score: 438
Period size: 122 Copynumber: 3.1 Consensus size: 116
13908 TGTGTCTTGT
* * *
13918 TCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAGGAA-AAAGCGTCCTACTCT
1 TCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAA--AAGAAAGCGTCCTGCTCT
* * * *
13982 TTGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCTGC
64 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AAAAG---GCATCCTGC
* * *
14040 TTTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCTGCTCTT
1 TCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTG-AAAAAGAAAGCGTCCTGCTCTT
* *
14105 TAAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGCATCCTGC
65 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCATCCTGC
* * * *
14156 TCTTTGAAGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCGAAGGCGTCCTGCTC
1 TCTTTGAGGACTGAAAA-GTGCCACCAACTAGTGTGGGCTTTGAAAA--AGAAAGCGTCCTGCTC
*
14219 TTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCATCCTGC
63 TTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCATCCTGC
14273 TCTTTGAGGACT
1 TCTTTGAGGACT
14285 AAAGGGCGAA
Statistics
Matches: 215, Mismatches: 23, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
114 4 0.02
115 4 0.02
116 62 0.29
117 52 0.24
119 4 0.02
121 2 0.01
122 84 0.39
123 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (116 bp):
TCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAAGAAAGCGTCCTGCTCTTT
GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCATCCTGC
Found at i:14353 original size:94 final size:95
Alignment explanation
Indices: 14208--14381 Score: 287
Period size: 94 Copynumber: 1.8 Consensus size: 95
14198 AAAGGCGAAG
* ** *
14208 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGC
1 GCGTCCGGCTCTTTGAGGACTAGAAAAGCACCACCAACTTGTGTGGGCTTTAAAAGGAATCCTGC
*
14273 TCTTTGAGGACTAAAGGGCGAAAGAAGGGA
66 TCTTTAAGGACTAAAGGGCGAAAGAAGGGA
*
14303 GCGTCCGGCTCTTTGAGGACTAG-GAAGCACCACCAACTTGTGTGGGCTTTAAAAGGAATCCTGC
1 GCGTCCGGCTCTTTGAGGACTAGAAAAGCACCACCAACTTGTGTGGGCTTTAAAAGGAATCCTGC
14367 TCTTTAAGGACTAAA
66 TCTTTAAGGACTAAA
14382 AGGTGCCACC
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
94 51 0.70
95 22 0.30
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (95 bp):
GCGTCCGGCTCTTTGAGGACTAGAAAAGCACCACCAACTTGTGTGGGCTTTAAAAGGAATCCTGC
TCTTTAAGGACTAAAGGGCGAAAGAAGGGA
Found at i:14394 original size:55 final size:55
Alignment explanation
Indices: 14332--14553 Score: 302
Period size: 55 Copynumber: 3.9 Consensus size: 55
14322 CTAGGAAGCA
*
14332 CCACCAACTTGTGTGGGCTTTAAAAGGAATCCTGCTCTTTAAGGACTAAAAGGTG
1 CCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTAAGGACTAAAAGGTG
* * *
14387 CCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAA-GACTGAAAGGTG
1 CCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT-AAGGACTAAAAGGTG
* *
14442 CCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTG
1 CCACCAACTTGTGTGGGCTTT--AA----AAGGCATCCTGCTCTTTAAGGACTA-AAAGGTG
*
14504 CCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAAA
1 CCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTAAGGACTAAA
14554 GGGCGAAAGG
Statistics
Matches: 149, Mismatches: 9, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
55 71 0.48
56 27 0.18
57 1 0.01
60 3 0.02
61 20 0.13
62 27 0.18
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (55 bp):
CCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTAAGGACTAAAAGGTG
Found at i:14537 original size:117 final size:109
Alignment explanation
Indices: 14332--14555 Score: 322
Period size: 117 Copynumber: 2.0 Consensus size: 109
14322 CTAGGAAGCA
*
14332 CCACCAACTTGTGTGGGCTTTAAAAGGAATCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTT
1 CCACCAACTTGTGTGGGCTTTAAAAGGAATCCTGCTCTTTAAGGACTAAAAAGTGCCACCAACTT
* *
14397 GTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGACTGAAAGGTG
66 GTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAAGACT-AAAGGTG
* *
14442 CCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCA
1 CCACCAACTTGTGTGGGCTTT--AA----AAGGAATCCTGCTCTTTAAGGACTA-AAAAGTGCCA
*
14507 CCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAAAGG
59 CCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAAGACTAAAGG
14556 GCGAAAGGAG
Statistics
Matches: 101, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
110 21 0.21
112 2 0.02
116 28 0.28
117 50 0.50
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (109 bp):
CCACCAACTTGTGTGGGCTTTAAAAGGAATCCTGCTCTTTAAGGACTAAAAAGTGCCACCAACTT
GTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAAGACTAAAGGTG
Found at i:14570 original size:266 final size:269
Alignment explanation
Indices: 14095--15391 Score: 1578
Period size: 266 Copynumber: 4.7 Consensus size: 269
14085 AAAGAAAGCA
* *
14095 TCCTGCTCTTTAAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * * *
14160 TGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGAAGGCGTCCTGCTCTTTGAG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCATCCTGCTCTTTGAG
*
14225 GACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAAAGG
131 GACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
* * * *
14290 GCGAAA-G-AAGGG-A-GCGTCCGGCTCTTTGAGGACTAGGAAGCACCACCAACTTGTGTGGGCT
195 GCCAAATGTGAGGGAAGGCGTCCTGCTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGGCT
*
14351 TTAAAAGGAA
260 TTAAAAGGAG
*
14361 TCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
*
14426 TGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCATCCTGCTCTTTGAG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCATCCTGCTCTTTGAG
*
14491 GACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAAAGG
131 GACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
*
14556 GCGAAA-G-GAGGG-A-GCGTCCTGCTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGGCT
195 GCCAAATGTGAGGGAAGGCGTCCTGCTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGGCT
14617 TTAAAAGGAG
260 TTAAAAGGAG
*
14627 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCT
1 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCT
* * * * *
14692 ACTCTTTGAGGACTGAGAGGTGCCACAAACTTGTGTGGGCTTTG--A----AAGGTATCCTACTC
60 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCATCCTGCTC
*
14751 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTG
125 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT--AA----AAGGCGTCCTGCTCTTTG
* * *
14816 AGGACTAGAAAAGTGCCACCAAATTGTGTGGGCTTTAAAAGGCGTCCTGTTCTTTGAGGACTAGG
184 AGGACT---AAAG-G--GCCAAA-TGTGAGGG------AAGGCGTCCTGCTCTTTGAGGACTAGG
* * *
14881 AAGTGCCACCAACTCGTGTGGGCTTTGAAAGGAG
236 AAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAG
* *
14915 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* *
14980 TGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCATCCTGCTCTTTGAG
*
15045 GACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAAGACTGGAAA
131 GACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT--AAA
** * * *
15110 ATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCA
193 GGGCCA--AA--TGTG-AGG----G-AAGGCGTCCTGCTCTTTGAGGACTAGGAA-GCGCCACCA
*
15174 ACTTGTGTGGGCTTTGAAA-GACG
247 ACTTGTGTGGGCTTTAAAAGGA-G
* * *
15197 TCCTGCTCTTTAAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
1 TCCTGCTCTTTAAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
*
15261 TTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGC----G--TCCTGCTCTTTGA
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCATCCTGCTCTTTGA
* *
15320 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCCCTTTGAGGAC
130 GGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCTGCTCTTTGAGGAC
15385 TAAAGGG
189 TAAAGGG
15392 TGCCACCAAC
Statistics
Matches: 922, Mismatches: 56, Indels: 93
0.86 0.05 0.09
Matches are distributed among these distances:
265 28 0.03
266 323 0.35
267 2 0.00
270 1 0.00
271 24 0.03
272 51 0.06
274 4 0.00
275 29 0.03
276 18 0.02
277 4 0.00
278 1 0.00
279 8 0.01
280 4 0.00
281 31 0.03
282 210 0.23
283 29 0.03
284 1 0.00
287 4 0.00
288 122 0.13
289 28 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (269 bp):
TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCATCCTGCTCTTTGAG
GACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
CCAAATGTGAGGGAAGGCGTCCTGCTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGGCTT
TAAAAGGAG
Found at i:14578 original size:211 final size:211
Alignment explanation
Indices: 14361--14766 Score: 636
Period size: 211 Copynumber: 1.9 Consensus size: 211
14351 TTAAAAGGAA
* * *
14361 TCCTGCTCTTTAAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTAAGGACTAGAAA-GCGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
** *
14425 TTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCATCCTGCTCTTTGA
65 TTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTCTTTGA
* *
14490 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACT-AAA
130 GGACT-GAAAAGTGCCACAAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGACTGAAA
14554 GGGCGAAAGGAGGGAGCG
194 GGGCGAAAGGAGGGAGCG
* *
14572 TCCTGCTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTT
1 TCCTGCTCTTTAAGGACTAGAAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTT
* *
14637 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTACTCTTTGAG
66 TGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTCTTTGAG
* * * *
14702 GACTGAGAGGTGCCACAAACTTGTGTGGGCTTTGAAAGGTATCCTACTCTTTGAGGACTGAAAGG
131 GACTGAAAAGTGCCACAAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGACTGAAAGG
14767 TGCCACCAAC
Statistics
Matches: 177, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
210 49 0.28
211 126 0.71
212 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (211 bp):
TCCTGCTCTTTAAGGACTAGAAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTT
TGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTACTCTTTGAG
GACTGAAAAGTGCCACAAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTGAGGACTGAAAGG
GCGAAAGGAGGGAGCG
Found at i:14631 original size:94 final size:96
Alignment explanation
Indices: 14477--14650 Score: 300
Period size: 94 Copynumber: 1.8 Consensus size: 96
14467 GGCGAAGGCA
*
14477 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGAAAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
14542 TTGAGGACT-AAAGGGCGAAAGGAGGGAGCG
66 TTGAGGACTGAAAGGGCGAAAGGAGGGAGCG
*
14572 TCCTGCTCTTTGAGGACTAG-GAAGCGCCACCAACTTGTGTGGGCTTTAAAAGG-AGTCCTGCTC
1 TCCTGCTCTTTGAGGACTAGAAAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGCA-TCCTGCTC
14635 TTTGAGGACTGAAAGG
65 TTTGAGGACTGAAAGG
14651 TGCCACCAAC
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
93 1 0.01
94 49 0.65
95 25 0.33
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (96 bp):
TCCTGCTCTTTGAGGACTAGAAAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
TTGAGGACTGAAAGGGCGAAAGGAGGGAGCG
Found at i:14656 original size:55 final size:55
Alignment explanation
Indices: 14569--15420 Score: 1102
Period size: 55 Copynumber: 15.0 Consensus size: 55
14559 AAAGGAGGGA
* *
14569 GCGTCCTGCTCTTTGAGGACTAGGAA-GCGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
14624 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* * * *
14685 GCGTCCTACTCTTTGAGGACTGAGAGGTGCCACAAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
** *
14740 GTATCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AA----AAG
* *
14801 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAAATTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
14857 GCGTCCTGTTCTTTGAGGACTAGGAA-GTGCCACCAACTCGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
14912 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
14967 GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AA----AAG
*
15028 GCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
15084 GCGTCCTGCTCTTTGAAGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
15139 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
15194 ACGTCCTGCTCTTTAAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
15249 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
15304 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
*
15365 GCGTCCTGCCCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAG
15420 G
1 G
15421 AAAAGGCGTC
Statistics
Matches: 713, Mismatches: 52, Indels: 64
0.86 0.06 0.08
Matches are distributed among these distances:
54 13 0.02
55 435 0.61
56 58 0.08
57 2 0.00
60 7 0.01
61 144 0.20
62 54 0.08
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:14995 original size:26 final size:26
Alignment explanation
Indices: 14906--14995 Score: 83
Period size: 26 Copynumber: 3.3 Consensus size: 26
14896 GTGTGGGCTT
*
14906 TGAAAGGAGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
14932 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
14959 TTTGAAAGGTGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCCTGCTCTTTGAGGAC
14987 TGAAAGGTG
1 TGAAAGGTG
14996 CCACCAACTT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
25 3 0.06
26 20 0.42
27 5 0.10
28 5 0.10
29 12 0.25
30 3 0.06
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:14996 original size:227 final size:229
Alignment explanation
Indices: 14569--15420 Score: 1241
Period size: 227 Copynumber: 3.7 Consensus size: 229
14559 AAAGGAGGGA
* * *
14569 GCGTCCTGCTCTTTGAGGACTAG-GAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
*
14633 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTACTCTT
66 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG--AA-G-GTCCTGCTCTT
* * * *
14698 TGAGGACTGAGAGGTGCCACAAACTTGTGTGGGCTTTGAAAGGTATCCTACTCTTTGAGGACTGA
127 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGA
14763 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
192 AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
* *
14801 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAAATTGTGTGGGCTTTAAAAGGCGTCCTGT
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* *
14866 TCTTTGAGGACTAGGAA-GTGCCACCAACTCGTGTGGGCTTTGAAAGG-A-GTCCTGCTCTTTGA
66 TCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAGGTCCTGCTCTTTGA
14928 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
130 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
*
14993 GTGCCACCAACTTGTATGGGCTTTGAAAGGCGAAG
195 GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
*
15028 GCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* * *
15093 TCTTTGAAGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGG--CGTCCTGCTCTTTGA
66 TCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAGGTCCTGCTCTTTGA
** * *
15155 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGACGTCCTGCTCTTTAAGGACTGGGAA
130 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAA
15220 -GTGCCACCAACTTGTGTGGGCTTT--AA----AAG
194 GGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
* * * *
15249 GAGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
*
15313 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCCCTT
66 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG--AA-G-GTCCTGCTCTT
*
15378 TGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
127 TGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGG
15421 AAAAGGCGTC
Statistics
Matches: 572, Mismatches: 36, Indels: 30
0.90 0.06 0.05
Matches are distributed among these distances:
219 4 0.01
220 80 0.14
221 23 0.04
225 5 0.01
226 47 0.08
227 306 0.53
228 3 0.01
230 1 0.00
232 23 0.04
233 77 0.13
234 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (229 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAGGTCCTGCTCTTTGAG
GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGG
TGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
Found at i:15288 original size:26 final size:26
Alignment explanation
Indices: 15259--15342 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
15249 GAGTCCTGCT
15259 CTTTGAGGACTGAAAGGTGCCACCAA
1 CTTTGAGGACTGAAAGGTGCCACCAA
* * * ** *
15285 CTTTTGTGGGCTTTGAAAGGCGTCCTGC-T
1 C-TTTGAGGAC--TGAAAGGTG-CCACCAA
15314 CTTTGAGGACTGAAAGGTGCCACCAA
1 CTTTGAGGACTGAAAGGTGCCACCAA
15340 CTT
1 CTT
15343 GTGTGGGCTT
Statistics
Matches: 41, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
25 3 0.07
26 12 0.29
27 7 0.17
28 7 0.17
29 9 0.22
30 3 0.07
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (26 bp):
CTTTGAGGACTGAAAGGTGCCACCAA
Found at i:15301 original size:29 final size:29
Alignment explanation
Indices: 15269--15359 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 29
15259 CTTTGAGGAC
15269 TGAAAGGTGCCACCAACTTTTGTGGGCTT
1 TGAAAGGTGCCACCAACTTTTGTGGGCTT
** ** * *
15298 TGAAA-G-GCGTCCTGCTCTTTGAGGAC--
1 TGAAAGGTGCCACCAACT-TTTGTGGGCTT
*
15324 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTTTGTGGGCTT
15353 TGAAAGG
1 TGAAAGG
15360 AAAAGGCGTC
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
26 5 0.11
27 13 0.30
28 14 0.32
29 12 0.27
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTTTGTGGGCTT
Found at i:21665 original size:79 final size:77
Alignment explanation
Indices: 21484--21717 Score: 245
Period size: 79 Copynumber: 2.9 Consensus size: 77
21474 ATATGTCCCG
* * *
21484 ATGAGAAATTTAATATTTTGGAGATAATAA-CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGT
1 ATGAGAAA-TTAATA-TTTGGAAATAA-AATC-GGGTTAGAGTATCCCCTTGGAAATAACGGGGT
* **
21548 TAGAGTATCCCCGGTT
62 TGGAGTATCCCCAATT
* * * *
21564 GTGAAAAATTGATGATTGGGAAATAAAATCGGGATTAGAGTATCCCCTTGGAAATAACGGGGTTG
1 ATGAGAAATTAAT-ATTTGGAAATAAAATCGGG-TTAGAGTATCCCCTTGGAAATAACGGGGTTG
21629 GAGTATCCCCAATT
64 GAGTATCCCCAATT
* * * ** *
21643 ATGAGAAATCAATATTCTGGAAATAAAGTCGAGGTTAGAGTATCCCCTCGGAGGTAATGGGGTTG
1 ATGAGAAATTAATATT-TGGAAATAAAATCG-GGTTAGAGTATCCCCTTGGAAATAACGGGGTTG
21708 GAGTATCCCC
64 GAGTATCCCC
21718 GATGAAATAA
Statistics
Matches: 129, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 8 0.06
79 112 0.87
80 9 0.07
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (77 bp):
ATGAGAAATTAATATTTGGAAATAAAATCGGGTTAGAGTATCCCCTTGGAAATAACGGGGTTGGA
GTATCCCCAATT
Found at i:21790 original size:51 final size:50
Alignment explanation
Indices: 21731--21912 Score: 215
Period size: 51 Copynumber: 3.5 Consensus size: 50
21721 GAAATAACGA
* *
21731 GGTTGGAGTATCCTCGATTGTGAAAGATTGGTGTTTTTAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGAAA-ATTGGTGTTTTTAAAATAAAATCGG
* *
21782 GGTTGGAGTATCCCCGATTAAAG-GAAATTTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT---GTGAAAATTGGTGTTTTTAAAATAAAATCGG
* *
21834 GGTTAGAGTATCCCCGATTGTGAAAAATTAGTG-TTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTG-AAAATTGGTGTTTTTA-AAATAAAATCGG
* *
21885 GGTTGGAGTATCCTCGATTATGAGAAAT
1 GGTTGGAGTATCCCCGATTGTGA-AAAT
21913 CAATATTTGA
Statistics
Matches: 113, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
49 1 0.01
50 6 0.05
51 61 0.54
52 40 0.35
53 4 0.04
54 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTTAAAATAAAATCGG
Found at i:21926 original size:51 final size:51
Alignment explanation
Indices: 21770--21950 Score: 175
Period size: 51 Copynumber: 3.5 Consensus size: 51
21760 GGTGTTTTTA
* * * * *** *
21770 AAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTGA-
1 AAATAAAATCGGGGTTGGAGTATCCCCGATT-ATGAAAAATCAAT-ATTTGAG
* * * * * *
21822 AAATAAAATCGGGGTTAGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAG
1 AAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTGAG
* *
21873 AAATAAAATCGGGGTTGGAGTATCCTCGATTATGAGAAATCAATATTTGAG
1 AAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTGAG
**
21924 AAATAAAGCCGGGGTTGGAGTATCCCC
1 AAATAAAATCGGGGTTGGAGTATCCCC
21951 TCGGAGATAA
Statistics
Matches: 108, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
50 4 0.04
51 75 0.69
52 29 0.27
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (51 bp):
AAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTGAG
Found at i:22025 original size:51 final size:52
Alignment explanation
Indices: 21961--22067 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 52
21951 TCGGAGATAA
* *
21961 CGGGGTTGGAGTATCCCCGATTAAAGGA-AAAT-TAGTGTTTT-GAAATAAAAC
1 CGGGGTTGAAGTATCCCCGATT--AGGAGAAATCAAGTGTTTTAGAAATAAAAC
*
22012 CGGGGTTGAAGTATCCCCGATTATGAGAAATCAAGTGTTTTAGAAATAAAAC
1 CGGGGTTGAAGTATCCCCGATTAGGAGAAATCAAGTGTTTTAGAAATAAAAC
22064 CGGG
1 CGGG
22068 TTGGATTACG
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
49 3 0.06
50 4 0.08
51 29 0.58
52 14 0.28
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (52 bp):
CGGGGTTGAAGTATCCCCGATTAGGAGAAATCAAGTGTTTTAGAAATAAAAC
Found at i:22069 original size:130 final size:129
Alignment explanation
Indices: 21831--22289 Score: 604
Period size: 130 Copynumber: 3.5 Consensus size: 129
21821 AAAATAAAAT
* * * *
21831 CGGGGTTAGAGTATCCCCGATTGTGAAAAATT-AGTGTTTTAGAAATAAAATCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAACCGGGGTTGAAGTA
* * * * *
21895 TCCTCGATTATGAGAAATCAATATTTGAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGATA
65 TCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACC-GGGTTGGAGTATCCCCTCGAAAATA
21960 A
129 A
* *
21961 CGGGGTTGGAGTATCCCCGATTAAAGGAAAATT-AGTGTTTT-GAAATAAAACCGGGGTTGAAGT
1 CGGGGTTGGAGTATCCCCGATT-ATGAAAAATTGA-TGTTTTAGAAATAAAACCGGGGTTGAAGT
* * * *
22024 ATCCCCGATTATGAGAAATCAAGTGTTTTAGAAATAAAACCGGGTTGGATTA-CGTCCTCTAAAA
64 ATCCCCGATTATGAGAAATCAA-TATTTTAGAAATAAAACCGGGTTGGAGTATC-CCCTCGAAAA
22088 TAA
127 TAA
* * *
22091 CGGGGTTGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGAAGTAT
* **
22156 CCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGTTTGGAGTATCCCCTCGAAAATAA
66 CCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGG-TTGGAGTATCCCCTCGAAAATAA
**
22221 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTTGGGTT-AGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGA-AGTA
22285 TCCCC
65 TCCCC
22290 TCGGAAATAA
Statistics
Matches: 292, Mismatches: 29, Indels: 16
0.87 0.09 0.05
Matches are distributed among these distances:
129 35 0.12
130 226 0.77
131 31 0.11
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (129 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGAAGTAT
CCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGTTGGAGTATCCCCTCGAAAATAA
Found at i:22158 original size:51 final size:51
Alignment explanation
Indices: 22091--22210 Score: 204
Period size: 51 Copynumber: 2.4 Consensus size: 51
22081 TCTAAAATAA
*
22091 CGGGGTTGGAGTATCCCCGATTACGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTACGAAAAATTGATATTTTAGAAATAAAAC
* *
22142 TGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTACGAAAAATTGATATTTTAGAAATAAAAC
*
22193 CGGGTTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
22211 TCGAAAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTACGAAAAATTGATATTTTAGAAATAAAAC
Found at i:22238 original size:79 final size:79
Alignment explanation
Indices: 22143--22317 Score: 298
Period size: 79 Copynumber: 2.2 Consensus size: 79
22133 AAATAAAACT
*
22143 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAC-CGGGTTTGGAGTAT
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACTCGGG-TTAGAGTAT
22207 CCCCTCGAAAATAAC
65 CCCCTCGAAAATAAC
* *
22222 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTTGGGTTAGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACTCGGGTTAGAGTATC
*
22287 CCCTCGGAAATAAC
66 CCCTCGAAAATAAC
22301 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
22318 TTGGTCCGCG
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 88 0.97
80 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACTCGGGTTAGAGTATC
CCCTCGAAAATAAC
Found at i:23724 original size:35 final size:35
Alignment explanation
Indices: 23685--23756 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
23675 ATTTTTTTTC
*
23685 CCCATCATTCCATGCCTTCATTTTTATATTCCATG
1 CCCATCATTCCATGCCTCCATTTTTATATTCCATG
23720 CCCATCATTCCATGCCTCCATTTTTATATTCCATG
1 CCCATCATTCCATGCCTCCATTTTTATATTCCATG
23755 CC
1 CC
23757 TCCATTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.19, C:0.35, G:0.06, T:0.40
Consensus pattern (35 bp):
CCCATCATTCCATGCCTCCATTTTTATATTCCATG
Found at i:23763 original size:56 final size:56
Alignment explanation
Indices: 23691--23812 Score: 226
Period size: 56 Copynumber: 2.2 Consensus size: 56
23681 TTTCCCCATC
*
23691 ATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTAT
1 ATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTAT
*
23747 ATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTAT
23803 ATTCCATGCC
1 ATTCCATGCC
23813 CATCATTCCA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (56 bp):
ATTCCATGCCTCCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTAT
Found at i:23786 original size:35 final size:35
Alignment explanation
Indices: 23747--23872 Score: 243
Period size: 35 Copynumber: 3.6 Consensus size: 35
23737 CCATTTTTAT
*
23747 ATTCCATGCCTCCATTTTTATATTCCATGCCCATC
1 ATTCCATGCCTTCATTTTTATATTCCATGCCCATC
23782 ATTCCATGCCTTCATTTTTATATTCCATGCCCATC
1 ATTCCATGCCTTCATTTTTATATTCCATGCCCATC
23817 ATTCCATGCCTTCATTTTTATATTCCATGCCCATC
1 ATTCCATGCCTTCATTTTTATATTCCATGCCCATC
23852 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTTCATTTTTAT
23873 TATTTTTTTT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 90 1.00
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.44
Consensus pattern (35 bp):
ATTCCATGCCTTCATTTTTATATTCCATGCCCATC
Found at i:23787 original size:27 final size:21
Alignment explanation
Indices: 23726--23847 Score: 110
Period size: 21 Copynumber: 6.5 Consensus size: 21
23716 CATGCCCATC
23726 ATTCCATGCCTCCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
23747 ATTCCATGCCTCCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
23768 ATTCCATG-C-CCA----T-C
1 ATTCCATGCCTCCATTTTTAT
*
23782 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
23803 ATTCCATG-C-CCA----T-C
1 ATTCCATGCCTCCATTTTTAT
*
23817 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
23838 ATTCCATGCC
1 ATTCCATGCC
23848 CATCATTCCA
Statistics
Matches: 80, Mismatches: 7, Indels: 28
0.70 0.06 0.24
Matches are distributed among these distances:
14 16 0.20
15 4 0.05
16 4 0.05
19 5 0.06
20 4 0.05
21 47 0.59
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (21 bp):
ATTCCATGCCTCCATTTTTAT
Found at i:25563 original size:20 final size:19
Alignment explanation
Indices: 25538--25592 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
25528 ATTTGCCTGC
25538 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATT-AAGA
*
25558 ATGTATTGATACAATTAAGA
1 ATGTATCGATAC-ATTAAGA
*
25578 CTGTATCGATACATT
1 ATGTATCGATACATT
25593 TGGGTCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGTATCGATACATTAAGA
Found at i:26468 original size:20 final size:20
Alignment explanation
Indices: 26445--26516 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
26435 ACAATTCAAA
26445 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
26465 GTATCGATACATGAAAAAAT
1 GTATCGATACATGTTGCAAT
26485 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
26505 GTATCGATACAT
1 GTATCGATACAT
26517 AAAAAGGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:26489 original size:40 final size:40
Alignment explanation
Indices: 26445--26537 Score: 161
Period size: 40 Copynumber: 2.3 Consensus size: 40
26435 ACAATTCAAA
26445 GTATCGATACATGTTGCAATGTATCGATACATGAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAGAT
26485 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAA-GAT
26526 GTATCGATACAT
1 GTATCGATACAT
26538 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
39 5 0.10
40 32 0.63
41 14 0.27
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (40 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAGAT
Found at i:26594 original size:13 final size:13
Alignment explanation
Indices: 26576--26601 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26566 TACAGCAAGT
26576 ATGTATCGATACA
1 ATGTATCGATACA
26589 ATGTATCGATACA
1 ATGTATCGATACA
26602 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:30682 original size:15 final size:15
Alignment explanation
Indices: 30662--30692 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30652 TAAAAATGTC
*
30662 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
30677 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
30692 C
1 C
30693 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:32781 original size:13 final size:13
Alignment explanation
Indices: 32763--32801 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
32753 ACATTTTTCC
32763 TTGTATCGATACA
1 TTGTATCGATACA
32776 TTGTATCGATACA
1 TTGTATCGATACA
*
32789 CTGTATCGATACA
1 TTGTATCGATACA
32802 GGGTGATTAT
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:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:34692 original size:48 final size:48
Alignment explanation
Indices: 34638--34733 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
34628 GGGGAGATAA
34638 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
34686 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
34734 CGTAAAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.29, T:0.25
Consensus pattern (48 bp):
AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
Found at i:35310 original size:20 final size:20
Alignment explanation
Indices: 35287--35358 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
35277 ACAATTCAAA
35287 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
35307 GTATCGATACATGAAAAAAT
1 GTATCGATACATGTTGCAAT
35327 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
35347 GTATCGATACAT
1 GTATCGATACAT
35359 AAAAAGGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:35331 original size:40 final size:40
Alignment explanation
Indices: 35287--35379 Score: 161
Period size: 40 Copynumber: 2.3 Consensus size: 40
35277 ACAATTCAAA
35287 GTATCGATACATGTTGCAATGTATCGATACATGAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAGAT
35327 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAA-GAT
35368 GTATCGATACAT
1 GTATCGATACAT
35380 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
39 5 0.10
40 32 0.63
41 14 0.27
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (40 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAGAT
Found at i:35436 original size:13 final size:13
Alignment explanation
Indices: 35418--35443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35408 TACAGCAAGT
35418 ATGTATCGATACA
1 ATGTATCGATACA
35431 ATGTATCGATACA
1 ATGTATCGATACA
35444 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:39465 original size:20 final size:20
Alignment explanation
Indices: 39442--39497 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
39432 CAAAACAAAT
39442 TGTATCAATACATTTAGAAA
1 TGTATCAATACATTTAGAAA
* *
39462 TGTATCAATAAATTTGGAAA
1 TGTATCAATACATTTAGAAA
* *
39482 TGAATCGATACATTTA
1 TGTATCAATACATTTA
39498 CTTATGTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTATCAATACATTTAGAAA
Found at i:39948 original size:13 final size:13
Alignment explanation
Indices: 39927--39956 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
39917 TGATACATGG
*
39927 TACATTGTATCGA
1 TACAATGTATCGA
39940 TACAATGTATCGA
1 TACAATGTATCGA
39953 TACA
1 TACA
39957 TAATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:43311 original size:51 final size:52
Alignment explanation
Indices: 43256--43372 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 52
43246 TTATTTCTGA
43256 GGGGATACTCCAACCT-CGATTTTA-GTCCTAAAATACCAATTTTCCACAATC
1 GGGGATACTCCAACCTCCGATTTTATGTCC-AAAATACCAATTTTCCACAATC
* * * *
43307 GGGGATACTCCAA-CTCCGATTTTATTTCCAAAGTATCGATTTTCCACAATC
1 GGGGATACTCCAACCTCCGATTTTATGTCCAAAATACCAATTTTCCACAATC
43358 GGGGATACTCCAACC
1 GGGGATACTCCAACC
43373 CAGACCTTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
50 2 0.03
51 53 0.90
52 4 0.07
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (52 bp):
GGGGATACTCCAACCTCCGATTTTATGTCCAAAATACCAATTTTCCACAATC
Found at i:43383 original size:51 final size:51
Alignment explanation
Indices: 43294--43420 Score: 184
Period size: 51 Copynumber: 2.5 Consensus size: 51
43284 TAAAATACCA
** *
43294 ATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAGTATCG
1 ATTTTCCACAATCGGGGATACTCCAACTCCGACCTTATTTCCAAAGCATCG
*
43345 ATTTTCCACAATCGGGGATACTCCAAC-CCAGACCTTATTTCTAAAGCATCG
1 ATTTTCCACAATCGGGGATACTCCAACTCC-GACCTTATTTCCAAAGCATCG
* *
43396 ATTTTCCATAATCGGGAATACTCCA
1 ATTTTCCACAATCGGGGATACTCCA
43421 GCCCCGTTGT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 2 0.03
51 67 0.97
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (51 bp):
ATTTTCCACAATCGGGGATACTCCAACTCCGACCTTATTTCCAAAGCATCG
Found at i:47496 original size:15 final size:17
Alignment explanation
Indices: 47465--47496 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
47455 AGAAAGATGA
47465 AAGTGTCCAAAATGAAG
1 AAGTGTCCAAAATGAAG
47482 AAGT-TCCAAAA-GAAG
1 AAGTGTCCAAAATGAAG
47497 TTAATGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 7 0.47
17 4 0.27
ACGTcount: A:0.50, C:0.12, G:0.22, T:0.16
Consensus pattern (17 bp):
AAGTGTCCAAAATGAAG
Found at i:49748 original size:19 final size:20
Alignment explanation
Indices: 49711--49749 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
49701 TTATAAATTT
49711 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
49732 CTTCATTTTCA-TCAAAAT
1 CTTCATTTTCACTCAAAAT
49750 CATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:52018 original size:13 final size:13
Alignment explanation
Indices: 52000--52026 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51990 ACATTATGCC
52000 TTGTATCGATACA
1 TTGTATCGATACA
52013 TTGTATCGATACA
1 TTGTATCGATACA
52026 T
1 T
52027 GGACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:55845 original size:20 final size:20
Alignment explanation
Indices: 55820--55873 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
55810 CTACCACTGT
55820 TTGTATCGATACAT-A-GTACA
1 TTGTATCGATACATGATG-A-A
55840 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
55860 TTGTATCGATACAT
1 TTGTATCGATACAT
55874 TGCTTCTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.91
21 2 0.06
22 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:66216 original size:2 final size:2
Alignment explanation
Indices: 66209--66234 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66199 GAAATCAAAG
66209 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
66235 GTAAACAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66512 original size:20 final size:20
Alignment explanation
Indices: 66468--66540 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
66458 TTCTATAACT
*
66468 TGTATCGATACAAATAA-TAAA
1 TGTATCGATAC--ATAACTGAA
* *
66489 TGTATCGGTACATAAGTGAA
1 TGTATCGATACATAACTGAA
**
66509 TGTATCGATACATGCCTGAA
1 TGTATCGATACATAACTGAA
66529 TGTATCGATACA
1 TGTATCGATACA
66541 AAATCACTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
19 4 0.09
20 31 0.69
21 10 0.22
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATAACTGAA
Found at i:66599 original size:22 final size:22
Alignment explanation
Indices: 66568--66624 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
66558 GGAAAGGAAC
*
66568 TGTATTGATACATGCTGACAAT
1 TGTATTGATACATGCTAACAAT
*
66590 TGTATCGATACATGCTAACAAT
1 TGTATTGATACATGCTAACAAT
66612 TGTATTGATACAT
1 TGTATTGATACAT
66625 TATTCATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (22 bp):
TGTATTGATACATGCTAACAAT
Found at i:69238 original size:79 final size:78
Alignment explanation
Indices: 69046--69294 Score: 279
Period size: 80 Copynumber: 3.2 Consensus size: 78
69036 CAACCCCATC
* * * *
69046 ATACTCTAACCTCGTTTTTACTTCCAAAATGTCAAATTTTTCATCTCTA-GATACTCCAACCCCA
1 ATACTCCAACCCCG-TTTTACTTCCAAAATATCAAAATTTTCATCTCTAGGATACTCCAACCCCA
* **
69110 ACATC-AAAAGGGG
65 CCATCTCTAAGGGG
* * * **
69123 -TACTCCAACCCCTGTTTTCACTTCCAAAACACCAAAATTTTCATCTCTAGGATATTCCAACCTT
1 ATACTCCAACCCC-GTTTT-ACTTCCAAAATATCAAAATTTTCATCTCTAGGATACTCCAACCCC
69187 ACCATCTCTAAGGGG
64 ACCATCTCTAAGGGG
* * *
69202 ATACTCCAACCCCGTTTCTACTTTCAAAATATCAAAATTTTCATCTTTGGGGATACTCCAACCCC
1 ATACTCCAACCCCGTTT-TACTTCCAAAATATCAAAATTTTCATCTCT-AGGATACTCCAACCCC
* *
69267 ACAATCTCTGAGGGG
64 ACCATCTCTAAGGGG
69282 ATACTCCAACCCC
1 ATACTCCAACCCC
69295 ACTTTTTTAC
Statistics
Matches: 143, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
76 14 0.10
77 27 0.19
78 16 0.11
79 35 0.24
80 51 0.36
ACGTcount: A:0.30, C:0.31, G:0.10, T:0.30
Consensus pattern (78 bp):
ATACTCCAACCCCGTTTTACTTCCAAAATATCAAAATTTTCATCTCTAGGATACTCCAACCCCAC
CATCTCTAAGGGG
Found at i:76559 original size:21 final size:21
Alignment explanation
Indices: 76535--76581 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
76525 TTTAATGCTG
76535 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
76555 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
76576 ATTTTG
1 ATTTTG
76582 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:76720 original size:13 final size:13
Alignment explanation
Indices: 76702--76740 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
76692 ATAATCACCC
*
76702 TGTATCGATACAG
1 TGTATCGATACAA
76715 TGTATCGATACAA
1 TGTATCGATACAA
76728 TGTATCGATACAA
1 TGTATCGATACAA
76741 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:76751 original size:20 final size:20
Alignment explanation
Indices: 76726--76804 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
76716 GTATCGATAC
76726 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
76746 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
76771 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
76791 CATGTATCGATACA
1 AATGTATCGATACA
76805 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:78839 original size:15 final size:15
Alignment explanation
Indices: 78819--78849 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
78809 ATTTCGTTTG
*
78819 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
78834 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
78849 G
1 G
78850 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:80682 original size:21 final size:21
Alignment explanation
Indices: 80653--80697 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
80643 AAGTTTTCAT
*
80653 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
80673 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
80695 TTT
1 TTT
80698 CAACTTGCAA
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:82914 original size:13 final size:13
Alignment explanation
Indices: 82896--82921 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82886 TACAAGCCAA
82896 TGTATCGATACAT
1 TGTATCGATACAT
82909 TGTATCGATACAT
1 TGTATCGATACAT
82922 ACTTGCTGTA
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:86122 original size:52 final size:52
Alignment explanation
Indices: 86044--86172 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
86034 CGAAATATGA
86044 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
86096 AAATTTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
86148 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
86173 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:86183 original size:52 final size:51
Alignment explanation
Indices: 86044--86192 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
86034 CGAAATATGA
86044 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
86096 AAATTTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
86148 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
86193 ATGTATTGAT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:86285 original size:13 final size:13
Alignment explanation
Indices: 86267--86291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86257 ACAAAACTTA
86267 TGTATCGATACAT
1 TGTATCGATACAT
86280 TGTATCGATACA
1 TGTATCGATACA
86292 ACACTTTATG
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:86287 original size:32 final size:33
Alignment explanation
Indices: 86246--86311 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
86236 AGTAGCTTAA
*
86246 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCAATAC
*
86278 ATTGTATCGATACAACACTTTATGTATCAATAC
1 ATTGTATCGATACAAAACTTTATGTATCAATAC
86311 A
1 A
86312 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCAATAC
Found at i:86608 original size:52 final size:52
Alignment explanation
Indices: 86543--86660 Score: 220
Period size: 52 Copynumber: 2.3 Consensus size: 52
86533 GAAGTGTCTA
86543 CATGTATCGATACATTTTATAGTGTATCGATACATCT-GGACAAATTTGCCTG
1 CATGTATCGATACATTTTATAGTGTATCGATACATCTAGG-CAAATTTGCCTG
86595 CATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAATTTGCCTG
1 CATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAATTTGCCTG
86647 CATGTATCGATACA
1 CATGTATCGATACA
86661 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 63 0.97
53 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
CATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAATTTGCCTG
Found at i:86671 original size:52 final size:52
Alignment explanation
Indices: 86543--86681 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 52
86533 GAAGTGTCTA
***
86543 CATGTATCGATACATTTTATAGTGTATCGATACATCTGGACAAATTTGCCTG
1 CATGTATCGATACATAAGATAGTGTATCGATACATCTGGACAAATTTGCCTG
***
86595 CATGTATCGATACATTTTATAGTGTATCGATACATCTAGG-CAAATTTGCCTG
1 CATGTATCGATACATAAGATAGTGTATCGATACATCT-GGACAAATTTGCCTG
86647 CATGTATCGATACA-AAGATCAGTGTATCGATACAT
1 CATGTATCGATACATAAGAT-AGTGTATCGATACAT
86682 TCTAACAATG
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
51 2 0.02
52 78 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (52 bp):
CATGTATCGATACATAAGATAGTGTATCGATACATCTGGACAAATTTGCCTG
Found at i:86987 original size:6 final size:6
Alignment explanation
Indices: 86974--87017 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
86964 TTTTTTTTTT
* *
86974 AAAA-A AAAAGA AAAAGA AAAAGA AAAGGG AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
87018 TTTAGATGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
5 4 0.12
6 30 0.88
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:87403 original size:20 final size:22
Alignment explanation
Indices: 87380--87428 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
87370 AAAAAAACAT
*
87380 GAAATGAAA-AGAAAAG-TGCA
1 GAAATGAAAGAGAAAAGATGAA
*
87400 GAAA-AAAAGAGAAAAGATGAA
1 GAAATGAAAGAGAAAAGATGAA
87421 GAAATGAA
1 GAAATGAA
87429 GAAAAGTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.13
20 11 0.48
21 7 0.30
22 2 0.09
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.08
Consensus pattern (22 bp):
GAAATGAAAGAGAAAAGATGAA
Found at i:90471 original size:63 final size:63
Alignment explanation
Indices: 90404--90589 Score: 180
Period size: 66 Copynumber: 2.9 Consensus size: 63
90394 TTTCACCCTA
* * * *
90404 GTCACCCTTTATTGGTTCATAT-TTTATTCTAGTCAATTCTATTTTGACTTAGGTTTTGCCTTG
1 GTCACCCTTTGTTGGTTCGTATGTTTATTCTAGTCAATTCT-TTTTGACTTAGGTTCTGCCATG
* **
90467 GTCACCCTTTGTTGGTTTGTATGGCTTTA-TCTAAACTAATTCTTTTTTGACTTAGGTTCTGCCA
1 GTCACCCTTTGTTGGTTCGTAT-G-TTTATTCTAGTC-AATTC-TTTTTGACTTAGGTTCTGCCA
90531 TG
62 TG
* * *
90533 GTCATCTTTTGTTGGTTCGTATGGTTT-TGTCCTAGTTAATTCTTTTTGGACTTAGGT
1 GTCACCCTTTGTTGGTTCGTAT-GTTTAT-T-CTAGTCAATTCTTTTT-GACTTAGGT
90590 CCTAGTCACC
Statistics
Matches: 101, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
63 19 0.19
65 13 0.13
66 65 0.64
67 4 0.04
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.50
Consensus pattern (63 bp):
GTCACCCTTTGTTGGTTCGTATGTTTATTCTAGTCAATTCTTTTTGACTTAGGTTCTGCCATG
Found at i:90517 original size:66 final size:66
Alignment explanation
Indices: 90438--90589 Score: 189
Period size: 66 Copynumber: 2.3 Consensus size: 66
90428 TATTCTAGTC
* * * *
90438 AATTCTATTTTGACTTAGGTTTTGCCTTGGTCACCCTTTGTTGGTTTGTATGGCTTTAT-CTAAA
1 AATTCTTTTTTGACTTAGGTTCTGCCATGGTCACCCTTTGTTGGTTCGTATGGCTTTATCCT-AA
90502 CT
65 CT
* * * * **
90504 AATTCTTTTTTGACTTAGGTTCTGCCATGGTCATCTTTTGTTGGTTCGTATGGTTTTGTCCTAGT
1 AATTCTTTTTTGACTTAGGTTCTGCCATGGTCACCCTTTGTTGGTTCGTATGGCTTTATCCTAAC
90569 T
66 T
*
90570 AATTCTTTTTGGACTTAGGT
1 AATTCTTTTTTGACTTAGGT
90590 CCTAGTCACC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 72 0.97
67 2 0.03
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.50
Consensus pattern (66 bp):
AATTCTTTTTTGACTTAGGTTCTGCCATGGTCACCCTTTGTTGGTTCGTATGGCTTTATCCTAAC
T
Found at i:91223 original size:132 final size:129
Alignment explanation
Indices: 91085--91667 Score: 383
Period size: 131 Copynumber: 4.4 Consensus size: 129
91075 TACTGCGGTG
* * * *
91085 AACTCCTATTTGACTTAGGTTCTGCCTTGATCACCCTTTGTTGGTTCATATGGTTTCATCCCGAC
1 AACTCCTTTTTAACTTAGGTTTTGCCCTGATCACCCTTTGTTGGTTCATATGGTTTCATCCC-AC
* * * **
91150 CAATTCCTTTTTAATTTAGGTTTTGCCTTGGTCATCGTTTATTGGCTTGTATGGTTTCATCCCAA
65 CAA-TCCTTTTTAACTTAGGTTTTACCTTGGTCACCGTTTATTGG-TTGTATGGTTTCATCTTAA
91215 CC
128 CC
* * * * * * **
91217 AACTCCTTTTTAAC-CATGGTTTTGCCCCGGTCATCCTTTGTTGGTTCGTTTGGTTTCATACTAA
1 AACTCCTTTTTAACTTA-GGTTTTGCCCTGATCACCCTTTGTTGGTTCATATGGTTTCAT-CCCA
* * * * * *
91281 CCAACTCCTTTTTAACTTAGGTTCTACCCTGGTCACCGTTTTGTTAGTTCGTATGCTTTCGTCTT
64 CCAA-TCCTTTTTAACTTAGGTTTTACCTTGGTCACCG-TTTATTGGTT-GTATGGTTTCATCTT
*
91346 AGCC
126 AACC
* * * * * * * ** * *
91350 AAC-CATTTTTTCACTTAGGTTTTACCTTGGTCATCCTTTGTTAGTTTGTATCGTTTCGTCCCAG
1 AACTC-CTTTTTAACTTAGGTTTTGCCCTGATCACCCTTTGTTGGTTCATATGGTTTCATCCCA-
* *
91414 CCAA-CCTTTTTTGACTTAGGTTTTACCTTGGTCACCCTTTATTGGTT-TATAGGGTTTCATCTT
64 CCAATCC-TTTTTAACTTAGGTTTTACCTTGGTCACCGTTTATTGGTTGTAT--GGTTTCATCTT
*
91477 AATC
126 AACC
* * * **
91481 AACTCCTTTTTAACTTAAGTTTTGCCCT-AGTCACCCTTTTTTGGTTTATATGGTTTCATCTTGA
1 AACTCCTTTTTAACTTAGGTTTTGCCCTGA-TCACCCTTTGTTGGTTCATATGGTTTCATC-CCA
* * * * * * * * * * * * * *
91545 CTAA-CTCTATTTGACTTAGGTTCTACTTTAGCCATCTTTTGTTGGTTCTTATAGTTTTATCTCA
64 CCAATC-CTTTTTAACTTAGGTTTTACCTTGGTCACCGTTTATTGGTT-GTATGGTTTCATCTTA
*
91609 ACT
127 ACC
* *
91612 AACT-TTTTTTCAACTTAGGTTTTGCCC-GAATCA-CTTTTGTTGGGTTCATATGGTTT
1 AACTCCTTTTT-AACTTAGGTTTTGCCCTG-ATCACCCTTTGTT-GGTTCATATGGTTT
91668 TGTCTTGACC
Statistics
Matches: 350, Mismatches: 81, Indels: 41
0.74 0.17 0.09
Matches are distributed among these distances:
129 3 0.01
130 11 0.03
131 148 0.42
132 115 0.33
133 72 0.21
134 1 0.00
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (129 bp):
AACTCCTTTTTAACTTAGGTTTTGCCCTGATCACCCTTTGTTGGTTCATATGGTTTCATCCCACC
AATCCTTTTTAACTTAGGTTTTACCTTGGTCACCGTTTATTGGTTGTATGGTTTCATCTTAACC
Found at i:91541 original size:66 final size:66
Alignment explanation
Indices: 91085--91720 Score: 363
Period size: 66 Copynumber: 9.7 Consensus size: 66
91075 TACTGCGGTG
* * * * * * ** **
91085 AACTCCTATTTGACTTAGGTTCTGCCTTGATCACCCTTTGTTGGTTCATATGGTTTCATCCCGAC
1 AACTCCTTTTTAACTTAGGTTTTACCCTGGTCACCCTTTGTTGGTTTGTATGGTTTCATCCTAAC
91150 C
66 C
* * * * * * * * *
91151 AATTCCTTTTTAATTTAGGTTTTGCCTTGGTCATCGTTTATTGGCTTGTATGGTTTCATCCCAAC
1 AACTCCTTTTTAACTTAGGTTTTACCCTGGTCACCCTTTGTTGGTTTGTATGGTTTCATCCTAAC
91216 C
66 C
* * * * * * *
91217 AACTCCTTTTTAAC-CATGGTTTTGCCCCGGTCATCCTTTGTTGGTTCGTTTGGTTTCATACTAA
1 AACTCCTTTTTAACTTA-GGTTTTACCCTGGTCACCCTTTGTTGGTTTGTATGGTTTCATCCTAA
91281 CC
65 CC
* * * * * * * *
91283 AACTCCTTTTTAACTTAGGTTCTACCCTGGTCACCGTTTTGTTAGTTCGTATGCTTTCGTCTTAG
1 AACTCCTTTTTAACTTAGGTTTTACCCTGGTCACC-CTTTGTTGGTTTGTATGGTTTCATCCTAA
91348 CC
65 CC
* * * * * * * * *
91350 AAC-CATTTTTTCACTTAGGTTTTACCTTGGTCATCCTTTGTTAGTTTGTATCGTTTCGTCCCAG
1 AACTC-CTTTTTAACTTAGGTTTTACCCTGGTCACCCTTTGTTGGTTTGTATGGTTTCATCCTAA
91414 CC
65 CC
* * * * * * * *
91416 AAC-CTTTTTTGACTTAGGTTTTACCTTGGTCACCCTTTATTGGTTTATAGGGTTTCATCTTAAT
1 AACTCCTTTTTAACTTAGGTTTTACCCTGGTCACCCTTTGTTGGTTTGTATGGTTTCATCCTAAC
91480 C
66 C
* * * * * * *
91481 AACTCCTTTTTAACTTAAGTTTTGCCCTAGTCACCCTTTTTTGGTTTATATGGTTTCATCTTGAC
1 AACTCCTTTTTAACTTAGGTTTTACCCTGGTCACCCTTTGTTGGTTTGTATGGTTTCATCCTAAC
*
91546 T
66 C
* * * ** * * * * * *
91547 AACT-CTATTTGACTTAGGTTCTACTTTAGCCATCTTTTGTTGGTTCT-TATAGTTTTAT-CTCA
1 AACTCCTTTTTAACTTAGGTTTTACCCTGGTCACCCTTTGTTGGTT-TGTATGGTTTCATCCT-A
*
91609 ACT
64 ACC
* * * * ** ** *
91612 AACT-TTTTTTCAACTTAGGTTTTGCCC-GAATCA-CTTTTGTTGGGTTCATATGGTTTTGTCTT
1 AACTCCTTTTT-AACTTAGGTTTTACCCTG-GTCACCCTTTGTT-GGTTTGTATGGTTTCATCCT
*
91674 GACC
63 AACC
** * * *
91678 AACTATTTTTTTACTTAAGTTTTACCCCGGTCACCCTTTGTTG
1 AACTCCTTTTTAACTTAGGTTTTACCCTGGTCACCCTTTGTTG
91721 CTTTTGACTT
Statistics
Matches: 447, Mismatches: 108, Indels: 30
0.76 0.18 0.05
Matches are distributed among these distances:
64 1 0.00
65 111 0.25
66 268 0.60
67 67 0.15
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (66 bp):
AACTCCTTTTTAACTTAGGTTTTACCCTGGTCACCCTTTGTTGGTTTGTATGGTTTCATCCTAAC
C
Found at i:91984 original size:66 final size:65
Alignment explanation
Indices: 91914--92132 Score: 217
Period size: 66 Copynumber: 3.3 Consensus size: 65
91904 TTTCCCAATT
* * *
91914 AACCCCTTTTTGACTTGGGTTCTACCTTTGTCACCCTTGGTTGATTCGTATGGTTTCA-TCCCCG
1 AACCCCTTTTTGACTTAGGTTCT-CCTTTGTCACCCTTTGTTGATTCGTATGGTTT-AGTCCACG
91978 CC
64 CC
* * * * * * * *
91980 AACCCCTTTTCGACTTAGGTTCTGCCCTAGTCACCCTTTTTTGGTTCGTTTGGTTTAGTCTAGGC
1 AACCCCTTTTTGACTTAGGTTCT-CCTTTGTCACCCTTTGTTGATTCGTATGGTTTAGTCCACGC
92045 C
65 C
* * * * *
92046 AACCCCTTTTTGACTTAGGTTCTGCTTTGGTCACTCTTTGTTGATTGGTATGGTTTTGTCC-TGA
1 AACCCCTTTTTGACTTAGGTTCTCCTTT-GTCACCCTTTGTTGATTCGTATGGTTTAGTCCACG-
92110 CC
64 CC
* *
92112 AACTCTTTTTTGACTTAGGTT
1 AACCCCTTTTTGACTTAGGTT
92133 TCGCCCTGTT
Statistics
Matches: 124, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
65 4 0.03
66 120 0.97
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.43
Consensus pattern (65 bp):
AACCCCTTTTTGACTTAGGTTCTCCTTTGTCACCCTTTGTTGATTCGTATGGTTTAGTCCACGCC
Found at i:92050 original size:132 final size:131
Alignment explanation
Indices: 91721--92792 Score: 577
Period size: 132 Copynumber: 8.1 Consensus size: 131
91711 CCCTTTGTTG
* * * * * * *
91721 CTTTT-GACTTAGGTTTTGCCCTGGTCACCCTTTTATTGGTTTGTATAGTTTTA-TCATGGCCAA
1 CTTTTCGACTTAGG-TTTACCCTAGTCACCC-TTTGTTGGTTCGTAT-GGTTTAGTCCTAGCCAA
* * ** * * * * * ***
91784 -CCCTTTTTCAATTTAAATTCTACCCTTGTCACTTTTTTGTTGGTTCGTATGATTTTATCCTTTC
63 CCCCTTTTT-GACTTAGGTTCTGCCCTTGTCAC-TCTTTGTTGATTCGTATGGTTTCATCCCGAC
91848 CAAC-C
126 CAACTC
* * * ** * ** * ***
91853 TTTTTCGACTTAGGTTCTGCCGC-AGTCACACTTTGTTGGTTTATATAGTTTTTTCCCAATTAAC
1 CTTTTCGACTTAGGTT-TACC-CTAGTCACCCTTTGTTGGTTCGTATGGTTTAGTCCTAGCCAAC
* * * * *
91917 CCCTTTTTGACTTGGGTTCTACCTTTGTCACCCTTGGTTGATTCGTATGGTTTCATCCCCG-CCA
64 CCCTTTTTGACTTAGGTTCTGCCCTTGTCACTCTTTGTTGATTCGTATGGTTTCAT-CCCGACCA
*
91981 ACCC
128 ACTC
* * *
91985 CTTTTCGACTTAGGTTCTGCCCTAGTCACCCTTTTTTGGTTCGTTTGGTTTAGT-CTAGGCCAAC
1 CTTTTCGACTTAGGTT-TACCCTAGTCACCCTTTGTTGGTTCGTATGGTTTAGTCCTA-GCCAAC
* * ** *
92049 CCCTTTTTGACTTAGGTTCTG-CTTTGGTCACTCTTTGTTGATTGGTATGGTTTTGTCCTGACCA
64 CCCTTTTTGACTTAGGTTCTGCCCTT-GTCACTCTTTGTTGATTCGTATGGTTTCATCCCGACCA
92113 ACTC
128 ACTC
* * * * * * *
92117 TTTTTTGACTTAGGTTTCGCCCT-GTTCAACCTTTGTTGGCTCATATGGTTTCA-TCCTAGCTAA
1 CTTTTCGACTTAGGTTT-ACCCTAG-TCACCCTTTGTTGGTTCGTATGGTTT-AGTCCTAGCCAA
* * * * * * * *
92180 CTCTTTTTTGACTTAGGTTCTGCCCTAGTCACTTTTTCTTGGTTTGTATGGTTTCATCCCGATCA
63 CCCCTTTTTGACTTAGGTTCTGCCCTTGTCACTCTTTGTTGATTCGTATGGTTTCATCCCGACCA
*
92245 ACTA
128 ACTC
* * * * *
92249 TTTTTCAACTTAGGATTTACCCTAGTCACCCTTTGTTGGTTTGTATGGTTTTGTCCTAGCCAACT
1 CTTTTCGACTTAGG-TTTACCCTAGTCACCCTTTGTTGGTTCGTATGGTTTAGTCCTAGCCAACC
** * * * * * * * *
92314 TTTTTTTGACTTAGGTTTTGCCCTGGACACTTTTTGTTGCTTCGTATGGTTTCATCCTGGCCAAT
65 CCTTTTTGACTTAGGTTCTGCCCTTGTCACTCTTTGTTGATTCGTATGGTTTCATCCCGACCAAC
92379 TC
130 TC
* * * * *
92381 CTTTTCGACTTAGGTTCCACCTTAGTCACCCATTT-TTGGTTTGTATGGTTTCA-TCCTAACTAA
1 CTTTTCGACTTAGGTT-TACCCTAGTCACCC-TTTGTTGGTTCGTATGGTTT-AGTCCTAGCCAA
* * * * * * * * ***
92444 CTCTTTTTTGAGTTAGGTTCTACCCTAGTCA-TCTTT-TATTACTTC-TATAGTTTCGTCTTAAC
63 CCCCTTTTTGACTTAGGTTCTGCCCTTGTCACTCTTTGT-TGA-TTCGTATGGTTTCATCCCGAC
*
92506 CATCTC
126 CAACTC
* * * *
92512 TTTTTC-ACCTTAGGTTCCACCCTAGTCACCCTTT-TTGGCTT-GTATGGTTTCGTCCTAGTCAA
1 CTTTTCGA-CTTAGGTT-TACCCTAGTCACCCTTTGTTGG-TTCGTATGGTTTAGTCCTAGCCAA
** * * * * * * * * * *
92574 TTCCTCTTTAACTTAGGTTTTGCCCTAGTCACCCTTGGTTGGTTCATATAGTTTCATCCCGACTA
63 CCCCTTTTTGACTTAGGTTCTGCCCTTGTCACTCTTTGTTGATTCGTATGGTTTCATCCCGACCA
92639 ACTC
128 ACTC
* ** * * * * * * *
92643 TTTTTTTACTTAGGTTCTGCCTTGGTCA-CCTTTGGTTGGTTCATAAGGTTTCA-TCCCCAGCTA
1 CTTTTCGACTTAGGTT-TACCCTAGTCACCCTTT-GTTGGTTCGTATGGTTT-AGT-CCTAGCCA
* * * *
92706 ACTCCTTTTTTGACTTAGGTTCTG-CCTTAGTCAC-CTTTTGTTGGTTCATATGGTTTCATCTCG
62 AC-CCCTTTTTGACTTAGGTTCTGCCCTT-GTCACTC-TTTGTTGATTCGTATGGTTTCATCCCG
** *
92769 GTCAAGTC
124 ACCAACTC
*
92777 CTTTTTGACTTAGGTT
1 CTTTTCGACTTAGGTT
92793 CTGCCTTAGT
Statistics
Matches: 736, Mismatches: 165, Indels: 76
0.75 0.17 0.08
Matches are distributed among these distances:
130 57 0.08
131 135 0.18
132 431 0.59
133 49 0.07
134 64 0.09
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.45
Consensus pattern (131 bp):
CTTTTCGACTTAGGTTTACCCTAGTCACCCTTTGTTGGTTCGTATGGTTTAGTCCTAGCCAACCC
CTTTTTGACTTAGGTTCTGCCCTTGTCACTCTTTGTTGATTCGTATGGTTTCATCCCGACCAACT
C
Found at i:92124 original size:198 final size:198
Alignment explanation
Indices: 91920--92803 Score: 537
Period size: 198 Copynumber: 4.5 Consensus size: 198
91910 AATTAACCCC
* ** *
91920 TTTTTGACTTGGGTTCTACCTTTGTCACCCTTGGTTGATTCGTATGGTTTCATCCCCGCCAACCC
1 TTTTTGACTTGGGTTCTACCTTTGTCACCCTTTGTTGATTCGTATGGTTTCATCCTAGCCAACTC
* * * *
91985 CTTTTCGACTTAGGTTCTGCCCTAGTCACCCTTTTTTGGTTCGTTTGGTTT-AGTCTAGGCCAAC
66 CTTTTCGACTTAGGTTCTGCCCTAGTCACCCTTTTTTGGTTTGTATGGTTTCA-TCCAGACCAA-
* * * ** * *
92049 CCCTTTTT-GACTTAGG-TTCTGCTTTGGTCACTCTTTGTTGATTGGTATGGTTTTGTCCT-GAC
129 CCATTTTTCAACTTAGGATT-TACCCTAGTCACCCTTTGTTGATTGGTATGGTTTTGTCCTAG-C
92111 CAACTCT
192 CAACTCT
* ** * * ** * *
92118 TTTTTGACTTAGGTTTCGCCCTGT-TCAACCTTTGTTGGCTCATATGGTTTCATCCTAGCTAACT
1 TTTTTGACTT-GGGTTCTACCTTTGTCACCCTTTGTTGATTCGTATGGTTTCATCCTAGCCAACT
* * * * *
92182 CTTTTTTGACTTAGGTTCTGCCCTAGTCA-CTTTTTCTTGGTTTGTATGGTTTCATCCCGATCAA
65 CCTTTTCGACTTAGGTTCTGCCCTAGTCACCCTTTT-TTGGTTTGTATGGTTTCATCCAGACCAA
* * *
92246 CTATTTTTCAACTTAGGATTTACCCTAGTCACCCTTTGTTGGTTTGTATGGTTTTGTCCTAGCCA
129 CCATTTTTCAACTTAGGATTTACCCTAGTCACCCTTTGTTGATTGGTATGGTTTTGTCCTAGCCA
*
92311 ACTTT
194 ACTCT
* * * * * * ** * * *
92316 TTTTTGACTTAGGTTTTGCCCTGGACACTTTTTGTTGCTTCGTATGGTTTCATCCTGGCCAATTC
1 TTTTTGACTTGGGTTCTACCTTTGTCACCCTTTGTTGATTCGTATGGTTTCATCCTAGCCAACTC
** * * *
92381 CTTTTCGACTTAGGTTCCACCTTAGTCACCCATTTTTGGTTTGTATGGTTTCATCCTA-ACTAAC
66 CTTTTCGACTTAGGTTCTGCCCTAGTCACCCTTTTTTGGTTTGTATGGTTTCATCC-AGACCAAC
** * * * * * * * * *
92445 TC-TTTTTTGAGTTAGG-TTCTACCCTAGTCATCTTTTATT-ACTT-CTATAGTTTCGTCTTAAC
130 -CATTTTTCAACTTAGGATT-TACCCTAGTCACCCTTTGTTGA-TTGGTATGGTTTTGTCCTAGC
*
92506 CATCTC-
192 CAACTCT
* * * * * * * * *
92512 TTTTTCACCTTAGGTTCCACCCTAGTCACCCTTT-TTGGCTT-GTATGGTTTCGTCCTAGTCAAT
1 TTTTTGA-CTTGGGTTCTACCTTTGTCACCCTTTGTT-GATTCGTATGGTTTCATCCTAGCCAAC
* * ** ** * * *
92575 TCCTCTTT-AACTTAGGTTTTGCCCTAGTCACCCTTGGTTGGTTCATATAGTTTCATCCCGACTA
64 TCCT-TTTCGACTTAGGTTCTGCCCTAGTCACCCTTTTTTGGTTTGTATGGTTTCATCCAGACCA
** * * * * ** * ** *
92639 ACTC-TTTTTTTACTTAGG-TTCTGCCTTGGTCA-CCTTTGGTTGGTTCATAAGGTTTCATCCCC
128 AC-CATTTTTCAACTTAGGATT-TACCCTAGTCACCCTTT-GTTGATTGGTATGGTTTTGT-CCT
*
92701 AGCTAACTCCT
189 AGCCAACT-CT
* * * * * * * * *
92712 TTTTTGACTTAGGTTCTGCCTTAGTCACCTTTTGTTGGTTCATATGGTTTCAT-CTCGGTCAAGT
1 TTTTTGACTTGGGTTCTACCTTTGTCACCCTTTGTTGATTCGTATGGTTTCATCCT-AGCCAACT
* *
92776 CCTTTTTGACTTAGGTTCTGCCTTAGTC
65 CCTTTTCGACTTAGGTTCTGCCCTAGTC
92804 GTATGCTTGC
Statistics
Matches: 531, Mismatches: 129, Indels: 50
0.75 0.18 0.07
Matches are distributed among these distances:
195 4 0.01
196 105 0.20
197 69 0.13
198 260 0.49
199 48 0.09
200 45 0.08
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (198 bp):
TTTTTGACTTGGGTTCTACCTTTGTCACCCTTTGTTGATTCGTATGGTTTCATCCTAGCCAACTC
CTTTTCGACTTAGGTTCTGCCCTAGTCACCCTTTTTTGGTTTGTATGGTTTCATCCAGACCAACC
ATTTTTCAACTTAGGATTTACCCTAGTCACCCTTTGTTGATTGGTATGGTTTTGTCCTAGCCAAC
TCT
Found at i:92151 original size:66 final size:66
Alignment explanation
Indices: 91943--92792 Score: 398
Period size: 66 Copynumber: 12.9 Consensus size: 66
91933 TTCTACCTTT
* * * * * * * *
91943 GTCACCCTTGGTTGATTCGTATGGTTTCATCCCCG-CCAACCCCTTTTCGACTTAGG-TTCTGCC
1 GTCAACCTTTGTTGGTTTGTATGGTTTCAT-CCTGACCAACTCTTTTTTGACTTAGGTTTC-GCC
92006 CTA
64 CTA
* * * * * * *
92009 GTCACCCTTTTTTGGTTCGTTTGGTTT-AGT-CTAGGCCAACCCCTTTTTGACTTAGG-TTCTGC
1 GTCAACCTTTGTTGGTTTGTATGGTTTCA-TCCT-GACCAACTCTTTTTTGACTTAGGTTTC-GC
** *
92071 TTTG
63 CCTA
* * **
92075 GTC-ACTCTTTGTTGATTGGTATGGTTTTGTCCTGACCAACTCTTTTTTGACTTAGGTTTCGCCC
1 GTCAAC-CTTTGTTGGTTTGTATGGTTTCATCCTGACCAACTCTTTTTTGACTTAGGTTTCGCCC
92139 T-
65 TA
* ** *
92140 GTTCAACCTTTGTTGGCTCATATGGTTTCATCCT-AGCTAACTCTTTTTTGACTTAGG-TTCTGC
1 G-TCAACCTTTGTTGGTTTGTATGGTTTCATCCTGA-CCAACTCTTTTTTGACTTAGGTTTC-GC
92203 CCTA
63 CCTA
* * * * * ** *
92207 GTC-ACTTTTTCTTGGTTTGTATGGTTTCATCCCGATCAACTATTTTTCAACTTAGGATTT-ACC
1 GTCAAC-CTTTGTTGGTTTGTATGGTTTCATCCTGACCAACTCTTTTTTGACTTAGG-TTTCGCC
92270 CTA
64 CTA
* ** * *
92273 GTCACCCTTTGTTGGTTTGTATGGTTTTGTCCT-AGCCAACTTTTTTTTGACTTAGGTTTTGCCC
1 GTCAACCTTTGTTGGTTTGTATGGTTTCATCCTGA-CCAACTCTTTTTTGACTTAGGTTTCGCCC
*
92337 TG
65 TA
* * * * * * * * * * *
92339 GAC-ACTTTTTGTTGCTTCGTATGGTTTCATCCTGGCCAATTCCTTTTCGACTTAGGTTCCACCT
1 GTCAAC-CTTTGTTGGTTTGTATGGTTTCATCCTGACCAACTCTTTTTTGACTTAGGTTTCGCCC
92403 TA
65 TA
* * * * *
92405 GTCACCCATTT-TTGGTTTGTATGGTTTCATCCTAACTAACTCTTTTTTGAGTTAGG-TTCTACC
1 GTCAACC-TTTGTTGGTTTGTATGGTTTCATCCTGACCAACTCTTTTTTGACTTAGGTTTC-GCC
92468 CTA
64 CTA
* * * ** * * * * * * * * *
92471 GTCATCTTTTATT-ACTTCTATAGTTTCGTCTTAACCATCTC-TTTTTCACCTTAGGTTCCACCC
1 GTCAACCTTTGTTGGTTTGTATGGTTTCATCCTGACCAACTCTTTTTTGA-CTTAGGTTTCGCCC
92534 TA
65 TA
* * * * * * * * *
92536 GTCACCCTTT-TTGGCTTGTATGGTTTCGTCCT-AGTCAATTCCTCTTTAACTTAGGTTTTGCCC
1 GTCAACCTTTGTTGGTTTGTATGGTTTCATCCTGA-CCAACTCTTTTTTGACTTAGGTTTCGCCC
92599 TA
65 TA
* * ** * * * * *
92601 GTCACCCTTGGTTGGTTCATATAGTTTCATCCCGACTAACTCTTTTTTTACTTAGG-TTCTGCCT
1 GTCAACCTTTGTTGGTTTGTATGGTTTCATCCTGACCAACTCTTTTTTGACTTAGGTTTC-GCCC
*
92665 TG
65 TA
** * ** *
92667 GTC-ACCTTTGGTTGGTTCATAAGGTTTCATCCCCAGCTAACTCCTTTTTTGACTTAGG-TTCTG
1 GTCAACCTTT-GTTGGTTTGTATGGTTTCATCCTGA-CCAACT-CTTTTTTGACTTAGGTTTC-G
*
92730 CCTTA
62 CCCTA
** ** * *
92735 GTC-ACCTTTTGTTGGTTCATATGGTTTCAT-CTCGGTCAAGTCCTTTTTGACTTAGGTT
1 GTCAACC-TTTGTTGGTTTGTATGGTTTCATCCT-GACCAACTCTTTTTTGACTTAGGTT
92793 CTGCCTTAGT
Statistics
Matches: 605, Mismatches: 140, Indels: 77
0.74 0.17 0.09
Matches are distributed among these distances:
64 10 0.02
65 106 0.18
66 410 0.68
67 26 0.04
68 50 0.08
69 3 0.00
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (66 bp):
GTCAACCTTTGTTGGTTTGTATGGTTTCATCCTGACCAACTCTTTTTTGACTTAGGTTTCGCCCT
A
Found at i:93210 original size:41 final size:41
Alignment explanation
Indices: 93165--93269 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 41
93155 GTATCATCGT
* *
93165 AGTCAACCCCTTTAACTTGTTGACTTGTATGATTTTATCTC
1 AGTCAACCCCTTTAACTTGTTGACTTGTATGATTATATCCC
* * * * * *
93206 AGTCAACTCTTTTCA-TTCATTGACTTGTATGGTTATGTCCC
1 AGTCAACCCCTTTAACTT-GTTGACTTGTATGATTATATCCC
93247 AGTCAACCCCTTTAACTTGTTGA
1 AGTCAACCCCTTTAACTTGTTGA
93270 GTAGAATGGT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
40 2 0.04
41 46 0.92
42 2 0.04
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (41 bp):
AGTCAACCCCTTTAACTTGTTGACTTGTATGATTATATCCC
Found at i:100301 original size:19 final size:19
Alignment explanation
Indices: 100277--100314 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
100267 GATTCAATTT
100277 ATTTG-TTATTTTCATGATA
1 ATTTGATTATTTT-ATGATA
100296 ATTTGTATTATTTTATGAT
1 ATTTG-ATTATTTTATGAT
100315 TTTTGAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.61
Consensus pattern (19 bp):
ATTTGATTATTTTATGATA
Found at i:101552 original size:153 final size:154
Alignment explanation
Indices: 101231--101910 Score: 591
Period size: 154 Copynumber: 4.4 Consensus size: 154
101221 TTTCTTACCA
* * * *
101231 TTTATGTCCTTTAAGGTTACT-GGATGCTTTCAAGAT-GAAGGTAGT-CGTC-AAAGGTATTTTG
1 TTTA-GTCCTTTAAGGTTACTAAGATACTTTCATG-TCGAAGGTA-TAC-TCTAAAGGCATTTTG
* * * * * * * *
101292 ATCATTTTTCTAGAATAGAATCTGATGTAGTCATCAGGATG-TTCTTATGCCAAA--T--TCATT
62 GTAATTTTT-TAGAATCGAGTCTGATGTAGTTACCAAGATGCTT-TTATGCCAAAGGTGAGCATT
* ** **
101352 TAAGATAGGTTTGCCCTTCTACGATCATTT
125 TAGGATAGGTTCACCCTTCTATAATCATTT
* * * * * * *
101382 TTTAATCCCTTATGGTTACTAAGATACTTTCATATTGAAGGCATA-TCTAAAGGTATTTTGGTAA
1 TTTAGTCCTTTAAGGTTACTAAGATACTTTCATGTCGAAGGTATACTCTAAAGGCATTTTGGTAA
* *
101446 TTTTTTTAGAATCGAGTCCGATGTAGTTA-CAAGATGCTTTTATGTCAAAGGTGAGCATTTAGGA
66 -TTTTTTAGAATCGAGTCTGATGTAGTTACCAAGATGCTTTTATGCCAAAGGTGAGCATTTAGGA
* *
101510 TAGGTTCACCTTTCTATTATCATTT
130 TAGGTTCACCCTTCTATAATCATTT
* *
101535 TTTAGTCCTTTAAGGTTACT-AGTATACTTTCATGTCGAAGGTATACCCTAAAAGCATTTTGGTA
1 TTTAGTCCTTTAAGGTTACTAAG-ATACTTTCATGTCGAAGGTATACTCTAAAGGCATTTTGGTA
* *
101599 ATTTTTTAGAA-CTGAATCTGATGTAGTCACCAAGATGCTTTTATGCCAAAGGT-ATGCATTTAG
65 ATTTTTTAGAATC-GAGTCTGATGTAGTTACCAAGATGCTTTTATGCCAAAGGTGA-GCATTTAG
* * *
101662 GATAAGTTCACTCTTCTATAATTATTT
128 GATAGGTTCACCCTTCTATAATCATTT
* * * * * * * * *
101689 TTGAGTCCTTCACGGTCACTAGGATACTTTCATGTCAAAAGTATATTCTAAGGGCATTTTGGTAA
1 TTTAGTCCTTTAAGGTTACTAAGATACTTTCATGTCGAAGGTATACTCTAAAGGCATTTTGGT-A
* * * * * * *
101754 ATTTGTTAGAATCAAGTCTAATGTAATTACCGAGATGC-TTTATGCCAAAGGTGTGCAATTAGGA
65 ATTTTTTAGAATCGAGTCTGATGTAGTTACCAAGATGCTTTTATGCCAAAGGTGAGCATTTAGGA
*
101818 TAGGTTCACCCTTCTATAATTATTT
130 TAGGTTCACCCTTCTATAATCATTT
* ** ** ** * *
101843 TTAAGTCCTTTAAGGAGACCGAGATACTTTCATGTCGAAAATATAAC-CTAAGGGTATTTTGGTA
1 TTTAGTCCTTTAAGGTTACTAAGATACTTTCATGTCGAAGGTAT-ACTCTAAAGGCATTTTGGTA
101907 ATTT
65 ATTT
101911 CCCTTATAAC
Statistics
Matches: 434, Mismatches: 75, Indels: 38
0.79 0.14 0.07
Matches are distributed among these distances:
149 17 0.04
150 50 0.12
151 25 0.06
152 3 0.01
153 93 0.21
154 213 0.49
155 32 0.07
156 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (154 bp):
TTTAGTCCTTTAAGGTTACTAAGATACTTTCATGTCGAAGGTATACTCTAAAGGCATTTTGGTAA
TTTTTTAGAATCGAGTCTGATGTAGTTACCAAGATGCTTTTATGCCAAAGGTGAGCATTTAGGAT
AGGTTCACCCTTCTATAATCATTT
Found at i:111716 original size:22 final size:22
Alignment explanation
Indices: 111688--111734 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
111678 AAAGCCTTCT
111688 AAGTTACTTGATGAAATGAATA
1 AAGTTACTTGATGAAATGAATA
111710 AAGTTACTTGATGAAATGAATA
1 AAGTTACTTGATGAAATGAATA
111732 AAG
1 AAG
111735 AACTTTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (22 bp):
AAGTTACTTGATGAAATGAATA
Found at i:111744 original size:21 final size:22
Alignment explanation
Indices: 111688--111744 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
111678 AAAGCCTTCT
*
111688 AAGTTACTTGATGAAATGAATA
1 AAGTAACTTGATGAAATGAATA
*
111710 AAGTTACTTGATGAAATGAATA
1 AAGTAACTTGATGAAATGAATA
*
111732 AAG-AACTTTATGA
1 AAGTAACTTGATGA
111745 GAGATTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 8 0.24
22 25 0.76
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.32
Consensus pattern (22 bp):
AAGTAACTTGATGAAATGAATA
Found at i:112128 original size:102 final size:102
Alignment explanation
Indices: 111952--112157 Score: 306
Period size: 102 Copynumber: 2.0 Consensus size: 102
111942 TTGAGTTGGG
* *
111952 TTATTATGGCAAGTGAAAGGTTATGTTGTTTCAATGTGATTAGACTGATGTGAATACTCTTAGAG
1 TTATTATGGCAAGTGAAAGGTCATATTGTTTCAATGTGATTAGACTGATGTGAATACTCTTAGAG
* *
112017 ATATTAAAAAAGATTAGTTTGGATTTAC-AATAGTGAA
66 ATATTAAAAAAGATCAATTTGGATTT-CTAATAGTGAA
* * **
112054 TTATTATGGCAAGTGAAAGGTCATATTGTTTTAATGTGATTGGGTTGATGTGAATACTCTTAGAG
1 TTATTATGGCAAGTGAAAGGTCATATTGTTTCAATGTGATTAGACTGATGTGAATACTCTTAGAG
* *
112119 GTATTAAAAAAGATCAATTTGGATTTCTAATGGTGAA
66 ATATTAAAAAAGATCAATTTGGATTTCTAATAGTGAA
112156 TT
1 TT
112158 TATCTCAATT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
101 1 0.01
102 92 0.99
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (102 bp):
TTATTATGGCAAGTGAAAGGTCATATTGTTTCAATGTGATTAGACTGATGTGAATACTCTTAGAG
ATATTAAAAAAGATCAATTTGGATTTCTAATAGTGAA
Found at i:114211 original size:13 final size:13
Alignment explanation
Indices: 114190--114220 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
114180 TTAATACATT
*
114190 ATACTTTGTATCG
1 ATACATTGTATCG
114203 ATACATTGTATCG
1 ATACATTGTATCG
114216 ATACA
1 ATACA
114221 CATTCATTGT
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:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:120519 original size:33 final size:33
Alignment explanation
Indices: 120477--120556 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
120467 AAAAAACCCA
120477 AATGTATCGATACAATGTTCTTTATATCAATAC
1 AATGTATCGATACAATGTTCTTTATATCAATAC
* *
120510 AATGTATCGATACAATGTTCTTTGTATCGATAC
1 AATGTATCGATACAATGTTCTTTATATCAATAC
120543 AATGTATCGATACA
1 AATGTATCGATACA
120557 TGGGTTACTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (33 bp):
AATGTATCGATACAATGTTCTTTATATCAATAC
Found at i:120522 original size:13 final size:13
Alignment explanation
Indices: 120501--120556 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 13
120491 ATGTTCTTTA
*
120501 TATCAATACAATG
1 TATCGATACAATG
120514 TATCGATACAATG
1 TATCGATACAATG
*
120527 T-TC--T---TTG
1 TATCGATACAATG
120534 TATCGATACAATG
1 TATCGATACAATG
120547 TATCGATACA
1 TATCGATACA
120557 TGGGTTACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
7 3 0.09
8 2 0.06
10 2 0.06
12 2 0.06
13 25 0.74
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:123021 original size:13 final size:13
Alignment explanation
Indices: 123003--123029 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
122993 ACATTATGCT
123003 TTGTATCGATACA
1 TTGTATCGATACA
123016 TTGTATCGATACA
1 TTGTATCGATACA
123029 T
1 T
123030 GCACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:124738 original size:44 final size:44
Alignment explanation
Indices: 124685--124792 Score: 198
Period size: 44 Copynumber: 2.5 Consensus size: 44
124675 AGTGTTTTTC
124685 GATATAAATGCCACTAAATTGAAAAAATTAACCGCATTTTTTGT
1 GATATAAATGCCACTAAATTGAAAAAATTAACCGCATTTTTTGT
* *
124729 GATATAAATGTCACTAAATTGAAAAAATTAACCGTATTTTTTGT
1 GATATAAATGCCACTAAATTGAAAAAATTAACCGCATTTTTTGT
124773 GATATAAATGCCACTAAATT
1 GATATAAATGCCACTAAATT
124793 ATAGTTTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (44 bp):
GATATAAATGCCACTAAATTGAAAAAATTAACCGCATTTTTTGT
Found at i:126089 original size:7 final size:7
Alignment explanation
Indices: 126062--126091 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
126052 CTATTAGAAC
*
126062 ATATTAC
1 ATATTAT
126069 ATATTAT
1 ATATTAT
126076 ATATTAT
1 ATATTAT
126083 ATATTAT
1 ATATTAT
126090 AT
1 AT
126092 CTCGATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (7 bp):
ATATTAT
Found at i:129757 original size:20 final size:20
Alignment explanation
Indices: 129732--129769 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
129722 AACTACTTTC
*
129732 CTTTTTTTTCTCTTTTTTGT
1 CTTTTTTGTCTCTTTTTTGT
129752 CTTTTTTGTCTCTTTTTT
1 CTTTTTTGTCTCTTTTTT
129770 TGCTGAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (20 bp):
CTTTTTTGTCTCTTTTTTGT
Found at i:130303 original size:166 final size:166
Alignment explanation
Indices: 130125--130469 Score: 382
Period size: 166 Copynumber: 2.1 Consensus size: 166
130115 AATAATATTA
* * * *
130125 TATGAATTTTAAAAATTT-TAAA-TCGAGAAATATCTCCCC-AAAAATATTTATAGAATAGAAAA
1 TATGAATTTTAAAAATTTATAAACT-AAAAAAAATC-CCCCAAAAAATATTTACAGAATAGAAAA
* * * * * * * *
130187 TTC-AGTTTTTAAAAAACA-TGGACATTTTAAGGAAAAAATGAAAAATTTATGAAAATAAAT-GA
64 CTCTA-TATTTAAAAAACAGT-AAAATTTTAAGAAAAAAATGAAAAACTCATGAAAATAAATAAA
130249 ATTTTTCAAAACTAATTGAATATGAATTAAATGATGACATTT
127 ATTTTT-AAAA-TAATTGAATATGAATTAAATGATGACATTT
*
130291 TATGAATTTT-AAAATTTATAAACTAAAAAAAATCCCCCAAAAAATATTTACGGAATAGAAAACT
1 TATGAATTTTAAAAATTTATAAACTAAAAAAAATCCCCCAAAAAATATTTACAGAATAGAAAACT
* * *
130355 CTATATTTCAGAAATAGTAAAATTTTAAGAAAAAAATGAAAAACTCATGAAAATAAATAAAATTT
66 CTATATTTAAAAAACAGTAAAATTTTAAGAAAAAAATGAAAAACTCATGAAAATAAATAAAATTT
** * * *
130420 TTAAAATTGTTTAATATGAGTTAAATGATGATATTT
131 TTAAAATAATTGAATATGAATTAAATGATGACATTT
*
130456 GATGAA-TTTAAAAA
1 TATGAATTTTAAAAA
130470 CTAAGAAAAA
Statistics
Matches: 150, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
164 3 0.02
165 45 0.30
166 92 0.61
167 10 0.07
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (166 bp):
TATGAATTTTAAAAATTTATAAACTAAAAAAAATCCCCCAAAAAATATTTACAGAATAGAAAACT
CTATATTTAAAAAACAGTAAAATTTTAAGAAAAAAATGAAAAACTCATGAAAATAAATAAAATTT
TTAAAATAATTGAATATGAATTAAATGATGACATTT
Found at i:130512 original size:157 final size:156
Alignment explanation
Indices: 130303--130620 Score: 374
Period size: 157 Copynumber: 2.0 Consensus size: 156
130293 TGAATTTTAA
* * * * *
130303 AATTTATAAACTAAAAAAAATCCCCCAAAAAATATTTACGGAATAGAAAACTCTATATTTCAGAA
1 AATTTAAAAACTAAAAAAAATCCCCCAAAAAACAATTACGGAATAGAAAACTCCATATTTCAAAA
* * * *
130368 ATA-GTAAAATTTTAAGAAAAAAATGAAAAACTCATGAAAATAAATAAAATT-TTTAAAA-TTGT
66 ATAGGGAAAATTTT-A-AAAAAAATCAAAAACTCAT-AAAATAAA-AAAATTCTTCAAAACTTAT
* * *
130430 TTAAT-ATGAGTTAAATGATGATATTTGATG
127 TTAATGATGA-TTAAATGATAATATTTAAAG
* * ** * *
130460 AATTTAAAAACTAAGAAAAATCTCCCTGAAAACAATTACGGAGTAGAAAACTCCGTATTTCAAAA
1 AATTTAAAAACTAAAAAAAATCCCCCAAAAAACAATTACGGAATAGAAAACTCCATATTTCAAAA
* *
130525 ATAGGGAGAATTTTAAAAAAAATCAAAAACTCATAAAATAAAAGAATTCTTCAAAACTTATTTAA
66 ATAGGGAAAATTTTAAAAAAAATCAAAAACTCATAAAATAAAAAAATTCTTCAAAACTTATTTAA
*
130590 TGGTGATTAAATGATAATATTTAAAG
131 TGATGATTAAATGATAATATTTAAAG
130616 AATTT
1 AATTT
130621 TGATGCTTGA
Statistics
Matches: 136, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
154 5 0.04
155 14 0.10
156 48 0.35
157 61 0.45
158 8 0.06
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (156 bp):
AATTTAAAAACTAAAAAAAATCCCCCAAAAAACAATTACGGAATAGAAAACTCCATATTTCAAAA
ATAGGGAAAATTTTAAAAAAAATCAAAAACTCATAAAATAAAAAAATTCTTCAAAACTTATTTAA
TGATGATTAAATGATAATATTTAAAG
Found at i:133660 original size:20 final size:21
Alignment explanation
Indices: 133621--133671 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
133611 TTCTACAATT
133621 TGTATCGATACAACAAGTGAA
1 TGTATCGATACAACAAGTGAA
*
133642 TGTATCGATAC-ATAAGTGAA
1 TGTATCGATACAACAAGTGAA
133662 TGTATCGATA
1 TGTATCGATA
133672 TTGGACTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (21 bp):
TGTATCGATACAACAAGTGAA
Found at i:133736 original size:20 final size:20
Alignment explanation
Indices: 133711--133748 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
133701 CTAGAAAGAA
133711 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
133731 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
133749 GATTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:133768 original size:51 final size:52
Alignment explanation
Indices: 133710--133848 Score: 217
Period size: 52 Copynumber: 2.7 Consensus size: 52
133700 TCTAGAAAGA
* *
133710 AAATGTATCGATACATTCTTCAATGTATCGATACATTCT-GATTTTTTATCC
1 AAATGTATCGATACATTCTTCAATGTATCGATACATTCTGGATTTTTGACCC
* * *
133761 AATTGTATCAATACATTCTTCATTGTATCGATACATTCTGGATTTTTGACCC
1 AAATGTATCGATACATTCTTCAATGTATCGATACATTCTGGATTTTTGACCC
*
133813 AAATCTATCGATACATTCTTCAATGTATCGATACAT
1 AAATGTATCGATACATTCTTCAATGTATCGATACAT
133849 CTAGTTAAAC
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
51 36 0.46
52 42 0.54
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTCAATGTATCGATACATTCTGGATTTTTGACCC
Found at i:133787 original size:20 final size:20
Alignment explanation
Indices: 133762--133799 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
133752 TTTTTATCCA
133762 ATTGTATCAATACATTCTTC
1 ATTGTATCAATACATTCTTC
*
133782 ATTGTATCGATACATTCT
1 ATTGTATCAATACATTCT
133800 GGATTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (20 bp):
ATTGTATCAATACATTCTTC
Found at i:135503 original size:21 final size:21
Alignment explanation
Indices: 135473--135519 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
135463 TATTGTATTA
135473 ATAC-ATTTAATCAAGTATCG
1 ATACAATTTAATCAAGTATCG
*
135493 ATACAATTTAATCATGTATCG
1 ATACAATTTAATCAAGTATCG
135514 ATACAA
1 ATACAA
135520 AGTATTGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (21 bp):
ATACAATTTAATCAAGTATCG
Found at i:135602 original size:20 final size:20
Alignment explanation
Indices: 135579--135630 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
135569 TAATTCATAG
* *
135579 TGTATTGATACAAAGTAATT
1 TGTATCGATACAAAGCAATT
**
135599 TGTATCGATACTTAGCAATT
1 TGTATCGATACAAAGCAATT
135619 TGTATCGATACA
1 TGTATCGATACA
135631 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAAAGCAATT
Found at i:137488 original size:97 final size:97
Alignment explanation
Indices: 137279--137630 Score: 311
Period size: 97 Copynumber: 3.5 Consensus size: 97
137269 CAAAATTTTA
* * * * ** *
137279 TCGGGGATACTCTAATCCCATTC-TTCTAATGGGATACTCTAACCCCGTTTTTAAAAAACTTATC
1 TCGGGGACACTCCAA-CCCATTCTTTCTGAGGGGATACTCTAACCCTATTTTT---AAACTTGTC
* ** *
137343 AAGATTTAAACCTTATTTTTGTCTGAATTGTCATCG
62 AAGATTTAAATCTTATTTTCATCAGAATTGTCATCG
* *
137379 TTGGGGACACTCCAATCCCATTCTTTC-GAGGGGATACTTTAACCCTATTTTTAAACTTGTCAAG
1 TCGGGGACACTCCAA-CCCATTCTTTCTGAGGGGATACTCTAACCCTATTTTTAAACTTGTCAAG
*
137443 ATTTAAATTTTATTTTCATCAGAATTGTCATCG
65 ATTTAAATCTTATTTTCATCAGAATTGTCATCG
* * * *
137476 TCGGAGATACTCCAACCTCATT-TTTCTGAGGAGATACTCCAACCCTATTTTTTTTTAAACTTGT
1 TCGGGGACACTCCAACC-CATTCTTTCTGAGGGGATACTCTAACCCTA----TTTTTAAACTTGT
* * *
137540 CAATATTTTTAAATCTTATTTTCACCTAG-ATTGTCATCA
61 CAAGA--TTTAAATCTTATTTTCATC-AGAATTGTCATCG
* * *
137579 TCGGGGACATTCTAACCCTATTCTTT-TGAGGGGATACTCCAA-CCTCATTTTT
1 TCGGGGACACTCCAACCC-ATTCTTTCTGAGGGGATACTCTAACCCT-ATTTTT
137631 CAACCAAAAT
Statistics
Matches: 210, Mismatches: 29, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
96 6 0.03
97 72 0.34
99 5 0.02
100 40 0.19
101 20 0.10
102 4 0.02
103 58 0.28
104 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (97 bp):
TCGGGGACACTCCAACCCATTCTTTCTGAGGGGATACTCTAACCCTATTTTTAAACTTGTCAAGA
TTTAAATCTTATTTTCATCAGAATTGTCATCG
Found at i:159436 original size:13 final size:14
Alignment explanation
Indices: 159418--159447 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
159408 CAATAAATTG
159418 CTGAAAA-CACTTT
1 CTGAAAAGCACTTT
159431 CTGAAAAGCACTTT
1 CTGAAAAGCACTTT
159445 CTG
1 CTG
159448 CTTCAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (14 bp):
CTGAAAAGCACTTT
Found at i:163179 original size:52 final size:52
Alignment explanation
Indices: 163101--163228 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
163091 CGAAATATGA
*
163101 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTAGGC
*
163153 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTAGGC
163205 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
163229 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 21 0.29
52 47 0.64
53 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTAGGC
Found at i:163255 original size:13 final size:13
Alignment explanation
Indices: 163237--163261 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
163227 CAAAGATCAG
163237 TGTATCGATACAA
1 TGTATCGATACAA
163250 TGTATCGATACA
1 TGTATCGATACA
163262 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:163339 original size:33 final size:33
Alignment explanation
Indices: 163302--163368 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
163292 AGTAGCTTAA
163302 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
163335 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
163368 A
1 A
163369 AATCGTTGAA
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:163342 original size:13 final size:13
Alignment explanation
Indices: 163324--163348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
163314 CAAAAAAATA
163324 TGTATCGATACAT
1 TGTATCGATACAT
163337 TGTATCGATACA
1 TGTATCGATACA
163349 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:164891 original size:3 final size:3
Alignment explanation
Indices: 164877--164915 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
164867 TTTTGAACAT
* *
164877 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
164916 ACTAAAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:171758 original size:19 final size:21
Alignment explanation
Indices: 171715--171766 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
171705 TTCAATAATT
*
171715 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
171736 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
*
171755 TGTATTGATACA
1 TGTATCGATACA
171767 GTGTATTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:171838 original size:13 final size:13
Alignment explanation
Indices: 171820--171846 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
171810 TTTGTGGAAT
171820 GTATCGATACATC
1 GTATCGATACATC
171833 GTATCGATACATC
1 GTATCGATACATC
171846 G
1 G
171847 ATCTTTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (13 bp):
GTATCGATACATC
Found at i:174451 original size:79 final size:79
Alignment explanation
Indices: 174224--174601 Score: 596
Period size: 79 Copynumber: 4.8 Consensus size: 79
174214 TTTCATAATC
* * *
174224 GGGGATACTCCAACCTCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
*
174289 CCCGTTATTTCTGA
66 CCCGTTATTTCCGA
* * *
174303 GGAGATACTCC-AGCCCAGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
174367 CCCGTTATTTCCGA
66 CCCGTTATTTCCGA
174381 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
174446 CCCGTTATTTCCGA
66 CCCGTTATTTCCGA
*
174460 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATAGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
*
174525 CCCGTTATTTTCGA
66 CCCGTTATTTCCGA
* ** * *** *
174539 GGGGATACTTCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCA
174602 GCTCCGATTT
Statistics
Matches: 278, Mismatches: 20, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
78 71 0.26
79 207 0.74
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
CCCGTTATTTCCGA
Found at i:174609 original size:51 final size:51
Alignment explanation
Indices: 174539--174658 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
174529 TTATTTTCGA
* * *
174539 GGGGATACTTCAACCCCGATTTTA-TTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTCTCACAATC
* *
174590 GGGGATACTCCAGCTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
174641 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
174659 CTATTTTCGC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 57 0.93
52 4 0.07
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
Found at i:174640 original size:130 final size:130
Alignment explanation
Indices: 174498--174731 Score: 364
Period size: 130 Copynumber: 1.8 Consensus size: 130
174488 TAAAATATAG
* *
174498 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTTCAACCCCGATTTTA
1 ATTTCTCACAATCGGGGATACTCCAACCCCGCTATTTTCGAGGGGATACTCCAACCCCGATTTTA
*
174563 -TTTCTAAAATACCAATTTT-TCACAATCGGGGATACTCCAGCTCCGATTTTATTTTCAAAACAC
66 TTTTC-AAAATACCAATTTTCT-ACAATCAGGGATACTCCAGCTCCGATTTTATTTTCAAAACAC
174626 CA
129 CA
* *
174628 ATTTCTCACAATCGGGGATACTCCAACCCCGCTATTTTCGCGGGGATACTCCGACCCCGATTTTA
1 ATTTCTCACAATCGGGGATACTCCAACCCCGCTATTTTCGAGGGGATACTCCAACCCCGATTTTA
* * *
174693 TTTTCAAAATATCGATTTTCTATAATCAGGGATACTCCA
66 TTTTCAAAATACCAATTTTCTACAATCAGGGATACTCCA
174732 ACTCTATTTC
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
130 89 0.95
131 5 0.05
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (130 bp):
ATTTCTCACAATCGGGGATACTCCAACCCCGCTATTTTCGAGGGGATACTCCAACCCCGATTTTA
TTTTCAAAATACCAATTTTCTACAATCAGGGATACTCCAGCTCCGATTTTATTTTCAAAACACCA
Found at i:175093 original size:13 final size:13
Alignment explanation
Indices: 175075--175099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
175065 CATAAAGTGT
175075 TGTATCGATACAA
1 TGTATCGATACAA
175088 TGTATCGATACA
1 TGTATCGATACA
175100 TATTTTTTTT
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:175181 original size:13 final size:13
Alignment explanation
Indices: 175163--175187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
175153 ATTACTCAAA
175163 TGTATCGATACAT
1 TGTATCGATACAT
175176 TGTATCGATACA
1 TGTATCGATACA
175188 CTGATCTTTG
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:175289 original size:52 final size:52
Alignment explanation
Indices: 175196--175325 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
175186 CACTGATCTT
* *
175196 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
175247 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
* *
175299 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
175326 ATATTTCAGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:191778 original size:29 final size:29
Alignment explanation
Indices: 191745--191835 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
191735 GACGCCTTTT
191745 CCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * ** *
191774 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
* *
191800 CCTTTCAAAGCTCACACAAGTTGGTGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA
191829 CCTTTCA
1 CCTTTCA
191836 GTCCTTAAAG
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
25 3 0.07
26 10 0.23
27 6 0.14
28 5 0.12
29 17 0.40
30 2 0.05
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (29 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:191806 original size:26 final size:26
Alignment explanation
Indices: 191774--191861 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
191764 GTTGGTGGCA
191774 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
*** ** *
191800 CCTTTCAAAGCTCACACA-AGTTGGTGACA
1 CCTTTCAGTCCTCA-A-AGAG-CAG-GACG
*
191829 CCTTTCAGTCCTTAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
191855 CCTTTCA
1 CCTTTCA
191862 AAGCCCACAC
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
26 21 0.48
27 5 0.11
28 5 0.11
29 13 0.30
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:191831 original size:55 final size:54
Alignment explanation
Indices: 191714--192246 Score: 593
Period size: 55 Copynumber: 9.4 Consensus size: 54
191704 CTCCTTTCAC
191714 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
191774 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCTCACACAAGTTGGTGACA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
191829 CCTTTCAGTCCTTAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
191884 TTTTCCAGTTCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
** * *
191939 CTTCCCAGTCCTCAAAGAGAAGGACGCCTCTT-AAAGCCCATACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
191994 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTC-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
192049 TTTTTCAGTCCTCAAAGAGCAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * * *
192104 TTTTCCAATCCTTAAAGAGCAGGATGCTTTCTCTTTGCAAAGCGCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCA
** * * *
192165 CCTTCTAGTCCTCAAAGAGTAGGATACCGTTCCTTTTCAAAGCCCACACGAGTTGGTGGTA
1 TTTTC-AGTCCTCAAAGAGCAGG--A-CG--CC-TTTCAAAGCCCACACAAGTTGGTGGCA
*
192226 CTTTTTAGTCCTCAAAGAGCA
1 -TTTTCAGTCCTCAAAGAGCA
192247 AGATGCACTT
Statistics
Matches: 411, Mismatches: 39, Indels: 44
0.83 0.08 0.09
Matches are distributed among these distances:
54 12 0.03
55 275 0.67
56 11 0.03
57 1 0.00
59 3 0.01
60 3 0.01
61 98 0.24
62 7 0.02
63 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:194332 original size:79 final size:79
Alignment explanation
Indices: 194193--194572 Score: 598
Period size: 79 Copynumber: 4.8 Consensus size: 79
194183 TCCATAATCA
*
194193 GGGATACTCCAACCCCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
*
194258 CCGTTATTTCCGAG
66 CCGTTATTTTCGAG
* * * * *
194272 GGAATACTCCAACCCCAGCTTTATTCCTAAAATATTGATTTCTCACAATCGAGGACACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
*
194337 CCGTTATTTTTGAG
66 CCGTTATTTTCGAG
*
194351 GGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
194416 CCGTTATTTTCGAG
66 CCGTTATTTTCGAG
* *
194430 GGGATACTCCAACCCTGGCTTTATTTCTAAAATATAGATTTCTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
*
194495 CCGTTATTTTTGAG
66 CCGTTATTTTCGAG
** *** *
194509 GGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAAC
1 GGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
194573 TCCGATTTTA
Statistics
Matches: 277, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 277 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (79 bp):
GGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
CCGTTATTTTCGAG
Found at i:194571 original size:51 final size:51
Alignment explanation
Indices: 194508--194626 Score: 202
Period size: 51 Copynumber: 2.3 Consensus size: 51
194498 TTATTTTTGA
* * *
194508 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
*
194559 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
194610 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
194627 TCTATTTTCG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:194585 original size:130 final size:131
Alignment explanation
Indices: 194429--194704 Score: 357
Period size: 130 Copynumber: 2.1 Consensus size: 131
194419 TTATTTTCGA
* * * *
194429 GGGGATACTCCAAC-CCTGGCTTTATTTCTAAAATA-TAGATTTCTCACAATCGGGGATACTCCA
1 GGGGATACTCCAACTCCTGACTTTATTTCCAAAACACCA-ATTTCTCACAATCGGGGATACTCCA
* *
194492 ACCCCGT-TATTTTTGAGGGGATACTCCAACCCCGATTTTA-TTTCTAAAATACCAATTTT-TCA
65 ACCCC-TCTATTTTCGAGAGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTCT-A
194554 CAATC
127 CAATC
*
194559 GGGGATACTCCAACTCC-GATTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACTCCTGACTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAA
* * * * *
194623 CCCCTCTATTTTCGCGAGGATACTCCGACCCCGATTTTATTTTCAAAATATCGATTTTCTATAAT
66 CCCCTCTATTTTCGAGAGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTCTACAAT
194688 C
131 C
*
194689 AGGGATACTCCAACTC
1 GGGGATACTCCAACTC
194705 TATTTCTTTT
Statistics
Matches: 128, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
129 1 0.01
130 119 0.93
131 8 0.06
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (131 bp):
GGGGATACTCCAACTCCTGACTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAA
CCCCTCTATTTTCGAGAGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTCTACAAT
C
Done.