Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 30 of 93
Found at i:12077926 original size:14 final size:14
Alignment explanation
Indices: 12077868--12077928 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
12077858 AAAATTTTTT
*
12077868 TATACAATTCATTT
1 TATACAATTCATTG
* **
12077882 TATGCACATTTTTTG
1 TATACA-ATTCATTG
*
12077897 TATACACAATTTATTG
1 TAT--ACAATTCATTG
12077913 TATACAATTCATTG
1 TATACAATTCATTG
12077927 TA
1 TA
12077929 AACAGATATA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
14 17 0.46
15 8 0.22
16 10 0.27
17 2 0.05
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.48
Consensus pattern (14 bp):
TATACAATTCATTG
Found at i:12078380 original size:24 final size:24
Alignment explanation
Indices: 12078322--12078381 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
12078312 TCTGCTTCCA
12078322 GTCGGCGTGTCATAAAAATTGGGCC
1 GTCGG-GTGTCATAAAAATTGGGCC
** *
12078347 GTCGCTTGTCATAAGAATTGGGCC
1 GTCGGGTGTCATAAAAATTGGGCC
12078371 GTCGGGTGTCA
1 GTCGGGTGTCA
12078382 CCCTAGGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 26 0.87
25 4 0.13
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (24 bp):
GTCGGGTGTCATAAAAATTGGGCC
Found at i:12078656 original size:31 final size:31
Alignment explanation
Indices: 12078618--12078756 Score: 172
Period size: 31 Copynumber: 4.5 Consensus size: 31
12078608 ACACCAGAAC
*
12078618 TTGTTATGCATGGCGGGTCAGAACAATTTAA
1 TTGTTATGCATGGCGGGTCACAACAATTTAA
* *
12078649 TTGTTATGCATGGCGTGTCACAAC-GTTTAA
1 TTGTTATGCATGGCGGGTCACAACAATTTAA
* ** *
12078679 CTTGTTATGCATGGCGTGTCACAACCTTTTAC
1 -TTGTTATGCATGGCGGGTCACAACAATTTAA
* *
12078711 TTGTTATGCATGGCGGGTCAGAATAATTTAA
1 TTGTTATGCATGGCGGGTCACAACAATTTAA
*
12078742 TTGATATGCATGGCG
1 TTGTTATGCATGGCG
12078757 TGTCTCACAT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
30 5 0.05
31 85 0.90
32 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (31 bp):
TTGTTATGCATGGCGGGTCACAACAATTTAA
Found at i:12082313 original size:31 final size:31
Alignment explanation
Indices: 12082241--12082315 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
12082231 TCGTGTTGTT
* *
12082241 ACACGCTATGCATATAATGTAAAATGTTGTA
1 ACACGCCATGCATATAATGTAAAATGTCGTA
** * *
12082272 ACACATCATGCATATCAA-GTCAAATGTCGTG
1 ACACGCCATGCATAT-AATGTAAAATGTCGTA
12082303 ACACGCCATGCAT
1 ACACGCCATGCAT
12082316 CAGTATCGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (31 bp):
ACACGCCATGCATATAATGTAAAATGTCGTA
Found at i:12082329 original size:23 final size:23
Alignment explanation
Indices: 12082298--12082376 Score: 131
Period size: 23 Copynumber: 3.4 Consensus size: 23
12082288 AAGTCAAATG
*
12082298 TCGTGACACGCCATGCATCAGTA
1 TCGTGACACGCCATGCATCACTA
*
12082321 TCGTTACACGCCATGCATCACTA
1 TCGTGACACGCCATGCATCACTA
*
12082344 TCGTGACACGCCATGCATCACTG
1 TCGTGACACGCCATGCATCACTA
12082367 TCGTGACACG
1 TCGTGACACG
12082377 ACAATCACTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (23 bp):
TCGTGACACGCCATGCATCACTA
Found at i:12082385 original size:20 final size:21
Alignment explanation
Indices: 12082336--12082387 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
12082326 ACACGCCATG
* *
12082336 CATCACTATCGTGACACGCCA
1 CATCACTGTCGTGACACGACA
12082357 TGCATCACTGTCGTGACACGACA
1 --CATCACTGTCGTGACACGACA
12082380 -ATCACTGT
1 CATCACTGT
12082388 AATTACTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 8 0.30
23 19 0.70
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (21 bp):
CATCACTGTCGTGACACGACA
Found at i:12082577 original size:55 final size:53
Alignment explanation
Indices: 12082408--12082585 Score: 167
Period size: 55 Copynumber: 3.2 Consensus size: 53
12082398 TTGTTACACC
* * * **
12082408 AACAACCGTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAATATGCCAGG
1 AACAACCGTGACATGCTAAAAACCC-AAAAACTAGTTAACCCACAACACCCCA-G
* * * * * *
12082463 AACAGCCATGACATGCCAAAAACCCATAAATTCAGTTAACCCACCACACCCCAAG
1 AACAACCGTGACATGCTAAAAACCCAAAAACT-AGTTAACCCACAACACCCC-AG
* * *
12082518 AACAACCGTGACATGCTAACAACCCAAATAACTAGTTAACCCATAACACCCTAG
1 AACAACCGTGACATGCTAAAAACCCAAA-AACTAGTTAACCCACAACACCCCAG
*
12082572 TAACAACAGTGACA
1 -AACAACCGTGACA
12082586 CACTAAAATA
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
54 6 0.06
55 88 0.90
56 4 0.04
ACGTcount: A:0.44, C:0.32, G:0.11, T:0.13
Consensus pattern (53 bp):
AACAACCGTGACATGCTAAAAACCCAAAAACTAGTTAACCCACAACACCCCAG
Found at i:12083874 original size:2 final size:2
Alignment explanation
Indices: 12083869--12083917 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
12083859 TTTTTTTTGA
12083869 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12083911 AT AT AT A
1 AT AT AT A
12083918 GGTATATGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12084708 original size:239 final size:236
Alignment explanation
Indices: 12084425--12084896 Score: 838
Period size: 239 Copynumber: 2.0 Consensus size: 236
12084415 ACAAAGTAAA
*
12084425 ATATTTATTCACAAAAAGGTAGATTAGGTAAAAAATATATAGATAAATAATAATGACAATCGTAA
1 ATATTTATTCACAAAAAGGTAGATTAAGT-AAAAATATATAGATAAATAATAATGACAATCGTAA
12084490 AATAGAATATTTGGTTATAAAAATGGATATAGGTAAAAAGTAAACATTTTATAGAAGAATAGATA
65 AATAGAATATTTGGTTATAAAAATGGATATAGGTAAAAAGTAAACATTTTATAGAAGAATAGATA
12084555 AATACTTGAATTCAAAAAAATAATTAGGTAGAGAAAATATTAATGATAATGATAAAATATTTATT
130 AATACTTGAATTCAAAAAAATAATTAGGTAGAGAAAATATTAATGATAATGATAAAATATTTATT
12084620 TAGGATATATATATATATATTATTGTAAANAAAAAAATAAAAAAG
195 TAGGATATATATATATATA-TATT-TAAA-AAAAAAATAAAAAAG
12084665 ATATTTATTCACAAAAAAGGTAGATTAAGT-AAAATATATAGATAAATAATAATGACAATCGTAA
1 ATATTTATTCAC-AAAAAGGTAGATTAAGTAAAAATATATAGATAAATAATAATGACAATCGTAA
* * *
12084729 AATAGAATATTTGGTTATAAAAATGGATATAGGTAGAATGTAAACATTTTATAGAAGCATAGATA
65 AATAGAATATTTGGTTATAAAAATGGATATAGGTAAAAAGTAAACATTTTATAGAAGAATAGATA
12084794 AATACTTGAATTCAAAAAAATAATTAGGTAGAGAAAATATTAATGATAATGATAAAATATTTATT
130 AATACTTGAATTCAAAAAAATAATTAGGTAGAGAAAATATTAATGATAATGATAAAATATTTATT
12084859 TAGGATATATATATATATATATTTAAAAATGAAAAATA
195 TAGGATATATATATATATATATTTAAAAA--AAAAATA
12084897 GAGAAGTAAT
Statistics
Matches: 225, Mismatches: 4, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
236 2 0.01
237 4 0.02
238 11 0.05
239 180 0.80
240 12 0.05
241 16 0.07
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.32
Consensus pattern (236 bp):
ATATTTATTCACAAAAAGGTAGATTAAGTAAAAATATATAGATAAATAATAATGACAATCGTAAA
ATAGAATATTTGGTTATAAAAATGGATATAGGTAAAAAGTAAACATTTTATAGAAGAATAGATAA
ATACTTGAATTCAAAAAAATAATTAGGTAGAGAAAATATTAATGATAATGATAAAATATTTATTT
AGGATATATATATATATATATTTAAAAAAAAAATAAAAAAG
Found at i:12084838 original size:120 final size:120
Alignment explanation
Indices: 12084469--12084852 Score: 314
Period size: 120 Copynumber: 3.2 Consensus size: 120
12084459 ATATATAGAT
*
12084469 AAATAATAATGACAATCG-TAAAATAGAATATTTGGTTATAAAAATGGATATAGGTAAAAAGTAA
1 AAATAATAATGACAAT-GATAAAATAGAATATTTGGTTATAAAAATGGATATAGGTAAAATGTAA
12084533 ACATTTTATAGAAGAATAGATAAATACTTGAATTCAAAAAAATAATTAGGTAGAGA
65 ACATTTTATAGAAGAATAGATAAATACTTGAATTCAAAAAAATAATTAGGTAGAGA
* * ** * * * * *
12084589 AAATATTAATGATAATGATAAAATA-TTTATTTAGGATATATATAT--ATATA--T-TATTGTAA
1 AAATAATAATGACAATGATAAAATAGAATATTT-GGTTATAAAAATGGATATAGGTAAAATGTAA
* * * * * * * * *
12084648 ANA----A-A-AA-AATAAAAAAGATA-TTTATTCACAAAAAAGGTAGATTAAGTAAAATATATA
65 ACATTTTATAGAAGAATAGATAA-ATACTTGAAT-TCAAAAAA-ATA-ATT-AG------GTAGA
12084705 GA
119 GA
*
12084707 TAAATAATAATGACAATCG-TAAAATAGAATATTTGGTTATAAAAATGGATATAGGTAGAATGTA
1 -AAATAATAATGACAAT-GATAAAATAGAATATTTGGTTATAAAAATGGATATAGGTAAAATGTA
*
12084771 AACATTTTATAGAAGCATAGATAAATACTTGAATTCAAAAAAATAATTAGGTAGAGA
64 AACATTTTATAGAAGAATAGATAAATACTTGAATTCAAAAAAATAATTAGGTAGAGA
* *
12084828 AAATATTAATGATAATGATAAAATA
1 AAATAATAATGACAATGATAAAATA
12084853 TTTATTTAGG
Statistics
Matches: 194, Mismatches: 40, Indels: 60
0.66 0.14 0.20
Matches are distributed among these distances:
108 11 0.06
109 12 0.06
110 3 0.02
111 4 0.02
112 2 0.01
115 7 0.04
116 1 0.01
118 10 0.05
119 37 0.19
120 57 0.29
121 10 0.05
123 1 0.01
124 8 0.04
127 2 0.01
128 4 0.02
129 3 0.02
130 12 0.06
131 10 0.05
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.31
Consensus pattern (120 bp):
AAATAATAATGACAATGATAAAATAGAATATTTGGTTATAAAAATGGATATAGGTAAAATGTAAA
CATTTTATAGAAGAATAGATAAATACTTGAATTCAAAAAAATAATTAGGTAGAGA
Found at i:12093169 original size:21 final size:20
Alignment explanation
Indices: 12093144--12093238 Score: 84
Period size: 21 Copynumber: 4.5 Consensus size: 20
12093134 CTCCAAATAC
12093144 ATCTTCAAAACCTCTGAGTAT
1 ATCTTCAAAACCTCTG-GTAT
*
12093165 GTCTTCAAAACCTCTTGGTAT
1 ATCTTCAAAACCTC-TGGTAT
*
12093186 AT-TTCTAAAACCTCTAGGTAC
1 ATCTTC-AAAACCTCT-GGTAT
** *
12093207 ATCCCCAAAACCTCATGGTAC
1 ATCTTCAAAACCTC-TGGTAT
*
12093228 ATTTTCAAAAC
1 ATCTTCAAAAC
12093239 ATCCAAGTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.07
21 53 0.87
22 4 0.07
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (20 bp):
ATCTTCAAAACCTCTGGTAT
Found at i:12093249 original size:42 final size:42
Alignment explanation
Indices: 12093170--12093250 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
12093160 AGTATGTCTT
* * * * *
12093170 CAAAACCTCTTGGTATATTTCTAAAACCTCTAGGTACATCCC
1 CAAAACCTCATGGTACATTTCTAAAACATCCAAGTACATCCC
12093212 CAAAACCTCATGGTACATTT-TCAAAACATCCAAGTACAT
1 CAAAACCTCATGGTACATTTCT-AAAACATCCAAGTACAT
12093251 TTTTAAAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 32 0.97
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.28
Consensus pattern (42 bp):
CAAAACCTCATGGTACATTTCTAAAACATCCAAGTACATCCC
Found at i:12093269 original size:21 final size:23
Alignment explanation
Indices: 12093245--12093291 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
12093235 AAACATCCAA
12093245 GTACATT-TT-TAAAACCTTCGG
1 GTACATTCTTATAAAACCTTCGG
* *
12093266 GTACATTCTTATAACACTTTCGG
1 GTACATTCTTATAAAACCTTCGG
12093289 GTA
1 GTA
12093292 ACTAGTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 2 0.09
23 13 0.59
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (23 bp):
GTACATTCTTATAAAACCTTCGG
Found at i:12093413 original size:21 final size:21
Alignment explanation
Indices: 12093355--12093414 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
12093345 GTACACATTC
*
12093355 TAAAACCTTCGGGTACATCTT
1 TAAAACCTTTGGGTACATCTT
* * * * *
12093376 CAAAATCTCTAGATACATCTT
1 TAAAACCTTTGGGTACATCTT
12093397 TAAAACCTTTGGGTACAT
1 TAAAACCTTTGGGTACAT
12093415 TCTTATGAAA
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (21 bp):
TAAAACCTTTGGGTACATCTT
Found at i:12093449 original size:45 final size:45
Alignment explanation
Indices: 12093352--12093500 Score: 136
Period size: 44 Copynumber: 3.4 Consensus size: 45
12093342 TAGGTACACA
* * * *
12093352 TTCTAAAACCTTCGGGTACA-TCTTCAAAATCTCT-AGATACA-TC
1 TTCTAAAACCTTTGGGTACACTTTTTAAAATTTCTAAG-TACATTC
*
12093395 TT-TAAAACCTTTGGGTACA-TTCTTATGAAATCTTC-AAGTAC-TT-
1 TTCTAAAACCTTTGGGTACACTT-TT-TAAAAT-TTCTAAGTACATTC
*
12093438 TATCTAAAACCTTTGGGTGCACTTTTTAAAATTTCTAAGTACATTC
1 T-TCTAAAACCTTTGGGTACACTTTTTAAAATTTCTAAGTACATTC
12093484 TTC-AAAACCTTTGGGTA
1 TTCTAAAACCTTTGGGTA
12093501 ATCATTTAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
42 17 0.20
43 8 0.09
44 33 0.38
45 26 0.30
46 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.38
Consensus pattern (45 bp):
TTCTAAAACCTTTGGGTACACTTTTTAAAATTTCTAAGTACATTC
Found at i:12093987 original size:18 final size:18
Alignment explanation
Indices: 12093959--12094017 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
12093949 GAATGTTCTG
*
12093959 GAAATGAAATAAAAAAAA
1 GAAAAGAAATAAAAAAAA
* *
12093977 CAAAAGAAATAAAAAAAG
1 GAAAAGAAATAAAAAAAA
*
12093995 GAAGA-AAATAAAAAAAA
1 GAAAAGAAATAAAAAAAA
12094012 GAAAAG
1 GAAAAG
12094018 CCAGTTGAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
17 15 0.45
18 18 0.55
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.07
Consensus pattern (18 bp):
GAAAAGAAATAAAAAAAA
Found at i:12095013 original size:2 final size:2
Alignment explanation
Indices: 12095006--12095050 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
12094996 ATTTTGTTGA
12095006 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12095047 AT AT
1 AT AT
12095051 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:12097312 original size:16 final size:15
Alignment explanation
Indices: 12097291--12097333 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
12097281 TAATTGTAAT
12097291 TTAGTTATTTTTATAA
1 TTAGTTATTTTTA-AA
*
12097307 TTAGTTTATTTTTAAG
1 TTAG-TTATTTTTAAA
*
12097323 TAAGTTATTTT
1 TTAGTTATTTT
12097334 AATTTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 8 0.33
17 9 0.38
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (15 bp):
TTAGTTATTTTTAAA
Found at i:12100326 original size:13 final size:13
Alignment explanation
Indices: 12100308--12100332 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12100298 TTTCAAAGAA
12100308 TTTATAAAATCAT
1 TTTATAAAATCAT
12100321 TTTATAAAATCA
1 TTTATAAAATCA
12100333 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:12101497 original size:28 final size:27
Alignment explanation
Indices: 12101458--12101510 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
12101448 AAATGTTTTG
* *
12101458 AGGGTGCAAAATTACCGTTTTACCCCC
1 AGGGTGCAAAATTACCATTTCACCCCC
12101485 AGGGTGGCAAAATTACCATTTCACCC
1 AGGGT-GCAAAATTACCATTTCACCC
12101511 TTATACTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (27 bp):
AGGGTGCAAAATTACCATTTCACCCCC
Found at i:12101592 original size:19 final size:19
Alignment explanation
Indices: 12101556--12101593 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12101546 ACTTCTAAAC
* *
12101556 CTCAAATCATTCTTCAATA
1 CTCAAATCATACTCCAATA
12101575 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
12101594 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:12104732 original size:21 final size:21
Alignment explanation
Indices: 12104708--12104762 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
12104698 AAAAACTAAT
12104708 AAATAA-TAAACAAATTAAAAG
1 AAATAATTAAA-AAATTAAAAG
* *
12104729 AAATAATTATAAAATTAAAAT
1 AAATAATTAAAAAATTAAAAG
*
12104750 AACTAACTTAAAA
1 AAATAA-TTAAAA
12104763 GTAACCTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.25
Consensus pattern (21 bp):
AAATAATTAAAAAATTAAAAG
Found at i:12106801 original size:128 final size:127
Alignment explanation
Indices: 12106572--12106828 Score: 505
Period size: 128 Copynumber: 2.0 Consensus size: 127
12106562 TTAATGGTTA
12106572 TTTTTCTTTCATAAAAAATTCAGCTAAAAATGGGAGAGAGGAAGAAAGATACAACAAAGTTTGGA
1 TTTTTCTTTCATAAAAAATTCAGCTAAAAATGGGAGAGAGGAAGAAAGATACAACAAAGTTTGGA
12106637 GGAGAACGAAAGAAATGATTGCTGAAAACTTTTTTAAGAAAAGTACGTACATTTCTTTTCTT
66 GGAGAACGAAAGAAATGATTGCTGAAAACTTTTTTAAGAAAAGTACGTACATTTCTTTTCTT
12106699 TNTTTTCTTTCATAAAAAATTCAGCTAAAAATGGGAGAGAGGAAGAAAGATACAACAAAGTTTGG
1 T-TTTTCTTTCATAAAAAATTCAGCTAAAAATGGGAGAGAGGAAGAAAGATACAACAAAGTTTGG
12106764 AGGAGAACGAAAGAAATGATTGCTGAAAACTTTTTTAAGAAAAGTACGTACATTTCTTTTCTT
65 AGGAGAACGAAAGAAATGATTGCTGAAAACTTTTTTAAGAAAAGTACGTACATTTCTTTTCTT
12106827 TT
1 TT
12106829 GATCTATTTT
Statistics
Matches: 129, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
127 2 0.02
128 127 0.98
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.30
Consensus pattern (127 bp):
TTTTTCTTTCATAAAAAATTCAGCTAAAAATGGGAGAGAGGAAGAAAGATACAACAAAGTTTGGA
GGAGAACGAAAGAAATGATTGCTGAAAACTTTTTTAAGAAAAGTACGTACATTTCTTTTCTT
Found at i:12107251 original size:28 final size:28
Alignment explanation
Indices: 12107220--12107358 Score: 161
Period size: 29 Copynumber: 4.8 Consensus size: 28
12107210 TGTTATTTTC
* *
12107220 TCTAAATTGAGACAAATATGTTTTCTTG
1 TCTAAATTAAGACAAACATGTTTTCTTG
* *
12107248 TCTAGATTAAGAAAAAACATGTTTTTCTTG
1 TCTAAATTAAG-ACAAACATG-TTTTCTTG
* *
12107278 TCTTAAATTAAAACAAACATATTTTCTTG
1 TC-TAAATTAAGACAAACATGTTTTCTTG
** *
12107307 TCTAAATTAAGACCAAACAAATTTTTTTG
1 TCTAAATTAAGA-CAAACATGTTTTCTTG
12107336 TCTAAATTAAGACAAACATGTTT
1 TCTAAATTAAGACAAACATGTTT
12107359 AAGTTGCCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 27 0.29
29 43 0.46
30 17 0.18
31 7 0.07
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (28 bp):
TCTAAATTAAGACAAACATGTTTTCTTG
Found at i:12107286 original size:59 final size:57
Alignment explanation
Indices: 12107215--12107358 Score: 180
Period size: 59 Copynumber: 2.5 Consensus size: 57
12107205 AAATATGTTA
* * * * **
12107215 TTTTCTCTAAATTGAGACAAATATGTTTTCTTGTCTAGATTAAGAAAAAACATGTTT
1 TTTTGTCTAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGAAAAAACAAATTT
* * **
12107272 TTCTTGTCTTAAATTAAAACAAACATATTTTCTTGTCTAAATTAAGACCAAACAAATTT
1 TT-TTGTC-TAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGAAAAAACAAATTT
12107331 TTTTGTCTAAATTAAGACAAACATGTTT
1 TTTTGTCTAAATTAAGACAAACATGTTT
12107359 AAGTTGCCAT
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
57 21 0.29
58 9 0.12
59 43 0.59
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (57 bp):
TTTTGTCTAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGAAAAAACAAATTT
Found at i:12108848 original size:43 final size:43
Alignment explanation
Indices: 12108770--12108854 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
12108760 TAACTTCTGA
*
12108770 GTAGCACTCCAGTTTGTGATTTTGGAAAATAACACACGTTTTT
1 GTAGCACTCCAGTTTCTGATTTTGGAAAATAACACACGTTTTT
* * * *
12108813 GTAGTACTCGAGTTTCTGATTTTGGGAAATGACACACGTTTT
1 GTAGCACTCCAGTTTCTGATTTTGGAAAATAACACACGTTTT
12108855 GTTTGCCAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (43 bp):
GTAGCACTCCAGTTTCTGATTTTGGAAAATAACACACGTTTTT
Found at i:12111459 original size:12 final size:12
Alignment explanation
Indices: 12111442--12111466 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12111432 GTATTATCTA
12111442 TGATTGAAAATG
1 TGATTGAAAATG
12111454 TGATTGAAAATG
1 TGATTGAAAATG
12111466 T
1 T
12111467 TTGTAATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (12 bp):
TGATTGAAAATG
Found at i:12112688 original size:25 final size:25
Alignment explanation
Indices: 12112657--12112754 Score: 126
Period size: 25 Copynumber: 3.9 Consensus size: 25
12112647 TAAACTTGTA
* *
12112657 ATGTTGATTAAGTTGTTGTGTAGAT
1 ATGTTGATTAAGTTGTTGTTTGGAT
*
12112682 ATATTGATTAAGTTGTTGTTTGGAT
1 ATGTTGATTAAGTTGTTGTTTGGAT
*
12112707 ATGTT-ATTTAAGTTATTGTTTGGAT
1 ATGTTGA-TTAAGTTGTTGTTTGGAT
* *
12112732 ATGTTGTTTAAATTGTTGTTTGG
1 ATGTTGATTAAGTTGTTGTTTGG
12112755 CTATTTATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
24 1 0.02
25 62 0.98
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.53
Consensus pattern (25 bp):
ATGTTGATTAAGTTGTTGTTTGGAT
Found at i:12113961 original size:15 final size:15
Alignment explanation
Indices: 12113921--12113962 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
12113911 TGCGATTTGG
12113921 TGATGTGTGGCCCAC
1 TGATGTGTGGCCCAC
* **
12113936 TAATGCATGGCCCAC
1 TGATGTGTGGCCCAC
12113951 TGATGTGTGGCC
1 TGATGTGTGGCC
12113963 TTCTATCATG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.26, G:0.31, T:0.26
Consensus pattern (15 bp):
TGATGTGTGGCCCAC
Found at i:12114918 original size:29 final size:29
Alignment explanation
Indices: 12114832--12114911 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
12114822 CTTTTGAACT
* * *
12114832 CTTTCTAGGATTAATTGGGCTTCTAGACTC
1 CTTT-TAGGCTTACTTGGGCATCTAGACTC
* * *
12114862 TTTTTAGTCTTACTTTGGCATCTAGACTC
1 CTTTTAGGCTTACTTGGGCATCTAGACTC
*
12114891 CTTTTAGGCTTCCTTGGGCAT
1 CTTTTAGGCTTACTTGGGCAT
12114912 GTGGACTTCT
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 37 0.93
30 3 0.08
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (29 bp):
CTTTTAGGCTTACTTGGGCATCTAGACTC
Found at i:12115622 original size:31 final size:30
Alignment explanation
Indices: 12115587--12115655 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
12115577 TCATAAAGGC
12115587 TTATTTGATTCAAAATAAAAAACACAAGGGT
1 TTATTTGATTCAAAAT-AAAAACACAAGGGT
* * *
12115618 TTATTTGGTTCAAAATAAAAATATAAGGGT
1 TTATTTGATTCAAAATAAAAACACAAGGGT
*
12115648 TTAATTGA
1 TTATTTGA
12115656 ACACAATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 18 0.55
31 15 0.45
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (30 bp):
TTATTTGATTCAAAATAAAAACACAAGGGT
Found at i:12115646 original size:30 final size:30
Alignment explanation
Indices: 12115587--12115682 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 30
12115577 TCATAAAGGC
* * *
12115587 TTATTTGATTCAAAATAAAAAACACAAGGGT
1 TTATTTGGTTCAAAAT-AAAAATATAAGGGT
12115618 TTATTTGGTTCAAAATAAAAATATAAGGGT
1 TTATTTGGTTCAAAATAAAAATATAAGGGT
* ** * * *
12115648 TTAATT-GAACACAATAAAAGTATAAGAGT
1 TTATTTGGTTCAAAATAAAAATATAAGGGT
12115677 TTATTT
1 TTATTT
12115683 AAATTTTCTT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 23 0.42
30 17 0.31
31 15 0.27
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (30 bp):
TTATTTGGTTCAAAATAAAAATATAAGGGT
Found at i:12117948 original size:79 final size:79
Alignment explanation
Indices: 12117817--12117975 Score: 291
Period size: 79 Copynumber: 2.0 Consensus size: 79
12117807 AATTCTCTGC
12117817 TCTTTGCTTTTGTCCCTTTTCACCCCTCAGTGGTCAGTGCTTGTCCTCCATTGTTGAGTCTAGAG
1 TCTTTGCTTTTGTCCCTTTTCACCCCTCAGTGGTCAGTGCTTGTCCTCCATTGTTGAGTCTAGAG
*
12117882 TAACTGAATGCGAG
66 CAACTGAATGCGAG
* *
12117896 TCTTTGCTTTTGTCCTTTTTCATCCCTCAGTGGTCAGTGCTTGTCCTCCATTGTTGAGTCTAGAG
1 TCTTTGCTTTTGTCCCTTTTCACCCCTCAGTGGTCAGTGCTTGTCCTCCATTGTTGAGTCTAGAG
12117961 CAACTGAATGCGAG
66 CAACTGAATGCGAG
12117975 T
1 T
12117976 AGTGCTGAGA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (79 bp):
TCTTTGCTTTTGTCCCTTTTCACCCCTCAGTGGTCAGTGCTTGTCCTCCATTGTTGAGTCTAGAG
CAACTGAATGCGAG
Found at i:12128366 original size:19 final size:19
Alignment explanation
Indices: 12128344--12128380 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12128334 AGTCTCATTC
*
12128344 AATTTTATTCAAATTTTTA
1 AATTTTATTAAAATTTTTA
*
12128363 AATTTTTTTAAAATTTTT
1 AATTTTATTAAAATTTTT
12128381 TAAGTTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTTTATTAAAATTTTTA
Found at i:12131250 original size:2 final size:2
Alignment explanation
Indices: 12131243--12131275 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
12131233 TTTCACATTA
12131243 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
12131276 TCGGAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12143961 original size:26 final size:26
Alignment explanation
Indices: 12143925--12144062 Score: 133
Period size: 26 Copynumber: 5.5 Consensus size: 26
12143915 CTGACTTTGG
*
12143925 GCATTGCGTGACTAATTTTTTATAAA
1 GCATTGCGTGACTAATTTTTGATAAA
* *
12143951 GCATTGCGTGACTAGTTTCTGATAAA
1 GCATTGCGTGACTAATTTTTGATAAA
*
12143977 GCATTGCGTGACTAA-TTTTG----G
1 GCATTGCGTGACTAATTTTTGATAAA
* * * *
12143998 GTATTGTGTGACTAGTTTTTGATAAG
1 GCATTGCGTGACTAATTTTTGATAAA
* * * *
12144024 GCATTGTGTGATTAGTTTTTGATAAG
1 GCATTGCGTGACTAATTTTTGATAAA
12144050 GCATTGCGTGACT
1 GCATTGCGTGACT
12144063 TGTTAATAAG
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
21 12 0.13
22 5 0.05
25 4 0.04
26 73 0.78
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.41
Consensus pattern (26 bp):
GCATTGCGTGACTAATTTTTGATAAA
Found at i:12143965 original size:69 final size:69
Alignment explanation
Indices: 12143835--12143965 Score: 190
Period size: 69 Copynumber: 1.9 Consensus size: 69
12143825 TAGTTTTTAA
* * *
12143835 GCATTGCGTGACTGACTTTGGGCATTGCGTGACTAGTTTCTGATAAGGCATGGTGTAACTAGATA
1 GCATTGCGTGACTGACTTTGGGCATTGCGTGACTAATTTCTGATAAAGCATGGCGTAACTAGATA
12143900 ATAG
66 ATAG
* * * * *
12143904 GCATTGTGTGACTGACTTTGGGCATTGCGTGACTAATTTTTTATAAAGCATTGCGTGACTAG
1 GCATTGCGTGACTGACTTTGGGCATTGCGTGACTAATTTCTGATAAAGCATGGCGTAACTAG
12143966 TTTCTGATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (69 bp):
GCATTGCGTGACTGACTTTGGGCATTGCGTGACTAATTTCTGATAAAGCATGGCGTAACTAGATA
ATAG
Found at i:12144009 original size:73 final size:73
Alignment explanation
Indices: 12143833--12144062 Score: 234
Period size: 73 Copynumber: 3.2 Consensus size: 73
12143823 ACTAGTTTTT
* * * * * * *
12143833 AAGCATTGCGTGACTGACTTTGGGCATTGCGTGACTAGTTTCTGATAAGGCATGGTGTAACTAG-
1 AAGCATTGCGTGACTAACTTTGGGCATTGCGTGACTAATTTTTGATAAAGCATTGCGTGACTAGT
* *
12143897 --ATAAT-
66 TTCTGATA
* * * *
12143902 AGGCATTGTGTGACTGACTTTGGGCATTGCGTGACTAATTTTTTATAAAGCATTGCGTGACTAGT
1 AAGCATTGCGTGACTAACTTTGGGCATTGCGTGACTAATTTTTGATAAAGCATTGCGTGACTAGT
12143967 TTCTGATA
66 TTCTGATA
* * * * * * *
12143975 AAGCATTGCGTGACTAATTTTGGGTATTGTGTGACTAGTTTTTGATAAGGCATTGTGTGATTAGT
1 AAGCATTGCGTGACTAACTTTGGGCATTGCGTGACTAATTTTTGATAAAGCATTGCGTGACTAGT
*
12144040 TTTTGATA
66 TTCTGATA
*
12144048 AGGCATTGCGTGACT
1 AAGCATTGCGTGACT
12144063 TGTTAATAAG
Statistics
Matches: 133, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
69 55 0.41
72 3 0.02
73 75 0.56
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (73 bp):
AAGCATTGCGTGACTAACTTTGGGCATTGCGTGACTAATTTTTGATAAAGCATTGCGTGACTAGT
TTCTGATA
Found at i:12144073 original size:49 final size:46
Alignment explanation
Indices: 12144019--12144109 Score: 128
Period size: 49 Copynumber: 1.9 Consensus size: 46
12144009 CTAGTTTTTG
* *
12144019 ATAAGGCATTGTGTGATTAGTTTTTGATAAGGCATTGCGTGACTTGTTA
1 ATAAGGCATTGTGTGACTAG--TTCG-TAAGGCATTGCGTGACTTGTTA
*
12144068 ATAAGGCATTGTGTGACTAGTTCGTAAGGCATTGTGTGACTT
1 ATAAGGCATTGTGTGACTAGTTCGTAAGGCATTGCGTGACTT
12144110 AGGCATTGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
46 17 0.44
47 3 0.08
49 19 0.49
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.38
Consensus pattern (46 bp):
ATAAGGCATTGTGTGACTAGTTCGTAAGGCATTGCGTGACTTGTTA
Found at i:12144075 original size:23 final size:23
Alignment explanation
Indices: 12144019--12144109 Score: 94
Period size: 23 Copynumber: 3.8 Consensus size: 23
12144009 CTAGTTTTTG
*
12144019 ATAAGGCATTGTGTGA-TTAGTTTTTG
1 ATAAGGCATTGTGTGACTT-G---TTA
*
12144045 ATAAGGCATTGCGTGACTTGTTA
1 ATAAGGCATTGTGTGACTTGTTA
* *
12144068 ATAAGGCATTGTGTGACTAGTTC
1 ATAAGGCATTGTGTGACTTGTTA
*
12144091 GTAAGGCATTGTGTGACTT
1 ATAAGGCATTGTGTGACTT
12144110 AGGCATTGCT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
23 39 0.68
26 16 0.28
27 2 0.04
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.38
Consensus pattern (23 bp):
ATAAGGCATTGTGTGACTTGTTA
Found at i:12144161 original size:22 final size:21
Alignment explanation
Indices: 12144136--12144197 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
12144126 TCAGTCATGC
12144136 AATGTATAAAAACTAGTCACAT
1 AATG-ATAAAAACTAGTCACAT
* * * *
12144158 AATGCCT-AAAACCAATCACGT
1 AATG-ATAAAAACTAGTCACAT
12144179 AATGACTAAAAACTAGTCA
1 AATGA-TAAAAACTAGTCA
12144198 TACGGTAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.23
Consensus pattern (21 bp):
AATGATAAAAACTAGTCACAT
Found at i:12145352 original size:16 final size:18
Alignment explanation
Indices: 12145323--12145356 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
12145313 TACGTAAGAC
12145323 AAATGAATACTTAACCAA
1 AAATGAATACTTAACCAA
12145341 AAAT-AATA-TTAACCAA
1 AAATGAATACTTAACCAA
12145357 TACTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.59, C:0.15, G:0.03, T:0.24
Consensus pattern (18 bp):
AAATGAATACTTAACCAA
Found at i:12145586 original size:6 final size:6
Alignment explanation
Indices: 12145575--12145615 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
12145565 ATGTCTATTG
12145575 AAAATA AAAATA AATAA-A TAAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AA-AATA -AAAATA AAAATA AAAATA AAAA
12145616 AAGAATCACG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:12145616 original size:19 final size:18
Alignment explanation
Indices: 12145575--12145614 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
12145565 ATGTCTATTG
12145575 AAAATAAAAATAAATAAAT
1 AAAATAAAAAT-AATAAAT
12145594 AAAATAAAAATAA-AAAT
1 AAAATAAAAATAATAAAT
12145611 AAAA
1 AAAA
12145615 AAAGAATCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.38
18 2 0.10
19 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATAAAAATAATAAAT
Found at i:12164791 original size:18 final size:19
Alignment explanation
Indices: 12164746--12164792 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
12164736 AACATAAAAA
12164746 TAAAATAAAATAAAATAACT
1 TAAAA-AAAATAAAATAACT
* * *
12164766 TAACAAAATTAAACTAA-T
1 TAAAAAAAATAAAATAACT
12164784 TAAAAAAAA
1 TAAAAAAAA
12164793 CTAATCCTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 8 0.36
19 10 0.45
20 4 0.18
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (19 bp):
TAAAAAAAATAAAATAACT
Found at i:12186574 original size:12 final size:11
Alignment explanation
Indices: 12186557--12186602 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
12186547 AATGACTTAA
12186557 AACATATAAATT
1 AACATA-AAATT
*
12186569 AACATATAATT
1 AACATAAAATT
*
12186580 AA-ATAAATTT
1 AACATAAAATT
12186590 AACATAAAATT
1 AACATAAAATT
12186601 AA
1 AA
12186603 ATTAAAGTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 8 0.28
11 15 0.52
12 6 0.21
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (11 bp):
AACATAAAATT
Found at i:12186593 original size:21 final size:20
Alignment explanation
Indices: 12186562--12186604 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
12186552 CTTAAAACAT
*
12186562 ATAAATTAACATATAATTAA
1 ATAAATTAACATAAAATTAA
12186582 ATAAATTTAACATAAAATTAA
1 ATAAA-TTAACATAAAATTAA
12186603 AT
1 AT
12186605 TAAAGTCGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAAATTAACATAAAATTAA
Found at i:12191559 original size:31 final size:33
Alignment explanation
Indices: 12191502--12191562 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
12191492 AGAGTTCCTG
*
12191502 TTTTCTTTTTTTGATCATCTTGTATATTTGCTC
1 TTTTCTTTTTTTGAGCATCTTGTATATTTGCTC
*
12191535 TTTTCTTTTTTTGAGGAT-TT-TATATTTG
1 TTTTCTTTTTTTGAGCATCTTGTATATTTG
12191563 AAACCGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 8 0.31
32 2 0.08
33 16 0.62
ACGTcount: A:0.13, C:0.10, G:0.11, T:0.66
Consensus pattern (33 bp):
TTTTCTTTTTTTGAGCATCTTGTATATTTGCTC
Found at i:12194049 original size:2 final size:2
Alignment explanation
Indices: 12194042--12194072 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12194032 AATAAACATT
12194042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12194073 TCATAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12198216 original size:22 final size:23
Alignment explanation
Indices: 12198183--12198252 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 23
12198173 ATAATTTTAA
*
12198183 TTAATT-TAATAATTTTATATAT
1 TTAATTATAATAATATTATATAT
*
12198205 TTAATTAT-ATAAAATTA-ATATT
1 TTAATTATAATAATATTATATA-T
*
12198227 TTAATTATCAATAATATTATTTAT
1 TTAATTAT-AATAATATTATATAT
12198251 TT
1 TT
12198253 TATATATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 3 0.08
22 22 0.56
23 1 0.03
24 11 0.28
25 2 0.05
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAATTATAATAATATTATATAT
Found at i:12198330 original size:25 final size:25
Alignment explanation
Indices: 12198302--12198354 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
12198292 ATAATTTTAA
12198302 TTTATAAATAAAATCAT-AAAATAAT
1 TTTAT-AATAAAATCATAAAAATAAT
* *
12198327 TTTATTATAAAATTATAAAAATAAT
1 TTTATAATAAAATCATAAAAATAAT
12198352 TTT
1 TTT
12198355 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTATAATAAAATCATAAAAATAAT
Found at i:12198370 original size:25 final size:25
Alignment explanation
Indices: 12198291--12198372 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 25
12198281 TTATCAAATT
*
12198291 AATAATTTTAATTTATAAATAAAATCATAA
1 AATAATTTT--TTT-TAAA-AAAATTA-AA
* * *
12198321 AATAA-TTTTATTATAAAATTATAAA
1 AATAATTTTTTTTAAAAAAAT-TAAA
12198346 AATAATTTTTTTTAAAAAAATTAAA
1 AATAATTTTTTTTAAAAAAATTAAA
12198371 AA
1 AA
12198373 ATAGGCTGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
25 17 0.40
26 16 0.37
27 2 0.05
29 3 0.07
30 5 0.12
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (25 bp):
AATAATTTTTTTTAAAAAAATTAAA
Found at i:12198371 original size:24 final size:25
Alignment explanation
Indices: 12198291--12198371 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 25
12198281 TTATCAAATT
12198291 AATAATTTTAATTTATAAATAAAATCATAA
1 AATAATTTT-ATTT-TAAA-AAAAT--TAA
* ** *
12198321 AATAATTTTATTATAAAATTATAAA
1 AATAATTTTATTTTAAAAAAATTAA
12198346 AATAATTTT-TTTTAAAAAAATTAA
1 AATAATTTTATTTTAAAAAAATTAA
12198370 AA
1 AA
12198372 AATAGGCTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
24 13 0.30
25 11 0.26
27 3 0.07
28 4 0.09
29 3 0.07
30 9 0.21
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (25 bp):
AATAATTTTATTTTAAAAAAATTAA
Found at i:12203140 original size:45 final size:45
Alignment explanation
Indices: 12203074--12203172 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
12203064 CATGTCATAA
* * * *
12203074 TGTTACACGTTATGTAAAAAAATATGTTACACATCATGGTTAAGT
1 TGTTACATGCTATGTAAAAAAATATGTGACACAGCATGGTTAAGT
* * *
12203119 TGTTACATGCTATGTATAAAAATATGTGACACGGCATGGTTATGT
1 TGTTACATGCTATGTAAAAAAATATGTGACACAGCATGGTTAAGT
*
12203164 TGCTACATG
1 TGTTACATG
12203173 TCATGGTTAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (45 bp):
TGTTACATGCTATGTAAAAAAATATGTGACACAGCATGGTTAAGT
Found at i:12203242 original size:66 final size:66
Alignment explanation
Indices: 12203098--12203242 Score: 166
Period size: 66 Copynumber: 2.2 Consensus size: 66
12203088 TAAAAAAATA
* ** * * * *
12203098 TGTTACACATCATGGTTAAGTTGTTACATGCTATGTATAAAAATATGTGACACGGCATGGTTATG
1 TGTTACACGTCATGGTTAAGTTGTTACACACCATGTACAAAAACATGTGACACGGCATGGTTAGG
12203163 T
66 T
* * **
12203164 TGCTACATGTCATGGTT-AGATTGTTACACACCATGTACAAAAACATGTGACACGTTATGGTTAG
1 TGTTACACGTCATGGTTAAG-TTGTTACACACCATGTACAAAAACATGTGACACGGCATGGTTAG
12203228 GT
65 GT
*
12203230 TGTTATACGTCAT
1 TGTTACACGTCAT
12203243 ATACAAAAAC
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
65 2 0.03
66 62 0.97
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (66 bp):
TGTTACACGTCATGGTTAAGTTGTTACACACCATGTACAAAAACATGTGACACGGCATGGTTAGG
T
Found at i:12203248 original size:45 final size:45
Alignment explanation
Indices: 12203175--12203282 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
12203165 GCTACATGTC
* * * *
12203175 ATGGTTAGATTGTTACACACCATGTACAAAAACATGTGACACGTT
1 ATGGTTAGGTTGTTACACACCATATACAAAAACATGTAACACGCT
* ** *
12203220 ATGGTTAGGTTGTTATACGTCATATACAAAAACATGTAACATGCT
1 ATGGTTAGGTTGTTACACACCATATACAAAAACATGTAACACGCT
12203265 ATGGTTAGGTTGTTACAC
1 ATGGTTAGGTTGTTACAC
12203283 GCTATATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (45 bp):
ATGGTTAGGTTGTTACACACCATATACAAAAACATGTAACACGCT
Found at i:12203315 original size:32 final size:29
Alignment explanation
Indices: 12203274--12203370 Score: 110
Period size: 29 Copynumber: 3.3 Consensus size: 29
12203264 TATGGTTAGG
12203274 TTGTTACACG-CTATATTAAAATAAAAATATTA
1 TTGTTACACGTC-ATATT--AA-AAAAATATTA
* *
12203306 TTGTTACACGTCATGTTGAAAAAATATTA
1 TTGTTACACGTCATATTAAAAAAATATTA
*
12203335 TTGTTACACGTCATATT-CAAAAATATT-
1 TTGTTACACGTCATATTAAAAAAATATTA
12203362 TTGTTACAC
1 TTGTTACAC
12203371 TTTAATACCT
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
27 9 0.15
28 9 0.15
29 26 0.43
30 1 0.02
32 14 0.23
33 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (29 bp):
TTGTTACACGTCATATTAAAAAAATATTA
Found at i:12203365 original size:27 final size:29
Alignment explanation
Indices: 12203296--12203370 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
12203286 ATATTAAAAT
*
12203296 AAAAATATTATTGTTACACGTCATGTTGA
1 AAAAATATTATTGTTACACGTCATATTGA
*
12203325 AAAAATATTATTGTTACACGTCATATT-C
1 AAAAATATTATTGTTACACGTCATATTGA
12203353 AAAAATATT-TTGTTACAC
1 AAAAATATTATTGTTACAC
12203371 TTTAATACCT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 9 0.20
28 9 0.20
29 26 0.59
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (29 bp):
AAAAATATTATTGTTACACGTCATATTGA
Found at i:12204819 original size:23 final size:26
Alignment explanation
Indices: 12204769--12204820 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 26
12204759 ATTAATTATT
* *
12204769 TTAATTATTATATATTTTTAATATAA
1 TTAATTATTATATATTATTAATAAAA
12204795 TTAATTA-TAT-TATTATT-ATAAAA
1 TTAATTATTATATATTATTAATAAAA
12204818 TTA
1 TTA
12204821 TAGAACCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.33
24 6 0.25
25 3 0.12
26 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TTAATTATTATATATTATTAATAAAA
Found at i:12214916 original size:11 final size:11
Alignment explanation
Indices: 12214897--12214933 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
12214887 GGGCTACTTT
*
12214897 TATATATATAG
1 TATAGATATAG
12214908 TATAGATATAG
1 TATAGATATAG
12214919 TATAGATATAG
1 TATAGATATAG
12214930 TATA
1 TATA
12214934 ACAAGTATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.41
Consensus pattern (11 bp):
TATAGATATAG
Found at i:12214973 original size:12 final size:12
Alignment explanation
Indices: 12214937--12214976 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
12214927 TAGTATAACA
12214937 AGTATACTACA-T
1 AGTATACTA-ATT
*
12214949 AGTATACTTATT
1 AGTATACTAATT
12214961 AGTATACTAATT
1 AGTATACTAATT
12214973 AGTA
1 AGTA
12214977 AAAAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 1 0.04
12 24 0.96
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (12 bp):
AGTATACTAATT
Found at i:12217343 original size:25 final size:25
Alignment explanation
Indices: 12217315--12217364 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
12217305 AAGGGAAAAG
12217315 ATAGAATGGATGAAGAAGATTTTAT
1 ATAGAATGGATGAAGAAGATTTTAT
12217340 ATAGAATGGATGAAGAAGATTTTAT
1 ATAGAATGGATGAAGAAGATTTTAT
12217365 CTCTATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (25 bp):
ATAGAATGGATGAAGAAGATTTTAT
Found at i:12223920 original size:23 final size:23
Alignment explanation
Indices: 12223894--12223951 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
12223884 GAAACGGAGC
* *
12223894 GGTGGGAATGTGCGACACGGCAT
1 GGTGGGAATATGCGACACAGCAT
* *
12223917 GGTGGGAATATGTGACACATCAT
1 GGTGGGAATATGCGACACAGCAT
*
12223940 GGTGAGAATATG
1 GGTGGGAATATG
12223952 TTATATGTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.12, G:0.38, T:0.22
Consensus pattern (23 bp):
GGTGGGAATATGCGACACAGCAT
Found at i:12224625 original size:23 final size:23
Alignment explanation
Indices: 12224596--12224645 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
12224586 GGGTTTAGAG
* * *
12224596 TGTGTGACACGTCAGGGTGATAA
1 TGTGTGACACGGCACGGTGAGAA
*
12224619 TGTGTGAGACGGCACGGTGAGAA
1 TGTGTGACACGGCACGGTGAGAA
12224642 TGTG
1 TGTG
12224646 ATTGGGGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (23 bp):
TGTGTGACACGGCACGGTGAGAA
Found at i:12224760 original size:46 final size:45
Alignment explanation
Indices: 12224710--12224845 Score: 121
Period size: 46 Copynumber: 3.0 Consensus size: 45
12224700 GTGACATGGC
* * *
12224710 AGGGTGATAATGTGTGAGATGACACAGTGAGAATATGTGACACGAT
1 AGGGT-ATAATGTGTGAAACGACACAGTGAGAATGTGTGACACGAT
* * * ** * *
12224756 AGGGTTTAAAGTGTGTGACACGCCATGGTCAG-ACGTGTGACACGAT
1 AGGGTAT-AA-TGTGTGAAACGACACAGTGAGAATGTGTGACACGAT
* *
12224802 AGGGTCATAATGTGTGAAACGGCACAGTGATAATGTGTGACACG
1 AGGGT-ATAATGTGTGAAACGACACAGTGAGAATGTGTGACACG
12224846 GGTGTGACAT
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
45 16 0.23
46 37 0.54
47 16 0.23
ACGTcount: A:0.31, C:0.13, G:0.32, T:0.24
Consensus pattern (45 bp):
AGGGTATAATGTGTGAAACGACACAGTGAGAATGTGTGACACGAT
Found at i:12224807 original size:22 final size:23
Alignment explanation
Indices: 12224745--12224808 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 23
12224735 AGTGAGAATA
* *
12224745 TGTGACACGATAGGGTTTAAAGTG
1 TGTGACACGATAGGG-TCAAAGCG
** * *
12224769 TGTGACACGCCATGGTCAGA-CG
1 TGTGACACGATAGGGTCAAAGCG
12224791 TGTGACACGATAGGGTCA
1 TGTGACACGATAGGGTCA
12224809 TAATGTGTGA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 16 0.52
23 3 0.10
24 12 0.39
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (23 bp):
TGTGACACGATAGGGTCAAAGCG
Found at i:12224946 original size:104 final size:104
Alignment explanation
Indices: 12224745--12225617 Score: 856
Period size: 104 Copynumber: 8.5 Consensus size: 104
12224735 AGTGAGAATA
* * ** *
12224745 TGTGACACGATAGGGTTTAAAGTGTGTGACACGCCATGGTCAG-ACGTGTGACACGATAGGGTCA
1 TGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGAGAGAACGTGTGACACGACAGGGTCA
* *
12224809 TAATGTGTGAAACGGCACAGTGATAATGTGTGACACGGG
66 TAATGTGTGAAACGACACAGTGATAATATGTGACACGGG
* * * * *
12224848 TGTGACATGGTAGGGTTTAGAGTGTGTGACACACCATGGAGGGAATC-TGTGACACGACAAGGTG
1 TGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGAGAGAA-CGTGTGACACGACAGGGTC
* * * * *
12224912 ATAATGTGTGAGATGGCACAGTGAGAATACGTGACACGGG
65 ATAATGTGTGAAACGACACAGTGATAATATGTGACACGGG
* ** * ** * *
12224952 TGTGACACGATAATGTTTAGAGTGTGTTACACGCCATGGTCAGAACGTGTGACACGGCTGGGTCA
1 TGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGAGAGAACGTGTGACACGACAGGGTCA
* * *
12225017 TAATGTGTGAAACGACATAGTGATAATGTGTGACACGGC
66 TAATGTGTGAAACGACACAGTGATAATATGTGACACGGG
* * * * *
12225056 TGTGATACGGTAGGGTTTAGAGTGTGTGACACGCCATGGAGGGAATC-TGTGACACAATAGGGTG
1 TGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGAGAGAA-CGTGTGACACGACAGGGTC
* * * **
12225120 ATAATGTGTGAGACGACACGGTGAGAATATGTGACAC-AA
65 ATAATGTGTGAAACGACACAGTGATAATATGTGACACGGG
* *** *
12225159 TGTGACACGGTAGGGTTTAGAGTGTGTGACATGCCATGTTCAG-ACGTGTGACACAACAGGGTCA
1 TGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGAGAGAACGTGTGACACGACAGGGTCA
* * *
12225223 TATTGTGTGAAACAACACAGTGATAATGTGTGACAC---
66 TAATGTGTGAAACGACACAGTGATAATATGTGACACGGG
* *
12225259 ---GACA----A-GGTTTAGAGTGTGTGACACGCCATGGAGGGAATC-TGTGACA-TACCAGGG-
1 TGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGAGAGAA-CGTGTGACACGA-CAGGGT
* * * *
12225313 CGATAATGTGTGAGACGACACGGTGAAAATATGTGACACGAG
64 C-ATAATGTGTGAAACGACACAGTGATAATATGTGACACGGG
* **
12225355 TGTGACACGGTAGCGTTTAGAGTGTGTGACACGCCATGGTTAGAACGTGTGACACGACAGGGTCA
1 TGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGAGAGAACGTGTGACACGACAGGGTCA
* * *
12225420 TAATGTGTGAAACAACACAGTGATAATGTGTGACACGGC
66 TAATGTGTGAAACGACACAGTGATAATATGTGACACGGG
* * ** *
12225459 TATGACACGAG-AGGGTTTAGAGTGTGTGACACGCTATGGAG-GAAATTTGTGACACGCCAGGG-
1 TGTGACACG-GTAGGGTTTAGAGTGTGTGACACGCCATGGAGAG-AACGTGTGACACGACAGGGT
* * * * *
12225521 CGATAATGTGTGAGACGGCACGGTGAGAATATGTGAGACGGG
64 C-ATAATGTGTGAAACGACACAGTGATAATATGTGACACGGG
* * * **
12225563 TGTGACATGGCAGCGTTTAGAGTGTGTGACACGCCATGGTCAG-ACGTGTGACACG
1 TGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGAGAGAACGTGTGACACG
12225618 GCATGGCTTG
Statistics
Matches: 624, Mismatches: 118, Indels: 56
0.78 0.15 0.07
Matches are distributed among these distances:
92 27 0.04
93 45 0.07
94 1 0.00
97 4 0.01
99 4 0.01
101 1 0.00
102 47 0.08
103 89 0.14
104 400 0.64
105 6 0.01
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (104 bp):
TGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGAGAGAACGTGTGACACGACAGGGTCA
TAATGTGTGAAACGACACAGTGATAATATGTGACACGGG
Found at i:12225041 original size:208 final size:206
Alignment explanation
Indices: 12224745--12225620 Score: 1173
Period size: 208 Copynumber: 4.3 Consensus size: 206
12224735 AGTGAGAATA
* * * **
12224745 TGTGACACGATAGGGTTTAAAGTGTGTGACACGCCATGGTCAGACGTGTGACACGATAGGGTCAT
1 TGTGACACGGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACGGCAGGGTCAT
** * *
12224810 AATGTGTGAAACGGCACAGTGATAATGTGTGACACGGGTGTGACATGGTAGGGTTTAGAGTGTGT
66 AATGTGTGAAACAACACAGTGATAATGTGTGACACGGCTGTGACACGG-AGGGTTTAGAGTGTGT
* * * * * *
12224875 GACACACCATGGAGGGAATCTGTGACACGACAAGGTGATAATGTGTGAGATGGCACAGTGAGAAT
130 GACACGCCATGGAGGGAATCTGTGACACGACAGGGCGATAATGTGTGAGACGACACGGTGAGAAT
* *
12224940 ACGTGACACGGG
195 ATGTGACACGAG
* ** * *
12224952 TGTGACACGATAATGTTTAGAGTGTGTTACACGCCATGGTCAGAACGTGTGACACGGCTGGGTCA
1 TGTGACACGGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAG-ACGTGTGACACGGCAGGGTCA
* * *
12225017 TAATGTGTGAAACGACATAGTGATAATGTGTGACACGGCTGTGATACGGTAGGGTTTAGAGTGTG
65 TAATGTGTGAAACAACACAGTGATAATGTGTGACACGGCTGTGACACGG-AGGGTTTAGAGTGTG
* * *
12225082 TGACACGCCATGGAGGGAATCTGTGACACAATAGGGTGATAATGTGTGAGACGACACGGTGAGAA
129 TGACACGCCATGGAGGGAATCTGTGACACGACAGGGCGATAATGTGTGAGACGACACGGTGAGAA
*
12225147 TATGTGACAC-AA
194 TATGTGACACGAG
* * * **
12225159 TGTGACACGGTAGGGTTTAGAGTGTGTGACATGCCATGTTCAGACGTGTGACACAACAGGGTCAT
1 TGTGACACGGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACGGCAGGGTCAT
*
12225224 ATTGTGTGAAACAACACAGTGATAATGTGTGACA---C---GACA---A-GGTTTAGAGTGTGTG
66 AATGTGTGAAACAACACAGTGATAATGTGTGACACGGCTGTGACACGGAGGGTTTAGAGTGTGTG
* *
12225279 ACACGCCATGGAGGGAATCTGTGACA-TACCAGGGCGATAATGTGTGAGACGACACGGTGAAAAT
131 ACACGCCATGGAGGGAATCTGTGACACGA-CAGGGCGATAATGTGTGAGACGACACGGTGAGAAT
12225343 ATGTGACACGAG
195 ATGTGACACGAG
* *
12225355 TGTGACACGGTAGCGTTTAGAGTGTGTGACACGCCATGGTTAGAACGTGTGACACGACAGGGTCA
1 TGTGACACGGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAG-ACGTGTGACACGGCAGGGTCA
*
12225420 TAATGTGTGAAACAACACAGTGATAATGTGTGACACGGCTATGACACGAGAGGGTTTAGAGTGTG
65 TAATGTGTGAAACAACACAGTGATAATGTGTGACACGGCTGTGACACG-GAGGGTTTAGAGTGTG
* * * * *
12225485 TGACACGCTATGGAGGAAATTTGTGACACGCCAGGGCGATAATGTGTGAGACGGCACGGTGAGAA
129 TGACACGCCATGGAGGGAATCTGTGACACGACAGGGCGATAATGTGTGAGACGACACGGTGAGAA
* *
12225550 TATGTGAGACGGG
194 TATGTGACACGAG
* *
12225563 TGTGACATGGCAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACGGCA
1 TGTGACACGGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACGGCA
12225621 TGGCTTGAAC
Statistics
Matches: 594, Mismatches: 59, Indels: 32
0.87 0.09 0.05
Matches are distributed among these distances:
194 1 0.00
195 82 0.14
196 41 0.07
197 54 0.09
200 4 0.01
203 5 0.01
206 50 0.08
207 91 0.15
208 266 0.45
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (206 bp):
TGTGACACGGTAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACGGCAGGGTCAT
AATGTGTGAAACAACACAGTGATAATGTGTGACACGGCTGTGACACGGAGGGTTTAGAGTGTGTG
ACACGCCATGGAGGGAATCTGTGACACGACAGGGCGATAATGTGTGAGACGACACGGTGAGAATA
TGTGACACGAG
Found at i:12225060 original size:21 final size:22
Alignment explanation
Indices: 12224998--12225062 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
12224988 TGGTCAGAAC
*
12224998 GTGTGACACGGCTGGGTCATAAT
1 GTGTGACACGGCT-GGTGATAAT
* * *
12225021 GTGTGAAACGACATAGTGATAAT
1 GTGTGACACGGC-TGGTGATAAT
12225044 GTGTGACACGGCT-GTGATA
1 GTGTGACACGGCTGGTGATA
12225063 CGGTAGGGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 6 0.17
22 1 0.03
23 27 0.77
24 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (22 bp):
GTGTGACACGGCTGGTGATAAT
Found at i:12225129 original size:23 final size:23
Alignment explanation
Indices: 12225098--12225159 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
12225088 GCCATGGAGG
* *
12225098 GAATCTGTGACACAATAGGGTGA
1 GAATATGTGACACAATACGGTGA
* * * * *
12225121 TAATGTGTGAGACGACACGGTGA
1 GAATATGTGACACAATACGGTGA
12225144 GAATATGTGACACAAT
1 GAATATGTGACACAAT
12225160 GTGACACGGT
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (23 bp):
GAATATGTGACACAATACGGTGA
Found at i:12225420 original size:403 final size:407
Alignment explanation
Indices: 12224744--12225616 Score: 1218
Period size: 403 Copynumber: 2.1 Consensus size: 407
12224734 CAGTGAGAAT
* * * *
12224744 ATGTGACACGATAGGGTTTAAAGTGTGTGACACGCCATGGTCAGACGTGTGACACGATAGGGTCA
1 ATGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACAACAGGGTCA
**
12224809 TAATGTGTGAAACGGCACAGTGATAATGTGTGACACGGGTGTGACATGGTAGGGTTTAGAGTGTG
66 TAATGTGTGAAACAACACAGTGATAATGTGTGACAC----G-GACA--G-AGGGTTTAGAGTGTG
* * * *
12224874 TGACACACCATGGAGGGAATCTGTGACACGACAAGGTGATAATGTGTGAGATGGCACAGTGAGAA
123 TGACACACCATGGAGGGAATCTGTGACACGACAAGGCGATAATGTGTGAGACGACACAGTGAAAA
* * *
12224939 TACGTGACACGGGTGTGACACGATAATGTTTAGAGTGTGTTACACGCCATGGTCAGAACGTGTGA
188 TACGTGACACGAGTGTGACACGATAACGTTTAGAGTGTGTGACACGCCATGGTCAGAACGTGTGA
* * * * * *
12225004 CACGGCTGGGTCATAATGTGTGAAACGACATAGTGATAATGTGTGACACGGCTGTGATACG-GTA
253 CACGACAGGGTCATAATGTGTGAAACAACACAGTGATAATGTGTGACACGGCTATGACACGAG-A
* * *
12225068 GGGTTTAGAGTGTGTGACACGCCATGGAGGGAATCTGTGACACAATAGGGTGATAATGTGTGAGA
317 GGGTTTAGAGTGTGTGACACGCCATGGAGGAAATCTGTGACACAACAGGGCGATAATGTGTGAGA
12225133 CGACACGGTGAGAATATGTGACAC-A
382 CGACACGGTGAGAATATGTGACACGA
* *
12225158 ATGTGACACGGTAGGGTTTAGAGTGTGTGACATGCCATGTTCAGACGTGTGACACAACAGGGTCA
1 ATGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACAACAGGGTCA
* *
12225223 TATTGTGTGAAACAACACAGTGATAATGTGTGACAC-GACA-A-GGTTTAGAGTGTGTGACACGC
66 TAATGTGTGAAACAACACAGTGATAATGTGTGACACGGACAGAGGGTTTAGAGTGTGTGACACAC
* * * *
12225285 CATGGAGGGAATCTGTGACA-TACCAGGGCGATAATGTGTGAGACGACACGGTGAAAATATGTGA
131 CATGGAGGGAATCTGTGACACGA-CAAGGCGATAATGTGTGAGACGACACAGTGAAAATACGTGA
* * *
12225349 CACGAGTGTGACACGGTAGCGTTTAGAGTGTGTGACACGCCATGGTTAGAACGTGTGACACGACA
195 CACGAGTGTGACACGATAACGTTTAGAGTGTGTGACACGCCATGGTCAGAACGTGTGACACGACA
12225414 GGGTCATAATGTGTGAAACAACACAGTGATAATGTGTGACACGGCTATGACACGAGAGGGTTTAG
260 GGGTCATAATGTGTGAAACAACACAGTGATAATGTGTGACACGGCTATGACACGAGAGGGTTTAG
* * ** *
12225479 AGTGTGTGACACGCTATGGAGGAAATTTGTGACACGCCAGGGCGATAATGTGTGAGACGGCACGG
325 AGTGTGTGACACGCCATGGAGGAAATCTGTGACACAACAGGGCGATAATGTGTGAGACGACACGG
* *
12225544 TGAGAATATGTGAGACGG
390 TGAGAATATGTGACACGA
* * * *
12225562 GTGTGACATGGCAGCGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACAC
1 ATGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACAC
12225617 GGCATGGCTT
Statistics
Matches: 410, Mismatches: 46, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
402 1 0.00
403 262 0.64
404 51 0.12
408 4 0.01
414 92 0.22
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (407 bp):
ATGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACACAACAGGGTCA
TAATGTGTGAAACAACACAGTGATAATGTGTGACACGGACAGAGGGTTTAGAGTGTGTGACACAC
CATGGAGGGAATCTGTGACACGACAAGGCGATAATGTGTGAGACGACACAGTGAAAATACGTGAC
ACGAGTGTGACACGATAACGTTTAGAGTGTGTGACACGCCATGGTCAGAACGTGTGACACGACAG
GGTCATAATGTGTGAAACAACACAGTGATAATGTGTGACACGGCTATGACACGAGAGGGTTTAGA
GTGTGTGACACGCCATGGAGGAAATCTGTGACACAACAGGGCGATAATGTGTGAGACGACACGGT
GAGAATATGTGACACGA
Found at i:12225427 original size:23 final size:23
Alignment explanation
Indices: 12225377--12225456 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 23
12225367 GCGTTTAGAG
* * * *
12225377 TGTGTGACACGCCATGGTTAGAA
1 TGTGTGACACGACACGGTCATAA
* *
12225400 CGTGTGACACGACAGGGTCATAA
1 TGTGTGACACGACACGGTCATAA
* * * *
12225423 TGTGTGAAACAACACAGTGATAA
1 TGTGTGACACGACACGGTCATAA
12225446 TGTGTGACACG
1 TGTGTGACACG
12225457 GCTATGACAC
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (23 bp):
TGTGTGACACGACACGGTCATAA
Found at i:12225532 original size:23 final size:23
Alignment explanation
Indices: 12225481--12225533 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
12225471 GGGTTTAGAG
*
12225481 TGTGTGACACGCTATGGAGGAAA
1 TGTGTGACACGCCATGGAGGAAA
*
12225504 TTTGTGACACGCCA-GG-GCGATAA
1 TGTGTGACACGCCATGGAG-GA-AA
12225527 TGTGTGA
1 TGTGTGA
12225534 GACGGCACGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 4 0.16
23 20 0.80
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (23 bp):
TGTGTGACACGCCATGGAGGAAA
Found at i:12225636 original size:23 final size:23
Alignment explanation
Indices: 12225586--12225669 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
12225576 CGTTTAGAGT
*
12225586 GTGTGACACGCCATGG--TCAGAC
1 GTGTGACACGCCATGGCTTGA-AC
*
12225608 GTGTGACACGGCATGGCTTGAAC
1 GTGTGACACGCCATGGCTTGAAC
* * *
12225631 GTGTGACACTCCATGGGTTGAAT
1 GTGTGACACGCCATGGCTTGAAC
*
12225654 ATGTGACACGCCATGG
1 GTGTGACACGCCATGG
12225670 TGTGAAAGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
22 15 0.29
23 35 0.67
24 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (23 bp):
GTGTGACACGCCATGGCTTGAAC
Found at i:12226195 original size:55 final size:55
Alignment explanation
Indices: 12226123--12226614 Score: 496
Period size: 55 Copynumber: 9.0 Consensus size: 55
12226113 CGTCTGCATA
* * *
12226123 TGGCTTGTTGTAGGTTAACTGGTTTTTTGAGTTTTTAGCCTGTCACGGCTGTTCC
1 TGGCATGTTGTGGGTTAACTGGTTTTTTGAGTTTTTAGCGTGTCACGGCTGTTCC
* *
12226178 TAGCATGTTGTGGGTTAACTGATTTTTTG-GATTTTTAGCGTGTCACGGCTGTTCC
1 TGGCATGTTGTGGGTTAACTGGTTTTTTGAG-TTTTTAGCGTGTCACGGCTGTTCC
** * * * *
12226233 TGGCATGTTGTGGGTTAACTGAATTTTTGGGTTTTTGGCGTGTCACTGCTATTCC
1 TGGCATGTTGTGGGTTAACTGGTTTTTTGAGTTTTTAGCGTGTCACGGCTGTTCC
*** *
12226288 TGGCATGTTGTGGGTTAACTGGTTTTTTGAGTTTTTATAATGTCACGGCTATTCC
1 TGGCATGTTGTGGGTTAACTGGTTTTTTGAGTTTTTAGCGTGTCACGGCTGTTCC
* * * * * *
12226343 TAGCGTGTAGTGGGTTGACTGGATTTTTTG-GTTTTTGGCGTGTCACGACTGTTCC
1 TGGCATGTTGTGGGTTAACTGG-TTTTTTGAGTTTTTAGCGTGTCACGGCTGTTCC
* * * *
12226398 TGGCATGTTATGGG-TAATTGGATTTTTT-AGGTTTTTGGCGTGTCACGGCTATTCC
1 TGGCATGTTGTGGGTTAACTGG-TTTTTTGA-GTTTTTAGCGTGTCACGGCTGTTCC
* * * * *
12226453 TAGCCTGTTGTGGGTTAACTGGTTTTTT-AGGTATTTAACGTGTCACGGCTATTCC
1 TGGCATGTTGTGGGTTAACTGGTTTTTTGA-GTTTTTAGCGTGTCACGGCTGTTCC
* * ** *
12226508 TGGCGTGTTGTGGGGTAACTGAATTTTT-AGGTTTTT-GACGTGTCACGGCTGTTCT
1 TGGCATGTTGTGGGTTAACTGGTTTTTTGA-GTTTTTAG-CGTGTCACGGCTGTTCC
* * * ** *
12226563 TGACGTGCTGTGGGTTAACTGGTTTTAGGA-TTTTTTGCGTGTCACGGCTGTT
1 TGGCATGTTGTGGGTTAACTGGTTTTTTGAGTTTTTAGCGTGTCACGGCTGTT
12226615 GGTGTAACGA
Statistics
Matches: 369, Mismatches: 59, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
54 33 0.09
55 321 0.87
56 15 0.04
ACGTcount: A:0.13, C:0.14, G:0.29, T:0.43
Consensus pattern (55 bp):
TGGCATGTTGTGGGTTAACTGGTTTTTTGAGTTTTTAGCGTGTCACGGCTGTTCC
Found at i:12226433 original size:165 final size:164
Alignment explanation
Indices: 12226123--12226611 Score: 601
Period size: 165 Copynumber: 3.0 Consensus size: 164
12226113 CGTCTGCATA
* * ** * *
12226123 TGGCTTGTTGTAGGTTAACTGGTTTTTTGAGTTTTTAGCCTGTCACGGCTGTTCCTAGCATGTTG
1 TGGCATGTTGTGGGTTAACTGGTTTTTTGAGTTTTTA-AATGTCACGGCTATTCCTAGCGTGTTG
* *
12226188 TGGGTTAACT-GATTTTTTGGATTTTTAGCGTGTCACGGCTGTTCCTGGCATGTTGTGGGTTAAC
65 TGGGTTAACTGGATTTTTTGG-TTTTTGGCGTGTCACGGCTGTTCCTGGCATGTTATGGGTTAAC
* *
12226252 TGAATTTTTGGGTTTTTGGCGTGTCACTGCTATTCC
129 TGAATTTTTAGGTTTTTGGCGTGTCACGGCTATTCC
*
12226288 TGGCATGTTGTGGGTTAACTGGTTTTTTGAGTTTTTATAATGTCACGGCTATTCCTAGCGTGTAG
1 TGGCATGTTGTGGGTTAACTGGTTTTTTGAGTTTTTA-AATGTCACGGCTATTCCTAGCGTGTTG
* * *
12226353 TGGGTTGACTGGATTTTTTGGTTTTTGGCGTGTCACGACTGTTCCTGGCATGTTATGGG-TAATT
65 TGGGTTAACTGGATTTTTTGGTTTTTGGCGTGTCACGGCTGTTCCTGGCATGTTATGGGTTAACT
*
12226417 GGATTTTTTAGGTTTTTGGCGTGTCACGGCTATTCC
130 -GAATTTTTAGGTTTTTGGCGTGTCACGGCTATTCC
* * * * *
12226453 TAGCCTGTTGTGGGTTAACTGGTTTTTT-AGGTATTTAACGTGTCACGGCTATTCCTGGCGTGTT
1 TGGCATGTTGTGGGTTAACTGGTTTTTTGA-GTTTTTAA-ATGTCACGGCTATTCCTAGCGTGTT
* * * * * * * * *
12226517 GTGGGGTAACTGAATTTTTAGGTTTTTGACGTGTCACGGCTGTTCTTGACGTGCTGTGGGTTAAC
64 GTGGGTTAACTGGATTTTTTGGTTTTTGGCGTGTCACGGCTGTTCCTGGCATGTTATGGGTTAAC
* *
12226582 TG--GTTTTAGGATTTTTTGCGTGTCACGGCT
129 TGAATTTTTAGG-TTTTTGGCGTGTCACGGCT
12226612 GTTGGTGTAA
Statistics
Matches: 282, Mismatches: 36, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
163 7 0.02
164 24 0.09
165 237 0.84
166 14 0.05
ACGTcount: A:0.13, C:0.14, G:0.29, T:0.43
Consensus pattern (164 bp):
TGGCATGTTGTGGGTTAACTGGTTTTTTGAGTTTTTAAATGTCACGGCTATTCCTAGCGTGTTGT
GGGTTAACTGGATTTTTTGGTTTTTGGCGTGTCACGGCTGTTCCTGGCATGTTATGGGTTAACTG
AATTTTTAGGTTTTTGGCGTGTCACGGCTATTCC
Found at i:12226671 original size:25 final size:25
Alignment explanation
Indices: 12226643--12226700 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
12226633 TTACAGTGAC
12226643 TGGCGTGTCACGAGACTAATATGCA
1 TGGCGTGTCACGAGACTAATATGCA
* *
12226668 TGGCATGTCACGAGACTGATATGCA
1 TGGCGTGTCACGAGACTAATATGCA
12226693 TGGCGTGT
1 TGGCGTGT
12226701 TACAACATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (25 bp):
TGGCGTGTCACGAGACTAATATGCA
Found at i:12229102 original size:81 final size:81
Alignment explanation
Indices: 12229003--12229328 Score: 374
Period size: 81 Copynumber: 4.0 Consensus size: 81
12228993 ATGCTGAAAA
* *
12229003 AGTCCATGTTCCTT-AGGCTAATTCGATTATCGATGCATCTACGGGAGGGGAAGGGGACTTTCAC
1 AGTCCATGTT-CTTGAGGCTGATTCGATTATCGATGCATCTACGGGAGGGGAAGGGGACCTTCAC
12229067 TCACTCGTGGCTGAAGG
65 TCACTCGTGGCTGAAGG
*
12229084 AGTCCATGTTCTTGAGGCTGATTCTG-TTATCGATGCATTTACGGGAGGGG-AGAGGGACCTTCA
1 AGTCCATGTTCTTGAGGCTGATTC-GATTATCGATGCATCTACGGGAGGGGAAG-GGGACCTTCA
* *
12229147 CTCGCTCGTGGCTAAAGG
64 CTCACTCGTGGCTGAAGG
* * * * * * * ***
12229165 AGTCCATGTTCCTGAGGCTGATTAGGTTATCAATGAATCCACGGGAGGGGAAAGGGTTTTTCACT
1 AGTCCATGTTCTTGAGGCTGATTCGATTATCGATGCATCTACGGGAGGGGAAGGGGACCTTCACT
12229230 CACTCGTGGCTGAAGG
66 CACTCGTGGCTGAAGG
* ** *
12229246 AGTCCATGTT-TATGAGGCTGATTC-AGTTATTGATGCATCTGTGGGAGGGGAGGGGGACCTTCA
1 AGTCCATGTTCT-TGAGGCTGATTCGA-TTATCGATGCATCTACGGGAGGGGAAGGGGACCTTCA
* * *
12229309 GTCGCTCGTGGTTGAAGG
64 CTCACTCGTGGCTGAAGG
12229327 AG
1 AG
12229329 ACTTTCAGAA
Statistics
Matches: 204, Mismatches: 34, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
80 6 0.03
81 196 0.96
82 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (81 bp):
AGTCCATGTTCTTGAGGCTGATTCGATTATCGATGCATCTACGGGAGGGGAAGGGGACCTTCACT
CACTCGTGGCTGAAGG
Found at i:12229214 original size:162 final size:162
Alignment explanation
Indices: 12229003--12229328 Score: 465
Period size: 162 Copynumber: 2.0 Consensus size: 162
12228993 ATGCTGAAAA
* * * * * *
12229003 AGTCCATGTTCCTTAGGCTAATTCGATTATCGATGCATCTACGGGAGGGGAAGGGGACTTTCACT
1 AGTCCATGTTCCTGAGGCTAATTAGATTATCAATGAATCCACGGGAGGGGAAAGGGACTTTCACT
* *
12229068 CACTCGTGGCTGAAGGAGTCCATGTTCT-TGAGGCTGATTCTGTTATCGATGCATTTACGGGAGG
66 CACTCGTGGCTGAAGGAGTCCATGTT-TATGAGGCTGATTCAGTTATCGATGCATCTACGGGAGG
12229132 GGAGAGGGACCTTCACTCGCTCGTGGCTAAAGG
130 GGAGAGGGACCTTCACTCGCTCGTGGCTAAAGG
* * **
12229165 AGTCCATGTTCCTGAGGCTGATTAGGTTATCAATGAATCCACGGGAGGGGAAAGGGTTTTTCACT
1 AGTCCATGTTCCTGAGGCTAATTAGATTATCAATGAATCCACGGGAGGGGAAAGGGACTTTCACT
* **
12229230 CACTCGTGGCTGAAGGAGTCCATGTTTATGAGGCTGATTCAGTTATTGATGCATCTGTGGGAGGG
66 CACTCGTGGCTGAAGGAGTCCATGTTTATGAGGCTGATTCAGTTATCGATGCATCTACGGGAGGG
* * * *
12229295 GAGGGGGACCTTCAGTCGCTCGTGGTTGAAGG
131 GAGAGGGACCTTCACTCGCTCGTGGCTAAAGG
12229327 AG
1 AG
12229329 ACTTTCAGAA
Statistics
Matches: 144, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
161 1 0.01
162 143 0.99
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (162 bp):
AGTCCATGTTCCTGAGGCTAATTAGATTATCAATGAATCCACGGGAGGGGAAAGGGACTTTCACT
CACTCGTGGCTGAAGGAGTCCATGTTTATGAGGCTGATTCAGTTATCGATGCATCTACGGGAGGG
GAGAGGGACCTTCACTCGCTCGTGGCTAAAGG
Found at i:12230863 original size:86 final size:84
Alignment explanation
Indices: 12230711--12231041 Score: 326
Period size: 86 Copynumber: 3.8 Consensus size: 84
12230701 GGGCATGGTG
* * * * *
12230711 TGTCACCCCACAAAACTGTAACAAGTCAACGTGTCACGCTAGAAGTCTGCATGCACTTAATG-TG
1 TGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGC-AGAAGTATGCATGCA-TTCA-GCTG
* *
12230775 TCATCA-ATATTGGCCTGTGCCT
63 TCACCACA-ATTGGCCCGTGCCT
* * *
12230797 TGTCACCCTACAAGACTGCAACAAGTCAGCGTGTCACGTCAGATGTTTGCATGCATTCAGCATGT
1 TGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACG-CAGAAGTATGCATGCATTCAGC-TGT
*
12230862 CACCACAATTGGCCCGTGCCA
64 CACCACAATTGGCCCGTGCCT
* * * * *
12230883 TGTCACCCTACAAGACTGTAACAAGTCAGCGTGTCACGCCATAAGTATGCATTCACTCAGCGTGT
1 TGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACG-CAGAAGTATGCATGCATTCAGC-TGT
**
12230948 CACCACAATTTACCCGTG-CT
64 CACCACAATTGGCCCGTGCCT
* ** * * *
12230968 GTGTCACCCCACAAGACTGCAACAAGTTAGCGTGTCGTGCCATAAGTCTGCATGCATTCAGTGTG
1 -TGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACG-CAGAAGTATGCATGCATTCAG-CTG
12231033 TCACCACAA
63 TCACCACAA
12231042 GCATCTGCTT
Statistics
Matches: 209, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
84 1 0.00
85 4 0.02
86 202 0.97
87 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (84 bp):
TGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCAGAAGTATGCATGCATTCAGCTGTCA
CCACAATTGGCCCGTGCCT
Found at i:12231002 original size:172 final size:172
Alignment explanation
Indices: 12230711--12231041 Score: 414
Period size: 172 Copynumber: 1.9 Consensus size: 172
12230701 GGGCATGGTG
* * * *
12230711 TGTCACCCCACAAAACTGTAACAAGTCAACGTGTCACGCTAGAAGTCTGCATGCACTTAATGTGT
1 TGTCACCCCACAAAACTGTAACAAGTCAACGTGTCACGCCAGAAGTATGCATGCACTCAACGTGT
* * * * * *
12230776 CATCAATATTGGCCTGTGCCTTGTCACCCTACAAGACTGCAACAAGTCAGCGTGTCACGTCAGAT
66 CACCAATATTGACCCGTGCCTTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCCAGAA
*
12230841 GTTTGCATGCATTCAGCATGTCACCACAATTGGCCCGTGCCA
131 GTCTGCATGCATTCAGCATGTCACCACAATTGGCCCGTGCCA
* * * * * *
12230883 TGTCACCCTACAAGACTGTAACAAGTCAGCGTGTCACGCCATAAGTATGCATTCACTCAGCGTGT
1 TGTCACCCCACAAAACTGTAACAAGTCAACGTGTCACGCCAGAAGTATGCATGCACTCAACGTGT
* * ** *
12230948 CACCACA-ATTTACCCGTG-CTGTGTCACCCCACAAGACTGCAACAAGTTAGCGTGTCGTGCCAT
66 CACCA-ATATTGACCCGTGCCT-TGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCCAG
**
12231011 AAGTCTGCATGCATTCAGTGTGTCACCACAA
129 AAGTCTGCATGCATTCAGCATGTCACCACAA
12231042 GCATCTGCTT
Statistics
Matches: 133, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
171 2 0.02
172 130 0.98
173 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (172 bp):
TGTCACCCCACAAAACTGTAACAAGTCAACGTGTCACGCCAGAAGTATGCATGCACTCAACGTGT
CACCAATATTGACCCGTGCCTTGTCACCCCACAAGACTGCAACAAGTCAGCGTGTCACGCCAGAA
GTCTGCATGCATTCAGCATGTCACCACAATTGGCCCGTGCCA
Found at i:12231049 original size:31 final size:31
Alignment explanation
Indices: 12231014--12231073 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
12231004 GTGCCATAAG
* * *
12231014 TCTGCATGCATTCAGTGTGTCACCACAAGCA
1 TCTGCATCCACTCAGCGTGTCACCACAAGCA
*
12231045 TCTGCTTCCACTCAGCGTGTCACCACAAG
1 TCTGCATCCACTCAGCGTGTCACCACAAG
12231074 ATGTCATTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.25
Consensus pattern (31 bp):
TCTGCATCCACTCAGCGTGTCACCACAAGCA
Found at i:12234621 original size:31 final size:31
Alignment explanation
Indices: 12234583--12234992 Score: 577
Period size: 31 Copynumber: 13.2 Consensus size: 31
12234573 TCATGTTGTT
12234583 ACACGCCATGCATATAACGTAAAATGTGGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* *
12234614 ACACGCCATGCATGTAACGTAAAATGTTGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* * * *
12234645 ATACGCTATGCATATAACATAAAATATGGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* * *
12234676 ACACGCCATGCATGTAAAGTAAAATGTTGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
12234707 ACACGCCATGCATATAACGTAAAATGTGGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* * * *
12234738 ACACGTCATGCATGTAAAGTAACATGTGGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* *
12234769 ACACGCCATGCATATAACGTGAAATATGGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
12234800 ACACGCCATGCATATAACGTAAAATGTGGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* *
12234831 ACACACCCTGCATATAACGTAAAATGTGGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* *
12234862 ACACGCCATACATATAACGTAAAATGTTGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
**
12234893 ACACGTTATGCATATAACGTAAAATGTGGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
** * *
12234924 ACATACCATACATATAACGTAAAATGTAGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* *
12234955 ACACGCCATGCATATAACGTAAAGTGTTGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
12234986 ACACGCC
1 ACACGCC
12234993 TAAAATAACC
Statistics
Matches: 328, Mismatches: 51, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 328 1.00
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.25
Consensus pattern (31 bp):
ACACGCCATGCATATAACGTAAAATGTGGTA
Found at i:12237947 original size:35 final size:35
Alignment explanation
Indices: 12237900--12238020 Score: 122
Period size: 35 Copynumber: 3.5 Consensus size: 35
12237890 TTGTACAAAG
12237900 AACAACCT-GAACAAGTGAAATGCTACTTCACACAA
1 AACAA-CTAGAACAAGTGAAATGCTACTTCACACAA
* * *
12237935 AATAACTAGAACAAGTGAAGA-GCTACTTCACGCAG
1 AACAACTAGAACAAGTGAA-ATGCTACTTCACACAA
* * * *
12237970 AACAACTAGAACAAGTGAAGTACTACTTTA-AGCAG
1 AACAACTAGAACAAGTGAAATGCTACTTCACA-CAA
*
12238005 AACAACTAGAATAAGT
1 AACAACTAGAACAAGT
12238021 AAAGCACTAT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
34 2 0.03
35 70 0.96
36 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.18
Consensus pattern (35 bp):
AACAACTAGAACAAGTGAAATGCTACTTCACACAA
Found at i:12239941 original size:26 final size:27
Alignment explanation
Indices: 12239905--12239959 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
12239895 AAGGATTGAA
*
12239905 TTAATCACCTTCATATCAAGTT-AGAG
1 TTAATCACCTTCATATAAAGTTGAGAG
* * *
12239931 TTAATCTCCTTGATGTAAAGTTGAGAG
1 TTAATCACCTTCATATAAAGTTGAGAG
12239958 TT
1 TT
12239960 CACTTTTGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (27 bp):
TTAATCACCTTCATATAAAGTTGAGAG
Found at i:12240703 original size:18 final size:18
Alignment explanation
Indices: 12240680--12240744 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 18
12240670 ATTTCAATAG
12240680 TAGGAATAACCTCAGTAT
1 TAGGAATAACCTCAGTAT
* * *
12240698 TAGGAATAGCCTTA-TCT
1 TAGGAATAACCTCAGTAT
*
12240715 T--GAATAACCTCAGTGT
1 TAGGAATAACCTCAGTAT
* *
12240731 TGGGAACAACCTCA
1 TAGGAATAACCTCA
12240745 TCTCGAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
15 9 0.24
16 3 0.08
17 3 0.08
18 22 0.59
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (18 bp):
TAGGAATAACCTCAGTAT
Found at i:12240721 original size:33 final size:33
Alignment explanation
Indices: 12240683--12240757 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
12240673 TCAATAGTAG
* * * *
12240683 GAATAACCTCAGTATTAGGAATAGCCTTATCTT
1 GAATAACCTCAGTATTAGGAACAACCTCATCTC
* *
12240716 GAATAACCTCAGTGTTGGGAACAACCTCATCTC
1 GAATAACCTCAGTATTAGGAACAACCTCATCTC
12240749 GAATAACCT
1 GAATAACCT
12240758 GGGGAGTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (33 bp):
GAATAACCTCAGTATTAGGAACAACCTCATCTC
Found at i:12244799 original size:18 final size:18
Alignment explanation
Indices: 12244776--12244820 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
12244766 AATCAATCAA
*
12244776 ATATTACAAAAGATATTG
1 ATATTACAAAAAATATTG
*
12244794 ATATTATAAAAAAATATTG
1 ATATTA-CAAAAAATATTG
*
12244813 GTATTACA
1 ATATTACA
12244821 CCTTACATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (18 bp):
ATATTACAAAAAATATTG
Found at i:12245133 original size:35 final size:35
Alignment explanation
Indices: 12245084--12245183 Score: 107
Period size: 35 Copynumber: 2.9 Consensus size: 35
12245074 TATTATACAG
12245084 AGAATAACCT-GAACAAGTGAAGTGCTACTTC--AC
1 AGAATAA-CTAGAACAAGTGAAGTGCTACTTCATAC
* * *
12245117 GTGAAATAACTAGAACAAGTGAAGCGCTACTTTATAC
1 -AG-AATAACTAGAACAAGTGAAGTGCTACTTCATAC
* *
12245154 AGAACAACTAGAACAAGTGAAGTACTACTT
1 AGAATAACTAGAACAAGTGAAGTGCTACTT
12245184 AAAGCAGAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
34 3 0.05
35 49 0.89
36 1 0.02
37 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (35 bp):
AGAATAACTAGAACAAGTGAAGTGCTACTTCATAC
Found at i:12245192 original size:35 final size:34
Alignment explanation
Indices: 12245124--12245218 Score: 118
Period size: 35 Copynumber: 2.7 Consensus size: 34
12245114 CACGTGAAAT
* *
12245124 AACTAGAACAAGTGAAGCGCTACTTTATACAGAAC
1 AACTAGAACAAGTGAAGCACTAC-TTAAACAGAAC
*
12245159 AACTAGAACAAGTGAAGTACTACTTAAAGCAGAAC
1 AACTAGAACAAGTGAAGCACTACTTAAA-CAGAAC
* * *
12245194 GACTAGAATAAGTAAAGCACTACTT
1 AACTAGAACAAGTGAAGCACTACTT
12245219 CTTATGGAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
34 4 0.08
35 48 0.92
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.20
Consensus pattern (34 bp):
AACTAGAACAAGTGAAGCACTACTTAAACAGAAC
Found at i:12245262 original size:18 final size:18
Alignment explanation
Indices: 12245225--12245263 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12245215 ACTTCTTATG
*
12245225 GAACAACTAATACAAGTA
1 GAACAACTAATACAAATA
* *
12245243 GAACAACTATTTCAAATA
1 GAACAACTAATACAAATA
12245261 GAA
1 GAA
12245264 TAACCACTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (18 bp):
GAACAACTAATACAAATA
Found at i:12248513 original size:17 final size:18
Alignment explanation
Indices: 12248487--12248525 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
12248477 TTTAATTTAT
12248487 AATAATAAAGGTAA-AATA
1 AATAATAAA-GTAACAATA
12248505 AATAA-AAAGTAACAATA
1 AATAATAAAGTAACAATA
12248522 AATA
1 AATA
12248526 TGTACTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 11 0.55
18 5 0.25
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AATAATAAAGTAACAATA
Found at i:12250827 original size:314 final size:300
Alignment explanation
Indices: 12250251--12250871 Score: 759
Period size: 314 Copynumber: 2.0 Consensus size: 300
12250241 AAGATAATTA
*
12250251 TTTGATAAATAGAAGTGAATATTCAATTTCTTTGAACAATAATTGATTTTTTAAGAAGTCTATTA
1 TTTGATAAATAGAAGTGAATATTCAATTTCTTAGAACAATAATTGATTTTTTAAGAAGTCTATTA
* * * ** *
12250316 AAAATAAATCAAACAATGAGATCAAAACAATTCAATAGAAATATAGCTTTCATATCGAATCTAGA
66 AAAATAAAACAAACAATGAGATCAAAACAATTCAATAAAAATATAACTGGCATATAGAATCTAGA
* * *
12250381 AATAATATATAAAAATAAATAAAATGTGAATTTAAATTTTTTTTATGTATATGTTTGCCTACAAA
131 AATAATAGATAAAAATAAATAAAATGTGAATTTAAATTTTTTTTAAGTATACGTTTGCCTACAAA
*
12250446 GAATAAGGTATTAATAAAGTTTTCATATATATTTTCTCAAAAATATGAAGGTGTTTTGTTCGATA
196 GAATAAGGTATTAATAAAGTTTTC----A-A--TTCTAAAAAATATGAAGGTGTTTTGTTCGATA
* *
12250511 AATGATATGATTT-TATTCTATCTCTTATGATAATAACTTAAATTTATT
254 AATGACACGATTTATA-T-TATCTCTTATGATAATAACTTAAATTTATT
* *
12250559 TTTGATAACTAGAAGTGAATATTCAATTTCTTAGAACAATAATTGATTTTTTTGTAGAAGTCTAC
1 TTTGATAAATAGAAGTGAATATTCAATTTCTTAGAACAATAATTGA-TTTTTT-AAGAAGTCTA-
* * *
12250624 TTTAAAAAATTAAAACAAACAATGAGATCAAAACCATTCAATAAAAATATAACTGGCCTATAGAT
63 -TT-AAAAA-TAAAACAAACAATGAGATCAAAACAATTCAATAAAAATATAACTGGCATATAGAA
12250689 TCTAG-AA-AA-AGATAAAAATAAATAAAATGTGAATTTAAATTGTTTTTTGTAAGTATACGTTT
125 TCTAGAAATAATAGATAAAAATAAATAAAATGTGAATTTAAA-T-TTTTTT-TAAGTATACGTTT
* *
12250751 GCCTACAAAGAATAAGGTCTATTAATAAAGTTTTC-A-TCTAAAAAATGTTAAGGTGTTTTGTTT
187 GCCTACAAAGAATAAGG--TATTAATAAAGTTTTCAATTCTAAAAAATATGAAGGTGTTTTG--T
* *
12250814 GATAAATGATAAATGACACGATTTATATTATCTCTTATGATAATAATTTAAATTTATT
248 --T---CGATAAATGACACGATTTATATTATCTCTTATGATAATAACTTAAATTTATT
12250872 ACAGGTCCCA
Statistics
Matches: 272, Mismatches: 22, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
307 21 0.08
308 44 0.16
309 7 0.03
310 10 0.04
311 30 0.11
312 5 0.02
313 42 0.15
314 95 0.35
315 2 0.01
316 16 0.06
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (300 bp):
TTTGATAAATAGAAGTGAATATTCAATTTCTTAGAACAATAATTGATTTTTTAAGAAGTCTATTA
AAAATAAAACAAACAATGAGATCAAAACAATTCAATAAAAATATAACTGGCATATAGAATCTAGA
AATAATAGATAAAAATAAATAAAATGTGAATTTAAATTTTTTTTAAGTATACGTTTGCCTACAAA
GAATAAGGTATTAATAAAGTTTTCAATTCTAAAAAATATGAAGGTGTTTTGTTCGATAAATGACA
CGATTTATATTATCTCTTATGATAATAACTTAAATTTATT
Found at i:12251939 original size:16 final size:16
Alignment explanation
Indices: 12251918--12251948 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12251908 TAAAATAATT
12251918 TAAGTGTTTTTTCGAC
1 TAAGTGTTTTTTCGAC
12251934 TAAGTGTTTTTTCGA
1 TAAGTGTTTTTTCGA
12251949 GCATTATACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (16 bp):
TAAGTGTTTTTTCGAC
Found at i:12254668 original size:78 final size:78
Alignment explanation
Indices: 12254539--12254725 Score: 234
Period size: 78 Copynumber: 2.4 Consensus size: 78
12254529 CATGAGCATG
* * *
12254539 TGGCATTCTTATTATACATTAAGGTATAAAGATGCCAATATGTAAAAACCAT-CACGGCCCATAT
1 TGGCATTCCTATTATACATTAAGGTATAATGATGCCAATATGTAAAAACCATGAAC-GCCCATAT
* *
12254603 GATAGGTG-GACATG
65 GATAAGTGAGA-ATA
** * * *
12254617 TGGTGTTCCTATTATACATTAAGGTATAATGATGCCAATATGTAAATACCATGAACGTCCATGTG
1 TGGCATTCCTATTATACATTAAGGTATAATGATGCCAATATGTAAAAACCATGAACGCCCATATG
12254682 ATAAGTGAGAATA
66 ATAAGTGAGAATA
* *
12254695 TGGCATTCGTATTATACATGAAGGTATAATG
1 TGGCATTCCTATTATACATTAAGGTATAATG
12254726 GTGTCGTTAT
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
78 89 0.96
79 4 0.04
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (78 bp):
TGGCATTCCTATTATACATTAAGGTATAATGATGCCAATATGTAAAAACCATGAACGCCCATATG
ATAAGTGAGAATA
Found at i:12259499 original size:30 final size:30
Alignment explanation
Indices: 12259465--12259530 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
12259455 AACCAATAGT
* *
12259465 TATAAAGATTTATTTGATTCAAAATAAAAG
1 TATAAAGATTTATTTGATACAAAATAAAAA
*
12259495 TATAAGGATTTATTTGATACAAAATAAAAA
1 TATAAAGATTTATTTGATACAAAATAAAAA
12259525 TATAAA
1 TATAAA
12259531 AACTTGATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (30 bp):
TATAAAGATTTATTTGATACAAAATAAAAA
Found at i:12265231 original size:31 final size:30
Alignment explanation
Indices: 12265189--12265252 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
12265179 TATGTAGAGA
*
12265189 GCACATACCATTGGTTAAATAGAGACATGAT
1 GCACATACCATTAGTTAAATAGAGACATG-T
* *
12265220 GCACATGCCATTAGTTAAATGGAGACATGT
1 GCACATACCATTAGTTAAATAGAGACATGT
12265250 GCA
1 GCA
12265253 AGTATGTGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (30 bp):
GCACATACCATTAGTTAAATAGAGACATGT
Found at i:12267600 original size:45 final size:45
Alignment explanation
Indices: 12267536--12267657 Score: 158
Period size: 45 Copynumber: 2.7 Consensus size: 45
12267526 CACCATAATG
12267536 TTACACGTCATGGTTAGGTTGTTACACGCCATGCACAAAAACATA
1 TTACACGTCATGGTTAGGTTGTTACACGCCATGCACAAAAACATA
* ** *
12267581 TTACACGTCATGGTTAGGTTGTTACACACCATATACAAAAACATG
1 TTACACGTCATGGTTAGGTTGTTACACGCCATGCACAAAAACATA
* * *
12267626 TTACATG-C-TGGGTTAGGTTGTTATACGTCATG
1 TTACACGTCAT-GGTTAGGTTGTTACACGCCATG
12267658 TTGAAAAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.01
44 19 0.28
45 47 0.70
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (45 bp):
TTACACGTCATGGTTAGGTTGTTACACGCCATGCACAAAAACATA
Found at i:12268883 original size:20 final size:20
Alignment explanation
Indices: 12268832--12268883 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
12268822 CTCCTCCACC
* * *
12268832 TTCATGCTCCTAATGCCATT
1 TTCATACTCCCAACGCCATT
** *
12268852 TTCACCCACCCAACGCCATT
1 TTCATACTCCCAACGCCATT
12268872 TTCATACTCCCA
1 TTCATACTCCCA
12268884 TGCCATTTCA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.40, G:0.06, T:0.31
Consensus pattern (20 bp):
TTCATACTCCCAACGCCATT
Found at i:12270084 original size:33 final size:33
Alignment explanation
Indices: 12270036--12270141 Score: 104
Period size: 35 Copynumber: 3.1 Consensus size: 33
12270026 GGAATGCGTG
* *
12270036 TGATGATACTAAAATGCGTGTAGGGAGTGCACA
1 TGATGATATTGAAATGCGTGTAGGGAGTGCACA
* *
12270069 TGATGATATTGAAATGTGCGTGTAAGGAGTGTACA
1 TGATGATATTGAAA--TGCGTGTAGGGAGTGCACA
*** *
12270104 TGATGATATTGCCTTGTGTGTGTAGGGAGTGCACA
1 TGATGATATTG--AAATGCGTGTAGGGAGTGCACA
12270139 TGA
1 TGA
12270142 GCTGAGTAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
33 12 0.20
35 47 0.80
ACGTcount: A:0.28, C:0.09, G:0.32, T:0.30
Consensus pattern (33 bp):
TGATGATATTGAAATGCGTGTAGGGAGTGCACA
Found at i:12270098 original size:35 final size:35
Alignment explanation
Indices: 12270050--12270141 Score: 130
Period size: 35 Copynumber: 2.6 Consensus size: 35
12270040 GATACTAAAA
12270050 TGCGTGTAGGGAGTGCACATGATGATATTGAAATG
1 TGCGTGTAGGGAGTGCACATGATGATATTGAAATG
* * ***
12270085 TGCGTGTAAGGAGTGTACATGATGATATTGCCTTG
1 TGCGTGTAGGGAGTGCACATGATGATATTGAAATG
*
12270120 TGTGTGTAGGGAGTGCACATGA
1 TGCGTGTAGGGAGTGCACATGA
12270142 GCTGAGTAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.30
Consensus pattern (35 bp):
TGCGTGTAGGGAGTGCACATGATGATATTGAAATG
Found at i:12270183 original size:2 final size:2
Alignment explanation
Indices: 12270176--12270238 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
12270166 CATGTGTATG
12270176 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12270218 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
12270239 NNNNNNNNNN
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12270785 original size:2 final size:2
Alignment explanation
Indices: 12270778--12270805 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12270768 TTGGGGATGT
12270778 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12270806 CTTGGTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12273639 original size:207 final size:204
Alignment explanation
Indices: 12273264--12273822 Score: 586
Period size: 207 Copynumber: 2.7 Consensus size: 204
12273254 CCTTATCTCA
* * * ***
12273264 AAAGTAGAAAAAAGTGATACCTAAAAATCGGTTTTGGATATAAATGGTGAGACAGCTCCATTGAT
1 AAAGTAGAAATAAGTGA-AGCTAAAAATCGG-TTTGGATATAAATGGTGACACAGCTGTGTTGAT
* * * * * *
12273329 GTCTAATGGTAAGTAGCTGAAAACTAGAGG-AAAGTAAATATGGGTCGAATGGAATGATATGATC
64 GTCTAATGGTAGGCAGCTGAAAACTAG-GGTGAAGTAAAAATGGGTCGAATTGAATGATACGATC
* * * * ***
12273393 GATTTAAATAAAATTTAGATAAAATAATTTAATTTGATTGGTCCATTTGGTTTTTTGATCCAAAA
128 GATTTAAATGAAATTCAGATAAAACAATTTAATTTGATTGATCCATTCAATTTTTT-ATCCAAAA
* *
12273458 ATTTTAATTTTAT
192 ATTTCAATTCTAT
* *
12273471 AAAGTACAAATAAGTGACAGCTAAAAATCTAGTTTGGATATAAATGGTGACACAGCTGTGTTGAT
1 AAAGTAGAAATAAGTGA-AGCTAAAAATC-GGTTTGGATATAAATGGTGACACAGCTGTGTTGAT
* * * *
12273536 GTCCAATGGTAGGCAGCTGAAAACTAAGGGTGAAG-AAAAATGGGTCGAATTGAATGATCCAACC
64 GTCTAATGGTAGGCAGCTGAAAACT-AGGGTGAAGTAAAAATGGGTCGAATTGAATGATACGATC
* * ** *
12273600 AATTTAAATGAAATTCAGGTAAAACAATTTGGTTTGATTGATCCATTCAATTTTTTATCTAAAAA
128 GATTTAAATGAAATTCAGATAAAACAATTTAATTTGATTGATCCATTCAATTTTTTATCCAAAAA
*
12273665 TTTCAGTTCTAT
193 TTTCAATTCTAT
* * ** * *
12273677 AAAGTAGAAATAAATGATGTCTGAAAAATCGGTTTTCATATAAATGGTGACA-GGTATGTGTTGA
1 AAAGTAGAAATAAGTGAAG-CT-AAAAATCGGTTTGGATATAAATGGTGACACAG-CTGTGTTGA
* * * * * *
12273741 TATCTAATGGTAGGCAGCTGAAAGCTAGGGATG-AGTCAAAATAGGTCAAATTGAATGATTCGAT
63 TGTCTAATGGTAGGCAGCTGAAAACTAGGG-TGAAGTAAAAATGGGTCGAATTGAATGATACGAT
12273805 CGATTTAAATGAAATTCA
127 CGATTTAAATGAAATTCA
12273823 ATTATTTGGT
Statistics
Matches: 292, Mismatches: 52, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
205 8 0.03
206 125 0.43
207 153 0.52
208 6 0.02
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.31
Consensus pattern (204 bp):
AAAGTAGAAATAAGTGAAGCTAAAAATCGGTTTGGATATAAATGGTGACACAGCTGTGTTGATGT
CTAATGGTAGGCAGCTGAAAACTAGGGTGAAGTAAAAATGGGTCGAATTGAATGATACGATCGAT
TTAAATGAAATTCAGATAAAACAATTTAATTTGATTGATCCATTCAATTTTTTATCCAAAAATTT
CAATTCTAT
Found at i:12274373 original size:6 final size:6
Alignment explanation
Indices: 12274362--12274390 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
12274352 GCCCTGGCTA
12274362 GGACCG GGACCG GGACCG GGACCG GGACC
1 GGACCG GGACCG GGACCG GGACCG GGACC
12274391 ATGACTGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.34, G:0.48, T:0.00
Consensus pattern (6 bp):
GGACCG
Found at i:12280450 original size:2 final size:2
Alignment explanation
Indices: 12280443--12280505 Score: 90
Period size: 2 Copynumber: 31.5 Consensus size: 2
12280433 CAATTTACTG
* * *
12280443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
12280485 AC AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
12280506 ACTAGCATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:12281343 original size:18 final size:20
Alignment explanation
Indices: 12281300--12281340 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12281290 TTGAACTTAG
12281300 TATTAAAAATCCAACCATAA
1 TATTAAAAATCCAACCATAA
* *
12281320 TATTAAATATTCAACCATAA
1 TATTAAAAATCCAACCATAA
12281340 T
1 T
12281341 TAATTGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (20 bp):
TATTAAAAATCCAACCATAA
Found at i:12283276 original size:23 final size:23
Alignment explanation
Indices: 12283216--12283277 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
12283206 AATGCCTAAA
* *
12283216 AACTAGTCATGCAATACCTTACT
1 AACTAGTCACGCAATGCCTTACT
* *
12283239 AACCAGTCACACAATGCCTTACT
1 AACTAGTCACGCAATGCCTTACT
*
12283262 AACTAGTAACGCAATG
1 AACTAGTCACGCAATG
12283278 ACCAAAAACC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.24
Consensus pattern (23 bp):
AACTAGTCACGCAATGCCTTACT
Found at i:12297325 original size:6 final size:6
Alignment explanation
Indices: 12297314--12297339 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12297304 CAGAATCAAT
12297314 AGAACA AGAACA AGAACA AGAACA AG
1 AGAACA AGAACA AGAACA AGAACA AG
12297340 GGGCATACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.15, G:0.19, T:0.00
Consensus pattern (6 bp):
AGAACA
Found at i:12299237 original size:11 final size:11
Alignment explanation
Indices: 12299221--12299250 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12299211 CGGTTCATGA
*
12299221 TATTTTTTTTT
1 TATTTTTTATT
12299232 TATTTTTTATT
1 TATTTTTTATT
12299243 TATTTTTT
1 TATTTTTT
12299251 CTCATGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (11 bp):
TATTTTTTATT
Found at i:12300251 original size:20 final size:20
Alignment explanation
Indices: 12300202--12300251 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
12300192 AAAAGTACAA
12300202 AAAAGAAAAATAATACTAATT
1 AAAA-AAAAATAATACTAATT
* *
12300223 ACAATAAAATAATA-TATATT
1 AAAAAAAAATAATACTA-ATT
12300243 AAAAAAAAA
1 AAAAAAAAA
12300252 AGAAAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAAAAATAATACTAATT
Found at i:12310245 original size:35 final size:35
Alignment explanation
Indices: 12310206--12310274 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
12310196 ATTTTTAAAG
* *
12310206 TTTAAAGTCGTACGAGGTTATATTTAAATTTCGAA
1 TTTAAAGTCGTACGAGATTAGATTTAAATTTCGAA
* * * *
12310241 TTTAAGGTTGTACGAGATTGGGTTTAAATTTCGA
1 TTTAAAGTCGTACGAGATTAGATTTAAATTTCGA
12310275 TCCATAACAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (35 bp):
TTTAAAGTCGTACGAGATTAGATTTAAATTTCGAA
Found at i:12311746 original size:102 final size:103
Alignment explanation
Indices: 12311491--12311730 Score: 293
Period size: 103 Copynumber: 2.3 Consensus size: 103
12311481 TTTATTTGGC
* * * * *
12311491 ATTAGGTGCCTGAATATTTGTTGAGCATTACGTGAGTTCTTTATAGGCATTACGTGACTGAATAT
1 ATTACGTGACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACATCACTGAATAT
** *
12311556 ATGTTGAGCGTTGCGTGACAGTTAATACGTGACTGAAT
66 ATGTTGAGCGTTGCGTGACAGGCAATACGTGAATGAAT
* * *
12311594 ATTACCTGATTGAATATTTATTGAGCATTGCGTGAGTTCTTTATAGGCATTACATCACTGAATAT
1 ATTACGTGACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACATCACTGAATAT
* * * ** * *
12311659 TTGTT-AGCGTTGTGTGATAGGCGTTATGTGAATTAAT
66 ATGTTGAGCGTTGCGTGACAGGCAATACGTGAATGAAT
* *
12311696 ATTACGTGACTGAATAATTGTTGAGTATTGCGTGA
1 ATTACGTGACTGAATATTTGTTGAGCATTGCGTGA
12311731 CCTATTTGTA
Statistics
Matches: 114, Mismatches: 23, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
102 53 0.46
103 61 0.54
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (103 bp):
ATTACGTGACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACATCACTGAATAT
ATGTTGAGCGTTGCGTGACAGGCAATACGTGAATGAAT
Found at i:12313216 original size:109 final size:111
Alignment explanation
Indices: 12312946--12313216 Score: 397
Period size: 109 Copynumber: 2.4 Consensus size: 111
12312936 GGTGCGTGAC
* *
12312946 TGACTTGTGCAATTCATGTGTTGCTTTGAGGCTATTGTTCAGTAGTTTTTTAGGCAGTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTG-TTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGAC
12313011 TGGTTTTCATATATTGCGTTACCTGTTGTAGCTAGAGTGGTGGCACG
65 TGGTTTTCATATATTGCGTTACCTGTTGTAGCTAGAGTGGTGGCACG
* * *
12313058 TG-CTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTTAGTAGTTTTTT-GGC-TTGCATGAT
1 TGACTTGTGCAATTCATGTGTTG-TTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGAC
* * *
12313120 TGGTTTTTATATATTGCGTTACTTGTTGTAGCGT-GAGTGGTGGCGCG
65 TGGTTTTCATATATTGCGTTACCTGTTGTAGC-TAGAGTGGTGGCACG
*
12313167 TGACTTGTGCAATCCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTT
1 TGACTTGTGCAATTCATGTGTTGTTT-GAGGCTTTTGTTCAGTAGTTTTT
12313217 AGCGTTGTGT
Statistics
Matches: 145, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
109 53 0.37
110 45 0.31
111 45 0.31
112 2 0.01
ACGTcount: A:0.15, C:0.12, G:0.28, T:0.45
Consensus pattern (111 bp):
TGACTTGTGCAATTCATGTGTTGTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCATGACT
GGTTTTCATATATTGCGTTACCTGTTGTAGCTAGAGTGGTGGCACG
Found at i:12313237 original size:109 final size:110
Alignment explanation
Indices: 12312946--12313331 Score: 399
Period size: 110 Copynumber: 3.5 Consensus size: 110
12312936 GGTGCGTGAC
*
12312946 TGACTTGTGCAATTCATGTGTTGCTTT-GAGGCTATTGTTCAGTAGTTTTTTAGGCAG-TGCGTG
1 TGACTTGTGCAATTCATGTGTTG-TTTAGAGGCTTTTGTTCAGTAG-TTTTTA-GC-GTTGCGTG
* * *
12313009 ACTGGTTTTCATATATTGCGTTACCTGTTGTAGC-TAGAGTGGTGGCACG
62 ACCGATTTT-ATATATTGCGTTACTTGTTGTAGCGTAGAGTGGTGGCACG
* * * * *
12313058 TG-CTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTTAGTAGTTTTTTG-GCTTGCATGATT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTAGCG-TTGCGTGA-C
* * *
12313121 GGTTTTTATATATTGCGTTACTTGTTGTAGCGT-GAGTGGTGGCGCG
64 CGATTTTATATATTGCGTTACTTGTTGTAGCGTAGAGTGGTGGCACG
* * *
12313167 TGACTTGTGCAATCCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTAGCGTTGTGTGACCA
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTAGCGTTGCGTGACCG
* * * *
12313232 ATTTTATATATTACGTGACTTGTTGTTATGTATTGTGAGAGTGGTTGCACG
66 ATTTTATATATTGCGTTACTTGTTG-TA-G---CGT-AGAGTGGTGGCACG
* * * *
12313283 TGACTTGTGCAATTCATTTGTTATTTAGAGGC-TTTGTTCAATGGTTTTT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTT
12313332 TAGGATTACG
Statistics
Matches: 231, Mismatches: 29, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
107 1 0.00
109 66 0.29
110 67 0.29
111 38 0.16
112 2 0.01
114 2 0.01
115 15 0.06
116 40 0.17
ACGTcount: A:0.17, C:0.12, G:0.27, T:0.45
Consensus pattern (110 bp):
TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTAGCGTTGCGTGACCG
ATTTTATATATTGCGTTACTTGTTGTAGCGTAGAGTGGTGGCACG
Found at i:12313310 original size:116 final size:116
Alignment explanation
Indices: 12313044--12313388 Score: 359
Period size: 110 Copynumber: 3.0 Consensus size: 116
12313034 TGTTGTAGCT
* * *
12313044 AGAGTGGTGGCACGTG-CTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTTAGTAGTTTTTT
1 AGAGTGGTGGCACGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTA
* * * * * * *
12313108 GGCTTGCATGATTGGTTTTTATATATTGCGTTACTTGTTG-TA-G---CGT-
66 GGATTGCGTGA-CGATTTTTATATATTACGTGACTTGTTGTTATGTATTGTG
* *
12313154 -GAGTGGTGGCGCGTGACTTGTGCAATCCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTA
1 AGAGTGGTGGCACGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTA
* * *
12313218 GCG-TTGTGTGACCAATTTTATATATTACGTGACTTGTTGTTATGTATTGTG
66 G-GATTGCGTGACGATTTTTATATATTACGTGACTTGTTGTTATGTATTGTG
* * * * *
12313269 AGAGTGGTTGCACGTGACTTGTGCAATTCATTTGTTATTTAGAGGC-TTTGTTCAATGGTTTTTT
1 AGAGTGGTGGCACGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAG-TTTTT
* * * * *
12313333 AGGATTACGTTACTGATTTTTATATATTACGTGACCTGTTGTTATATATTGCG
65 AGGATTGCGTGAC-GATTTTTATATATTACGTGACTTGTTGTTATGTATTGTG
12313386 AGA
1 AGA
12313389 ACGGTGACGT
Statistics
Matches: 194, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
109 36 0.19
110 53 0.27
111 2 0.01
114 2 0.01
115 11 0.06
116 53 0.27
117 37 0.19
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (116 bp):
AGAGTGGTGGCACGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTA
GGATTGCGTGACGATTTTTATATATTACGTGACTTGTTGTTATGTATTGTG
Found at i:12313405 original size:117 final size:116
Alignment explanation
Indices: 12313165--12313414 Score: 283
Period size: 117 Copynumber: 2.1 Consensus size: 116
12313155 AGTGGTGGCG
* * * **
12313165 CGTGACTTGTGCAATCCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTAGCGTTGTGTGAC
1 CGTGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAATAGTTTTTAGCGTTACGTGAC
* * * **
12313230 CAATTTTATATATTACGTGACTTGTTGTTATGTATTGTGAGAGTGGTTGCA
66 CAATTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAACGGTTGCA
* * *
12313281 CGTGACTTGTGCAATTCATTTGTTATTTAGAGGC-TTTGTTCAATGGTTTTTTAG-GATTACGTT
1 CGTGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAATAG-TTTTTAGCG-TTACGTG
* *
12313344 ACTGATTTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAACGG-TG-A
64 AC-CAATTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAACGGTTGCA
*
12313396 CGTGTGACTTGTGTAATTC
1 C--GTGACTTGTGCAATTC
12313415 GCCTCTTGTT
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
115 13 0.12
116 46 0.41
117 54 0.48
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (116 bp):
CGTGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAATAGTTTTTAGCGTTACGTGAC
CAATTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAACGGTTGCA
Found at i:12319200 original size:26 final size:26
Alignment explanation
Indices: 12319169--12319276 Score: 104
Period size: 26 Copynumber: 4.3 Consensus size: 26
12319159 TTCAAAAAAA
*
12319169 TCACGCAATGCATTAACAAAAATTAG
1 TCACGCAATGCATTAACAAAAACTAG
*
12319195 TCACGCAATGC-----CGAAAA-TAAG
1 TCACGCAATGCATTAACAAAAACT-AG
* *
12319216 TCACGCAATGCCTTAACAATAACTAG
1 TCACGCAATGCATTAACAAAAACTAG
*
12319242 TCACGCAATG-ACTTATCAAAAACTAG
1 TCACGCAATGCA-TTAACAAAAACTAG
12319268 TCACGCAAT
1 TCACGCAAT
12319277 ATCCAAAGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
20 1 0.01
21 18 0.26
26 48 0.71
27 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.13, T:0.21
Consensus pattern (26 bp):
TCACGCAATGCATTAACAAAAACTAG
Found at i:12319217 original size:21 final size:21
Alignment explanation
Indices: 12319187--12319227 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12319177 TGCATTAACA
*
12319187 AAAATTAGTCACGCAATGCCG
1 AAAATAAGTCACGCAATGCCG
12319208 AAAATAAGTCACGCAATGCC
1 AAAATAAGTCACGCAATGCC
12319228 TTAACAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (21 bp):
AAAATAAGTCACGCAATGCCG
Found at i:12319319 original size:21 final size:21
Alignment explanation
Indices: 12319266--12319319 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
12319256 ATCAAAAACT
*
12319266 AGTCACGCAATATCCAAAGTA
1 AGTCACGCAATGTCCAAAGTA
* * *
12319287 AGTCTCCCAATGTCCAAGGTA
1 AGTCACGCAATGTCCAAAGTA
12319308 AGTCACGCAATG
1 AGTCACGCAATG
12319320 CCTCATGTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (21 bp):
AGTCACGCAATGTCCAAAGTA
Done.