Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 86 of 185
Found at i:27164257 original size:54 final size:53
Alignment explanation
Indices: 27164194--27164347 Score: 228
Period size: 54 Copynumber: 3.0 Consensus size: 53
27164184 TTTTCTTTTT
*
27164194 TTTTTCATTTTTATTGAGTCTCAAAGTGCCCTTTGTGGGTTTTCACTTTGGCCC
1 TTTTTCATTTTTATT-AGTCTCAAAGTGCCCTTTGCGGGTTTTCACTTTGGCCC
27164248 TTTTTCATTTTTATTAGGTCTCAAAGTGCCCTTTGCGGGTTTTCACTTTGGCCC
1 TTTTTCATTTTTATTA-GTCTCAAAGTGCCCTTTGCGGGTTTTCACTTTGGCCC
* *
27164302 -TTTT--TTTTTA--AATCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGC
1 TTTTTCATTTTTATTAGTCTCAAAGTGCCCTTTGCGGGTTTTCACTTTGGC
27164348 TTCTTCCCTT
Statistics
Matches: 96, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
48 33 0.34
49 1 0.01
51 6 0.06
53 5 0.05
54 51 0.53
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (53 bp):
TTTTTCATTTTTATTAGTCTCAAAGTGCCCTTTGCGGGTTTTCACTTTGGCCC
Found at i:27179318 original size:6 final size:6
Alignment explanation
Indices: 27179271--27179300 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
27179261 AAACATTAAA
27179271 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT
27179301 TTCATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTAT
Found at i:27183312 original size:4 final size:4
Alignment explanation
Indices: 27183305--27183333 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
27183295 TTCCACCCAC
27183305 CCAT CCAT CCAT CCAT CCAT CCAT CCAT C
1 CCAT CCAT CCAT CCAT CCAT CCAT CCAT C
27183334 ATCATCATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (4 bp):
CCAT
Found at i:27193390 original size:69 final size:69
Alignment explanation
Indices: 27193189--27193529 Score: 190
Period size: 69 Copynumber: 4.9 Consensus size: 69
27193179 TAAAAGCTTA
* * * ** * * * *
27193189 TCGGTTTATAATTGTAGCCTCCAACATAGCTAGTGGACCTACGTTCCCAGCTTATGCCATAAAGG
1 TCGGTTTATGATTGCAACCTCCAACATAGCTAGCAGACCTGCGCTCCCAGCTGATGTCATAAAGG
* *
27193254 TTCA
66 CTCG
* * ** * * * * * ** *
27193258 CCGATTTAAT-ATCACAACCTCCAA-ACCAGCTAACAAACCTACGTTCCCAATTGATACTC-TAA
1 TCGGTTT-ATGATTGCAACCTCCAACA-TAGCTAGCAGACCTGCGCTCCCAGCTGAT-GTCATAA
*
27193320 AGGCTCA
63 AGGCTCG
* *
27193327 ACGGTTTATGATTGCAACCTCCAACATAACTAGCAGACCTGCGCTCCCAGCTGATGTCATAAAGG
1 TCGGTTTATGATTGCAACCTCCAACATAGCTAGCAGACCTGCGCTCCCAGCTGATGTCATAAAGG
* *
27193392 TTTG
66 CTCG
* * * * * * * * *
27193396 TCGGTTTAAGATTGTAACCTCCAAAATTGCTAGCAAACCTACGTTCCTAGCTGAT-ACTATAAAG
1 TCGGTTTATGATTGCAACCTCCAACATAGCTAGCAGACCTGCGCTCCCAGCTGATGTC-ATAAAG
27193460 GCTCG
65 GCTCG
* * ** * * *
27193465 TTGGTTTATGA-T-CATAGCCTCCAACACAGCTAGTGGAACTGCGCTCTCAACTGATGTCATAAA
1 TCGGTTTATGATTGCA-A-CCTCCAACATAGCTAGCAGACCTGCGCTCCCAGCTGATGTCATAAA
27193528 GG
64 GG
27193530 TTTGTCAGTT
Statistics
Matches: 200, Mismatches: 62, Indels: 20
0.71 0.22 0.07
Matches are distributed among these distances:
67 1 0.00
68 8 0.04
69 186 0.93
70 5 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (69 bp):
TCGGTTTATGATTGCAACCTCCAACATAGCTAGCAGACCTGCGCTCCCAGCTGATGTCATAAAGG
CTCG
Found at i:27193532 original size:138 final size:137
Alignment explanation
Indices: 27193111--27193718 Score: 436
Period size: 138 Copynumber: 4.4 Consensus size: 137
27193101 TAGTATAATC
* * * **** * *
27193111 TAAAGGTTTGCCAGTTTAA-ATCGCAACCTCTAAAATAGCTAATGGACCTACATTTCC-AGCTAA
1 TAAAGGTTTGTCGGTTTAAGATTGCAACCTCTAAAATAGCTAGCAAACCTAC-GTTCCTAGCTGA
* ** * ** * * * * *
27193174 TACTCTAAAAGCTTATCGGTTTATAATTGTAGCCTCCAACATAGCTAGTGGACCTACGTTCCCAG
65 TACTCTAAAGGCTCGTCGGTTTATGATCATAGCCTCCAACACAGCTAGT-GAACTGCGCTCTCAG
* *
27193239 CTTATGCCA
129 CTGATGTCA
*** * * ** * ** * * **
27193248 TAAAGGTTCACCGATTTAATATCACAACCTCCAAACCAGCTAACAAACCTACGTTCCCAATTGAT
1 TAAAGGTTTGTCGGTTTAAGATTGCAACCTCTAAAATAGCTAGCAAACCTACGTTCCTAGCTGAT
** * * * * *
27193313 ACTCTAAAGGCTCAACGGTTTATGATTGCA-A-CCTCCAACATAACTAGCAGACCTGCGCTCCCA
66 ACTCTAAAGGCTCGTCGGTTTATGA-T-CATAGCCTCCAACACAGCTAG-TGAACTGCGCTCTCA
27193376 GCTGATGTCA
128 GCTGATGTCA
* * *
27193386 TAAAGGTTTGTCGGTTTAAGATTGTAACCTCCAAAATTGCTAGCAAACCTACGTTCCTAGCTGAT
1 TAAAGGTTTGTCGGTTTAAGATTGCAACCTCTAAAATAGCTAGCAAACCTACGTTCCTAGCTGAT
* * *
27193451 ACTATAAAGGCTCGTTGGTTTATGATCATAGCCTCCAACACAGCTAGTGGAACTGCGCTCTCAAC
66 ACTCTAAAGGCTCGTCGGTTTATGATCATAGCCTCCAACACAGCTAGT-GAACTGCGCTCTCAGC
27193516 TGATGTCA
130 TGATGTCA
* * * * * * *** * *
27193524 TAAAGGTTTGTCAGTTTAAGATCGCAGCCTCTAAAACAACTCGTGGACCTATGTTCCTAGCTAAT
1 TAAAGGTTTGTCGGTTTAAGATTGCAACCTCTAAAATAGCTAGCAAACCTACGTTCCTAGCTGAT
* ** * * * ** *
27193589 ACTCTAAAGGCTTTGTCAATTTATGAT-AGTAGCATCCTATACAGCTAGTGAACCAACACTCTCA
66 ACTCTAAAGGC-TCGTCGGTTTATGATCA-TAGCCTCCAACACAGCTAGTGAA-CTGCGCTCTCA
27193653 GCTGATGTCA
128 GCTGATGTCA
* * **
27193663 TAAAGGTTTGTTGGTTTGAGATTGCAACCTCTAAAATAGCTAGTGAA-CTACGTTCC
1 TAAAGGTTTGTCGGTTTAAGATTGCAACCTCTAAAATAGCTAGCAAACCTACGTTCC
27193719 CAGTTAAAAT
Statistics
Matches: 372, Mismatches: 88, Indels: 21
0.77 0.18 0.04
Matches are distributed among these distances:
136 2 0.01
137 21 0.06
138 264 0.71
139 85 0.23
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (137 bp):
TAAAGGTTTGTCGGTTTAAGATTGCAACCTCTAAAATAGCTAGCAAACCTACGTTCCTAGCTGAT
ACTCTAAAGGCTCGTCGGTTTATGATCATAGCCTCCAACACAGCTAGTGAACTGCGCTCTCAGCT
GATGTCA
Found at i:27194360 original size:208 final size:208
Alignment explanation
Indices: 27194002--27194412 Score: 786
Period size: 208 Copynumber: 2.0 Consensus size: 208
27193992 GTATGAACAA
27194002 TGTTGTTATACGAAAAGATGAAATAAGTTCACAAAAAGATATGATGTCATAATAGTAACAAGTAA
1 TGTTGTTATACGAAAAGATGAAATAAGTTCACAAAAAGATATGATGTCATAATAGTAACAAGTAA
* *
27194067 ACGTGAATTTTTCAAAGTTTAATTTTTCATTCCAAAATGGGAAAATTAATACAAAGTTGCAATTA
66 ACGTGAATTTTTCAAAGTTTAATTTTTCATTCCAAAAGGGGAAAATTAATACAAAGTTACAATTA
27194132 ATTATGGCATATTATTAGCCCCTTCATGGTCACTAGAGATCTCATCTTTTCCTTTTCTTCTTTTA
131 ATTATGGCATATTATTAGCCCCTTCATGGTCACTAGAGATCTCATCTTTTCCTTTTCTTCTTTTA
27194197 GCAACTTTATTAT
196 GCAACTTTATTAT
*
27194210 TGTTGTTATATGAAAAGATGAAATAAGTTCACAAAAAGATATGATGTCATAATAGTAACAAGTAA
1 TGTTGTTATACGAAAAGATGAAATAAGTTCACAAAAAGATATGATGTCATAATAGTAACAAGTAA
*
27194275 ACTTGAATTTTTCAAAGTTTAATTTTTCATTCCAAAAGGGGAAAATTAATACAAAGTTACAATTA
66 ACGTGAATTTTTCAAAGTTTAATTTTTCATTCCAAAAGGGGAAAATTAATACAAAGTTACAATTA
27194340 ATTATGGCATATTATTAGCCCCTTCATGGTCACTAGAGATCTCATCTTTTCCTTTTCTTCTTTTA
131 ATTATGGCATATTATTAGCCCCTTCATGGTCACTAGAGATCTCATCTTTTCCTTTTCTTCTTTTA
27194405 GCAACTTT
196 GCAACTTT
27194413 GTTGTTGTCG
Statistics
Matches: 199, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
208 199 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (208 bp):
TGTTGTTATACGAAAAGATGAAATAAGTTCACAAAAAGATATGATGTCATAATAGTAACAAGTAA
ACGTGAATTTTTCAAAGTTTAATTTTTCATTCCAAAAGGGGAAAATTAATACAAAGTTACAATTA
ATTATGGCATATTATTAGCCCCTTCATGGTCACTAGAGATCTCATCTTTTCCTTTTCTTCTTTTA
GCAACTTTATTAT
Found at i:27197159 original size:46 final size:44
Alignment explanation
Indices: 27197035--27197207 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 44
27197025 TGAGACGAGT
* *
27197035 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCTCGAGATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCTCGAGATGT-A
27197081 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGATGTA
* *
27197125 G-TCAGTGTAAGACTATGTCTGGGACATGGCATCGGCACAGATATGCTAGA
1 GCT-AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCTC-GAGATG-T--A
* *
27197175 GCTTGTGTAAGATCATGTTTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
27197208 AGCACCTGCA
Statistics
Matches: 110, Mismatches: 6, Indels: 18
0.82 0.04 0.13
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 17 0.15
46 51 0.46
47 1 0.01
50 27 0.25
51 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGTA
Found at i:27198323 original size:21 final size:21
Alignment explanation
Indices: 27198279--27198317 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
27198269 GAATTAATGG
27198279 CTACACGGGCGTGTTGCCCTT
1 CTACACGGGCGTGTTGCCCTT
27198300 CTACAC-GGCGTG-TGCCCT
1 CTACACGGGCGTGTTGCCCT
27198318 GTTCTAGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 6 0.33
21 6 0.33
ACGTcount: A:0.10, C:0.36, G:0.28, T:0.26
Consensus pattern (21 bp):
CTACACGGGCGTGTTGCCCTT
Found at i:27200392 original size:27 final size:27
Alignment explanation
Indices: 27200354--27200420 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
27200344 GAGGGTATCT
* *
27200354 CATAGGCGGCACCAGTTG-TGGGACTGC
1 CATAGGCGGCACCAATGGTTGGG-CTGC
27200381 CATAGGCGGCACCAATGGTTGGGCTGC
1 CATAGGCGGCACCAATGGTTGGGCTGC
*
27200408 CAGAGGCGGCACC
1 CATAGGCGGCACC
27200421 CTACACCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 32 0.89
28 4 0.11
ACGTcount: A:0.19, C:0.28, G:0.37, T:0.15
Consensus pattern (27 bp):
CATAGGCGGCACCAATGGTTGGGCTGC
Found at i:27200565 original size:3 final size:3
Alignment explanation
Indices: 27200559--27200588 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
27200549 AAGAAGAAGA
27200559 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
27200589 CGGCAGCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:27200753 original size:27 final size:26
Alignment explanation
Indices: 27200701--27200754 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
27200691 TAATTAATTT
27200701 ATTTAAGGAAATAATTTTTAGTTTTTA
1 ATTTAAGGAAATAATTTTTAG-TTTTA
27200728 ATTTAAGGAAATAAATTATTTA-TTTTA
1 ATTTAAGGAAAT-AATT-TTTAGTTTTA
27200755 GTTGTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 17 0.68
28 4 0.16
29 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (26 bp):
ATTTAAGGAAATAATTTTTAGTTTTA
Found at i:27200933 original size:12 final size:12
Alignment explanation
Indices: 27200916--27200940 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27200906 ATTGAAGTAA
27200916 AAAAGCCTATGT
1 AAAAGCCTATGT
27200928 AAAAGCCTATGT
1 AAAAGCCTATGT
27200940 A
1 A
27200941 TGTTATATAC
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:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
AAAAGCCTATGT
Found at i:27201169 original size:16 final size:16
Alignment explanation
Indices: 27201129--27201170 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
27201119 ATATCTTAAT
*
27201129 AAAAAATAAAATACGG
1 AAAAAATAAAACACGG
27201145 AAAGAAATAAAACAC-G
1 AAA-AAATAAAACACGG
27201161 AAAATAATAA
1 AAAA-AATAA
27201171 TTTTTTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 1 0.04
16 12 0.52
17 10 0.43
ACGTcount: A:0.71, C:0.07, G:0.10, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAACACGG
Found at i:27201535 original size:25 final size:25
Alignment explanation
Indices: 27201507--27201587 Score: 74
Period size: 30 Copynumber: 3.1 Consensus size: 25
27201497 ATTATGTACT
27201507 AAAATAATATAAAAAATAAAATACGA
1 AAAATAATATAAAAAATAAAATAC-A
* *
27201533 AAATAGTATATTTTAAAAAATAAAATCCA
1 AAA-A-TA-A-TATAAAAAATAAAATACA
* *
27201562 AAAATAAAATAAATAATAAAA-ACA
1 AAAATAATATAAAAAATAAAATACA
27201586 AA
1 AA
27201588 GGGCCAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
24 4 0.09
25 11 0.24
26 4 0.09
27 3 0.07
28 3 0.07
29 5 0.11
30 15 0.33
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.22
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATACA
Found at i:27201623 original size:154 final size:153
Alignment explanation
Indices: 27201204--27201730 Score: 793
Period size: 154 Copynumber: 3.5 Consensus size: 153
27201194 GCGGGTTTTT
* * *
27201204 TACTAAAATAATATAAAAATAAAA-AGCGAAAATAGTTTATTTTAAAAAATAAAATACGAAAAT-
1 TACTAAAATAATATAAAAATAAAATA-CGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
* * *
27201267 -AA-AAA-AATAAAAACAAAGGGCCAAAACTAGAGTTTTTTACTAAATAAATATAAAAAACATTA
65 AAATAAATAATAAAAACAAAGGGCCAAAATTAGAGTTTTTTACTAAATAAATATAAAAAATACTA
27201329 AAATAATACATTTGAAACATTATG
130 AAATAATACATTTGAAACATTATG
*
27201353 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTT--AAAA-AAAATCTAAAAATAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAA
* * * *
27201415 AATAAATAATAAAAACAAAGGCCCAAAATCAAAGTTTTTTACTAAATAAATATAAAAAATACTGA
66 AATAAATAATAAAAACAAAGGGCCAAAATTAGAGTTTTTTACTAAATAAATATAAAAAATACTAA
*
27201480 AATAATACATTTGAACCATTATG
131 AATAATACATTTGAAACATTATG
27201503 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
1 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
*
27201568 AAATAAATAATAAAAACAAAGGGCCAAAATTAGAGTTTTTTACTAAATCAATATAAAAAATACTA
65 AAATAAATAATAAAAACAAAGGGCCAAAATTAGAGTTTTTTACTAAATAAATATAAAAAATACTA
27201633 AAATAATACATTTGAAACATTATG
130 AAATAATACATTTGAAACATTATG
* * ***
27201657 TACTAAAATAATATAAAAATAATATA-AAAAATAGTATATTTTAAAAAAAATAAAATTTGAAAAT
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTT--AAAAAATAAAATCCAAAAAT
27201721 AAAATAAATA
64 AAAATAAATA
27201731 CCAAAATATA
Statistics
Matches: 343, Mismatches: 24, Indels: 17
0.89 0.06 0.04
Matches are distributed among these distances:
146 10 0.03
147 4 0.01
148 2 0.01
149 43 0.13
150 88 0.26
151 29 0.08
152 15 0.04
153 15 0.04
154 137 0.40
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.27
Consensus pattern (153 bp):
TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAA
AATAAATAATAAAAACAAAGGGCCAAAATTAGAGTTTTTTACTAAATAAATATAAAAAATACTAA
AATAATACATTTGAAACATTATG
Found at i:27201677 original size:11 final size:11
Alignment explanation
Indices: 27201661--27201686 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27201651 ATTATGTACT
27201661 AAAATAATATA
1 AAAATAATATA
27201672 AAAATAATATA
1 AAAATAATATA
27201683 AAAA
1 AAAA
27201687 ATAGTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAATATA
Found at i:27201688 original size:12 final size:12
Alignment explanation
Indices: 27201661--27201694 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27201651 ATTATGTACT
27201661 AAAATAATAT-A
1 AAAATAATATAA
27201672 AAAATAATATAA
1 AAAATAATATAA
*
27201684 AAAATAGTATA
1 AAAATAATATA
27201695 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:27201714 original size:17 final size:18
Alignment explanation
Indices: 27201694--27201728 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27201684 AAAATAGTAT
*
27201694 ATTTTAAAA-AAAATAAA
1 ATTTGAAAATAAAATAAA
27201711 ATTTGAAAATAAAATAAA
1 ATTTGAAAATAAAATAAA
27201729 TACCAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
ATTTGAAAATAAAATAAA
Found at i:27229482 original size:29 final size:29
Alignment explanation
Indices: 27229440--27229497 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
27229430 ATGTGAGGTG
27229440 TTAATAATTTAATTTTATTGTTATAGACC
1 TTAATAATTTAATTTTATTGTTATAGACC
27229469 TTAATAATTTAATTTTATTGTTATAGACC
1 TTAATAATTTAATTTTATTGTTATAGACC
27229498 CGAGGAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (29 bp):
TTAATAATTTAATTTTATTGTTATAGACC
Found at i:27237840 original size:20 final size:19
Alignment explanation
Indices: 27237795--27237843 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
27237785 AATATTTATT
* *
27237795 TTTTAATATTTTACTATAC
1 TTTTAATTTTTTAATATAC
*
27237814 TCATTAATTTTTTAATAATAC
1 T-TTTAATTTTTTAAT-ATAC
27237835 TTTTAATTT
1 TTTTAATTT
27237844 ATTTCCCTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 18 0.75
21 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAATTTTTTAATATAC
Found at i:27237926 original size:20 final size:21
Alignment explanation
Indices: 27237896--27237941 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
27237886 GTATTTTGAC
27237896 TAAATAGATAATCTAT-TTAAA
1 TAAATAGATAAT-TATGTTAAA
*
27237917 -AAATATATAATTATGTTAAA
1 TAAATAGATAATTATGTTAAA
27237937 TAAAT
1 TAAAT
27237942 TTTTTTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 3 0.14
20 15 0.68
21 4 0.18
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (21 bp):
TAAATAGATAATTATGTTAAA
Found at i:27248154 original size:18 final size:18
Alignment explanation
Indices: 27248131--27248166 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27248121 TTATGTGGCC
27248131 TAAGAACATGGTCGTGTG
1 TAAGAACATGGTCGTGTG
27248149 TAAGAACATGGTCGTGTG
1 TAAGAACATGGTCGTGTG
27248167 GCCAATCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.33, T:0.28
Consensus pattern (18 bp):
TAAGAACATGGTCGTGTG
Found at i:27250258 original size:32 final size:32
Alignment explanation
Indices: 27250190--27250258 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
27250180 CCAGGCTGTG
* *
27250190 TGGGCTACACGAGCAAGGCCAATCTCGACATG
1 TGGGCAACACGAGCAAGGCCAATCTCGACATA
* * * *
27250222 TGGGCAACACGGGTAAGGCCAATCTGGGCATA
1 TGGGCAACACGAGCAAGGCCAATCTCGACATA
27250254 TGGGC
1 TGGGC
27250259 CACAAGCGCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.25, G:0.33, T:0.16
Consensus pattern (32 bp):
TGGGCAACACGAGCAAGGCCAATCTCGACATA
Found at i:27255904 original size:46 final size:45
Alignment explanation
Indices: 27255793--27255951 Score: 132
Period size: 46 Copynumber: 3.6 Consensus size: 45
27255783 GGTCGAACGA
* * * * *
27255793 TGCCATGGTGTCTTTCAGCCACGGTCTTATTTATTCCCGACCTGG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTTATTCCCGACATGG
* * * *
27255838 TGCCATAGTTTCTTTCAACTATGGTCTTATTTATTTTCCGTCATGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTTA-TTCCCGACATGG
* * * *
27255884 TGCTATAGTGTCTTTTAACTATGGTC--ATTT-TT---GATATAG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTTATTCCCGACATGG
* *
27255923 TGCCATACTGTCTTTCAACTATGATCTTA
1 TGCCATAGTGTCTTTCAACTATGGTCTTA
27255952 CATGTTTGAA
Statistics
Matches: 91, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
39 25 0.27
41 1 0.01
42 2 0.02
44 4 0.04
45 28 0.31
46 31 0.34
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTTATTCCCGACATGG
Found at i:27257348 original size:25 final size:25
Alignment explanation
Indices: 27257326--27257374 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
27257316 TTTCCTTTTT
*
27257326 CTTTTCATTTTTAGTTTAGCTTTTCA
1 CTTTT-ATTTTTAGTGTAGCTTTTCA
*
27257352 CTTTTATTTTTAGTGTAGATTTT
1 CTTTTATTTTTAGTGTAGCTTTT
27257375 ATTCTTATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.63
Consensus pattern (25 bp):
CTTTTATTTTTAGTGTAGCTTTTCA
Found at i:27258842 original size:27 final size:27
Alignment explanation
Indices: 27258812--27258989 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27258802 ATATTGAGTC
* * * *
27258812 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
27258839 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27258866 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
27258894 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27258921 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
27258948 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27258975 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27258990 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27258951 original size:82 final size:81
Alignment explanation
Indices: 27258833--27258988 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27258823 TGCTATATAA
* *
27258833 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27258898 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27258915 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27258979 CACTTAGTGC
65 CACTTAGTGC
27258989 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27261155 original size:27 final size:27
Alignment explanation
Indices: 27261124--27261179 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
27261114 GATTCCTAAC
27261124 TAAGGATAGCAACCAATATAATCAGTG
1 TAAGGATAGCAACCAATATAATCAGTG
*
27261151 TAAGGATGGCAACCAATATAATCAGTG
1 TAAGGATAGCAACCAATATAATCAGTG
27261178 TA
1 TA
27261180 GGTTCATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (27 bp):
TAAGGATAGCAACCAATATAATCAGTG
Found at i:27262224 original size:6 final size:6
Alignment explanation
Indices: 27262201--27262234 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
27262191 GAACTAAACA
* *
27262201 TAGGAG TAAGAT TAGGAG TAGGAG TAGGAG TAGG
1 TAGGAG TAGGAG TAGGAG TAGGAG TAGGAG TAGG
27262235 TGAAAATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.44, T:0.21
Consensus pattern (6 bp):
TAGGAG
Found at i:27262932 original size:16 final size:17
Alignment explanation
Indices: 27262903--27262935 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27262893 TACATAAAAC
27262903 TTTTAATTTATATGTTT
1 TTTTAATTTATATGTTT
*
27262920 TTTTTATTT-TATGTTT
1 TTTTAATTTATATGTTT
27262936 GCTTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTAATTTATATGTTT
Found at i:27264924 original size:6 final size:6
Alignment explanation
Indices: 27264913--27264958 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
27264903 TGGATTGCAA
* * * *
27264913 ATTTCC ATTTCC ATTTCT ATTTCC ATTTCT ATTCCC ATTCCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
27264959 TCGAAAACCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTCC
Found at i:27265703 original size:14 final size:14
Alignment explanation
Indices: 27265684--27265719 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
27265674 AGATTCAGGT
27265684 ATGTCACACTATGA
1 ATGTCACACTATGA
27265698 ATGTCACACTATGA
1 ATGTCACACTATGA
27265712 ATGTCACA
1 ATGTCACA
27265720 AGTGAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (14 bp):
ATGTCACACTATGA
Found at i:27270763 original size:27 final size:26
Alignment explanation
Indices: 27270728--27270839 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
27270718 AGCATGGCTG
* *
27270728 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
27270754 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
27270782 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
27270809 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
27270836 CCAG
1 CCAG
27270840 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:27270820 original size:54 final size:54
Alignment explanation
Indices: 27270728--27270839 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
27270718 AGCATGGCTG
* *
27270728 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
27270782 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
27270836 CCAG
1 CCAG
27270840 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:27272288 original size:24 final size:24
Alignment explanation
Indices: 27272257--27272327 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
27272247 CTAGATTTCC
*
27272257 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAGCTCCTAAATCCTA
* * *
27272281 TCCTTTATCAACCCCTAAATCCTA
1 TCCCTTATCAGCTCCTAAATCCTA
27272305 TCCCTTATCAGCTCCTAAATCCT
1 TCCCTTATCAGCTCCTAAATCCT
27272328 CTCTTGACAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.24, C:0.38, G:0.03, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAGCTCCTAAATCCTA
Found at i:27273864 original size:14 final size:17
Alignment explanation
Indices: 27273832--27273869 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
27273822 GATTATAAAG
27273832 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
27273849 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
27273863 TATATTA
1 TATATTA
27273870 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:27273975 original size:15 final size:16
Alignment explanation
Indices: 27273952--27273984 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27273942 TGTAACACTT
*
27273952 ATAATTAATTA-TTAA
1 ATAAATAATTATTTAA
27273967 ATAAATAATTATTTAA
1 ATAAATAATTATTTAA
27273983 AT
1 AT
27273985 TATTATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAAATAATTATTTAA
Found at i:27274012 original size:12 final size:12
Alignment explanation
Indices: 27273950--27274027 Score: 52
Period size: 12 Copynumber: 6.1 Consensus size: 12
27273940 TTTGTAACAC
27273950 TTATAATTAATTA
1 TTATAATT-ATTA
*
27273963 TTAAATAAATAATTA
1 TT--AT-AATTATTA
27273978 TT-TAAATTATTA
1 TTAT-AATTATTA
*
27273990 -TATTAAATTATTG
1 TTA-T-AATTATTA
27274003 TTATAATTATTA
1 TTATAATTATTA
*
27274015 TTATTATTATTA
1 TTATAATTATTA
27274027 T
1 T
27274028 CAAATAAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
11 1 0.02
12 28 0.52
13 12 0.22
14 2 0.04
15 8 0.15
16 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (12 bp):
TTATAATTATTA
Found at i:27274072 original size:157 final size:157
Alignment explanation
Indices: 27273799--27274084 Score: 341
Period size: 157 Copynumber: 1.8 Consensus size: 157
27273789 TTTACATGAT
*
27273799 TTAATTATATAAATATATAAATTGATTATAAAGTATATTATTAAATTAATTATATTATAAATATT
1 TTAATTATATAAATAAATAAATTGATTATAAAGTATATTATTAAATTAATTATATTATAAATATT
* *** *
27273864 ATATTAAGAAATAAATTAAATAAAGACAAATGTATGGTGATGATTTCATACAAGTGTATTAATAA
66 ATATTAACAAATAAATTAAATAAAGACAAATGTATGGTGATGATAAAATACAAGTGTAATAATAA
27273929 AAATACATACATTTGTAACACTTATAA
131 AAATACATACATTTGTAACACTTATAA
* * * *
27273956 TTAATTAT-TAAATAAAT-AATT-ATT-TAAATTAT-TATATTAAATTATTGTTATAATTATTAT
1 TTAATTATATAAATAAATAAATTGATTATAAAGTATAT-TATTAAATTA--ATTAT-ATTATAAA
* * * * *
27274016 TATTATTATTATCAAATAAATTGAATTATGACAAATGTA-GGATGATGATAAAATACATGTGTAA
62 TATTA-TATTAACAAATAAATTAAATAAAGACAAATGTATGG-TGATGATAAAATACAAGTGTAA
27274080 TAATA
125 TAATA
27274085 TGTATGTATA
Statistics
Matches: 108, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
152 1 0.01
153 17 0.16
154 3 0.03
155 8 0.07
156 21 0.19
157 58 0.54
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (157 bp):
TTAATTATATAAATAAATAAATTGATTATAAAGTATATTATTAAATTAATTATATTATAAATATT
ATATTAACAAATAAATTAAATAAAGACAAATGTATGGTGATGATAAAATACAAGTGTAATAATAA
AAATACATACATTTGTAACACTTATAA
Found at i:27274604 original size:22 final size:24
Alignment explanation
Indices: 27274576--27274619 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
27274566 TATGGCAAAA
27274576 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
27274598 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
27274620 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:27277571 original size:3 final size:3
Alignment explanation
Indices: 27277563--27277637 Score: 98
Period size: 3 Copynumber: 25.3 Consensus size: 3
27277553 AGTAGATTTA
* * * * *
27277563 ATT ATT ATT AGT AGT AGT ATT ATT ATA ACT A-T ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
27277610 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
27277638 AAATGAAGCC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:27277872 original size:23 final size:24
Alignment explanation
Indices: 27277844--27277902 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
27277834 ATAATGACAA
*
27277844 TTGTAATAAAA-ATAT-TGATACAT
1 TTGTAATAAAAGATATATG-TACAC
27277867 TTGTAATAAATAGATATATGTACAC
1 TTGTAATAAA-AGATATATGTACAC
*
27277892 TTGTTATAAAA
1 TTGTAATAAAA
27277903 TAATTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (24 bp):
TTGTAATAAAAGATATATGTACAC
Found at i:27278889 original size:15 final size:15
Alignment explanation
Indices: 27278865--27278898 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27278855 TAATTGAAAT
* *
27278865 AATGATATTGATTTG
1 AATGAAATTGATTTC
27278880 AATGAAATTGATTTC
1 AATGAAATTGATTTC
27278895 AATG
1 AATG
27278899 TGTTTATGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (15 bp):
AATGAAATTGATTTC
Found at i:27287343 original size:27 final size:27
Alignment explanation
Indices: 27287296--27287348 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
27287286 TAATTTTTTT
**
27287296 AAAAATGATAATATTTCATTAATTTAA
1 AAAAATGATAATATTAAATTAATTTAA
*
27287323 AAAAAT-ATAATATATAAATTATTTTA
1 AAAAATGATAATAT-TAAATTAATTTA
27287349 TAACTTTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
AAAAATGATAATATTAAATTAATTTAA
Found at i:27290744 original size:19 final size:20
Alignment explanation
Indices: 27290699--27290749 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 20
27290689 GCCTTTTTGT
* *
27290699 TATATTTATAAACTTTAAAA
1 TATATTTATAAAATATAAAA
* *
27290719 AAAATTT-TAAAATATAAAA
1 TATATTTATAAAATATAAAA
*
27290738 TATATTTCTAAA
1 TATATTTATAAA
27290750 TTTTGTTTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
TATATTTATAAAATATAAAA
Found at i:27294550 original size:29 final size:29
Alignment explanation
Indices: 27294503--27294576 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
27294493 GTTAATAATT
*
27294503 TATAAAATTTAGATTAAATT-AAAATTTTATA
1 TATAAAA-TTACA-TAAATTCAAAA-TTTATA
*
27294534 TATAAAATTACATAAATTCTAAATTTATA
1 TATAAAATTACATAAATTCAAAATTTATA
*
27294563 TATATAATTACATA
1 TATAAAATTACATA
27294577 TTAGATAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 25 0.64
30 7 0.18
31 7 0.18
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (29 bp):
TATAAAATTACATAAATTCAAAATTTATA
Found at i:27296465 original size:86 final size:86
Alignment explanation
Indices: 27296320--27296487 Score: 273
Period size: 86 Copynumber: 2.0 Consensus size: 86
27296310 AGTTTACAAA
* * *
27296320 AGCATTTAGTTAAGATAGATTCGAAAATATCTTTTGAATCTGTCCATGTAAATTATATTCATAAA
1 AGCATTTAGTTAAAATAGATTCAAAAATATCTTTTAAATCTGTCCATGTAAATTATATTCATAAA
* *
27296385 TTGTATGGATAGCTCGAATTT
66 TTGTACGAATAGCTCGAATTT
* *
27296406 AGCATTTAGTTAAAATAGATTCAAAAATATCTTTTAAATCTGTCCGTGTAAATTATATTCGTAAA
1 AGCATTTAGTTAAAATAGATTCAAAAATATCTTTTAAATCTGTCCATGTAAATTATATTCATAAA
27296471 TTGTACGAATAGCTCGA
66 TTGTACGAATAGCTCGA
27296488 TTTTTGGATA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 75 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (86 bp):
AGCATTTAGTTAAAATAGATTCAAAAATATCTTTTAAATCTGTCCATGTAAATTATATTCATAAA
TTGTACGAATAGCTCGAATTT
Found at i:27299981 original size:43 final size:43
Alignment explanation
Indices: 27299788--27299972 Score: 289
Period size: 43 Copynumber: 4.3 Consensus size: 43
27299778 TTTATGAAAA
* * *
27299788 AAACGCTGCTAAAAGTCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTATCCCAC
* *
27299831 AAACGCTGCTAAAGGTCATGACCTTTAGCGTCGCTTATCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTATCCCAC
*
27299874 AAACGCCGCTAAAGGTCATGACCATTAGCGGCGCTTATCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTATCCCAC
* * *
27299917 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTATCCCAC
27299960 AAACGCCGCTAAA
1 AAACGCCGCTAAA
27299973 AATTATGACC
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 132 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTATCCCAC
Found at i:27307394 original size:40 final size:39
Alignment explanation
Indices: 27307357--27307448 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
27307347 GCTACTCGTT
*
27307357 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
27307397 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
27307436 CAAATGCCTTCGG
1 CAAATGCCTTCGG
27307449 ATCTTAGTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:27307428 original size:39 final size:40
Alignment explanation
Indices: 27307338--27307501 Score: 167
Period size: 40 Copynumber: 4.1 Consensus size: 40
27307328 CGGAATTTAA
** *
27307338 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
27307378 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27307417 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
27307457 CTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27307497 CCGGA
1 CCGGA
27307502 CATCATTCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 56 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27310300 original size:14 final size:14
Alignment explanation
Indices: 27310283--27310350 Score: 73
Period size: 14 Copynumber: 4.9 Consensus size: 14
27310273 ATAAAACATA
*
27310283 AACCCTTAACCCTT
1 AACCCCTAACCCTT
* * *
27310297 AACCCCTAAACATA
1 AACCCCTAACCCTT
*
27310311 AACCCTTAACCCTT
1 AACCCCTAACCCTT
*
27310325 AACCCCTAAACCTT
1 AACCCCTAACCCTT
*
27310339 AAACCCTAACCC
1 AACCCCTAACCC
27310351 CATAAACCAT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCCTAACCCTT
Found at i:27310307 original size:28 final size:28
Alignment explanation
Indices: 27310276--27310350 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
27310266 TTAAACAATA
27310276 AAACATAAACCCTTAACCCTTAACCCCT
1 AAACATAAACCCTTAACCCTTAACCCCT
27310304 AAACATAAACCCTTAACCCTTAACCCCT
1 AAACATAAACCCTTAACCCTTAACCCCT
*
27310332 AAACCTTAAACCC-TAACCC
1 AAA-CATAAACCCTTAACCC
27310351 CATAAACCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 37 0.82
29 8 0.18
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (28 bp):
AAACATAAACCCTTAACCCTTAACCCCT
Found at i:27310363 original size:29 final size:28
Alignment explanation
Indices: 27310257--27310425 Score: 92
Period size: 29 Copynumber: 5.9 Consensus size: 28
27310247 AGCCCCTAAC
* * * * *
27310257 CCCTAAACCTTAAACAATAAAACATAAA
1 CCCTAACCCATAAACCATAAACCTTAAA
* * * *
27310285 CCCTTAACCCTTAACCCCTAAA-CATAAA
1 CCC-TAACCCATAAACCATAAACCTTAAA
* * *
27310313 CCCTTAACCCTTAACCCCTAAACCTTAAA
1 CCC-TAACCCATAAACCATAAACCTTAAA
*
27310342 CCCTAACCCCATAAACCATAAACCCT-AA
1 CCCTAA-CCCATAAACCATAAACCTTAAA
** * *
27310370 CTTTTAACCCATAAACCATAAACCATAAT
1 C-CCTAACCCATAAACCATAAACCTTAAA
* *
27310399 CTCTAAATCCATAATA-CATAAACCTTA
1 CCCT-AACCCATAA-ACCATAAACCTTA
27310426 CAATAGTAAC
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
28 57 0.48
29 60 0.51
30 1 0.01
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (28 bp):
CCCTAACCCATAAACCATAAACCTTAAA
Found at i:27310368 original size:22 final size:22
Alignment explanation
Indices: 27310307--27310370 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
27310297 AACCCCTAAA
* *
27310307 CATAAACCCTTAACCCTTAACCC
1 CATAAACCATAAACCC-TAACCC
*
27310330 C-TAAACCTTAAACCCTAACCC
1 CATAAACCATAAACCCTAACCC
27310351 CATAAACCATAAACCCTAAC
1 CATAAACCATAAACCCTAAC
27310371 TTTTAACCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.19
22 29 0.78
23 1 0.03
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.19
Consensus pattern (22 bp):
CATAAACCATAAACCCTAACCC
Found at i:27310861 original size:40 final size:38
Alignment explanation
Indices: 27310802--27310941 Score: 122
Period size: 40 Copynumber: 3.6 Consensus size: 38
27310792 TTGCGGCGTT
* *
27310802 TTTTTTAAAA-CGCCACTAAAGATCAAGCATTAGCGGCG
1 TTTTTAAAAAGCGCCGCTAAAGATCAA-CATTAGCGGCG
* ** *
27310840 TTTTCTAAAAAGCGCCGCTAAAGGTGTACATATAGCGTCG
1 TTTT-TAAAAAGCGCCGCTAAAGATCAACAT-TAGCGGCG
* * *
27310880 TTTTTAAAAAAGCGCCGCTAATA-CTCGATCTTTAGCGGCG
1 TTTTT-AAAAAGCGCCGCTAA-AGATC-AACATTAGCGGCG
*
27310920 TTTTTAGAAAGCGCCGCTAAAG
1 TTTTTAAAAAGCGCCGCTAAAG
27310942 CCACCAAAGG
Statistics
Matches: 82, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
38 5 0.06
39 23 0.28
40 51 0.62
41 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (38 bp):
TTTTTAAAAAGCGCCGCTAAAGATCAACATTAGCGGCG
Found at i:27311054 original size:39 final size:39
Alignment explanation
Indices: 27311011--27311101 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 39
27311001 GGTGTACATA
27311011 TAGCGGCGTTTTTAAAAAGCGCCGCTAATACTCAATCTT
1 TAGCGGCGTTTTTAAAAAGCGCCGCTAATACTCAATCTT
* * **
27311050 TAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCGTTCTT
1 TAGCGGCGTTTTTAAAAAGCGCCGCTAATACTCAATCTT
*
27311089 TAGTGGCGTTTTT
1 TAGCGGCGTTTTT
27311102 CATTCGAACG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (39 bp):
TAGCGGCGTTTTTAAAAAGCGCCGCTAATACTCAATCTT
Found at i:27311125 original size:12 final size:12
Alignment explanation
Indices: 27311108--27311134 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27311098 TTTTCATTCG
27311108 AACGCCGCTAAA
1 AACGCCGCTAAA
27311120 AACGCCGCTAAA
1 AACGCCGCTAAA
27311132 AAC
1 AAC
27311135 TTGTTTTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.33, G:0.15, T:0.07
Consensus pattern (12 bp):
AACGCCGCTAAA
Found at i:27311315 original size:7 final size:7
Alignment explanation
Indices: 27311303--27311335 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
27311293 ATAATGCCAC
27311303 TTGATAA
1 TTGATAA
27311310 TTGATAA
1 TTGATAA
27311317 TTGATAA
1 TTGATAA
27311324 TTGATAA
1 TTGATAA
27311331 TTGAT
1 TTGAT
27311336 GAAAGCCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (7 bp):
TTGATAA
Found at i:27312967 original size:20 final size:20
Alignment explanation
Indices: 27312939--27312978 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27312929 AACTTTCAGA
*
27312939 ATATTTTACAATTAATTTAC
1 ATATATTACAATTAATTTAC
* *
27312959 ATATATTACTATTCATTTAC
1 ATATATTACAATTAATTTAC
27312979 CAAGATCATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTACAATTAATTTAC
Found at i:27315609 original size:16 final size:18
Alignment explanation
Indices: 27315583--27315617 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
27315573 GGACATCTAG
27315583 ATTTGAATCC-TATAGCT
1 ATTTGAATCCTTATAGCT
27315600 ATTT-AATCCTTATAGCT
1 ATTTGAATCCTTATAGCT
27315617 A
1 A
27315618 CTAGAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (18 bp):
ATTTGAATCCTTATAGCT
Found at i:27315698 original size:14 final size:14
Alignment explanation
Indices: 27315681--27315707 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27315671 TTTAATCGAA
27315681 AAAATTTTCATATC
1 AAAATTTTCATATC
27315695 AAAATTTTCATAT
1 AAAATTTTCATAT
27315708 GAAATGCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATTTTCATATC
Found at i:27321631 original size:18 final size:18
Alignment explanation
Indices: 27321599--27321637 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
27321589 CTTTCTTATT
** *
27321599 TTCAACAACTTCTTCTTC
1 TTCAACAACAACTTCCTC
27321617 TTCAACAACAACTTCCTC
1 TTCAACAACAACTTCCTC
27321635 TTC
1 TTC
27321638 TGGAACAGCT
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:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (18 bp):
TTCAACAACAACTTCCTC
Found at i:27321644 original size:21 final size:21
Alignment explanation
Indices: 27321601--27321654 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
27321591 TTCTTATTTT
* *
27321601 CAACAACTTCTTCTTCTTCAA
1 CAACAACTTCCTCTTCTGCAA
*
27321622 CAACAACTTCCTCTTCTGGAA
1 CAACAACTTCCTCTTCTGCAA
* *
27321643 CAGCTACTTCCT
1 CAACAACTTCCT
27321655 TCTAAACAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.35, G:0.06, T:0.33
Consensus pattern (21 bp):
CAACAACTTCCTCTTCTGCAA
Found at i:27323808 original size:37 final size:37
Alignment explanation
Indices: 27323758--27323836 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
27323748 TTATTACGAA
* *
27323758 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
27323795 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
27323832 GTCTT
1 GTCTT
27323837 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:27330691 original size:57 final size:57
Alignment explanation
Indices: 27330628--27330735 Score: 182
Period size: 57 Copynumber: 1.9 Consensus size: 57
27330618 AAAATGTATG
*
27330628 CTAAGGATAACTAAAT-AGGAACAATTTAACCAATAAATAAGGGGGAAAACCTATATT
1 CTAAGGATAACTAAATGAGG-ACAATTTAACCAATAAATAAAGGGGAAAACCTATATT
*
27330685 CTAAGGATAACTAAATGAGGACAATTTAACCAATAGATAAAGGGGAAAACC
1 CTAAGGATAACTAAATGAGGACAATTTAACCAATAAATAAAGGGGAAAACC
27330736 AATGTTCTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
57 45 0.94
58 3 0.06
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (57 bp):
CTAAGGATAACTAAATGAGGACAATTTAACCAATAAATAAAGGGGAAAACCTATATT
Found at i:27333978 original size:56 final size:55
Alignment explanation
Indices: 27333849--27334015 Score: 167
Period size: 56 Copynumber: 2.9 Consensus size: 55
27333839 GTGCCATAAT
* * * *
27333849 CATAATATAGCATGCCTCTCAACAGGACTACATAAGAGCACCCGGACCTAGCATGCATCA
1 CATAAT-TA-CATGCCTCTCAACAGG-CTACAT-A-AGCTCCCAGACCTAGCATGTACCA
* * *
27333909 CATAA--CCACGCCTCTCAACAGAGCTACATAAGCTCCCAGACCTAGCGTGTACCA
1 CATAATTACATGCCTCTCAACAG-GCTACATAAGCTCCCAGACCTAGCATGTACCA
** *
27333963 CATAATTACATGCCTCTCAATGGGGCTACACAAGCTCCCAGACCTAGCATGTA
1 CATAATTACATGCCTCTCAA-CAGGCTACATAAGCTCCCAGACCTAGCATGTA
27334016 TCATGTCATC
Statistics
Matches: 90, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
54 24 0.27
55 1 0.01
56 58 0.64
57 2 0.02
60 5 0.06
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.19
Consensus pattern (55 bp):
CATAATTACATGCCTCTCAACAGGCTACATAAGCTCCCAGACCTAGCATGTACCA
Found at i:27336790 original size:15 final size:15
Alignment explanation
Indices: 27336770--27336812 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
27336760 TGTTGTAAAT
*
27336770 TGGATTTCCTTATCA
1 TGGATTTCTTTATCA
*
27336785 TGGATTTCTTTATCT
1 TGGATTTCTTTATCA
27336800 TGGATTTCTTTAT
1 TGGATTTCTTTAT
27336813 TCTAGGCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:27352618 original size:40 final size:39
Alignment explanation
Indices: 27352520--27352782 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
27352510 TCCTCGTTCA
* * * *
27352520 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
27352559 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
27352598 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
27352638 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
27352678 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
27352718 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
27352759 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
27352783 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:27352742 original size:120 final size:119
Alignment explanation
Indices: 27352520--27352782 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
27352510 TCCTCGTTCA
* * *
27352520 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
27352585 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
27352638 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
27352703 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
27352759 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
27352783 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:27352791 original size:41 final size:41
Alignment explanation
Indices: 27352714--27352791 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
27352704 TTTGTATCTC
* * *
27352714 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
27352755 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
27352792 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:27360568 original size:40 final size:39
Alignment explanation
Indices: 27360470--27360732 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
27360460 TCCTCGTTCA
* * * *
27360470 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
27360509 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
27360548 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
27360588 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
27360628 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
27360668 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
27360709 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
27360733 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:27360692 original size:120 final size:119
Alignment explanation
Indices: 27360470--27360732 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
27360460 TCCTCGTTCA
* * *
27360470 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
27360535 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
27360588 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
27360653 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
27360709 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
27360733 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:27360741 original size:41 final size:41
Alignment explanation
Indices: 27360664--27360741 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
27360654 TTTGTATCTC
* * *
27360664 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
27360705 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
27360742 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:27365579 original size:21 final size:17
Alignment explanation
Indices: 27365539--27365575 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
27365529 CATGATACTG
27365539 ATTCAAGATAAGCTTTT
1 ATTCAAGATAAGCTTTT
*
27365556 ATTCAAGATAAGCTATT
1 ATTCAAGATAAGCTTTT
27365573 ATT
1 ATT
27365576 TATTAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (17 bp):
ATTCAAGATAAGCTTTT
Found at i:27369780 original size:19 final size:19
Alignment explanation
Indices: 27369756--27369793 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27369746 GTCGAGATTT
27369756 GAATTGAAATAGTTGCTTA
1 GAATTGAAATAGTTGCTTA
27369775 GAATTGAAATAGTTGCTTA
1 GAATTGAAATAGTTGCTTA
27369794 ACTATGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (19 bp):
GAATTGAAATAGTTGCTTA
Found at i:27378117 original size:48 final size:48
Alignment explanation
Indices: 27377882--27378104 Score: 320
Period size: 48 Copynumber: 4.6 Consensus size: 48
27377872 TAAGTTTGCC
* * *
27377882 AGTGTAAGACCATGTCTGGGACATGGCATCAACAATAATATATGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCT
* * *
27377930 AGTGTAAGACCATGTATGGGACATGGCATCGACGATGATATACGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCT
* * * *
27377978 AATGTAAGACCATGTCTGGGACATGGCATCGGCGATTATATTTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCT
* * *
27378026 AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGTGTGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCT
*
27378074 AGTGTAAGACCATGTATGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
27378105 GTGATGAGAT
Statistics
Matches: 155, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 155 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCT
Found at i:27384743 original size:50 final size:50
Alignment explanation
Indices: 27384656--27384805 Score: 185
Period size: 50 Copynumber: 3.0 Consensus size: 50
27384646 TAAAATTGTT
* *
27384656 TTAGGTCACATGTGTAGTGCTAAGTGCAAGCTACTACGTGTACTAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
* * * * *
27384706 TTAGGTCGCATATGTAGTACTAAATGCAGGCTGCTACGTGTA-TCAGATGG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAG
** * *
27384756 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
27384806 CTTCGGTTAC
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
49 1 0.01
50 81 0.99
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
Found at i:27387917 original size:1 final size:1
Alignment explanation
Indices: 27387911--27388182 Score: 544
Period size: 1 Copynumber: 272.0 Consensus size: 1
27387901 TTGAAGAAAG
27387911 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
27387976 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
27388041 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
27388106 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
27388171 AAAAAAAAAAAA
1 AAAAAAAAAAAA
27388183 GAGTTCATTC
Statistics
Matches: 271, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 271 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:27400893 original size:48 final size:47
Alignment explanation
Indices: 27400828--27401006 Score: 207
Period size: 48 Copynumber: 3.7 Consensus size: 47
27400818 CTGTGCTAAG
* * *
27400828 TGTGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCGATGATATA
1 TGTGCCAGTG-CAGACCATGTCTGGGACATGGCATCGACGATGATATA
* * *
27400876 TGTGCCAATGCATGACCATGTCTGGGACATGGCATCAACGATCG-CATA
1 TGTGCCAGTGCA-GACCATGTCTGGGACATGGCATCGACGAT-GATATA
* * *
27400924 TGTGCCAGTGTAAGACCATGTCTCGGACATGGCATCGACGATGATATT
1 TGTGCCAGTG-CAGACCATGTCTGGGACATGGCATCGACGATGATATA
* *
27400972 TGTGCCAGTGTGAGACAATGTCTGGGACATGGCAT
1 TGTGCCAGTG-CAGACCATGTCTGGGACATGGCAT
27401007 GCAACATCCC
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
47 2 0.02
48 108 0.96
49 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (47 bp):
TGTGCCAGTGCAGACCATGTCTGGGACATGGCATCGACGATGATATA
Found at i:27400993 original size:96 final size:97
Alignment explanation
Indices: 27400828--27401011 Score: 282
Period size: 96 Copynumber: 1.9 Consensus size: 97
27400818 CTGTGCTAAG
* * *
27400828 TGTGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCGATGATATATGTGCCAATGCATGACC
1 TGTGCCAGTGTAAGACCATGTCTCGGACATGACATCGACGATGATATATGTGCCAATGCATGACA
27400893 ATGTCTGGGACATGGCAT-CAACGATCGCATA
66 ATGTCTGGGACATGGCATGCAACGATCGCATA
* * * *
27400924 TGTGCCAGTGTAAGACCATGTCTCGGACATGGCATCGACGATGATATTTGTGCCAGTGTGA-GAC
1 TGTGCCAGTGTAAGACCATGTCTCGGACATGACATCGACGATGATATATGTGCCAATG-CATGAC
27400988 AATGTCTGGGACATGGCATGCAAC
65 AATGTCTGGGACATGGCATGCAAC
27401012 ATCCCGATTT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
96 74 0.94
97 5 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (97 bp):
TGTGCCAGTGTAAGACCATGTCTCGGACATGACATCGACGATGATATATGTGCCAATGCATGACA
ATGTCTGGGACATGGCATGCAACGATCGCATA
Found at i:27401993 original size:47 final size:46
Alignment explanation
Indices: 27401942--27402097 Score: 141
Period size: 47 Copynumber: 3.5 Consensus size: 46
27401932 AAAAATGTGC
* *
27401942 TGCTAAGTGGATATGCCACGGTTACATATATTTATTCATTAACATGG
1 TGCTAAGTGGATATACCACGGTTACATATA-TTATTCATTAACGTGG
*
27401989 TGCTAAGTGGATATACCACAG-T---TA-A--A--CATGTAACGTGG
1 TGCTAAGTGGATATACCACGGTTACATATATTATTCAT-TAACGTGG
* * ** *
27402027 TTCTAAGTAGATATGTCACGTTTACATATATTGATTCATTAACGTGG
1 TGCTAAGTGGATATACCACGGTTACATATATT-ATTCATTAACGTGG
*
27402074 TGCTAAGTGGATATACCATGGTTA
1 TGCTAAGTGGATATACCACGGTTA
27402098 AACATGTAAC
Statistics
Matches: 83, Mismatches: 15, Indels: 22
0.69 0.12 0.18
Matches are distributed among these distances:
37 3 0.04
38 22 0.27
39 2 0.02
42 3 0.04
43 3 0.04
46 2 0.02
47 45 0.54
48 3 0.04
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (46 bp):
TGCTAAGTGGATATACCACGGTTACATATATTATTCATTAACGTGG
Found at i:27402087 original size:85 final size:85
Alignment explanation
Indices: 27401942--27402140 Score: 308
Period size: 85 Copynumber: 2.3 Consensus size: 85
27401932 AAAAATGTGC
* *
27401942 TGCTAAGTGGATATGCCACGGTTACATATATTTATTCATTAACATGGTGCTAAGTGGATATACCA
1 TGCTAAGTGGATATGCCACGTTTACATATATTGATTCATTAACATGGTGCTAAGTGGATATACCA
27402007 CAGTTAAACATGTAACGTGG
66 CAGTTAAACATGTAACGTGG
* * * *
27402027 TTCTAAGTAGATATGTCACGTTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATATACCA
1 TGCTAAGTGGATATGCCACGTTTACATATATTGATTCATTAACATGGTGCTAAGTGGATATACCA
**
27402092 TGGTTAAACATGTAACGTGG
66 CAGTTAAACATGTAACGTGG
27402112 TGCTAAGTGGATATGCCACGGTTATACAT
1 TGCTAAGTGGATATGCCAC-GTT-TACAT
27402141 GTTAATTTGA
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
85 93 0.92
86 3 0.03
87 5 0.05
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (85 bp):
TGCTAAGTGGATATGCCACGTTTACATATATTGATTCATTAACATGGTGCTAAGTGGATATACCA
CAGTTAAACATGTAACGTGG
Found at i:27402117 original size:38 final size:38
Alignment explanation
Indices: 27402066--27402142 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
27402056 ATTGATTCAT
*
27402066 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
27402104 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
27402142 T
1 T
27402143 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:27404855 original size:40 final size:40
Alignment explanation
Indices: 27404802--27404997 Score: 250
Period size: 40 Copynumber: 4.9 Consensus size: 40
27404792 GGATATAGCT
* * * *
27404802 ACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
27404842 ACTCGCACAAATGCCTTCGGGGCTTAGCCTGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
27404882 ACTCGCACGAATGCCTTCGGGACATAGCCCGATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
27404922 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
*
27404962 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
27404998 CATCCGAATA
Statistics
Matches: 132, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 130 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:27404925 original size:80 final size:79
Alignment explanation
Indices: 27404790--27404997 Score: 310
Period size: 80 Copynumber: 2.6 Consensus size: 79
27404780 CGGAATTTAA
* *
27404790 CCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATGGTAACTCGCACAAATG
1 CCGGATATAG-TACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
27404855 CCTTCGGGGCTTAGC
65 CCTTCGGGGCTTAGC
* *
27404870 CTGGATATAGTAACTCGCACGAATGCCTTCGGGACATAGCCCGATTATAGTAACTCGCACAAATG
1 CCGGATATAGT-ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
27404935 CCTTCGGGGCTTAGC
65 CCTTCGGGGCTTAGC
* * *
27404950 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCGGATA-TAGT-ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTAT
27404998 CATCCGAATA
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 2 0.02
80 114 0.98
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (79 bp):
CCGGATATAGTACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGC
CTTCGGGGCTTAGC
Found at i:27408682 original size:15 final size:15
Alignment explanation
Indices: 27408662--27408703 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
27408652 GCTGTAAATG
27408662 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
27408677 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
27408692 GGATTTCCTTAT
1 GGATTTCCTTAT
27408704 TCTGGGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:27411001 original size:38 final size:38
Alignment explanation
Indices: 27410949--27411157 Score: 157
Period size: 38 Copynumber: 5.0 Consensus size: 38
27410939 GGAATGAAAA
* *
27410949 AACGTGGTGTTAAGTGGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
** *
27410987 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGC
1 AACGTGGTGCTAAGTGGATAT---AC-----CAC-GGTT-ATACATGT
* * *
27411035 AACGTGGTGTTAAGTGGATATGCCACGGTTACATATATTGATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG--T
*
27411078 CATTTACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 -A---ACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
27411120 AACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
27411158 TAATTTGAAA
Statistics
Matches: 135, Mismatches: 18, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
38 55 0.41
39 2 0.01
40 7 0.05
41 5 0.04
42 1 0.01
44 3 0.02
45 4 0.03
46 3 0.02
47 29 0.21
48 26 0.19
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:27411108 original size:47 final size:48
Alignment explanation
Indices: 27410987--27411117 Score: 174
Period size: 48 Copynumber: 2.8 Consensus size: 48
27410977 TTATACGTGT
**
27410987 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGC
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATGC
* * * * *
27411035 AACGTGGTGTTAAGTGGATATGCCACGGTTACATATATTGATTCAT-T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATGC
* *
27411082 TACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACAT
27411118 GTAACGTGGT
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 31 0.44
48 40 0.56
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (48 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATGC
Found at i:27426413 original size:43 final size:43
Alignment explanation
Indices: 27426365--27426525 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 43
27426355 TATGATTACA
* *
27426365 TGTAAGACCATGTCTGGGAAATTGGCATTGTATTGTGAATACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTGTGAATACG
* * **
27426408 TGTAAGACCATGTCAGGGACATTGGCATCGTTATT-TGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATTGTGAATACG
* ** *
27426451 TGTAAGACCCTGTCTGGGACAGAGGCATCG-ATATGTG-ATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGTGAAT-ACG
** * *
27426494 TGTAAGACCACATCTGGGATA-TGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT
27426526 GAGCATTATG
Statistics
Matches: 93, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 2 0.02
42 8 0.09
43 79 0.85
44 4 0.04
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTGTGAATACG
Found at i:27428472 original size:95 final size:95
Alignment explanation
Indices: 27428348--27428570 Score: 249
Period size: 95 Copynumber: 2.3 Consensus size: 95
27428338 GGTGAATTGT
* *
27428348 CGATGCCATGGT-CCAAACATGGTCTTACACT-ACCTCACATGTCGA-GGCCGATGCCATGTCCA
1 CGATGCCAT-GTCCCAAACATGGTCTTACACTGACCTCACA--AC-ATGACCGATGCCATGTCCA
* * * *
27428410 AGACATGGTCTTACACTAGCTCTCGTCTCAAT-GC
62 AAACATGGTCTTAAACTAGCTCTCATATC-ATGGC
* * * *
27428444 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCCCTCACAACATTACCGATGCCATGTTCAAAA
1 CGATGCCATGTCCCAAACATGGTCTTACACT-GACCTCACAACATGACCGATGCCATGTCCAAAA
* *
27428508 CATGGTCTTAAACTGGCTCTCATATCGTGGC
65 CATGGTCTTAAACTAGCTCTCATATCATGGC
27428539 CGATGCCATGTCCCAAACATGGTCTTACACTG
1 CGATGCCATGTCCCAAACATGGTCTTACACTG
27428571 GCACACATAT
Statistics
Matches: 108, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
94 2 0.02
95 73 0.68
96 26 0.24
97 7 0.06
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (95 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACCTCACAACATGACCGATGCCATGTCCAAAAC
ATGGTCTTAAACTAGCTCTCATATCATGGC
Found at i:27428571 original size:48 final size:47
Alignment explanation
Indices: 27428348--27428582 Score: 224
Period size: 48 Copynumber: 4.9 Consensus size: 47
27428338 GGTGAATTGT
** * *
27428348 CGATGCCATGGTCCAAACATGGTCTTACACTACCTCACATGTCGA-GGC
1 CGATGCCAT-GTCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * *
27428396 CGATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCGTCTCAAT-GC
1 CGATGCCATGTCCAA-ACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * * * **
27428444 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCCCTCACAACATTAC
1 CGATGCCATGT-CCAAACATGGTCTTACACTGGCTCTCATATCATGGC
* * *
27428491 CGATGCCATGTTCAAAACATGGTCTTAAACTGGCTCTCATATCGTGGC
1 CGATGCCATG-TCCAAACATGGTCTTACACTGGCTCTCATATCATGGC
* *
27428539 CGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
1 CGATGCCATGT-CCAAACATGGTCTTACACTGGCTCTCATATCA
27428583 CCAAAATATC
Statistics
Matches: 153, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
46 2 0.01
47 40 0.26
48 108 0.71
49 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (47 bp):
CGATGCCATGTCCAAACATGGTCTTACACTGGCTCTCATATCATGGC
Found at i:27434819 original size:23 final size:21
Alignment explanation
Indices: 27434793--27434838 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27434783 AAATTTTAAG
27434793 GTAAACAGGGCACACACCCGTGT
1 GTAAA-AGGG-ACACACCCGTGT
* *
27434816 GTAAAAGTGACACGCCCGTGT
1 GTAAAAGGGACACACCCGTGT
27434837 GT
1 GT
27434839 CGTCTTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 3 0.14
23 5 0.24
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.17
Consensus pattern (21 bp):
GTAAAAGGGACACACCCGTGT
Found at i:27441766 original size:42 final size:43
Alignment explanation
Indices: 27441715--27441836 Score: 149
Period size: 42 Copynumber: 2.8 Consensus size: 43
27441705 TGTAATTCAG
* *
27441715 TATCGATGCCTCTGTCCTAGACA-GGATCTTACACGAAATCAGA
1 TATCGATGCCTATGTCCTAGACACGG-TCTTACACGAAATCACA
* *
27441758 TA-CGATGCCTATGTCCTAGACATGGTCTTACACGTAAATCTCA
1 TATCGATGCCTATGTCCTAGACACGGTCTTACACG-AAATCACA
* * *
27441801 TATCGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 TATCGATGCCTATGTCCTAGACACGGTCTTACACGA
27441837 TATCTCAGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 28 0.41
43 13 0.19
44 28 0.41
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (43 bp):
TATCGATGCCTATGTCCTAGACACGGTCTTACACGAAATCACA
Found at i:27449831 original size:48 final size:46
Alignment explanation
Indices: 27449776--27450001 Score: 186
Period size: 48 Copynumber: 4.7 Consensus size: 46
27449766 TGAATTGTCA
* * *
27449776 ATGCCATGTTCCAAACATGGTGTTACACTGCCTCACATGCTGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTG-CTCACAT-CTGAGGCCG
* * *
27449824 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCGTATC-AATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-GCTCAC--ATCTGAGGCCG
* * * *
27449872 ATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-GCTCACAT-CTGAGGCCG
* * * * * *
27449920 ATGCCATGTCCTAGACAT-GTGCTTACACTAGCGCACATATCAATGCCA
1 ATGCCATGTCCCAGACATGGT-CTTACACT-GCTCACATCT-GAGGCCG
*
27449968 ATGCCATGTCCCAGACATGTTCTTACACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACT-GCTC
27450002 TCACAACATC
Statistics
Matches: 145, Mismatches: 25, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
46 2 0.01
47 4 0.03
48 134 0.92
49 3 0.02
50 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGCTCACATCTGAGGCCG
Found at i:27449945 original size:96 final size:96
Alignment explanation
Indices: 27449774--27450023 Score: 306
Period size: 96 Copynumber: 2.6 Consensus size: 96
27449764 GGTGAATTGT
* * * * * ** *
27449774 CAATGCCATGTTCCAAACATGGTGTTACACTGCCTCACATGCTGAGGCCGATGCCATGTCCCAGA
1 CAATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGA
* * *
27449839 CATGGTCTTACACTAGCTCCCGTATCAATGC
66 CATGGTCTTACACTAGCGCACATATCAATGC
* *
27449870 CGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGA
1 CAATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGA
27449935 CAT-GTGCTTACACTAGCGCACATATCAATGC
66 CATGGT-CTTACACTAGCGCACATATCAATGC
* * ** *
27449966 CAATGCCATGTCCCAGACAT-GTTCTTACACTAGCTCTCACAACATCGCCGATGCCATG
1 CAATGCCATGTCCCAGACATGGTT-TTACACTGGCTCTCATAATGTGGCCGATGCCATG
27450024 CATGGTCTTA
Statistics
Matches: 133, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
95 5 0.04
96 128 0.96
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (96 bp):
CAATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCGCACATATCAATGC
Found at i:27450020 original size:48 final size:48
Alignment explanation
Indices: 27449820--27450023 Score: 234
Period size: 48 Copynumber: 4.2 Consensus size: 48
27449810 ACATGCTGAG
* * * *
27449820 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCGTATCAAT
1 GCCGATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCATAACAAT
* **
27449868 GCCGATGCCATGTCCCAGACATGGTT-TTACACTGGCTCTCATAA-TGT
1 GCCGATGCCATGTCCCAGACAT-GTTCTTACACTAGCTCTCATAACAAT
* * * * *
27449915 GGCCGATGCCATGTCCTAGACATGTGCTTACACTAGCGCACATATCAAT
1 -GCCGATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCATAACAAT
* *
27449964 GCCAATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCACAAC-AT
1 GCCGATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCATAACAAT
27450011 CGCCGATGCCATG
1 -GCCGATGCCATG
27450024 CATGGTCTTA
Statistics
Matches: 128, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
47 5 0.04
48 120 0.94
49 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCATAACAAT
Found at i:27450095 original size:137 final size:140
Alignment explanation
Indices: 27449824--27450098 Score: 330
Period size: 137 Copynumber: 2.0 Consensus size: 140
27449814 GCTGAGGCCG
** *
27449824 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCGTATCAATGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCACAACAATGCCGATGCCA-GT--C-GACA
* *
27449889 TGGTTTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGACATGTGCTTACACTAGCGC
62 TGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGACATGTGCTTACACTAGCAC
27449954 ACATATCAATGCCA
127 ACATATCAATGCCA
* *
27449968 ATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCACAAC-ATCGCCGATGCCA-T-G-CATGG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCACAACAAT-GCCGATGCCAGTCGACATGG
* * * *
27450029 TCTTACACTGGCTTTCAT-ATCGTGGCCGATGCCATTTTCC-AGACTTG-GTCTTACACTGGCAC
65 TCTTACACTGGCTCTCATAAT-GTGGCCGATGCCA-TGTCCTAGACATGTG-CTTACACTAGCAC
27450091 ACATATCA
127 ACATATCA
27450099 CCCAAATATC
Statistics
Matches: 116, Mismatches: 11, Indels: 15
0.82 0.08 0.11
Matches are distributed among these distances:
136 3 0.03
137 59 0.51
138 5 0.04
142 1 0.01
143 2 0.02
144 46 0.40
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (140 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCACAACAATGCCGATGCCAGTCGACATGGT
CTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCTAGACATGTGCTTACACTAGCACACAT
ATCAATGCCA
Found at i:27452068 original size:460 final size:460
Alignment explanation
Indices: 27451208--27452128 Score: 1815
Period size: 460 Copynumber: 2.0 Consensus size: 460
27451198 ATGTAACATT
* *
27451208 GCCTTGTGTTGCACATGGTTGAGACACATTTGAATAGCCAACTTGCCACCCTAATTGGGTCAAGC
1 GCCTTGTGTTGCACATGGCTGAGACACATTTGAATAGCCAACTTGCCACCCTAATTGGGTCAAAC
27451273 CTATAAGCACCAAACCAAGCATATTTACACAACAATTTTAGCCAATTTCTAAACCAAACCATATA
66 CTATAAGCACCAAACCAAGCATATTTACACAACAATTTTAGCCAATTTCTAAACCAAACCATATA
27451338 ACATTCATGCGATAACATTGTCAACCATTTACATGCTTATAAACTCAACTCAATTGTGCCAAAAC
131 ACATTCATGCGATAACATTGTCAACCATTTACATGCTTATAAACTCAACTCAATTGTGCCAAAAC
27451403 ATAAGATCAAATCATATCAAAACATATGGTTTCATAATCTTTAAACTCATGACCAAATCTCATAC
196 ATAAGATCAAATCATATCAAAACATATGGTTTCATAATCTTTAAACTCATGACCAAATCTCATAC
27451468 CAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCACATTTCATATACCGAAATGAAA
261 CAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCACATTTCATATACCGAAATGAAA
*
27451533 ACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATAAACATTACAAATCATATCTAA
326 ACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATAAACATTACAAATCATATCCAA
27451598 AGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTCAAAAGGTACCAAAATGAGATT
391 AGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTCAAAAGGTACCAAAATGAGATT
27451663 TGATA
456 TGATA
27451668 GCCTTGTGTTGCACATGGCTGAGACACATTTGAATAGCCAACTTGCCACCCTAATTGGGTCAAAC
1 GCCTTGTGTTGCACATGGCTGAGACACATTTGAATAGCCAACTTGCCACCCTAATTGGGTCAAAC
27451733 CTATAAGCACCAAACCAAGCATATTTACACAACAATTTTAGCCAATTTCTAAACCAAACCATATA
66 CTATAAGCACCAAACCAAGCATATTTACACAACAATTTTAGCCAATTTCTAAACCAAACCATATA
27451798 ACATTCATGCGATAACATTGTCAACCATTTACATGCTTATAAACTCAACTCAATTGTGCCAAAAC
131 ACATTCATGCGATAACATTGTCAACCATTTACATGCTTATAAACTCAACTCAATTGTGCCAAAAC
27451863 ATAAGATCAAATCATATCAAAACATATGGTTTCATAATCTTTAAACTCATGACCAAATCTCATAC
196 ATAAGATCAAATCATATCAAAACATATGGTTTCATAATCTTTAAACTCATGACCAAATCTCATAC
27451928 CAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCACATTTCATATACCGAAATGAAA
261 CAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCACATTTCATATACCGAAATGAAA
27451993 ACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATAAACATTACAAATCATATCCAA
326 ACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATAAACATTACAAATCATATCCAA
27452058 AGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTCAAAAGGTACCAAAATGAGATT
391 AGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTCAAAAGGTACCAAAATGAGATT
27452123 TGATA
456 TGATA
27452128 G
1 G
27452129 TGTGGTGACG
Statistics
Matches: 458, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
460 458 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (460 bp):
GCCTTGTGTTGCACATGGCTGAGACACATTTGAATAGCCAACTTGCCACCCTAATTGGGTCAAAC
CTATAAGCACCAAACCAAGCATATTTACACAACAATTTTAGCCAATTTCTAAACCAAACCATATA
ACATTCATGCGATAACATTGTCAACCATTTACATGCTTATAAACTCAACTCAATTGTGCCAAAAC
ATAAGATCAAATCATATCAAAACATATGGTTTCATAATCTTTAAACTCATGACCAAATCTCATAC
CAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCACATTTCATATACCGAAATGAAA
ACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATAAACATTACAAATCATATCCAA
AGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTCAAAAGGTACCAAAATGAGATT
TGATA
Found at i:27452797 original size:508 final size:508
Alignment explanation
Indices: 27451842--27452856 Score: 1994
Period size: 508 Copynumber: 2.0 Consensus size: 508
27451832 GCTTATAAAC
*
27451842 TCAACTCAATTGTGCCAAAACATAAGATCAAATCATATCAAAACATATGGTTTCATAATCTTTAA
1 TCAACTCAATTGTGCCAAAACATAAGATCAAATCATATCAAAACATATGGTTTCATAATCGTTAA
27451907 ACTCATGACCAAATCTCATACCAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCAC
66 ACTCATGACCAAATCTCATACCAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCAC
27451972 ATTTCATATACCGAAATGAAAACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATA
131 ATTTCATATACCGAAATGAAAACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATA
27452037 AACATTACAAATCATATCCAAAGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTC
196 AACATTACAAATCATATCCAAAGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTC
27452102 AAAAGGTACCAAAATGAGATTTGATAGTGTGGTGACGATCCTCGACGATCCCCGAGCTCACAGTA
261 AAAAGGTACCAAAATGAGATTTGATAGTGTGGTGACGATCCTCGACGATCCCCGAGCTCACAGTA
27452167 GCTTCGATATCTATAAAACAATTTAAACACACACAAAGTAAGATTTCAAAATCTTGGTAAGCCAT
326 GCTTCGATATCTATAAAACAATTTAAACACACACAAAGTAAGATTTCAAAATCTTGGTAAGCCAT
27452232 ATACAAATAAACTTATCATTTAAAGCATATAAACATCATCAATTTACTTATACTTTGGAGCTAAA
391 ATACAAATAAACTTATCATTTAAAGCATATAAACATCATCAATTTACTTATACTTTGGAGCTAAA
27452297 TACCAACACAAACCTCATATTCATATACTTGGATCATAGATCATCATTTGCAT
456 TACCAACACAAACCTCATATTCATATACTTGGATCATAGATCATCATTTGCAT
27452350 TCAACTCAATTGTGCCAAAACATAAGATCAAATCATATCAAAACATATGGTTTCATAATCGTTAA
1 TCAACTCAATTGTGCCAAAACATAAGATCAAATCATATCAAAACATATGGTTTCATAATCGTTAA
* *
27452415 ACTCATGACCAAATCTCATACCAAAACTTATTGATGAACACATCAAATAGGTCATTTTACATCAC
66 ACTCATGACCAAATCTCATACCAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCAC
*
27452480 ATTTCATATACCGAAATGAAAACATAAACACAACCCTATCAAGCCGTATCACATATCTAAATATA
131 ATTTCATATACCGAAATGAAAACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATA
27452545 AACATTACAAATCATATCCAAAGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTC
196 AACATTACAAATCATATCCAAAGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTC
27452610 AAAAGGTACCAAAATGAGATTTGATAGTGTGGTGACGATCCTCGACGATCCCCGAGCTCACAGTA
261 AAAAGGTACCAAAATGAGATTTGATAGTGTGGTGACGATCCTCGACGATCCCCGAGCTCACAGTA
27452675 GCTTCGATATCTATAAAACAATTTAAACACACACAAAGTAAGATTTCAAAATCTTGGTAAGCCAT
326 GCTTCGATATCTATAAAACAATTTAAACACACACAAAGTAAGATTTCAAAATCTTGGTAAGCCAT
27452740 ATACAAATAAACTTATCATTTAAAGCATATAAACATCATCAATTTACTTATACTTTGGAGCTAAA
391 ATACAAATAAACTTATCATTTAAAGCATATAAACATCATCAATTTACTTATACTTTGGAGCTAAA
27452805 TACCAACACAAACCTCATATTCATATACTTGGATCATAGATCATCATTTGCA
456 TACCAACACAAACCTCATATTCATATACTTGGATCATAGATCATCATTTGCA
27452857 CATATACTTA
Statistics
Matches: 503, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
508 503 1.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (508 bp):
TCAACTCAATTGTGCCAAAACATAAGATCAAATCATATCAAAACATATGGTTTCATAATCGTTAA
ACTCATGACCAAATCTCATACCAAAACTTATTCATGAACACATCAAATAGATCATTTTACATCAC
ATTTCATATACCGAAATGAAAACATAAACACAACCCTATCAAGCCATATCACATATCTAAATATA
AACATTACAAATCATATCCAAAGTACTTCTAGCCTATACATGCCATACTTTACTATATACATTTC
AAAAGGTACCAAAATGAGATTTGATAGTGTGGTGACGATCCTCGACGATCCCCGAGCTCACAGTA
GCTTCGATATCTATAAAACAATTTAAACACACACAAAGTAAGATTTCAAAATCTTGGTAAGCCAT
ATACAAATAAACTTATCATTTAAAGCATATAAACATCATCAATTTACTTATACTTTGGAGCTAAA
TACCAACACAAACCTCATATTCATATACTTGGATCATAGATCATCATTTGCAT
Found at i:27460604 original size:86 final size:85
Alignment explanation
Indices: 27460435--27460604 Score: 186
Period size: 85 Copynumber: 2.0 Consensus size: 85
27460425 TAGAGAACAT
* * * * *
27460435 ATACAATGCCAATGTCCCAGACCTGGTCTTACATGTAATAAAACATCGATGCCACTTTCCGAGAC
1 ATACAATGCCAATGTCCCAAACATGGTCTTACACGTAATAAAACATCGATGCCACTATCCCAGAC
27460500 AGGGTCTTAAACAAAATCAG
66 AGGGTCTTAAACAAAATCAG
* *
27460520 ATACGATGCCAATGTCCTAAACATGGTCTTACACGTAA-AACAGA-AGTCGATGCCAAC-ATCCC
1 ATACAATGCCAATGTCCCAAACATGGTCTTACACGTAATAA-A-ACA-TCGATGCC-ACTATCCC
* *
27460582 AGAC-GTGGTCTTACACGAAATCA
62 AGACAG-GGTCTTAAACAAAATCA
27460605 CATAACAGAA
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
84 2 0.03
85 36 0.51
86 31 0.44
87 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (85 bp):
ATACAATGCCAATGTCCCAAACATGGTCTTACACGTAATAAAACATCGATGCCACTATCCCAGAC
AGGGTCTTAAACAAAATCAG
Found at i:27461923 original size:27 final size:27
Alignment explanation
Indices: 27461877--27461939 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
27461867 GCAAAACAGG
*
27461877 CATTTTACCCTACAGTGGTAAGTCGGT
1 CATTTTACACTACAGTGGTAAGTCGGT
**
27461904 CATTTTACACTACAAG-GGTATTTCGGT
1 CATTTTACACTAC-AGTGGTAAGTCGGT
*
27461931 AATTTTACA
1 CATTTTACA
27461940 AATCGACGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
CATTTTACACTACAGTGGTAAGTCGGT
Found at i:27461979 original size:53 final size:53
Alignment explanation
Indices: 27461918--27462227 Score: 224
Period size: 53 Copynumber: 5.8 Consensus size: 53
27461908 TTACACTACA
* *
27461918 AGGGTATTTCGGTAATTTTACAAATCGACGGTATTTTAGTAATTTCACAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCG
* * *
27461971 AGGGTATTTTGGTAATTTTACAAATCG-GGGTATTTT-GATAATTTTAAAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAG-TAATTTT-ACAATCG
** * * * * *
27462024 AGGGTATTTCAATAATTTCAC-AATTGAGGATA-TTTCGATAATTTTACAAAT-T
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAG-TAATTTTAC-AATCG
* * * * * *
27462076 AGGGGTATTTCAGTAATTTCAC-AATCGAGGG-ATTTCAGAAATTTTATAAATTG
1 A-GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTA-CAATCG
* * * * *
27462129 AGGGTATTTCGTTAAATTTA-ACAATCAAGGGTATTTTGGTAATTTTACAAACCG
1 AGGGTATTTCGGTAATTTTACA-AATCGAGGGTATTTTAGTAATTTTAC-AATCG
* * * * *
27462183 GGGGTACTTT-GATAATTTTACAAATCGGGGGTATTTCAATAATTT
1 AGGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTT
27462228 CTCTTTATTA
Statistics
Matches: 202, Mismatches: 40, Indels: 29
0.75 0.15 0.11
Matches are distributed among these distances:
51 1 0.00
52 49 0.24
53 102 0.50
54 46 0.23
55 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCG
Found at i:27462013 original size:79 final size:78
Alignment explanation
Indices: 27461919--27462179 Score: 249
Period size: 79 Copynumber: 3.3 Consensus size: 78
27461909 TACACTACAA
* * * * * *
27461919 GGGTATTTCGGTAATTTTACAAATCGACGGTATTTTAGTAATTTCACAATCGAGGGTATTTTGGT
1 GGGTATTTTGATAATTTTACAAATCGA-GGTATTTCAGTAATTTCACAATTGAGGGTATTTCGAT
27461984 AATTTTACAAATCG
65 AATTTTACAAATCG
* * * *
27461998 GGGTATTTTGATAATTTTAAAAATTGAGGGTATTTCAATAATTTCACAATTGAGGATATTTCGAT
1 GGGTATTTTGATAATTTTACAAATCGA-GGTATTTCAGTAATTTCACAATTGAGGGTATTTCGAT
*
27462063 AATTTTACAAATTAG
65 AATTTTACAAA-TCG
* * * * * * *
27462078 GGGTA-TTTCAGTAATTTCAC-AATCGAGGGATTTCAGAAATTTTATAAATTGAGGGTATTTCGT
1 GGGTATTTTGA-TAATTTTACAAATCGAGGTATTTCAGTAATTTCA-CAATTGAGGGTATTTCGA
* *
27462141 TAAATTTA-ACAATCAA
64 TAATTTTACA-AATC-G
*
27462157 GGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTGATAATTTTACAAA
27462180 CCGGGGGTAC
Statistics
Matches: 146, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
78 16 0.11
79 111 0.76
80 19 0.13
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (78 bp):
GGGTATTTTGATAATTTTACAAATCGAGGTATTTCAGTAATTTCACAATTGAGGGTATTTCGATA
ATTTTACAAATCG
Found at i:27462224 original size:27 final size:27
Alignment explanation
Indices: 27461918--27462227 Score: 255
Period size: 27 Copynumber: 11.7 Consensus size: 27
27461908 TTACACTACA
*
27461918 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
27461945 ACGGTATTT-TAGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
27461971 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
27461998 -GGGTATTTTGATAATTTTAAAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
27462024 AGGGTATTTCAATAATTTCAC-AATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
27462050 AGGATATTTCGATAATTTTACAAAT-T
1 AGGGTATTTCGATAATTTTACAAATCG
*
27462076 AGGGGTATTTC-AGTAATTTCAC-AATCG
1 A-GGGTATTTCGA-TAATTTTACAAATCG
* *
27462103 AGGG-ATTTCAGA-AATTTTATAAATTG
1 AGGGTATTTC-GATAATTTTACAAATCG
* * *
27462129 AGGGTATTTCGTTAAATTTA-ACAATCA
1 AGGGTATTTCGATAATTTTACA-AATCG
* * *
27462156 AGGGTATTTTGGTAATTTTACAAACCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
27462183 GGGGTACTTT-GATAATTTTACAAATCG
1 AGGGTA-TTTCGATAATTTTACAAATCG
* *
27462210 GGGGTATTTCAATAATTT
1 AGGGTATTTCGATAATTT
27462228 CTCTTTATTA
Statistics
Matches: 228, Mismatches: 38, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
25 11 0.05
26 88 0.39
27 125 0.55
28 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:27462576 original size:28 final size:28
Alignment explanation
Indices: 27462544--27462607 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
27462534 TGGCCCCTTT
* * *
27462544 AGGCCCAATCTCGTCCACATGGCCTATC
1 AGGCCCAATCACATCCACATGGCCCATC
* *
27462572 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATCCACATGGCCCATC
27462600 AGGCCCAA
1 AGGCCCAA
27462608 CTATTTTCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.38, G:0.17, T:0.19
Consensus pattern (28 bp):
AGGCCCAATCACATCCACATGGCCCATC
Found at i:27464308 original size:41 final size:40
Alignment explanation
Indices: 27464251--27464331 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 40
27464241 GTGTTCGGTA
*
27464251 CACACCTGATTCGCGACGACTGCTACTGAGATCTCTTCCG
1 CACACCTGATTCGCGACGACTGCTACCGAGATCTCTTCCG
27464291 NCACACCTGATTCGCGACGACTGCTACCGAGATCTCTTCCG
1 -CACACCTGATTCGCGACGACTGCTACCGAGATCTCTTCCG
27464332 ATGTCCTACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.23
Consensus pattern (40 bp):
CACACCTGATTCGCGACGACTGCTACCGAGATCTCTTCCG
Found at i:27472579 original size:53 final size:53
Alignment explanation
Indices: 27472513--27472619 Score: 180
Period size: 53 Copynumber: 2.0 Consensus size: 53
27472503 TACCCCTTAC
*
27472513 TCCTTTTTGATCTCCACGCAATCTGGTGCAGATTTATCTTTCAAACGACAGTA
1 TCCTTTTTGATCTCCACGCAATATGGTGCAGATTTATCTTTCAAACGACAGTA
*
27472566 TCCTTTTCT-ATCTCCACGCAATATGGTGTAGATTTATCTTTCAAACGACAGTA
1 TCCTTTT-TGATCTCCACGCAATATGGTGCAGATTTATCTTTCAAACGACAGTA
27472619 T
1 T
27472620 AACTCGACTC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
53 50 0.98
54 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.37
Consensus pattern (53 bp):
TCCTTTTTGATCTCCACGCAATATGGTGCAGATTTATCTTTCAAACGACAGTA
Found at i:27492274 original size:41 final size:40
Alignment explanation
Indices: 27492216--27492320 Score: 111
Period size: 41 Copynumber: 2.6 Consensus size: 40
27492206 ACCGGCATGT
* * *
27492216 AGCCTGCTAGGCTTAAAGCCTGATTCAGAACACCGACATTA
1 AGCCTGCTAGACGTAAAGTCTGATT-AGAACACCGACATTA
* *** * *
27492257 GGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGGCATTA
1 AGCCTGCTAGACGTAAAGTCTG-ATTAGAACACCGACATTA
27492298 AGCCTGCTAGACGTAAAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGA
27492321 ATTATTTTAG
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
40 1 0.02
41 49 0.92
42 3 0.06
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (40 bp):
AGCCTGCTAGACGTAAAGTCTGATTAGAACACCGACATTA
Found at i:27492321 original size:41 final size:41
Alignment explanation
Indices: 27492252--27492343 Score: 157
Period size: 41 Copynumber: 2.2 Consensus size: 41
27492242 AGAACACCGA
*
27492252 CATTAGGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGG
1 CATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGG
* *
27492293 CATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTTAGTGG
1 CATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGG
27492334 CATTAAGCCT
1 CATTAAGCCT
27492344 ACTAAGCATA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (41 bp):
CATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGG
Found at i:27492543 original size:61 final size:61
Alignment explanation
Indices: 27492460--27492590 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 61
27492450 ACATGAATAA
* * * * *
27492460 ATATATATAATTCATAACATTAAGTTTAGCTCAAAGAACTTGTATA-TTACATTCGAACCTC
1 ATATATATAATTCAAAACATTAAATTCAGCTCAAAGAACTTGTA-ACCTACATTCGAACCAC
* * * * *
27492521 ATATGTATAGTTCAAAACATTAAATTCAGCTCAATGAATTTGTAACCTATATTCGAACCAC
1 ATATATATAATTCAAAACATTAAATTCAGCTCAAAGAACTTGTAACCTACATTCGAACCAC
27492582 ATATATATA
1 ATATATATA
27492591 TAAAAATGTA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 1 0.02
61 57 0.98
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.35
Consensus pattern (61 bp):
ATATATATAATTCAAAACATTAAATTCAGCTCAAAGAACTTGTAACCTACATTCGAACCAC
Found at i:27492668 original size:65 final size:65
Alignment explanation
Indices: 27492542--27492684 Score: 164
Period size: 65 Copynumber: 2.2 Consensus size: 65
27492532 TCAAAACATT
* *
27492542 AAATTCAGCTCAATGAATTTGTAACCTATATTCGAACCACATATATATATAAAAATGTATATATC
1 AAATTCAGCTCAATGAATTTGCAACCTATATTCGAACCACATACATATATAAAAATGTATATATC
* * * * * *
27492607 AAATTCAGCTCAA-GAGATTTTGCAATCTATGTTTGAACCACATACGTATA-AGAAATTTATATA
1 AAATTCAGCTCAATGA-A-TTTGCAACCTATATTCGAACCACATACATATATAAAAATGTATATA
*
27492670 TT
64 TC
*
27492672 AAATTCAACTCAA
1 AAATTCAGCTCAA
27492685 AAACTTGAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
64 2 0.03
65 38 0.58
66 26 0.39
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (65 bp):
AAATTCAGCTCAATGAATTTGCAACCTATATTCGAACCACATACATATATAAAAATGTATATATC
Found at i:27500258 original size:41 final size:41
Alignment explanation
Indices: 27500197--27500332 Score: 157
Period size: 41 Copynumber: 3.3 Consensus size: 41
27500187 ATTCACGGAC
* * *
27500197 ATTAAGCGTGCTAGATGTAAAGTCTGAAATATTTCACCGGT
1 ATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACTGGT
* * *
27500238 ATTAAGCCTGTTAGACGTAAAGTCTGAATTATTTCATTGGT
1 ATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACTGGT
* * * * *
27500279 CTTTAGCCTGCTAGACGGAAAGTCT-AAATTATTTCAGTGGC
1 ATTAAGCCTGCTAGACGTAAAGTCTGAAA-TATTTCACTGGT
27500320 ATTAAGCCTGCTA
1 ATTAAGCCTGCTA
27500333 AGCACAGAGC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 2 0.03
41 77 0.97
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (41 bp):
ATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACTGGT
Found at i:27506132 original size:33 final size:33
Alignment explanation
Indices: 27506095--27506169 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
27506085 CTGTTGGGAC
* * * *
27506095 AGTAAATACCAAACAAAGTAAGTCCGCTAAGGT
1 AGTAAACACAAAACAAAGTAAATCCGCTAAGAT
* * *
27506128 AGTAAACACAAAATAGAGTAAATCCTCTAAGAT
1 AGTAAACACAAAACAAAGTAAATCCGCTAAGAT
27506161 AGTAAACAC
1 AGTAAACAC
27506170 GTGTAATGCC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (33 bp):
AGTAAACACAAAACAAAGTAAATCCGCTAAGAT
Found at i:27508799 original size:50 final size:50
Alignment explanation
Indices: 27508677--27508911 Score: 344
Period size: 50 Copynumber: 4.7 Consensus size: 50
27508667 TATCGATGAA
* * * *** *
27508677 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
* * *
27508728 CACATGTGTAGTACTAAGTGAAGGCTGCTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
27508778 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
* *
27508828 CACGTGTATAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
*
27508878 CACGTGCGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
27508912 TATCGAATGA
Statistics
Matches: 167, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 134 0.80
51 33 0.20
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
Found at i:27510086 original size:18 final size:18
Alignment explanation
Indices: 27510065--27510100 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27510055 TGAACGTATA
*
27510065 ATTGAATTTGGTTGAAAT
1 ATTGAAGTTGGTTGAAAT
*
27510083 ATTGAAGTTGTTTGAAAT
1 ATTGAAGTTGGTTGAAAT
27510101 TATGTTCCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (18 bp):
ATTGAAGTTGGTTGAAAT
Found at i:27515920 original size:11 final size:13
Alignment explanation
Indices: 27515904--27515936 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
27515894 AATTTCACAA
27515904 AAAATTTCG-T-G
1 AAAATTTCGTTCG
27515915 AAAATTTCGTTCG
1 AAAATTTCGTTCG
27515928 AAAATTTCG
1 AAAATTTCG
27515937 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:27520579 original size:19 final size:20
Alignment explanation
Indices: 27520537--27520579 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
27520527 TCATGCTTTC
*
27520537 TATTCAAATTTTCATATTCA
1 TATTCAAATTTTCAAATTCA
*
27520557 -ATTCACATTTTCAAATT-A
1 TATTCAAATTTTCAAATTCA
27520575 TATTC
1 TATTC
27520580 CACTTAGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCAAATTTTCAAATTCA
Found at i:27520725 original size:45 final size:45
Alignment explanation
Indices: 27520657--27520750 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
27520647 AACAGATACT
* * * *
27520657 CGGTGGATTCAGCACATATCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCATACTAATCAATGATGTC
* *
27520702 CGGTGGAATCAGTACATAGCAACCACCATACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCATACTAATCAATGATGTC
27520747 CGGT
1 CGGT
27520751 TCACATAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCATACTAATCAATGATGTC
Found at i:27520781 original size:26 final size:26
Alignment explanation
Indices: 27520752--27520832 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
27520742 ATGTTCGGTT
*
27520752 CACATAGTAGCCTGCACATGGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
* * *
27520778 CACAT-GTGGCCAT-TACCATCCG-A-TA
1 CACATAGTAGCC-TGCA-CAT-AGTACTA
*
27520803 CACGTAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
27520829 CACA
1 CACA
27520833 CGTGATCGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (26 bp):
CACATAGTAGCCTGCACATAGTACTA
Found at i:27520832 original size:51 final size:50
Alignment explanation
Indices: 27520756--27520942 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
27520746 TCGGTTCACA
* *
27520756 TAGTAGCCTGCACATGGTACTACACATGTGGCCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGATACACG
* * * * * ** *
27520807 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGTTATGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATCCGATACACG
* * *
27520858 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGATACACG
**
27520908 TAGTAGCCTGCACATAGTACTACACACATGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
27520943 CACTTTCACT
Statistics
Matches: 110, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 38 0.35
51 68 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGATACACG
Done.