Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 79 of 325
Found at i:25029204 original size:38 final size:36
Alignment explanation
Indices: 25029125--25029205 Score: 90
Period size: 38 Copynumber: 2.2 Consensus size: 36
25029115 ATTTTACGAA
* * * *
25029125 TGCATGACAAATCATGCCACTGATTCTATTACTGAT
1 TGCATGTCAAATCATGCCAATGATTCAACTACTGAT
* *
25029161 CGCATGTCTAAATCATGCCCAATGATTCAACTACTTAT
1 TGCATGTC-AAATCATG-CCAATGATTCAACTACTGAT
25029199 TGCATGT
1 TGCATGT
25029206 TTAACATGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
36 6 0.17
37 8 0.22
38 22 0.61
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (36 bp):
TGCATGTCAAATCATGCCAATGATTCAACTACTGAT
Found at i:25029330 original size:20 final size:20
Alignment explanation
Indices: 25029304--25029357 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
25029294 AAGTATCGAC
* *
25029304 AGCTTGTGTGCAATTCTGGT
1 AGCTTGTCTACAATTCTGGT
*
25029324 GGCTTGTCTACAATTCTGGT
1 AGCTTGTCTACAATTCTGGT
25029344 AGCTTGTCTACAAT
1 AGCTTGTCTACAAT
25029358 ACTAGCAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (20 bp):
AGCTTGTCTACAATTCTGGT
Found at i:25029475 original size:49 final size:49
Alignment explanation
Indices: 25029402--25029499 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
25029392 TACAATTTTG
**
25029402 ATAGTTTATCTACATTACTGGTGGCTTGTCCACAAACTGGTGTGTTATT
1 ATAGTTTATCTACATTACCAGTGGCTTGTCCACAAACTGGTGTGTTATT
*
25029451 ATAGTTTATCTACATTACCAGTGGCTTGTCCTCAAACTGGTGTGTTATT
1 ATAGTTTATCTACATTACCAGTGGCTTGTCCACAAACTGGTGTGTTATT
25029500 GGCTGTATGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (49 bp):
ATAGTTTATCTACATTACCAGTGGCTTGTCCACAAACTGGTGTGTTATT
Found at i:25055685 original size:56 final size:56
Alignment explanation
Indices: 25055599--25055718 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
25055589 ACAAGGGATG
25055599 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
25055655 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
25055711 ATGGGCAA
1 ATGGGCAA
25055719 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:25056873 original size:40 final size:39
Alignment explanation
Indices: 25056792--25056972 Score: 197
Period size: 39 Copynumber: 4.6 Consensus size: 39
25056782 CGAATGATGT
* * *
25056792 CGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGAC-CATATC
1 CGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAT-TC
* *
25056831 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATTC
* * *
25056871 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTC
* *
25056910 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAAC
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
25056950 CGGGCTATGTCCGAAGGCATTTG
1 CGGGCTAAGTCCGAAGGCATTTG
25056973 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
39 56 0.47
40 55 0.46
41 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:25056979 original size:39 final size:38
Alignment explanation
Indices: 25056792--25056972 Score: 193
Period size: 40 Copynumber: 4.6 Consensus size: 38
25056782 CGAATGATGT
* * * *
25056792 CGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTA-AAC
* * *
25056831 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA-AC
* *
25056871 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA-C
*
25056910 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AAC
*
25056950 CGGGCTATGTCCGAAGGCATTTG
1 CGGGCTAAGTCCGAAGGCATTTG
25056973 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 55 0.45
40 57 0.47
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAAC
Found at i:25056979 original size:79 final size:78
Alignment explanation
Indices: 25056842--25057005 Score: 197
Period size: 79 Copynumber: 2.1 Consensus size: 78
25056832 GGACTAAGAT
* **
25056842 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTA
*
25056906 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* * * *
25056921 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTA
* *
25056985 TATCCGGTTAAATT
65 AATCCGGTTAAATC
25056999 CCGAAGG
1 CCGAAGG
25057006 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
78 18 0.25
79 55 0.75
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:25062827 original size:56 final size:56
Alignment explanation
Indices: 25062741--25062860 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
25062731 ACAAGGGATG
25062741 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
25062797 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
25062853 ATGGGCAA
1 ATGGGCAA
25062861 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:25064225 original size:40 final size:40
Alignment explanation
Indices: 25063987--25064211 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
25063977 TCGAATGATG
* * * *
25063987 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
25064027 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25064067 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25064106 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25064146 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
25064187 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25064212 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25064233 original size:119 final size:119
Alignment explanation
Indices: 25063987--25064244 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
25063977 TCGAATGATG
* *
25063987 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
25064052 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
25064106 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
25064169 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
25064226 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
25064245 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:25073719 original size:40 final size:40
Alignment explanation
Indices: 25073672--25073800 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
25073662 TCTCACACGT
* * *
25073672 TAAGTGCCATACATAGCCGAAGCTATCTCAAATCACACAC
1 TAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCAAAC
*** *
25073712 TAAGTGCCATATATAGTTAAAGCTATCTCAAATCGCATAC
1 TAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCAAAC
*** * **
25073752 TAAGTGGTTTATATAGCCGAAGCTATATTGAATCGCAAAC
1 TAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCAAAC
25073792 TAAGTGCCA
1 TAAGTGCCA
25073801 CAAATAGTTG
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (40 bp):
TAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCAAAC
Found at i:25086805 original size:13 final size:13
Alignment explanation
Indices: 25086787--25086812 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25086777 CTAAGCCACC
25086787 CCACACGGGCGTG
1 CCACACGGGCGTG
25086800 CCACACGGGCGTG
1 CCACACGGGCGTG
25086813 TCCCTGTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.38, T:0.08
Consensus pattern (13 bp):
CCACACGGGCGTG
Found at i:25092225 original size:8 final size:8
Alignment explanation
Indices: 25092212--25092250 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
25092202 ATTGACAAAA
25092212 GCCGAAAT
1 GCCGAAAT
25092220 GCCGAAAT
1 GCCGAAAT
* *
25092228 ACCGAAAA
1 GCCGAAAT
*
25092236 GCCAAAAT
1 GCCGAAAT
25092244 GCCGAAA
1 GCCGAAA
25092251 AGCTGAAAGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.46, C:0.26, G:0.21, T:0.08
Consensus pattern (8 bp):
GCCGAAAT
Found at i:25092530 original size:29 final size:29
Alignment explanation
Indices: 25092498--25092584 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
25092488 TAACGGCCTG
* *
25092498 TATAAATGTGATTTGGGCCTAATGGGGCA
1 TATAAATGTGATTTGGGCTTAATGGGCCA
* * *
25092527 TATATAGGTGATTTGGGCTTAAAGAGGCCA
1 TATAAATGTGATTTGGGCTTAATG-GGCCA
* *
25092557 TATGAATATGA-TTGGGCTTAATGGGCCA
1 TATAAATGTGATTTGGGCTTAATGGGCCA
25092585 GATATAGGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
28 5 0.11
29 31 0.66
30 11 0.23
ACGTcount: A:0.29, C:0.10, G:0.30, T:0.31
Consensus pattern (29 bp):
TATAAATGTGATTTGGGCTTAATGGGCCA
Found at i:25100402 original size:40 final size:40
Alignment explanation
Indices: 25100352--25100511 Score: 214
Period size: 40 Copynumber: 4.0 Consensus size: 40
25100342 ATTTAGTCGA
*
25100352 ATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
1 ATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
25100392 ATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
1 ATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
* * * * *
25100432 ATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGG
1 ATAT-AGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
** * *
25100472 ATATAGCAACTCGCATGAATGCCTTCGGATCTTAGTCCGG
1 ATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
25100512 TTATCATCTG
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
ATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
Found at i:25105564 original size:39 final size:39
Alignment explanation
Indices: 25105510--25105586 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
25105500 GATTAAACAT
25105510 ACGATTAATGGAAGGGTGATATCATTGTAGGTTGGTGAA
1 ACGATTAATGGAAGGGTGATATCATTGTAGGTTGGTGAA
25105549 ACGATTAATGGAAGGGTGATATCATTGTAGGTTGGTGA
1 ACGATTAATGGAAGGGTGATATCATTGTAGGTTGGTGA
25105587 CTAAGGGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.30, C:0.05, G:0.34, T:0.31
Consensus pattern (39 bp):
ACGATTAATGGAAGGGTGATATCATTGTAGGTTGGTGAA
Found at i:25105965 original size:29 final size:29
Alignment explanation
Indices: 25105930--25105994 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
25105920 AATGTGACTG
* *
25105930 GGCCTAACGGGCCGTATAAATGTGATTTA
1 GGCCTAACGGGCCATATAAAGGTGATTTA
* * *
25105959 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAACGGGCCATATAAAGGTGATTTA
25105988 GGCCTAA
1 GGCCTAA
25105995 AAAGGCCATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (29 bp):
GGCCTAACGGGCCATATAAAGGTGATTTA
Found at i:25118404 original size:4 final size:4
Alignment explanation
Indices: 25118395--25118420 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
25118385 AAATATGTAT
25118395 ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC AT
25118421 CTTAGTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:25122688 original size:26 final size:27
Alignment explanation
Indices: 25122603--25122795 Score: 159
Period size: 27 Copynumber: 7.4 Consensus size: 27
25122593 CCTCAAAATA
*
25122603 GGTAAAATGACCATAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAG
* *
25122630 GGTAAAATAACCGTAATGTCCC-TATAG
1 GGTAAAATGACCGTAATG-CCCTTGTAG
** *
25122657 AAT-AAATGACCGTAACGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAG
*
25122683 GGTAAAATGACCGTAA------TATAG
1 GGTAAAATGACCGTAATGCCCTTGTAG
* * *
25122704 GGTAAAATGATCGTACTGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAG
* * * *
25122731 GATAAAATGACCGTAATGCCCCTATCG
1 GGTAAAATGACCGTAATGCCCTTGTAG
** * *
25122758 GGTAAAATGACTATAATACCCTTGTAT
1 GGTAAAATGACCGTAATGCCCTTGTAG
25122785 GGTAAAATGAC
1 GGTAAAATGAC
25122796 GATTATGCCC
Statistics
Matches: 130, Mismatches: 27, Indels: 18
0.74 0.15 0.10
Matches are distributed among these distances:
21 18 0.14
25 3 0.02
26 17 0.13
27 89 0.68
28 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCTTGTAG
Found at i:25122761 original size:75 final size:74
Alignment explanation
Indices: 25122627--25122768 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 74
25122617 AATGCCCTTG
* * *
25122627 TAGGGTAAAATAACCGTAATGTCCCTATAGAATAAATGACCGTAACGCCCTTGTAGGGTAAAATG
1 TAGGGTAAAATAACCGTAATGCCCCTATAGAATAAATGACCGTAACGCCCCTATAGGGTAAAATG
25122692 ACCGTAATA
66 ACCGTAATA
* * * * * * *
25122701 TAGGGTAAAATGATCGTACTGCCCCTGTAGGATAAAATGACCGTAATGCCCCTATCGGGTAAAAT
1 TAGGGTAAAATAACCGTAATGCCCCTATAGAAT-AAATGACCGTAACGCCCCTATAGGGTAAAAT
25122766 GAC
65 GAC
25122769 TATAATACCC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
74 27 0.47
75 30 0.53
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (74 bp):
TAGGGTAAAATAACCGTAATGCCCCTATAGAATAAATGACCGTAACGCCCCTATAGGGTAAAATG
ACCGTAATA
Found at i:25124398 original size:40 final size:40
Alignment explanation
Indices: 25124352--25124482 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 40
25124342 TATCTTGCAT
* * *
25124352 ACTAAGTGCCATACATAGCCGAAGCTATCTAAAATCACAC
1 ACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCAC
* **
25124392 GCTAAGTAACATATATAGCCGAAGCTATCTCAAATCGCAC
1 ACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCAC
* * *
25124432 ACTAAGTGCCATATATAGCCGAAGTTATGTCGAATCGCAC
1 ACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCAC
25124472 ACTAAGTGCCA
1 ACTAAGTGCCA
25124483 CAAATAGTTG
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (40 bp):
ACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCGCAC
Found at i:25134736 original size:79 final size:81
Alignment explanation
Indices: 25134594--25134778 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
25134584 TTGAATGATG
*
25134594 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAAGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAAGCATT
25134658 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * *
25134673 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-CAGTTACTAAATCC-GAGTTAAG-TCTCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGA-CTAAGATC-CGAAAGC
*
25134734 ATTTGTGCGAGTTACTATA
63 ATTTGTGCGAGATACTATA
* *
25134753 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25134779 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 4 0.04
79 54 0.59
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAAGCATT
TGTGCGAGATACTATA
Found at i:25134785 original size:40 final size:40
Alignment explanation
Indices: 25134594--25134778 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
25134584 TTGAATGATG
* * * *
25134594 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
25134634 TCCGGACTAAGAT-CCGAAAGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25134674 TCCGGGCTAAG-CCCGAAGGCATTTGTGCCAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
25134713 TCCGAGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
25134754 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25134779 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 32 0.27
40 77 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25134801 original size:79 final size:78
Alignment explanation
Indices: 25134595--25134809 Score: 188
Period size: 79 Copynumber: 2.7 Consensus size: 78
25134585 TGAATGATGT
** * * * *
25134595 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAAGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-CAGTTACTATATCCGG-TTAAGATCCGAAAGCATTT
*
25134659 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
** * *
25134675 CCGGGCTAAGCCCGAAGGCATTTGTGCCAGTTACTAAATCCGAGTTAAG-TCTCGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTTGAACCAGTTACTATATCCG-GTTAAGATC-CGAAAGCATTTG
*
25134739 TGCGAGTTACT-ATAA
64 TGCGAGATACTAAT-A
* *
25134754 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAA-ATTCCGAA
1 CCGGGCTAAG-CCCGAAGGCATTTGAACCAGTTA-CTATATCCGGTTAAGA-TCCGAA
25134810 GGTACGTGAT
Statistics
Matches: 114, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
78 4 0.04
79 65 0.57
80 45 0.39
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACCAGTTACTATATCCGGTTAAGATCCGAAAGCATTTGTG
CGAGATACTAATA
Found at i:25153947 original size:13 final size:13
Alignment explanation
Indices: 25153929--25153955 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25153919 AAAGAAGTCG
25153929 CACACGGGCGTGT
1 CACACGGGCGTGT
25153942 CACACGGGCGTGT
1 CACACGGGCGTGT
25153955 C
1 C
25153956 CTGCTGAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:25156615 original size:50 final size:49
Alignment explanation
Indices: 25156505--25156734 Score: 239
Period size: 50 Copynumber: 4.7 Consensus size: 49
25156495 CTGGTACGTA
* * *
25156505 TAGTAGCCTGTACTTAGCACTACACA--TGCACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTG-ACCAATTATCTGGTACACG
* * ** *
25156553 TAGTATCCTGCACTTAGTACTACAAACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACACG
* * * * *
25156603 TAGTAGCATGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGGTACACG
* * * * * *
25156654 TAGTTGCTTGCACTTATTACTGCACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
25156703 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
25156735 ATCACAATAA
Statistics
Matches: 143, Mismatches: 34, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
48 22 0.15
49 40 0.28
50 47 0.33
51 34 0.24
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
Found at i:25161861 original size:50 final size:49
Alignment explanation
Indices: 25161737--25161979 Score: 238
Period size: 50 Copynumber: 4.9 Consensus size: 49
25161727 TATCCAAAGC
* * *
25161737 TATCTGGTACGCATAGTAGCCTGCACTTAGCACTACAC-A-TGCACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAAGTG-ACCAAT
* * *
25161785 TATCCGGTACACGTAGTATCCTGCACTTAGTACTACACAAGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAAGTGACC-AAT
* * * * *
25161835 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTAATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAAGTGA-CCAA-T
* ** * * * * * *
25161886 TATCGGGTATGCATAGTAGCCTGGACTTGGTAATACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAAGTGACCAAT
* *
25161935 TATCTGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAAGTGAC
25161980 GTCACAATAG
Statistics
Matches: 154, Mismatches: 36, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
48 33 0.21
49 41 0.27
50 47 0.31
51 33 0.21
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAAGTGACCAAT
Found at i:25171252 original size:12 final size:13
Alignment explanation
Indices: 25171224--25171258 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
25171214 AATAAAGAAA
25171224 AAAAAGGAAATGGG
1 AAAAA-GAAATGGG
25171238 AAAAAGAAA-GGG
1 AAAAAGAAATGGG
25171250 AAAAAGAAA
1 AAAAAGAAA
25171259 AAGGAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 4 0.19
14 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.03
Consensus pattern (13 bp):
AAAAAGAAATGGG
Found at i:25172367 original size:27 final size:25
Alignment explanation
Indices: 25172310--25172374 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
25172300 CACTTATGAA
*
25172310 AAATTATAAAAAAAATAAAAATATTAC
1 AAATTAT--AAAAAATAAAAATATAAC
* *
25172337 AAATATTATAAAAAATAAAAATCTAAT
1 -AA-ATTATAAAAAATAAAAATATAAC
25172364 AAATTATAAAA
1 AAATTATAAAA
25172375 TTGATAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 9 0.27
26 2 0.06
27 15 0.45
28 2 0.06
29 5 0.15
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (25 bp):
AAATTATAAAAAATAAAAATATAAC
Found at i:25173913 original size:17 final size:16
Alignment explanation
Indices: 25173892--25173932 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
25173882 ACAAAACTTC
*
25173892 TAAAAATAGAAAACAT
1 TAAAAATAGAAAACAA
*
25173908 TAAAAATAGCAAACAA
1 TAAAAATAGAAAACAA
25173924 TAAAAATAG
1 TAAAAATAG
25173933 TAGTCCTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.17
Consensus pattern (16 bp):
TAAAAATAGAAAACAA
Found at i:25174209 original size:20 final size:20
Alignment explanation
Indices: 25174186--25174225 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25174176 TTTGATTATC
25174186 AACAAAAATCTTTGTGCTTT
1 AACAAAAATCTTTGTGCTTT
25174206 AACAAAAATCTTTGTGCTTT
1 AACAAAAATCTTTGTGCTTT
25174226 CCTTCTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
AACAAAAATCTTTGTGCTTT
Found at i:25176181 original size:38 final size:37
Alignment explanation
Indices: 25176139--25176223 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 37
25176129 ATTAAAACAC
* *
25176139 AATTAAAACATGTATTAAAGATGTTCA-AGCTAGGACAT
1 AATTAAAACA-CTAATAAAGATGTTCAGA-CTAGGACAT
* * *
25176177 AATTAAAGACACTAATAATGATGTTCAGATTATGACAT
1 AATTAAA-ACACTAATAAAGATGTTCAGACTAGGACAT
25176215 AATTAAAAC
1 AATTAAAAC
25176224 TCATATTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
37 2 0.05
38 34 0.85
39 4 0.10
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (37 bp):
AATTAAAACACTAATAAAGATGTTCAGACTAGGACAT
Found at i:25176234 original size:38 final size:38
Alignment explanation
Indices: 25176158--25176269 Score: 106
Period size: 38 Copynumber: 3.0 Consensus size: 38
25176148 ATGTATTAAA
* * *
25176158 GATGTTCAAGCTAGGACATAATTAAAGACACTAATAAT
1 GATGTCCAAGTTATGACATAATTAAAGACACTAATAAT
* * *
25176196 GATGTTC-AGATTATGACATAATTAAA-ACTCATATTAAT
1 GATGTCCAAG-TTATGACATAATTAAAGACAC-TAATAAT
* *
25176234 GTTGTCCAAGTTATAACATAATTAAAG--ACTAATAAT
1 GATGTCCAAGTTATGACATAATTAAAGACACTAATAAT
25176270 TAAAATAACT
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
36 6 0.10
37 6 0.10
38 47 0.77
39 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (38 bp):
GATGTCCAAGTTATGACATAATTAAAGACACTAATAAT
Found at i:25176426 original size:36 final size:36
Alignment explanation
Indices: 25176377--25176446 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
25176367 GGAGTGCATG
* * * *
25176377 CCCAAGCTCGATCAATGAGTCCTACAATAGCTTCTC
1 CCCAAACTCGATCAATGAGGCCAAAAATAGCTTCTC
*
25176413 CCCAAACTTGATCAATGAGGCCAAAAATAGCTTC
1 CCCAAACTCGATCAATGAGGCCAAAAATAGCTTC
25176447 CTTAAACCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (36 bp):
CCCAAACTCGATCAATGAGGCCAAAAATAGCTTCTC
Found at i:25186537 original size:16 final size:16
Alignment explanation
Indices: 25186499--25186537 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
25186489 CAAAACTCCT
* *
25186499 AAAATAACAAACATTA
1 AAAATAGCAAACACTA
25186515 AAAATAGCAAACACTA
1 AAAATAGCAAACACTA
25186531 AAAATAG
1 AAAATAG
25186538 TAGTCCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.67, C:0.13, G:0.05, T:0.15
Consensus pattern (16 bp):
AAAATAGCAAACACTA
Found at i:25186837 original size:29 final size:29
Alignment explanation
Indices: 25186794--25186870 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 29
25186784 TATTTCAAAT
* * * *
25186794 TAAAAAATATTAAAATTGATATAAACTTA
1 TAAAAATTATAAAAATTCATAAAAACTTA
*
25186823 TAAAAATTATAAAAAAAGTCATAAAAACTTA
1 TAAAAATTAT--AAAAATTCATAAAAACTTA
*
25186854 TAAGAATTATAAAAATT
1 TAAAAATTATAAAAATT
25186871 TACAAAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 15 0.38
31 24 0.62
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (29 bp):
TAAAAATTATAAAAATTCATAAAAACTTA
Found at i:25186839 original size:40 final size:37
Alignment explanation
Indices: 25186795--25186909 Score: 97
Period size: 40 Copynumber: 2.9 Consensus size: 37
25186785 ATTTCAAATT
25186795 AAAAAATATTAAAATTGATATAAACTTATAAAAATTATAA
1 AAAAAATATTAAAATT-ATATAAA-TTATAAAAATT-TAA
* * *
25186835 AAAAAGTCATAAAAACTTATA-AGAATTATAAAAATTTAC
1 AAAAAAT-ATTAAAA-TTATATA-AATTATAAAAATTTAA
* *
25186874 AAAAAATATATATAAGTTCAAATAAATTATAAAAAT
1 AAAAAATAT-TA-AAATT-ATATAAATTATAAAAAT
25186910 ATTTTTAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
38 2 0.03
39 11 0.18
40 34 0.56
41 12 0.20
42 2 0.03
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (37 bp):
AAAAAATATTAAAATTATATAAATTATAAAAATTTAA
Found at i:25186856 original size:10 final size:9
Alignment explanation
Indices: 25186790--25186870 Score: 58
Period size: 9 Copynumber: 8.6 Consensus size: 9
25186780 AAGTTATTTC
25186790 AAATTA-AA
1 AAATTATAA
*
25186798 AAA-TATTA
1 AAATTATAA
25186806 AAATTGATATA
1 AAATT-ATA-A
*
25186817 AACTTATAA
1 AAATTATAA
25186826 AAATTATAAAA
1 AAATTAT--AA
*
25186837 AAAGTCATAA
1 AAA-TTATAA
25186847 AAACTTATAA
1 AAA-TTATAA
*
25186857 GAATTATAA
1 AAATTATAA
25186866 AAATT
1 AAATT
25186871 TACAAAAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
7 2 0.04
8 7 0.12
9 18 0.32
10 17 0.30
11 10 0.18
12 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (9 bp):
AAATTATAA
Found at i:25189938 original size:36 final size:36
Alignment explanation
Indices: 25189865--25189947 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
25189855 GTGTTTTTTA
* *
25189865 TTTTAGGGTTTAAGGTTTAATGTCTATTATTTAGGG
1 TTTTAGGGTTTAAGGTTTAATATCTAGTATTTAGGG
* * * * *
25189901 TTTTAGGGTTTATGGTTTAGTATTTAGTGTTTTGGG
1 TTTTAGGGTTTAAGGTTTAATATCTAGTATTTAGGG
*
25189937 -TTTAAGGTTTA
1 TTTTAGGGTTTA
25189948 GTATTTTAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 10 0.26
36 29 0.74
ACGTcount: A:0.19, C:0.01, G:0.27, T:0.53
Consensus pattern (36 bp):
TTTTAGGGTTTAAGGTTTAATATCTAGTATTTAGGG
Found at i:25189946 original size:28 final size:29
Alignment explanation
Indices: 25189866--25189953 Score: 108
Period size: 28 Copynumber: 3.1 Consensus size: 29
25189856 TGTTTTTTAT
* * * *
25189866 TTTAGGG-TTTAAGGTTTAATGTCTATTA
1 TTTAGGGTTTTAGGGTTTAAGGTTTAGTA
*
25189894 TTTAGGGTTTTAGGGTTTATGGTTTAGTA
1 TTTAGGGTTTTAGGGTTTAAGGTTTAGTA
*
25189923 TTTAGTGTTTT-GGGTTTAAGGTTTAGTA
1 TTTAGGGTTTTAGGGTTTAAGGTTTAGTA
25189951 TTT
1 TTT
25189954 TAAGATTTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
28 26 0.50
29 26 0.50
ACGTcount: A:0.19, C:0.01, G:0.26, T:0.53
Consensus pattern (29 bp):
TTTAGGGTTTTAGGGTTTAAGGTTTAGTA
Found at i:25189999 original size:21 final size:21
Alignment explanation
Indices: 25189894--25189999 Score: 88
Period size: 21 Copynumber: 5.0 Consensus size: 21
25189884 ATGTCTATTA
*
25189894 TTTAGGGTTTTAG-GGTTTATGG
1 TTTAGGG-TTTAGTGTTTTAT-G
** **
25189916 TTTAGTATTTAGTGTTTTGGG
1 TTTAGGGTTTAGTGTTTTATG
* * *
25189937 TTTAAGGTTTAGTATTTTAAG
1 TTTAGGGTTTAGTGTTTTATG
*
25189958 ATTTAGAGTTTAGTGTTTTATG
1 -TTTAGGGTTTAGTGTTTTATG
*
25189980 TTTGGGGTTTAGTGTTTTAT
1 TTTAGGGTTTAGTGTTTTAT
25190000 AGACTATGGT
Statistics
Matches: 65, Mismatches: 17, Indels: 5
0.75 0.20 0.06
Matches are distributed among these distances:
21 39 0.60
22 26 0.40
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (21 bp):
TTTAGGGTTTAGTGTTTTATG
Found at i:25192734 original size:34 final size:33
Alignment explanation
Indices: 25192683--25192746 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
25192673 TTTCAGTGAT
* *
25192683 AGTTCAGTATCAGTGTGGGCCTTAGGCCATAGC
1 AGTTCAGTATCAATGTGGGCCTTAGCCCATAGC
25192716 AGTTACAGTATCAATGTGGGCCTTAGCCCAT
1 AGTT-CAGTATCAATGTGGGCCTTAGCCCAT
25192747 TACAGTAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (33 bp):
AGTTCAGTATCAATGTGGGCCTTAGCCCATAGC
Found at i:25192762 original size:34 final size:34
Alignment explanation
Indices: 25192687--25192755 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
25192677 AGTGATAGTT
* * *
25192687 CAGTATCAGTGTGGGCCTTAGGCCATAGCAGTTA
1 CAGTATCAATGTGGGCCTTAGCCCATAGCAGTAA
25192721 CAGTATCAATGTGGGCCTTAGCCCATTA-CAGTAA
1 CAGTATCAATGTGGGCCTTAGCCCA-TAGCAGTAA
25192755 C
1 C
25192756 GATATCAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (34 bp):
CAGTATCAATGTGGGCCTTAGCCCATAGCAGTAA
Found at i:25198540 original size:26 final size:26
Alignment explanation
Indices: 25198504--25198555 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
25198494 CACCACTGAA
* *
25198504 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
25198530 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
25198556 CTTTCACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:25198685 original size:104 final size:103
Alignment explanation
Indices: 25198472--25198737 Score: 426
Period size: 104 Copynumber: 2.6 Consensus size: 103
25198462 TAACCGTTAT
* * *
25198472 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCATCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
25198537 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
25198575 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
25198640 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * * **
25198679 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
25198738 TTTATATACA
Statistics
Matches: 151, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
103 56 0.37
104 94 0.62
105 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:25199099 original size:29 final size:29
Alignment explanation
Indices: 25199066--25199129 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
25199056 TAATCCACCA
25199066 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
25199095 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
25199125 CCCAA
1 CCCAA
25199130 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:25199103 original size:30 final size:30
Alignment explanation
Indices: 25199073--25199129 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
25199063 CCACCCAACT
25199073 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
25199102 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
25199130 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:25205542 original size:23 final size:22
Alignment explanation
Indices: 25205491--25205542 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
25205481 CCTCGTCTTT
*
25205491 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
25205513 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
25205536 TTCTTTT
1 TTCTTTT
25205543 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:25218193 original size:34 final size:34
Alignment explanation
Indices: 25218155--25218232 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
25218145 AGTGACAGTT
* *
25218155 CAGTATCAGTGT-GGCCTTTATCCCA-TAGCAGTGA
1 CAGTATCAGTGTGGGCC-TTAGCCCATTA-CAGTAA
* *
25218189 CAGTATCAATGTGGGCCTTAGCCCATTATAGTAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
25218223 CAGTATCAGT
1 CAGTATCAGT
25218233 AATGCAATAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 31 0.84
35 6 0.16
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
Found at i:25221948 original size:16 final size:16
Alignment explanation
Indices: 25221918--25221950 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25221908 CAGGAACTAA
25221918 ATTATAAATAACATTC
1 ATTATAAATAACATTC
25221934 ATTA-AAATAAGCATTC
1 ATTATAAATAA-CATTC
25221950 A
1 A
25221951 ATAGCATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (16 bp):
ATTATAAATAACATTC
Found at i:25222611 original size:24 final size:25
Alignment explanation
Indices: 25222562--25222616 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
25222552 CATTACCGAT
*
25222562 CAGGATGCTCGTAGAAACTATATAA
1 CAGGATGCTCGAAGAAACTATATAA
*
25222587 CAGGATGCTC-AAGAAGGCTAT-TAA
1 CAGGATGCTCGAAGAA-ACTATATAA
25222611 CAGGAT
1 CAGGAT
25222617 TCTTGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (25 bp):
CAGGATGCTCGAAGAAACTATATAA
Found at i:25225417 original size:27 final size:27
Alignment explanation
Indices: 25225398--25225554 Score: 188
Period size: 27 Copynumber: 5.8 Consensus size: 27
25225388 ATTATCAAAG
*
25225398 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
25225425 TATCCTCGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
25225452 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
** * *
25225479 TACCCTTAATTTATAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
25225506 TTCCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
25225533 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
25225555 TAAAATACCC
Statistics
Matches: 111, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:25225443 original size:54 final size:54
Alignment explanation
Indices: 25225385--25225583 Score: 202
Period size: 54 Copynumber: 3.7 Consensus size: 54
25225375 CTCAATTTGT
* * *
25225385 AAAATTATCAAAGTACCCTCGATTTACAGAATTACCGTTTTATCCTCGATTTAC
1 AAAATTATCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
** * * ** *
25225439 AAAATTATCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTTAATTTAT
1 AAAATTATCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
* ** * * *
25225493 AGAATTATCATTTTTCCCTCGATTTATAGAATTACTATTTTACCCTCGATTTAC
1 AAAATTATCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
* * * *
25225547 AAAATTA-CTAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTATC-AAATTACCCTCGATTTACAGAATTACCA
25225584 AAATACCCCT
Statistics
Matches: 117, Mismatches: 27, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
53 1 0.01
54 116 0.99
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.40
Consensus pattern (54 bp):
AAAATTATCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
Found at i:25225563 original size:27 final size:27
Alignment explanation
Indices: 25225353--25225700 Score: 144
Period size: 27 Copynumber: 12.9 Consensus size: 27
25225343 AATACTTTAG
* * ** *
25225353 TTTACCAAATTACTAAAATGTCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
** * *
25225380 TTTGTAAAATTATCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* **** *
25225407 TTTACAGAATTACCGTTTTATCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* *** *
25225434 TTTACAAAATTATCATTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *** **
25225461 TTTATAGAATTACCATTTTACCCTTAA
1 TTTACAAAATTACCAAAATACCCTCGA
* * * *** *
25225488 TTTATAGAATTATCATTTTTCCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * * ***
25225515 TTTATAGAATTACTATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *
25225542 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCGA
*
25225569 TTTACAAAATTACCAAAATACCC-CTA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
25225595 GTTTGTAAAATTACCAAAATACCACTAG-
1 -TTTACAAAATTACCAAAATACC-CTCGA
*** * *
25225623 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
25225650 TTTGTAAAATTACCAAAATACCC-CTAA
1 TTTACAAAATTACCAAAATACCCTC-GA
*
25225677 TTTACAAAATTACAAAAATACCCT
1 TTTACAAAATTACCAAAATACCCT
25225701 TGAATTTCTA
Statistics
Matches: 257, Mismatches: 58, Indels: 11
0.79 0.18 0.03
Matches are distributed among these distances:
26 3 0.01
27 253 0.98
28 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:25225564 original size:81 final size:81
Alignment explanation
Indices: 25225385--25225583 Score: 195
Period size: 81 Copynumber: 2.5 Consensus size: 81
25225375 CTCAATTTGT
* * ** *
25225385 AAAATTATCAAAGTACCCTCGATTTACAGAATTACCGTTTTATCCTCGATTTACAAAATTATCAT
1 AAAATTACCAAAATACCCTTAATTTACAGAATTACCATTTTATCCTCGATTTACAAAATTATCAT
* *
25225450 TTTACCCTTGATTTAT
66 TTTACCCTCGATTTAC
* *** * * * *
25225466 AGAATTACCATTTTACCCTTAATTTATAGAATTATCATTTT-TCCCTCGATTTATAGAATTA-CT
1 AAAATTACCAAAATACCCTTAATTTACAGAATTACCATTTTAT-CCTCGATTTACAAAATTATC-
25225529 ATTTTACCCTCGATTTAC
64 ATTTTACCCTCGATTTAC
* ** *
25225547 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTACCAAAATACCCTTAATTTACAGAATTACCA
25225584 AAATACCCCT
Statistics
Matches: 92, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
80 2 0.02
81 90 0.98
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.40
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTAATTTACAGAATTACCATTTTATCCTCGATTTACAAAATTATCAT
TTTACCCTCGATTTAC
Found at i:25225591 original size:54 final size:54
Alignment explanation
Indices: 25225533--25225744 Score: 180
Period size: 54 Copynumber: 3.9 Consensus size: 54
25225523 ATTACTATTT
* * *
25225533 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGCAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * *** *
25225587 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TAGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTGCAAAATTACCAAAATACC-CTTAGTTTACAAAATTACCAAAA
* * * * *
25225641 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAAAAA
1 TACCCTCGATTTGCAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * * *
25225695 TACCCTTGAATTT-CTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTA
1 TACCCTCG-ATTTGC--AAAATTACCA-AAATACCCTTAGTTTACAAAATTA
25225745 TTGAAATACC
Statistics
Matches: 126, Mismatches: 24, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
53 3 0.02
54 88 0.70
55 8 0.06
56 27 0.21
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTGCAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
Found at i:25225633 original size:81 final size:83
Alignment explanation
Indices: 25225547--25225785 Score: 225
Period size: 81 Copynumber: 2.9 Consensus size: 83
25225537 CTCGATTTAC
25225547 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
* *
25225612 AATACCAC-T-AGTTTGT-
66 AATACC-CTTGAATTTCTA
* ** *** ** * ** *
25225628 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAAA
1 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
25225693 AATACCCTTGAATTTCTA
66 AATACCCTTGAATTTCTA
* *** * * * *
25225711 AAAATTA-TAGAAATACCATTGGTTTACAAAATTATTGAAATACCCTTGGTTTGTAGATTTACCA
1 AAAATTACTA-AAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
*
25225775 AAACACCCTTG
65 AAATACCCTTG
25225786 TAGGATGAAA
Statistics
Matches: 119, Mismatches: 35, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
80 1 0.01
81 60 0.50
82 5 0.04
83 53 0.45
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (83 bp):
AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
AATACCCTTGAATTTCTA
Found at i:25225724 original size:29 final size:27
Alignment explanation
Indices: 25225677--25225762 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
25225667 ATACCCCTAA
* * *
25225677 TTTACAAAATTACAAAAATACCCTTGAA
1 TTTACAAAATTATAGAAATACCCTTG-G
*
25225705 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCCTTGG
*
25225733 TTTACAAAATTATTGAAATACCCTTGG
1 TTTACAAAATTATAGAAATACCCTTGG
25225760 TTT
1 TTT
25225763 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
27 24 0.49
28 6 0.12
29 19 0.39
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCCTTGG
Found at i:25225847 original size:27 final size:27
Alignment explanation
Indices: 25225804--25225877 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
25225794 AATAACTAAA
*
25225804 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
25225831 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
25225858 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
25225878 TGATGAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:25226735 original size:25 final size:25
Alignment explanation
Indices: 25226691--25226759 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
25226681 AGGAAGTGCT
* *
25226691 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* * *
25226716 AAAAGGGCTTTTCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
25226741 AAAAGGGCTTTGCCCCAGT
1 AAAAGGGCTTTGCCCCAGT
25226760 AATTAAAAGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:25227031 original size:31 final size:30
Alignment explanation
Indices: 25226980--25227062 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 30
25226970 CGCTTACAGT
25226980 AAAGGCTTCGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATGA
25227010 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCC-AGTGATATGATTTATGA
25227041 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
25227063 TCGAGACTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
30 18 0.35
31 31 0.61
32 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATGA
Found at i:25229408 original size:27 final size:27
Alignment explanation
Indices: 25229370--25229744 Score: 103
Period size: 27 Copynumber: 13.9 Consensus size: 27
25229360 AATACTTTAG
* **
25229370 TTTACCAAATTACTAAAATGTCCTCAA
1 TTTACAAAATTACTAAAATACCCTCAA
* * * *
25229397 TTTATAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCAA
**** *
25229424 TTTACAAAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCAA
* **** *
25229451 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCAA
* * * ***
25229478 TTTATAGAATTACCATTTTACCCTCAA
1 TTTACAAAATTACTAAAATACCCTCAA
* * ***** **
25229505 TTTATAGAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACTAAAATACCCTCAA
***** *
25229532 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCAA
* ** *
25229559 TTTACAGAATTATCGT--TTTACCCTCGA
1 TTTACAAAATTA-C-TAAAATACCCTCAA
* ***
25229586 TTTACAAAATTACTAAAATACCGTTGG
1 TTTACAAAATTACTAAAATACCCTCAA
* *
25229613 TTTACAAAATTACCAAAATACCC-CTAG
1 TTTACAAAATTACTAAAATACCCTC-AA
** * **
25229640 TTTGTAAAATTACCAAAATACCACT-GG
1 TTTACAAAATTACTAAAATACC-CTCAA
*** **
25229667 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACTAAAATACCCTCAA
** *
25229694 TTTGTAAAATTACCAAAATACCC-CTAA
1 TTTACAAAATTACTAAAATACCCTC-AA
*
25229721 TTTACAAAATTACAAAAATACCCT
1 TTTACAAAATTACTAAAATACCCT
25229745 TGACTTTCTA
Statistics
Matches: 290, Mismatches: 48, Indels: 19
0.81 0.13 0.05
Matches are distributed among these distances:
25 1 0.00
26 4 0.01
27 283 0.98
28 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCCTCAA
Found at i:25229454 original size:54 final size:54
Alignment explanation
Indices: 25229415--25229598 Score: 278
Period size: 54 Copynumber: 3.4 Consensus size: 54
25229405 ATTACCAAAG
* * *
25229415 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTT
* * * *
25229469 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTT
* * *
25229523 TACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTT
25229577 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
25229599 TAAAATACCG
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTT
Found at i:25229508 original size:81 final size:81
Alignment explanation
Indices: 25229391--25229599 Score: 283
Period size: 81 Copynumber: 2.6 Consensus size: 81
25229381 ACTAAAATGT
* * ***
25229391 CCTCAATTTATAAAATTACCAAAGTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTAC
* *
25229456 AGAATTACTGTTTTAC
66 AAAATTACCGTTTTAC
* * * * *
25229472 CCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTTGATTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTAC
25229537 AAAATTACCGTTTTAC
66 AAAATTACCGTTTTAC
* * *
25229553 CCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACT
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACT
25229600 AAAATACCGT
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 109 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTAC
AAAATTACCGTTTTAC
Found at i:25229617 original size:81 final size:81
Alignment explanation
Indices: 25229415--25229626 Score: 280
Period size: 81 Copynumber: 2.6 Consensus size: 81
25229405 ATTACCAAAG
* * *
25229415 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATT
*
25229480 TATAGAATTACCATTT
66 TACAGAATTACCATTT
* * * *
25229496 TACCCTCAATTTATAGAATTACCGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATT
* *
25229561 TACAGAATTATCGTTT
66 TACAGAATTACCATTT
**** * *
25229577 TACCCTCGATTTACAAAATTACTAAAATACCGTTGGTTTACAAAATTACC
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTTGATTTACAAAATTACC
25229627 AAAATACCCC
Statistics
Matches: 111, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 111 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATT
TACAGAATTACCATTT
Found at i:25229624 original size:54 final size:54
Alignment explanation
Indices: 25229370--25229733 Score: 194
Period size: 54 Copynumber: 6.7 Consensus size: 54
25229360 AATACTTTAG
* * ** * * ****
25229370 TTTACCAAATTACTAAAATGTCCTCAATTTATAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
***** * *
25229424 TTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
* * *** * * * *
25229478 TTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
**** * *
25229532 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
* * * * **** *
25229586 TTTACAAAATTACTAAAATACCGTTGGTTTACAAAATTACCAAAATACCC-CTA
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
** * *** *** *
25229639 GTTTGTAAAATTACCAAAATACCACT-GGTTTGTGAAATTACCGAAATACCCTCAA
1 -TTTACAAAATTACCAAAATACC-CTCGATTTACAAAATTACCGTTTTACCCTCGA
** *
25229694 TTTGTAAAATTACCAAAATACCC-CTAATTTACAAAATTAC
1 TTTACAAAATTACCAAAATACCCTC-GATTTACAAAATTAC
25229734 AAAAATACCC
Statistics
Matches: 246, Mismatches: 59, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
53 3 0.01
54 240 0.98
55 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
Found at i:25229740 original size:54 final size:54
Alignment explanation
Indices: 25229577--25229789 Score: 196
Period size: 54 Copynumber: 3.9 Consensus size: 54
25229567 ATTATCGTTT
* ** * **
25229577 TACCCTCGATTTACAAAATTACTAAAATACCGTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAA
* *** *
25229631 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAA
* ** *
25229685 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAA
* * * * *
25229739 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTAC
1 TACCC-TCAATTTGT-AAAATTACCA-AAATACCACTGGTTTACAAAATTAC
25229790 TGAAATACTC
Statistics
Matches: 126, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
53 1 0.01
54 89 0.71
55 8 0.06
56 28 0.22
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAA
Found at i:25229794 original size:27 final size:27
Alignment explanation
Indices: 25229577--25229829 Score: 152
Period size: 27 Copynumber: 9.3 Consensus size: 27
25229567 ATTATCGTTT
* * *
25229577 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
25229604 TACCGTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * **
25229631 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*** *
25229658 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTACAAAATTACCAAAA
*** **
25229685 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* ** *
25229712 TACCCCTAATTTACAAAATTACAAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* *
25229739 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* **
25229768 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* ** * *
25229795 TACTCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
25229822 CACCCTTG
1 TACCCTTG
25229830 TAGGATGAAA
Statistics
Matches: 179, Mismatches: 39, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
26 1 0.01
27 151 0.84
28 9 0.05
29 18 0.10
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:25229808 original size:110 final size:108
Alignment explanation
Indices: 25229613--25229826 Score: 241
Period size: 110 Copynumber: 2.0 Consensus size: 108
25229603 ATACCGTTGG
* * * ***
25229613 TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATT
1 TTTACAAAATTACAAAAATACCCCTACTTTCTAAAATTACCAAAATACCACTGGTTTACAAAATT
*
25229678 ACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAA
66 ACCGAAATACCCTCAATTTGTAAAATTACCAAAACACCCCTAA
* * *
25229721 TTTACAAAATTACAAAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAA
1 TTTACAAAATTACAAAAATACCCCT-ACTTTCT-AAAATTACCA-AAATACCACTGGTTTACAAA
* * *** * *
25229785 ATTACTGAAATACTCTTGGTTTGTAGATTTACCAAAACACCC
63 ATTACCGAAATACCCTCAATTTGTAAAATTACCAAAACACCC
25229827 TTGTAGGATG
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
108 23 0.27
109 6 0.07
110 57 0.66
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (108 bp):
TTTACAAAATTACAAAAATACCCCTACTTTCTAAAATTACCAAAATACCACTGGTTTACAAAATT
ACCGAAATACCCTCAATTTGTAAAATTACCAAAACACCCCTAA
Found at i:25229924 original size:27 final size:26
Alignment explanation
Indices: 25229847--25229924 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
25229837 AAATGACTAA
* *
25229847 AATACCCCTAATAGGTAAAAAGACCGT
1 AATACCCCTTAT-GGTAAAATGACCGT
*
25229874 AA-AGCCCCTATATGGTAAAGTGACCGT
1 AATA-CCCCT-TATGGTAAAATGACCGT
25229901 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCT-TATGGTAAAATGAC
25229925 GAATATGCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.91
28 3 0.07
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (26 bp):
AATACCCCTTATGGTAAAATGACCGT
Found at i:25230694 original size:16 final size:16
Alignment explanation
Indices: 25230673--25230703 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25230663 CAAATATGGG
*
25230673 CATGACATTTTGCATA
1 CATGACATGTTGCATA
25230689 CATGACATGTTGCAT
1 CATGACATGTTGCAT
25230704 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:25230805 original size:24 final size:25
Alignment explanation
Indices: 25230734--25230803 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
25230724 AGGAAGTGCT
* * *
25230734 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
25230759 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
25230784 AAAAGAGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
25230804 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:25239697 original size:48 final size:48
Alignment explanation
Indices: 25239639--25239780 Score: 189
Period size: 47 Copynumber: 3.0 Consensus size: 48
25239629 CATTAAAGAA
* *
25239639 TTCATTGATTTGGCTTTGGGCCATGATATTGGCACTTCGGGTACGAG-
1 TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGC
* * * *
25239686 TTACATTGATTTGGCTTCGGG-CATGATATCGGTACTTCAGGTGCAAGC
1 TT-CATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGC
* *
25239734 TTTATTGATTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAG
1 TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAG
25239781 GCTCCCGAGT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
47 40 0.50
48 40 0.50
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.35
Consensus pattern (48 bp):
TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGC
Found at i:25242720 original size:41 final size:41
Alignment explanation
Indices: 25242656--25242896 Score: 286
Period size: 41 Copynumber: 5.9 Consensus size: 41
25242646 GCAGCGTTTT
* *
25242656 TAGCGGCGTTTTTCGTTAAAACACCGCTAAAAGTCAGAGCAA
1 TAGCGGCGCTTTT-GGTAAAACACCGCTAAAAGTCAGAGCAA
25242698 TAGCGGCGCTTTTGGTAAAACACCGCTAAAAGTCAGAGCAA
1 TAGCGGCGCTTTTGGTAAAACACCGCTAAAAGTCAGAGCAA
** * *
25242739 TAGCGGCGCTTTTGGTAAAATGCCGCTAAAAGTCAGAGTAT
1 TAGCGGCGCTTTTGGTAAAACACCGCTAAAAGTCAGAGCAA
* ** *
25242780 TAGCGGCGCTTTTAGTAAAATGCCGCTAAAAATCAGAG-AA
1 TAGCGGCGCTTTTGGTAAAACACCGCTAAAAGTCAGAGCAA
* ** * ** *
25242820 TTAGCGGTGCTTTCAGTAAAACATCGCTAAAAACCAGAGCAT
1 -TAGCGGCGCTTTTGGTAAAACACCGCTAAAAGTCAGAGCAA
* *
25242862 TAGCAGCGCTTTTGGTAAAACGCCGCTAAAAGTCA
1 TAGCGGCGCTTTTGGTAAAACACCGCTAAAAGTCA
25242897 TATAACCCCT
Statistics
Matches: 173, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 159 0.92
42 13 0.08
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGTAAAACACCGCTAAAAGTCAGAGCAA
Found at i:25242851 original size:123 final size:124
Alignment explanation
Indices: 25242655--25242896 Score: 335
Period size: 123 Copynumber: 2.0 Consensus size: 124
25242645 AGCAGCGTTT
* * * **
25242655 TTAGCGGCGTTTTTCGTTAAAACACCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGGTAAAACA
1 TTAGCGGCGCTTTTAGTTAAAACACCGCTAAAAATCAGAGCAATAGCGGCGCTTTCAGTAAAACA
** * *
25242720 CCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGGTAAAATGCCGCTAAAAGTCAGAGTA
66 CCGCTAAAAACCAGAGCAATAGCAGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAGTA
** *
25242779 TTAGCGGCGCTTTTAG-TAAAATGCCGCTAAAAATCAGAG-AATTAGCGGTGCTTTCAGTAAAAC
1 TTAGCGGCGCTTTTAGTTAAAACACCGCTAAAAATCAGAGCAA-TAGCGGCGCTTTCAGTAAAAC
* *
25242842 ATCGCTAAAAACCAGAGCATTAGCAGCGCTTTTGGTAAAACGCCGCTAAAAGTCA
65 ACCGCTAAAAACCAGAGCAATAGCAGCGCTTTTGGTAAAACGCCGCTAAAAGTCA
25242897 TATAACCCCT
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
122 2 0.02
123 87 0.84
124 14 0.14
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (124 bp):
TTAGCGGCGCTTTTAGTTAAAACACCGCTAAAAATCAGAGCAATAGCGGCGCTTTCAGTAAAACA
CCGCTAAAAACCAGAGCAATAGCAGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAGTA
Found at i:25245020 original size:40 final size:40
Alignment explanation
Indices: 25244960--25245141 Score: 217
Period size: 40 Copynumber: 4.5 Consensus size: 40
25244950 TATTCGAATG
*
25244960 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
25245000 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * * *
25245040 GTATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
25245080 ATATCCGGGCTAAG-TCCTGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCC-GAAGGCATTTATGCTAGTGACT
*
25245120 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGATCCGAAG
25245142 CCCTTGTGCG
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
39 3 0.03
40 112 0.93
41 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:25245102 original size:80 final size:80
Alignment explanation
Indices: 25244960--25245141 Score: 242
Period size: 80 Copynumber: 2.3 Consensus size: 80
25244950 TATTCGAATG
* * *
25244960 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGATCCGAAGGCA
* *
25245025 TTTGTGCGAGTTG-CT
66 TTTATGCGAG-TGACC
* * * *
25245040 GTATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGATCC-GAAGGC
*
25245104 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
25245120 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
25245142 CCCTTGTGCG
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
79 5 0.06
80 84 0.94
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGATCCGAAGGCA
TTTATGCGAGTGACC
Found at i:25253163 original size:40 final size:40
Alignment explanation
Indices: 25253103--25253286 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
25253093 TATTCGAATG
*
25253103 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
25253143 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
25253183 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
25253223 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
25253263 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
25253287 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:25253236 original size:80 final size:80
Alignment explanation
Indices: 25253103--25253286 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
25253093 TATTCGAATG
* * *
25253103 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
25253167 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * *
25253183 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
25253248 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
25253263 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
25253287 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 90 0.97
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:25255279 original size:7 final size:7
Alignment explanation
Indices: 25255269--25255334 Score: 55
Period size: 7 Copynumber: 9.4 Consensus size: 7
25255259 CATTAAACCG
25255269 AAATAAA
1 AAATAAA
25255276 AAAT--A
1 AAATAAA
*
25255281 AACTCAAA
1 AAAT-AAA
*
25255289 AATTAAA
1 AAATAAA
*
25255296 AATTAAA
1 AAATAAA
25255303 AAATTAAA
1 AAA-TAAA
*
25255311 AAATTAA
1 AAATAAA
*
25255318 AATTAAA
1 AAATAAA
25255325 AAATAAA
1 AAATAAA
25255332 AAA
1 AAA
25255335 CTTAAATATT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
5 4 0.08
7 33 0.69
8 11 0.23
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (7 bp):
AAATAAA
Found at i:25255304 original size:8 final size:8
Alignment explanation
Indices: 25255286--25255340 Score: 73
Period size: 8 Copynumber: 7.2 Consensus size: 8
25255276 AAATAAACTC
25255286 AAAAATT-
1 AAAAATTA
25255293 AAAAATTA
1 AAAAATTA
25255301 AAAAATTA
1 AAAAATTA
25255309 AAAAATT-
1 AAAAATTA
25255316 -AAAATTA
1 AAAAATTA
25255323 AAAAA-TA
1 AAAAATTA
25255330 AAAAACTTA
1 AAAAA-TTA
25255339 AA
1 AA
25255341 TATTTAATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.14
7 14 0.33
8 19 0.44
9 4 0.09
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAAATTA
Found at i:25255319 original size:22 final size:21
Alignment explanation
Indices: 25255286--25255340 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
25255276 AAATAAACTC
*
25255286 AAAAATTAAAAATTAAAAAATT
1 AAAAATT-AAAATTAAAAAATA
* *
25255308 AAAAAATTAAAATTAAAAAATA
1 AAAAATTAAAA-TTAAAAAATA
25255330 AAAAACTTAAA
1 AAAAA-TTAAA
25255341 TATTTAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 3 0.12
22 20 0.77
23 3 0.12
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAATTAAAATTAAAAAATA
Found at i:25258900 original size:16 final size:16
Alignment explanation
Indices: 25258865--25258902 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
25258855 TTTCAAACAG
25258865 CTTATGTTTTAGAAGT
1 CTTATGTTTTAGAAGT
* *
25258881 -TTATGTTTTTGTAGT
1 CTTATGTTTTAGAAGT
25258896 CTTATGT
1 CTTATGT
25258903 ATTATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.18, C:0.05, G:0.18, T:0.58
Consensus pattern (16 bp):
CTTATGTTTTAGAAGT
Found at i:25261135 original size:24 final size:24
Alignment explanation
Indices: 25261108--25261159 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
25261098 AAGGGGTATG
*
25261108 AAAGGTTA-AAGGTTAAAGAAGATA
1 AAAGG-TAGAAGGTCAAAGAAGATA
* *
25261132 AAAGGTAGAAGGTCAAAGGAGATG
1 AAAGGTAGAAGGTCAAAGAAGATA
25261156 AAAG
1 AAAG
25261160 ATGAAAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.52, C:0.02, G:0.31, T:0.15
Consensus pattern (24 bp):
AAAGGTAGAAGGTCAAAGAAGATA
Found at i:25266640 original size:29 final size:29
Alignment explanation
Indices: 25266606--25266737 Score: 194
Period size: 29 Copynumber: 4.6 Consensus size: 29
25266596 TAATCAACCG
* * * *
25266606 CGCACACTTAGTACCATGTACTTT-AAACT
1 CGCACACTCAGTGCCATGCA-TTTCAAGCT
* *
25266635 CGCACACTTAGCGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
25266664 CGCACACTCAGTGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
25266693 CGCACACTCAGTGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
25266722 CGCACACTCAGTGCCA
1 CGCACACTCAGTGCCA
25266738 ATCTCTCAAC
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 3 0.03
29 93 0.97
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (29 bp):
CGCACACTCAGTGCCATGCATTTCAAGCT
Found at i:25278932 original size:46 final size:46
Alignment explanation
Indices: 25278865--25279030 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 46
25278855 TGTAACCCGC
* * *
25278865 CCATAAGTGAACTCGAACTCAACTCAACGTGCTCGAGCATTCGCTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTAGCTT
*
25278911 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-GCATTAGCTT
* *** * *
25278957 ACATCTCTCGAACTCGGACTCAACTCAACGAGCTCG-GACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGAG-CATTAGCTT
*
25279004 CCATAAGTGAACTCAGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
25279031 TGAGTTCGGA
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 59 0.60
47 35 0.36
48 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTAGCTT
Found at i:25278981 original size:93 final size:93
Alignment explanation
Indices: 25278873--25279043 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
25278863 GCCCATAAGT
* * *
25278873 GAACTCGAACTCAACTCAACGTGCTC-GAGCATTCGCTTCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
25278937 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
25278966 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
25279031 TGAGTTCGGATGC
66 CGAGCTCGGATGC
25279044 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 68 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:25282835 original size:21 final size:22
Alignment explanation
Indices: 25282811--25282861 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
25282801 TCCTCGGGTG
*
25282811 ACACGGGCATGTCCCATGG-TC
1 ACACGGGCATGTCCCATGGACC
*
25282832 ACACGGGCATGTCCCTTGGACC
1 ACACGGGCATGTCCCATGGACC
25282854 ACACGGGC
1 ACACGGGC
25282862 GTGTGAGCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.16
Consensus pattern (22 bp):
ACACGGGCATGTCCCATGGACC
Found at i:25283681 original size:28 final size:29
Alignment explanation
Indices: 25283628--25283682 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
25283618 ACAAGGGTTT
25283628 TCACACGGCCTGGTACACGCCCGTGTCCC
1 TCACACGGCCTGGTACACGCCCGTGTCCC
*
25283657 TCACACGGCCAT-G-ACACGCCTGTGTC
1 TCACACGGCC-TGGTACACGCCCGTGTC
25283683 TCAGCCCGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 12 0.50
29 11 0.46
30 1 0.04
ACGTcount: A:0.16, C:0.42, G:0.24, T:0.18
Consensus pattern (29 bp):
TCACACGGCCTGGTACACGCCCGTGTCCC
Found at i:25284843 original size:48 final size:48
Alignment explanation
Indices: 25284729--25285007 Score: 270
Period size: 48 Copynumber: 5.8 Consensus size: 48
25284719 AGATGCTGAA
* * * **
25284729 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGGTGCCGAT
1 GCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAAAGGT--CGAT
* * **
25284779 GCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGTCGAT
1 GCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAAAGGTCGAT
* * * * * *
25284827 GCCATGTCCCAGACATGGTCCTACACTAGCCCTCATATAAATGTCAAT
1 GCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAAAGGTCGAT
* *** * ** *
25284875 TCCATGTTTGAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGAT
1 GCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAAAGGTCGAT
* * * *
25284923 GCCATGTCCCATACATGGTCTTACACTAGCTCTCATATAAATGCCGAT
1 GCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAAAGGTCGAT
* * *
25284971 GTCATGTTCCAAACATGGTCTTACACTCGCTCACATA
1 GCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
25285008 ACCCTAGTAC
Statistics
Matches: 182, Mismatches: 47, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
48 146 0.80
50 36 0.20
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAAAGGTCGAT
Found at i:25284911 original size:96 final size:96
Alignment explanation
Indices: 25284729--25285006 Score: 398
Period size: 96 Copynumber: 2.9 Consensus size: 96
25284719 AGATGCTGAA
* * *
25284729 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-ATTGGTGCCGATGCCATGTTCCAAAC
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAAT-GT--CGATTCCATGTTCCAAAC
*
25284793 ATGGTCTTACACTAGCTCACATGTCGAGGTCGAT
63 ATGGTCTTACACTAGCTCACATGTCGAGGCCGAT
* * * **
25284827 GCCATGTCCCAGACATGGTCCTACACTAGCCCTCATATAAATGTCAATTCCATGTTTGAAACATG
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATTCCATGTTCCAAACATG
25284892 GTCTTACACTAGCTCACATGTCGAGGCCGAT
66 GTCTTACACTAGCTCACATGTCGAGGCCGAT
* *
25284923 GCCATGTCCCATACATGGTCTTACACTAGCTCTCATATAAATGCCGATGT-CATGTTCCAAACAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGAT-TCCATGTTCCAAACAT
*
25284987 GGTCTTACACTCGCTCACAT
65 GGTCTTACACTAGCTCACAT
25285007 AACCCTAGTA
Statistics
Matches: 161, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
96 121 0.75
97 1 0.01
98 37 0.23
99 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATTCCATGTTCCAAACATG
GTCTTACACTAGCTCACATGTCGAGGCCGAT
Found at i:25289236 original size:46 final size:46
Alignment explanation
Indices: 25289186--25289355 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
25289176 TGGTTGAGCA
*
25289186 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
25289232 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
25289279 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
25289325 -CCCAGGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCAC
25289356 ATAGGGGCGG
Statistics
Matches: 103, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 6 0.06
46 54 0.52
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:25289342 original size:93 final size:93
Alignment explanation
Indices: 25289183--25289353 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
25289173 GGATGGTTGA
* *
25289183 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
25289248 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
25289276 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCC-AGGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGA-ACTCGTTGAG
25289340 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
25289354 ACATAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25289620 original size:19 final size:20
Alignment explanation
Indices: 25289583--25289620 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
25289573 ATAAGGTGGT
25289583 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
25289603 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
25289621 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:25299171 original size:27 final size:26
Alignment explanation
Indices: 25299123--25299182 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
25299113 GCGAGGCTGC
*
25299123 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
25299150 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
25299176 CAGATAT
1 CAGATAT
25299183 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:25300939 original size:43 final size:42
Alignment explanation
Indices: 25300892--25301031 Score: 122
Period size: 42 Copynumber: 3.3 Consensus size: 42
25300882 TCCCAGATGT
* * *
25300892 GGTCTTACATGTAATCAAATATTGATGCCACTGTTCCAGACAG
1 GGTCTTACACGTAATCAAATA-CGATGCCAATGTTCCAGACAG
** * * *
25300935 GGTCTTACACAAAATTATATACGATGCCAATGTTCCAGACAT
1 GGTCTTACACGTAATCAAATACGATGCCAATGTTCCAGACAG
* * *
25300977 GGTCTTACACGTAAATCACAA-ATCTATGCCAACGTCCCAGAC-G
1 GGTCTTACACGT-AATCA-AATA-CGATGCCAATGTTCCAGACAG
25301020 TGGTCTTACACG
1 -GGTCTTACACG
25301032 ATAACACATA
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
42 28 0.36
43 21 0.27
44 28 0.36
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCAATGTTCCAGACAG
Found at i:25312311 original size:23 final size:23
Alignment explanation
Indices: 25312285--25312338 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
25312275 AACACACGAG
25312285 GTGCCTGAAATACGAT-ACATAAA
1 GTGCCTGAAATACG-TCACATAAA
**
25312308 GTGCCTGGTATACGTCACATAAA
1 GTGCCTGAAATACGTCACATAAA
25312331 GTGCCTGA
1 GTGCCTGA
25312339 TTGACAAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (23 bp):
GTGCCTGAAATACGTCACATAAA
Found at i:25313061 original size:24 final size:24
Alignment explanation
Indices: 25313032--25313080 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
25313022 TATACACATA
25313032 AATTTAAATATAACATTTATTCAT
1 AATTTAAATATAACATTTATTCAT
25313056 AATTTAAATATAACATTTATTCAT
1 AATTTAAATATAACATTTATTCAT
25313080 A
1 A
25313081 CCTTTAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (24 bp):
AATTTAAATATAACATTTATTCAT
Found at i:25313416 original size:10 final size:10
Alignment explanation
Indices: 25313401--25313428 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
25313391 ATTAAGGGGA
25313401 AAAGTAAAAC
1 AAAGTAAAAC
25313411 AAAGTAAAAC
1 AAAGTAAAAC
25313421 AAAGTAAA
1 AAAGTAAA
25313429 CATGTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAGTAAAAC
Found at i:25314104 original size:25 final size:25
Alignment explanation
Indices: 25314076--25314124 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
25314066 TTTGGCTTGA
*
25314076 CATTTACTAAGCAATATCAGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
25314101 CATTTATTAGGCAATATCAAATAT
1 CATTTACTAAGCAATATCAAATAT
25314125 GCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:25315397 original size:11 final size:11
Alignment explanation
Indices: 25315381--25315405 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25315371 TCCAGCTGAT
25315381 GAAAATGAAGA
1 GAAAATGAAGA
25315392 GAAAATGAAGA
1 GAAAATGAAGA
25315403 GAA
1 GAA
25315406 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:25317489 original size:28 final size:28
Alignment explanation
Indices: 25317449--25317560 Score: 118
Period size: 28 Copynumber: 4.0 Consensus size: 28
25317439 CATGATTGTA
* * *
25317449 AATGTGATTTGGGCTTAGT-GGTCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* *
25317477 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAATGGGCCATATG
25317506 AATGTGATTGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
* * * *
25317534 AAAGAGATTGGGCTTAGTGGGCCATAT
1 AATGTGATTGGGCCTAATGGGCCATAT
25317561 ATATTGGTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 59 0.82
29 13 0.18
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.30
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:25317555 original size:56 final size:57
Alignment explanation
Indices: 25317447--25317557 Score: 136
Period size: 56 Copynumber: 2.0 Consensus size: 57
25317437 AGCATGATTG
* * * * *
25317447 TAAATGTGATTTGGGCTTAGTGGTCATATGAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACA
* *
25317504 TAAATGTGA-TTGGGCCTAATGGGCCATATGAAAGAGA-TTGGGCTTAGTGGGCCA
1 TAAATGTGATTTGGGCCTAAT-GGCCATATGAAAGAGATTTGGGCCTAATGGGCCA
25317558 TATATATTGG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
56 24 0.52
57 22 0.48
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.30
Consensus pattern (57 bp):
TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACA
Found at i:25322124 original size:31 final size:31
Alignment explanation
Indices: 25322086--25322197 Score: 181
Period size: 31 Copynumber: 3.6 Consensus size: 31
25322076 CGTTTAACGG
25322086 TTACTGGGCCGAAGCCTTTTCATAAATCATA
1 TTACTGGGCCGAAGCCTTTTCATAAATCATA
25322117 TTACTGGGCCGAAGCCTTTTCATAAATCATA
1 TTACTGGGCCGAAGCCTTTTCATAAATCATA
* *
25322148 TCACTGGGCCGAAGCATTTTCATAAATCAT-
1 TTACTGGGCCGAAGCCTTTTCATAAATCATA
*
25322178 TTCACTGGGCCAAAGCCTTT
1 TT-ACTGGGCCGAAGCCTTT
25322198 ACTGTAAACG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
30 1 0.01
31 74 0.99
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (31 bp):
TTACTGGGCCGAAGCCTTTTCATAAATCATA
Found at i:25322268 original size:42 final size:42
Alignment explanation
Indices: 25322221--25322312 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
25322211 TGGCCCATAG
* ** *
25322221 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
25322263 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
25322305 GCCCATTT
1 GCCCATTT
25322313 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:25322485 original size:25 final size:26
Alignment explanation
Indices: 25322436--25322545 Score: 156
Period size: 26 Copynumber: 4.3 Consensus size: 26
25322426 TTGGAGGCCT
*
25322436 AGCCTCTTTT-AAT-AACAGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
25322460 AGCCCTTTTCGATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
25322485 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
25322511 AGCCCTTTTCAATAAACTGGGTCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
25322537 AGCCCTTTT
1 AGCCCTTTT
25322546 GCACTTCCTC
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.06
24 6 0.08
25 33 0.42
26 35 0.44
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:25322515 original size:51 final size:49
Alignment explanation
Indices: 25322436--25322545 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 49
25322426 TTGGAGGCCT
*
25322436 AGCCTCTTTTAATAACAGGGGCAAAGCCCTTTTCGATAAACTGGGGCA-A
1 AGCC-CTTTTAATAACAGGGGCAAAGCCCTTTTCAATAAACTGGGGCATA
* *
25322485 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGTCATA
1 AGCCCTTTT-AAT-AACAGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATA
25322537 AGCCCTTTT
1 AGCCCTTTT
25322546 GCACTTCCTC
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
48 5 0.09
49 7 0.13
50 9 0.17
51 23 0.43
52 10 0.19
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (49 bp):
AGCCCTTTTAATAACAGGGGCAAAGCCCTTTTCAATAAACTGGGGCATA
Found at i:25322620 original size:20 final size:20
Alignment explanation
Indices: 25322595--25322661 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
25322585 TTATGAATAC
25322595 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
25322615 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
25322635 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
25322655 ATCATGT
1 ATCATGT
25322662 ATGTCATATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:25323488 original size:27 final size:27
Alignment explanation
Indices: 25323458--25323592 Score: 87
Period size: 27 Copynumber: 4.9 Consensus size: 27
25323448 GGAAAATCTA
25323458 TAAATCAAGGGTATTTCAGTAATTTTG
1 TAAATCAAGGGTATTTCAGTAATTTTG
* * *
25323485 TAAACCAAAGGTATTCTTA-TAATTTT-
1 TAAATCAAGGGTATT-TCAGTAATTTTG
* * *
25323511 TAACAAAGCCAAAGGTATTTCTGTAATTTTG
1 T---AAA-TCAAGGGTATTTCAGTAATTTTG
** *
25323542 TAAATC-AGGGTATTTTGGTAATTTTA
1 TAAATCAAGGGTATTTCAGTAATTTTG
* ** *
25323568 CAAATTGAGGGTATTTCGGTAATTT
1 TAAATCAAGGGTATTTCAGTAATTT
25323593 CTCAAACCAG
Statistics
Matches: 87, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
26 21 0.24
27 38 0.44
28 5 0.06
29 4 0.05
30 18 0.21
31 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (27 bp):
TAAATCAAGGGTATTTCAGTAATTTTG
Found at i:25323553 original size:26 final size:27
Alignment explanation
Indices: 25323524--25323592 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
25323514 CAAAGCCAAA
**
25323524 GGTATTTCTGTAATTTTGTAAA-TCAG
1 GGTATTTCTGTAATTTTACAAATTCAG
*
25323550 GGTATTT-TGGTAATTTTACAAATTGAG
1 GGTATTTCT-GTAATTTTACAAATTCAG
*
25323577 GGTATTTCGGTAATTT
1 GGTATTTCTGTAATTT
25323593 CTCAAACCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 1 0.03
26 18 0.50
27 17 0.47
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.46
Consensus pattern (27 bp):
GGTATTTCTGTAATTTTACAAATTCAG
Found at i:25323634 original size:54 final size:54
Alignment explanation
Indices: 25323524--25323647 Score: 128
Period size: 54 Copynumber: 2.3 Consensus size: 54
25323514 CAAAGCCAAA
* * * * *
25323524 GGTATTTCTGTAATTT-TGTAAATCAGGGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTCAGTAATTTCTGCAAACCAGGGTATTTTGGTAATTCTACAAATAGAG
* **
25323577 GGTATTTCGGTAATTTCT-CAAACCAGTGGTATTTTGGTAATTCTATCCTATAG-G
1 GGTATTTCAGTAATTTCTGCAAACCAG-GGTATTTTGGTAATTCTA-CAAATAGAG
*
25323631 GGTATTTTAGTAATTTC
1 GGTATTTCAGTAATTTC
25323648 ACAATCGAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
53 21 0.36
54 34 0.58
55 4 0.07
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (54 bp):
GGTATTTCAGTAATTTCTGCAAACCAGGGTATTTTGGTAATTCTACAAATAGAG
Found at i:25323684 original size:27 final size:27
Alignment explanation
Indices: 25323650--25323741 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
25323640 GTAATTTCAC
25323650 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
**
25323677 AA-CTGAGGGTAAATTGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
25323704 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
25323731 AATCGAGGGTA
1 AATCGAGGGTA
25323742 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:25323725 original size:54 final size:54
Alignment explanation
Indices: 25323640--25323768 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
25323630 GGGTATTTTA
* * * *
25323640 GTAATTTCAC-AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAATTG
1 GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAATC-GAGGGTAAATTG
** **
25323693 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAATTG
*
25323747 GTAATTTTACAAGTCGAGGGTA
1 GTAATTTTACAAATCGAGGGTA
25323769 TTTTAGTAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 7 0.11
54 55 0.87
55 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAATTG
Found at i:25323751 original size:27 final size:27
Alignment explanation
Indices: 25323721--25323779 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
25323711 GGTAAAACGA
* *
25323721 TAATTCTATAAATCGAGGGTACTTTGG
1 TAATTCTACAAATCGAGGGTACTTTAG
* * *
25323748 TAATTTTACAAGTCGAGGGTATTTTAG
1 TAATTCTACAAATCGAGGGTACTTTAG
25323775 TAATT
1 TAATT
25323780 TGGTAAGCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
TAATTCTACAAATCGAGGGTACTTTAG
Found at i:25326072 original size:31 final size:31
Alignment explanation
Indices: 25326026--25326135 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
25326016 TTTAACGGTT
25326026 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
25326057 ACTAGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
25326088 AATGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
25326119 ACTGGGCCGAAGACTTT
1 ACTGGGCCGAAGCCTTT
25326136 ACTGTAAACG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:25326206 original size:42 final size:42
Alignment explanation
Indices: 25326159--25326250 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
25326149 TGGCCCATAG
* ** * *
25326159 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTAAGCAA
*
25326201 GCCCATTTCAATATCATATGAAATACCAATGAATGTAAGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTAAGCAA
25326243 GCCCATTT
1 GCCCATTT
25326251 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTAAGCAA
Found at i:25326467 original size:26 final size:26
Alignment explanation
Indices: 25326383--25326544 Score: 224
Period size: 26 Copynumber: 6.3 Consensus size: 26
25326373 TTGGAGGCCT
25326383 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
25326407 AGCCCTTTTCGGTAAATTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
25326432 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
25326458 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
25326484 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
25326510 AGCCCTTTTCAATAAACTGGGGTATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
25326536 AGCCGTTTT
1 AGCCCTTTT
25326545 GCACTTCCTC
Statistics
Matches: 123, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
23 5 0.04
24 5 0.04
25 31 0.25
26 82 0.67
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:25326619 original size:20 final size:20
Alignment explanation
Indices: 25326594--25326680 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
25326584 TTATGAATAC
*
25326594 ATCATGTGCATTTCGTACAT
1 ATCATGTGCATTTCATACAT
25326614 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
25326634 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
* *
25326654 TTCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
25326674 ATCATGT
1 ATCATGT
25326681 ATATCATATC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.41
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:25327543 original size:27 final size:28
Alignment explanation
Indices: 25327509--25327591 Score: 80
Period size: 27 Copynumber: 2.9 Consensus size: 28
25327499 ATCTACAAAT
25327509 CAAGGGTATTTCAGTAATTTTGTAAA-C
1 CAAGGGTATTTCAGTAATTTTGTAAAGC
* * * *
25327536 CAATGGTATTCTTA-TAATTTTTTAAAAAGT
1 CAAGGGTATT-TCAGTAATTTTGT--AAAGC
*
25327566 CAAGGGTATTTCTGTAATTTTGTAAA
1 CAAGGGTATTTCAGTAATTTTGTAAA
25327592 TTAGGGGTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
27 17 0.40
28 5 0.12
29 4 0.09
30 17 0.40
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (28 bp):
CAAGGGTATTTCAGTAATTTTGTAAAGC
Found at i:25327584 original size:30 final size:29
Alignment explanation
Indices: 25327505--25327591 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
25327495 GTAAATCTAC
*
25327505 AAATCAAGGGTATTTCAGTAATTTTGT--
1 AAATCAAGGGTATTTCTGTAATTTTGTAA
* * * *
25327532 AAACCAATGGTA-TTCTTATAATTTTTTAA
1 AAATCAAGGGTATTTC-TGTAATTTTGTAA
25327561 AAAGTCAAGGGTATTTCTGTAATTTTGTAA
1 AAA-TCAAGGGTATTTCTGTAATTTTGTAA
25327591 A
1 A
25327592 TTAGGGGTAT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
26 3 0.07
27 18 0.39
29 3 0.07
30 19 0.41
31 3 0.07
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (29 bp):
AAATCAAGGGTATTTCTGTAATTTTGTAA
Done.