Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 68 of 284
Found at i:23719286 original size:14 final size:14
Alignment explanation
Indices: 23719267--23719293 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23719257 ATAACTTAAT
23719267 AGAGAAATTGTTTA
1 AGAGAAATTGTTTA
23719281 AGAGAAATTGTTT
1 AGAGAAATTGTTT
23719294 TATAGGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (14 bp):
AGAGAAATTGTTTA
Found at i:23726633 original size:90 final size:90
Alignment explanation
Indices: 23726529--23726711 Score: 357
Period size: 90 Copynumber: 2.0 Consensus size: 90
23726519 AATTTAAAAT
23726529 AAATAATGTAAAAAAGGTTAAAATCAACAATATGCAAAACGTTTTTCTTTTTTGAAAGAATGAAT
1 AAATAATGTAAAAAAGGTTAAAATCAACAATATGCAAAACGTTTTTCTTTTTTGAAAGAATGAAT
23726594 GATATATACATATGAAGAACTTTTA
66 GATATATACATATGAAGAACTTTTA
23726619 AAATAATGTAAAAAAGGTTAAAATCAACAATATGCAAAACGTTTTTCTTTTTTGAAAGAATGAAT
1 AAATAATGTAAAAAAGGTTAAAATCAACAATATGCAAAACGTTTTTCTTTTTTGAAAGAATGAAT
*
23726684 GCTATATACATATGAAGAACTTTTA
66 GATATATACATATGAAGAACTTTTA
23726709 AAA
1 AAA
23726712 ATAGATAATA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 92 1.00
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (90 bp):
AAATAATGTAAAAAAGGTTAAAATCAACAATATGCAAAACGTTTTTCTTTTTTGAAAGAATGAAT
GATATATACATATGAAGAACTTTTA
Found at i:23729198 original size:20 final size:17
Alignment explanation
Indices: 23729158--23729200 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
23729148 AGAACAAAGA
*
23729158 ACAAATAAAAATAATAT
1 ACAAATAAAAATAATAG
23729175 ACAAATAAATAAATAAATAG
1 ACAAAT-AA-AAAT-AATAG
23729195 ACAAAT
1 ACAAAT
23729201 TTTAAAAGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 2 0.09
19 4 0.18
20 10 0.45
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (17 bp):
ACAAATAAAAATAATAG
Found at i:23735823 original size:41 final size:41
Alignment explanation
Indices: 23735766--23735969 Score: 183
Period size: 41 Copynumber: 4.8 Consensus size: 41
23735756 GTGGTTACAT
* *
23735766 GTAAGACCATGTCTGGGACATTGGCGTCATATTTGATTCGA
1 GTAAGACCATGTCTGGGACATTGGCATCATATGTGATTCGA
* * * *
23735807 GTAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAACGT
1 GTAAGACCATGTCTGGGACATTGGCATC-ATATGTGAT-TCGA
* * * ** * *
23735850 GTAAGACGACGTCTGGAATGTTGGCATCATTCCATGTGGTTACGT
1 GTAAGACCATGTCTGGGACATTGGCATCA-T--ATGTGATT-CGA
* *
23735895 GTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCGA
1 GTAAGACCATGTCTGGGACATTGGCATCATATGTGATTCGA
* * *
23735936 GTAAGACCCTGTCTAGGACAGTGGCATCGATATG
1 GTAAGACCATGTCTGGGACATTGGCATC-ATATG
23735970 AGATAACATG
Statistics
Matches: 127, Mismatches: 29, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
41 53 0.42
42 17 0.13
43 25 0.20
44 1 0.01
45 31 0.24
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (41 bp):
GTAAGACCATGTCTGGGACATTGGCATCATATGTGATTCGA
Found at i:23735984 original size:129 final size:129
Alignment explanation
Indices: 23735754--23736001 Score: 417
Period size: 129 Copynumber: 1.9 Consensus size: 129
23735744 GGATTCTGAT
*
23735754 ATGTGGTTACATGTAAGACCATGTCTGGGACATTGGCGTCATATTTGATTCGAGTAAGACCATGT
1 ATGTGGTTACATGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTCGAGTAAGACCATGT
* * *
23735819 CTGGGACAGTGGCATCGATATGAGATAACGTGTAAGACGACGTCT-GGAATGTTGGCATCATTCC
66 CTAGGACAGTGGCATCGATATGAGATAACATGTAAGACCACGTCTAGG-ATGTTGGCATCATTCC
* * *
23735883 ATGTGGTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCGAGTAAGACCCTGT
1 ATGTGGTTACATGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTCGAGTAAGACCATGT
23735948 CTAGGACAGTGGCATCGATATGAGATAACATGTAAGACCACGTCTAGGATGTTG
66 CTAGGACAGTGGCATCGATATGAGATAACATGTAAGACCACGTCTAGGATGTTG
23736002 ACATTGTATG
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
129 109 0.98
130 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (129 bp):
ATGTGGTTACATGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTCGAGTAAGACCATGT
CTAGGACAGTGGCATCGATATGAGATAACATGTAAGACCACGTCTAGGATGTTGGCATCATTCC
Found at i:23739105 original size:9 final size:10
Alignment explanation
Indices: 23739084--23739108 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23739074 TCACAAAATA
23739084 TTTTCTTATT
1 TTTTCTTATT
23739094 TTTTCTTATT
1 TTTTCTTATT
23739104 TTTTC
1 TTTTC
23739109 ATTGTAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTCTTATT
Found at i:23739339 original size:15 final size:15
Alignment explanation
Indices: 23739319--23739347 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23739309 TTTATTTTTG
23739319 ATTTTATTTTATTAC
1 ATTTTATTTTATTAC
23739334 ATTTTATTTTATTA
1 ATTTTATTTTATTA
23739348 TTAAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTATTTTATTAC
Found at i:23739491 original size:36 final size:33
Alignment explanation
Indices: 23739450--23739521 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 33
23739440 TACTTTGGGA
* *
23739450 TTCCTACTTCAATTCGGAATTGGATTATTCTCTCTT
1 TTCCTACTTCAATT-AGAATTGAATTATT-T-TCTT
* *
23739486 TTCCTATTTCCATTAGAATTGAATTATTTTCTT
1 TTCCTACTTCAATTAGAATTGAATTATTTTCTT
23739519 TTC
1 TTC
23739522 TCTTTCAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 7 0.22
34 1 0.03
35 12 0.38
36 12 0.38
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.51
Consensus pattern (33 bp):
TTCCTACTTCAATTAGAATTGAATTATTTTCTT
Found at i:23739950 original size:15 final size:14
Alignment explanation
Indices: 23739924--23740010 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
23739914 TATTCAAATA
*
23739924 CTATTATTATTTAT
1 CTATTTTTATTTAT
23739938 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
23739953 CTATTTATATTTCT
1 CTATTTTTATTTAT
*
23739967 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
23739982 CTATTTATTATATT-T
1 CTATTT-TTAT-TTAT
* *
23739997 TTATTTCTATTTAT
1 CTATTTTTATTTAT
23740011 ATACTAATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.03
14 21 0.35
15 35 0.58
16 2 0.03
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:23739963 original size:14 final size:15
Alignment explanation
Indices: 23739931--23739964 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
23739921 ATACTATTAT
*
23739931 TATTTATCTAATTTT
1 TATTTATCTAATTTA
23739946 TATTTATCT-ATTTA
1 TATTTATCTAATTTA
23739960 TATTT
1 TATTT
23739965 CTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:23739963 original size:29 final size:29
Alignment explanation
Indices: 23739931--23739989 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
23739921 ATACTATTAT
*
23739931 TATTTAT-CTAATTTTTAT-TTATCTATTTA
1 TATTTATACT-ATTATTATATT-TCTATTTA
*
23739960 TATTTCTACTATTATTATATTTCTATTTA
1 TATTTATACTATTATTATATTTCTATTTA
23739989 T
1 T
23739990 TATATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTATACTATTATTATATTTCTATTTA
Found at i:23739979 original size:17 final size:15
Alignment explanation
Indices: 23739957--23740002 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
23739947 ATTTATCTAT
23739957 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
23739974 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
23739989 TTATATTTTTATTT
1 TTATATTTCTATTT
23740003 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:23739995 original size:23 final size:23
Alignment explanation
Indices: 23739969--23740035 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
23739959 ATATTTCTAC
23739969 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
23739992 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
23740014 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
23740035 T
1 T
23740036 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:23740046 original size:52 final size:54
Alignment explanation
Indices: 23739925--23740046 Score: 125
Period size: 52 Copynumber: 2.4 Consensus size: 54
23739915 ATTCAAATAC
* * *
23739925 TATTATTATTTATC-TA-ATTTTTATTTATCTATTTATATTTCTACTATTATTA
1 TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
* *
23739977 TATT-TCTA--TTTATTATATTTTTA-TT-TCTATTTATA-TACTAATATTATTT
1 TATTAT-TATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
23740026 TCATTATTATTTTTCTTATAT
1 T-ATTATTATTTTTCTTATAT
23740047 ATGTTTTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
49 12 0.21
50 17 0.30
51 6 0.11
52 22 0.39
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (54 bp):
TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
Found at i:23746811 original size:44 final size:44
Alignment explanation
Indices: 23746762--23747064 Score: 117
Period size: 44 Copynumber: 7.2 Consensus size: 44
23746752 ATACAGATCT
* *
23746762 CCCCTAAACAGTAGTGGAGCAGATCGAATATAACAAGCCTTAAC
1 CCCCTAAACAGTAGTGGAGCAGATCGAAGACAACAAGCCTTAAC
** * * * * * *
23746806 CCCCTAGGCAGTAG-GGTAACAGGCTGGAA-A-ATA-TAG-ATT--T
1 CCCCTAAACAGTAGTGG-AGCA-GATCGAAGACA-ACAAGCCTTAAC
* * *
23746846 CCCCTAGATAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAAC
1 CCCCTAAACAGTAGTGGAGCAGATCGAAGACAACAAGCCTTAAC
* * * * * *
23746890 CCCCTAAGCAGTAG-GGTAACAGGTTGAA-A-AA-TA---TAAATC
1 CCCCTAAACAGTAGTGG-AGCAGATCGAAGACAACAAGCCTTAA-C
*
23746929 TCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAAC
1 -CCCCTAAACAGTAGTGGAGCAGATCGAAGACAACAAGCCTTAAC
* * * * * *
23746974 CCCCTAAGCAGTAG-GGTAACAGGTTGAA-A-AA-TA---TAAATC
1 CCCCTAAACAGTAGTGG-AGCAGATCGAAGACAACAAGCCTTAA-C
* *
23747013 TCCCCTAAACAGTAGTGGAGTAGATCGAAGACAGCAAGCCTTAAC
1 -CCCCTAAACAGTAGTGGAGCAGATCGAAGACAACAAGCCTTAAC
*
23747058 CCTCTAA
1 CCCCTAA
23747065 GTAGTAGGGT
Statistics
Matches: 180, Mismatches: 49, Indels: 60
0.62 0.17 0.21
Matches are distributed among these distances:
38 6 0.03
39 7 0.04
40 57 0.32
41 13 0.07
42 8 0.04
43 13 0.07
44 63 0.35
45 7 0.04
46 6 0.03
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (44 bp):
CCCCTAAACAGTAGTGGAGCAGATCGAAGACAACAAGCCTTAAC
Found at i:23746859 original size:84 final size:84
Alignment explanation
Indices: 23746703--23747834 Score: 1493
Period size: 84 Copynumber: 13.5 Consensus size: 84
23746693 AGAATAGGTT
* * * * *
23746703 GAAGATAGCAAGCCTTAACCCCTTAAGTAGTAGGGTAACAGGCTAGAAAATACAGATCTCCCCTA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
*
23746768 AACAGTAGTGGAGCAGATC
66 AACAGTAGTGGAGTAGATC
* * * * *
23746787 GAATATAACAAGCCTTAACCCCCTAGGCAGTAGGGTAACAGGCTGGAAAATATAGATTTCCCCTA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
* * *
23746852 GATAGTAGTGGAGCAGATC
66 AACAGTAGTGGAGTAGATC
* * *
23746871 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAAAAATATAAATCTCCCCTA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
*
23746936 AACAGTAGTGGAGCAGATC
66 AACAGTAGTGGAGTAGATC
* * *
23746955 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAAAAATATAAATCTCCCCTA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
23747020 AACAGTAGTGGAGTAGATC
66 AACAGTAGTGGAGTAGATC
* *
23747039 GAAGACAGCAAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
*
23747104 AACAGTAGTGGAGAAGATC
66 AACAGTAGTGGAGTAGATC
* * * *
23747123 TAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCGGGAAAATACAGATCTCCCTTA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
*
23747188 GACAGTAGTGGAGTAGATC
66 AACAGTAGTGGAGTAGATC
* * * *
23747207 GAAGATAGCAAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCTTA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
*
23747272 GACAGTAGTGGAGTAGATC
66 AACAGTAGTGGAGTAGATC
* * *
23747291 GAAGATAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAAATTTCCCCTA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
*
23747356 AACAGTAGTTGAGTAGATC
66 AACAGTAGTGGAGTAGATC
* * * *
23747375 AAAGACAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCTTA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
* *
23747440 GACAGTAGTGGAGTAGATT
66 AACAGTAGTGGAGTAGATC
* * * *
23747459 GAAGAC-CCAAGTCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCTTA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
* *
23747523 GACAGTAGTGGAGTAGATT
66 AACAGTAGTGGAGTAGATC
* * * *
23747542 GAAGAC-CCAAGTCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATCTCCCTTA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
* *
23747606 GACAGTAGTGGAGTAGATT
66 AACAGTAGTGGAGTAGATC
* * *
23747625 GAAGAC-CCAAGTCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATC-CCCCTA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
* **
23747688 AACAGTACTGGAACAGATC
66 AACAGTAGTGGAGTAGATC
* * * * *
23747707 GAAGATCA-TAAGCCTTAACCCCCTAAGCAGGAGGGAAACAGGCTAGAAATTATAGATCTTATCT
1 GAAGA-CAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATC---TC-
* *
23747771 CCCTAAGCAGTAGTAGG-GAAGATC
61 CCCTAAACAGTAGT-GGAGTAGATC
* * ** * *
23747795 GCAGACGGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACA
1 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACA
23747835 TGTTGAAAAT
Statistics
Matches: 955, Mismatches: 84, Indels: 14
0.91 0.08 0.01
Matches are distributed among these distances:
82 24 0.03
83 258 0.27
84 619 0.65
87 2 0.00
88 50 0.05
89 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (84 bp):
GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATATAGATCTCCCCTA
AACAGTAGTGGAGTAGATC
Found at i:23746942 original size:40 final size:40
Alignment explanation
Indices: 23746890--23747027 Score: 122
Period size: 40 Copynumber: 3.4 Consensus size: 40
23746880 AAGCCTTAAC
*
23746890 CCCCTAAGCAGTAGGGTAACAGGTTGAAAAATATAAATCT
1 CCCCTAAACAGTAGGGTAACAGGTTGAAAAATATAAATCT
* * * *
23746930 CCCCTAAACAGTAGTGG-AGCAGATCGAAGACAGCA-AGCCTTAA-C-
1 CCCCTAAACAGTAG-GGTAACAGGTTGAA-A-A--ATA---TAAATCT
*
23746974 CCCCTAAGCAGTAGGGTAACAGGTTGAAAAATATAAATCT
1 CCCCTAAACAGTAGGGTAACAGGTTGAAAAATATAAATCT
23747014 CCCCTAAACAGTAG
1 CCCCTAAACAGTAG
23747028 TGGAGTAGAT
Statistics
Matches: 75, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
38 3 0.04
39 1 0.01
40 35 0.47
41 4 0.05
42 2 0.03
43 4 0.05
44 22 0.29
45 1 0.01
46 3 0.04
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.19
Consensus pattern (40 bp):
CCCCTAAACAGTAGGGTAACAGGTTGAAAAATATAAATCT
Found at i:23747447 original size:40 final size:40
Alignment explanation
Indices: 23747403--23747613 Score: 96
Period size: 40 Copynumber: 5.1 Consensus size: 40
23747393 CCCCCTAAGT
23747403 AGTAGGGTAACAGGCTGGAAAATACAGATCTCCCTTAGAC
1 AGTAGGGTAACAGGCTGGAAAATACAGATCTCCCTTAGAC
** * * * ** *
23747443 AGTAGTGG-AGTA-GATTGAAGACCCA-AGTCTTAACCCCCTA-AGC
1 AGTAG-GGTAACAGGCTGGAAAATACAGA-TC-T---CCCTTAGA-C
23747486 AGTAGGGTAACAGGCTGGAAAATACAGATCTCCCTTAGAC
1 AGTAGGGTAACAGGCTGGAAAATACAGATCTCCCTTAGAC
** * * * ** *
23747526 AGTAGTGG-AGTA-GATTGAAGACCCA-AGTCTTAACCCCCTA-AGC
1 AGTAG-GGTAACAGGCTGGAAAATACAGA-TC-T---CCCTTAGA-C
23747569 AGTAGGGTAACAGGCTGGAAAATACAGATCTCCCTTAGAC
1 AGTAGGGTAACAGGCTGGAAAATACAGATCTCCCTTAGAC
23747609 AGTAG
1 AGTAG
23747614 TGGAGTAGAT
Statistics
Matches: 117, Mismatches: 32, Indels: 44
0.61 0.17 0.23
Matches are distributed among these distances:
38 2 0.02
39 20 0.17
40 33 0.28
41 6 0.05
42 6 0.05
43 28 0.24
44 20 0.17
45 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (40 bp):
AGTAGGGTAACAGGCTGGAAAATACAGATCTCCCTTAGAC
Found at i:23747489 original size:43 final size:43
Alignment explanation
Indices: 23747442--23747656 Score: 116
Period size: 39 Copynumber: 5.1 Consensus size: 43
23747432 CTCCCTTAGA
23747442 CAGTAGTGGAGTAGATTGAAGACCCAAGTCTTAACCCCCTAAG
1 CAGTAGTGGAGTAGATTGAAGACCCAAGTCTTAACCCCCTAAG
** * * * ** *
23747485 CAGTAG-GGTAACAGGCTGGAAAATAC-AGATC-T----CCCTTAG
1 CAGTAGTGG-AGTA-GATTGAAGACCCAAG-TCTTAACCCCCTAAG
23747524 ACAGTAGTGGAGTAGATTGAAGACCCAAGTCTTAACCCCCTAAG
1 -CAGTAGTGGAGTAGATTGAAGACCCAAGTCTTAACCCCCTAAG
** * * * ** *
23747568 CAGTAG-GGTAACAGGCTGGAAAATAC-AGATC-T----CCCTTAG
1 CAGTAGTGG-AGTA-GATTGAAGACCCAAG-TCTTAACCCCCTAAG
23747607 ACAGTAGTGGAGTAGATTGAAGACCCAAGTCTTAACCCCCTAAG
1 -CAGTAGTGGAGTAGATTGAAGACCCAAGTCTTAACCCCCTAAG
23747651 CAGTAG
1 CAGTAG
23747657 GGTAACAGGC
Statistics
Matches: 118, Mismatches: 32, Indels: 44
0.61 0.16 0.23
Matches are distributed among these distances:
39 30 0.25
40 22 0.19
41 4 0.03
42 4 0.03
43 28 0.24
44 30 0.25
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (43 bp):
CAGTAGTGGAGTAGATTGAAGACCCAAGTCTTAACCCCCTAAG
Found at i:23747924 original size:84 final size:87
Alignment explanation
Indices: 23747702--23747955 Score: 257
Period size: 88 Copynumber: 2.9 Consensus size: 87
23747692 GTACTGGAAC
* * * * * * *
23747702 AGATCGAAGATCATAAGCCTTAACCCCCTAAGCAGGAGGGAAACAGGCT-AGAAATTATAGATCT
1 AGATCGAAGA-CGTGAGCCTTATCCCCCTAAGCAGCACGGAAACAGGTTGA-AAATTACAGATCT
23747766 TATCTCCCTAAGCAGTAGTAGGGA
64 TATCTCCCTAAGCAGTAGTAGGGA
* * * *
23747790 AGATCGCAGACGGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACATGTTGAAAATTACAGATCTT
1 AGATCGAAGAC-GTGAGCCTTATCCCCCTAAGCAGCACGGAAACAGGTTGAAAATTACAGATCTT
*
23747855 ATCTCCCTAAG-AGTAGT-GGAGC
65 ATCTCCCTAAGCAGTAGTAGG-GA
* * * ** * * *
23747877 GGATTGAAGAC-T-AGCCTTATCCTCCTAAGCAGCACGGAAATGGGTTGAAGATTACAAATCATA
1 AGATCGAAGACGTGAGCCTTATCCCCCTAAGCAGCACGGAAACAGGTTGAAAATTACAGATCTTA
23747940 TCTCCCTAAGCAGTAG
66 TCTCCCTAAGCAGTAG
23747956 CAGATCAGAT
Statistics
Matches: 141, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
84 52 0.37
85 6 0.04
86 2 0.01
87 16 0.11
88 64 0.45
89 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (87 bp):
AGATCGAAGACGTGAGCCTTATCCCCCTAAGCAGCACGGAAACAGGTTGAAAATTACAGATCTTA
TCTCCCTAAGCAGTAGTAGGGA
Found at i:23748508 original size:35 final size:34
Alignment explanation
Indices: 23748446--23748527 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 34
23748436 TACTTTGGGA
*
23748446 TTCCTATTTCAATTCGAAATTGGATTATTCTCTCTT
1 TTCCTATTTCAATTCGAAATTGAATTATT-T-TCTT
* *
23748482 TTCCTATTTCCATT-GGAATTGAATTATTTTCTT
1 TTCCTATTTCAATTCGAAATTGAATTATTTTCTT
*
23748515 TT-CTCTTTCAATT
1 TTCCTATTTCAATT
23748528 ACGTGAGAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 9 0.22
33 6 0.15
34 1 0.02
35 12 0.29
36 13 0.32
ACGTcount: A:0.21, C:0.18, G:0.07, T:0.54
Consensus pattern (34 bp):
TTCCTATTTCAATTCGAAATTGAATTATTTTCTT
Found at i:23748944 original size:15 final size:14
Alignment explanation
Indices: 23748876--23749004 Score: 79
Period size: 15 Copynumber: 8.9 Consensus size: 14
23748866 TTATTGCTAT
23748876 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
23748890 TATTTATATTTAT-
1 TATTTTTATTTATC
*
23748903 T-TTGTTATTCTAATAC
1 TATTTTTATT-T-AT-C
*
23748919 TATTATTATTTATC
1 TATTTTTATTTATC
23748933 TAATTTTTATTTATC
1 T-ATTTTTATTTATC
* *
23748948 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
*
23748963 TATTATTATATT-TC
1 TATTTTTAT-TTATC
*
23748977 TATTTATTATATT-TT
1 TATTT-TTAT-TTATC
23748992 TATTTTTATTTAT
1 TATTTTTATTTAT
23749005 ATACTAATAT
Statistics
Matches: 93, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
12 6 0.06
13 6 0.06
14 33 0.35
15 37 0.40
16 4 0.04
17 7 0.08
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.67
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:23748969 original size:58 final size:58
Alignment explanation
Indices: 23748877--23749004 Score: 136
Period size: 58 Copynumber: 2.2 Consensus size: 58
23748867 TATTGCTATT
** * *
23748877 ATTTTTATGTT-TCTATTTATATTTATTTTGTTATTCTAATACTA-TTATTAT-TTATCTA
1 ATTTTTAT-TTATCTATTTATATTTATACTATTATTATAATACTATTTATTATATT-T-TA
* * * *
23748935 ATTTTTATTTATCTATTTATATTTCTACTATTATTATATTTCTATTTATTATATTTTT
1 ATTTTTATTTATCTATTTATATTTATACTATTATTATAATACTATTTATTATATTTTA
23748993 ATTTTTATTTAT
1 ATTTTTATTTAT
23749005 ATACTAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
57 2 0.03
58 47 0.80
59 8 0.14
60 2 0.03
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (58 bp):
ATTTTTATTTATCTATTTATATTTATACTATTATTATAATACTATTTATTATATTTTA
Found at i:23749195 original size:25 final size:24
Alignment explanation
Indices: 23749134--23749195 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
23749124 TATAATGCTC
* * *
23749134 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATAAATTATGT
23749158 ACTTT-AATATTTTCATAAATTATGT
1 A-TTTCAA-ATTTTCATAAATTATGT
23749183 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
23749196 TTTTCACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTTCAAATTTTCATAAATTATGT
Found at i:23764089 original size:45 final size:44
Alignment explanation
Indices: 23764004--23764089 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 44
23763994 CATGTAATCT
*
23764004 GAACTCATTGAGTTGTGTCTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCC
*
23764048 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATGTATGACA
1 GAACTCATTGAGTTGT-GTCTGAGTTCATGATATATATGACA
23764090 CATGTTCTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 16 0.41
45 23 0.59
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (44 bp):
GAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCC
Found at i:23768491 original size:21 final size:21
Alignment explanation
Indices: 23768465--23768511 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
23768455 TCAACCCTTG
23768465 AACATCCTAAGGTTACTCATA
1 AACATCCTAAGGTTACTCATA
23768486 AACATCCTAAGGTTACTCATA
1 AACATCCTAAGGTTACTCATA
23768507 AACAT
1 AACAT
23768512 TTGCCCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (21 bp):
AACATCCTAAGGTTACTCATA
Found at i:23772525 original size:23 final size:23
Alignment explanation
Indices: 23772490--23772534 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
23772480 TATACTAAAT
*
23772490 ATATATATTTTTTATTTTTAATC
1 ATATATATATTTTATTTTTAATC
*
23772513 ATATTTATATTTTATTTTTAAT
1 ATATATATATTTTATTTTTAAT
23772535 TTTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATATATATTTTATTTTTAATC
Found at i:23772531 original size:29 final size:27
Alignment explanation
Indices: 23772498--23772552 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
23772488 ATATATATAT
* *
23772498 TTTTTATTTTTAATCATATTTATATTTTA
1 TTTTTAATTTTAAT-ATAATTA-ATTTTA
23772527 TTTTTAATTTTAATATAATTAATTTT
1 TTTTTAATTTTAATATAATTAATTTT
23772553 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTAATTTTAATATAATTAATTTTA
Found at i:23772621 original size:39 final size:40
Alignment explanation
Indices: 23772550--23772634 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 40
23772540 TATAATTAAT
*
23772550 TTTTATTATATTTTCAATTTGTGTATTATTTTAAAAATTG
1 TTTTAATATATTTTCAATTTGTGTATTATTTTAAAAATTG
* * * * * *
23772590 TTTTAATATATTTT-TATTTGTTTTTTGTTTTAATATTTG
1 TTTTAATATATTTTCAATTTGTGTATTATTTTAAAAATTG
23772629 TTTTAA
1 TTTTAA
23772635 ATGTATTTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 25 0.66
40 13 0.34
ACGTcount: A:0.26, C:0.01, G:0.07, T:0.66
Consensus pattern (40 bp):
TTTTAATATATTTTCAATTTGTGTATTATTTTAAAAATTG
Found at i:23776303 original size:28 final size:28
Alignment explanation
Indices: 23776250--23776326 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
23776240 ACATTTTTGA
*
23776250 AATGGCTCACACAAGCCTTAGGTAATGT
1 AATGGCTCACACAAGCCTTAAGTAATGT
* * * **
23776278 AATGGCTCATATAAGCCTTAATTAATCA
1 AATGGCTCACACAAGCCTTAAGTAATGT
* *
23776306 AATGGATTACACAAGCCTTAA
1 AATGGCTCACACAAGCCTTAA
23776327 TTTGATGATT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (28 bp):
AATGGCTCACACAAGCCTTAAGTAATGT
Found at i:23786261 original size:85 final size:84
Alignment explanation
Indices: 23786135--23786298 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 84
23786125 TACCGTACCA
* * * *
23786135 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAGCCCAGTTATGGTC
1 ATGCCATATCCAAGATATAGTCTTACATGTAATCTCATATCGATGCC-ATAGCCCAGATATGGTC
23786200 TTACACGAAATCTCACATTG
65 TTACACGAAATCTCACATTG
* * *
23786220 ATGCCATATCCAAGATATAGTCTTA-TTCG-AAGTCTCATATCGATGCCATATCCTAGATATGGT
1 ATGCCATATCCAAGATATAGTCTTACAT-GTAA-TCTCATATCGATGCCATAGCCCAGATATGGT
*
23786283 CTTACACGTAATCTCA
64 CTTACACGAAATCTCA
23786299 GTAACCCTAG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
84 31 0.45
85 38 0.55
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (84 bp):
ATGCCATATCCAAGATATAGTCTTACATGTAATCTCATATCGATGCCATAGCCCAGATATGGTCT
TACACGAAATCTCACATTG
Found at i:23786298 original size:42 final size:42
Alignment explanation
Indices: 23786135--23786298 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
23786125 TACCGTACCA
* *
23786135 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACGTAATCTCATATCG
* * * * * *
23786177 ATGCCAATAGCCCAGTTATGGTCTTACACGAAATCTCACATTG
1 ATGCC-ATATCCTAGATATGGTCTTACACGTAATCTCATATCG
* * **
23786220 ATGCCATATCCAAGATATAGTCTTATTCG-AAGTCTCATATCG
1 ATGCCATATCCTAGATATGGTCTTACACGTAA-TCTCATATCG
23786262 ATGCCATATCCTAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCTAGATATGGTCTTACACGTAATCTCA
23786299 GTAACCCTAG
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 2 0.02
42 61 0.62
43 36 0.36
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGTAATCTCATATCG
Found at i:23786835 original size:248 final size:248
Alignment explanation
Indices: 23786391--23786870 Score: 773
Period size: 248 Copynumber: 1.9 Consensus size: 248
23786381 AATTATGCTC
* *
23786391 ATGGAAATAATCATACATTTCATACAATATCAAAATATTAAAATACAACTATAGTATTGCATTAT
1 ATGGAAATAATCATACATTTCATACAATATCAAAACATTAAAATACAACTATAATATTGCATTAT
* * * *
23786456 TTAAATACGAAGTAACCTCGAATGCGACAACAGCGAAAAGGACCTATTTGTCTAATATTTGTTTT
66 TTAAATACGAACTAACCTCGAATGCGACAACAGCAAAAAAGACCTATTTGTCCAATATTTGTTTT
* *
23786521 TCCCCTAATCTAGACTCGAACTTCGTTTTTCTTGATCTATAATATCAAATTTAGCCCAATTATTA
131 TCCCCTAATCTAGACTCGAACTTCATTTTTCTTGATCTATAATATCAAATTTAGCCCAAATATTA
* * * *
23786586 GTCACGTTATTCAATGTGGCGCAAAAATCATATTATGTAAATAATGCAATATT
196 GTCACATTATTCAATATGACCCAAAAATCATATTATGTAAATAATGCAATATT
* *
23786639 ATGGAAATAATCATACATTTCATACAATATCATAACATTAAAATATAACTATAATATTGCATTA-
1 ATGGAAATAATCATACATTTCATACAATATCAAAACATTAAAATACAACTATAATATTGCATTAT
* **
23786703 TTAACATACGAACTTACCTCGAATGCGACAATGGCAAAAAAGACCTATTTGTCCAATATTTGTTT
66 TTAA-ATACGAACTAACCTCGAATGCGACAACAGCAAAAAAGACCTATTTGTCCAATATTTGTTT
* *
23786768 TTCCCCTGATCTAGACTCGAACTTCATTTTTCTTGATCTATAATATCAAATTTAGCTCAAATATT
130 TTCCCCTAATCTAGACTCGAACTTCATTTTTCTTGATCTATAATATCAAATTTAGCCCAAATATT
23786833 AGTCACATTATTCAATATGACCCAAAAATCATATTATG
195 AGTCACATTATTCAATATGACCCAAAAATCATATTATG
23786871 GAAAAATTAC
Statistics
Matches: 212, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
247 4 0.02
248 208 0.98
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (248 bp):
ATGGAAATAATCATACATTTCATACAATATCAAAACATTAAAATACAACTATAATATTGCATTAT
TTAAATACGAACTAACCTCGAATGCGACAACAGCAAAAAAGACCTATTTGTCCAATATTTGTTTT
TCCCCTAATCTAGACTCGAACTTCATTTTTCTTGATCTATAATATCAAATTTAGCCCAAATATTA
GTCACATTATTCAATATGACCCAAAAATCATATTATGTAAATAATGCAATATT
Found at i:23790901 original size:20 final size:21
Alignment explanation
Indices: 23790867--23790907 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
23790857 GCAGGGGAAG
23790867 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
*
23790888 GAAAGAAA-AAAAAGGGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
23790908 TCAAAGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:23790913 original size:21 final size:21
Alignment explanation
Indices: 23790868--23790914 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
23790858 CAGGGGAAGG
*
23790868 AAAGAAAGAAAAAGAGAAAAG
1 AAAGAAAGAAAAAGAGAAAAC
*
23790889 AAAGAAA-AAAAAGGGAAAATC
1 AAAGAAAGAAAAAGAGAAAA-C
23790910 AAAGA
1 AAAGA
23790915 TGTGAAGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (21 bp):
AAAGAAAGAAAAAGAGAAAAC
Found at i:23792897 original size:46 final size:46
Alignment explanation
Indices: 23792845--23793014 Score: 234
Period size: 46 Copynumber: 3.7 Consensus size: 46
23792835 GCTCTCTGAA
* *
23792845 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
23792891 ATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAACGTGGC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
23792937 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
23792983 A-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATAC
23793015 TATAGCATCA
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 109 0.99
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:23811947 original size:22 final size:22
Alignment explanation
Indices: 23811913--23811954 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23811903 ATATACTCAG
* *
23811913 AATACTCAGAAAAGATCATTGT
1 AATACTAAAAAAAGATCATTGT
23811935 AATACTAAAAAAAGATCATT
1 AATACTAAAAAAAGATCATT
23811955 AAAATCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (22 bp):
AATACTAAAAAAAGATCATTGT
Found at i:23812684 original size:37 final size:37
Alignment explanation
Indices: 23812629--23812729 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 37
23812619 CGTTTACTTG
* * *
23812629 ATGCCATAGTCCAACTATGGTCTTACACAAAATCATA
1 ATGCCATAGCCCAGCTATGGTCTTACACAAAATCACA
**** * *
23812666 ATGCCATAGCCCAGCTATGGTCTTACATGTCATTACG
1 ATGCCATAGCCCAGCTATGGTCTTACACAAAATCACA
*
23812703 ATGCCATAGCCTAGCTATGGTCTTACA
1 ATGCCATAGCCCAGCTATGGTCTTACA
23812730 TTCCATACTT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (37 bp):
ATGCCATAGCCCAGCTATGGTCTTACACAAAATCACA
Found at i:23815685 original size:142 final size:146
Alignment explanation
Indices: 23815526--23815853 Score: 477
Period size: 142 Copynumber: 2.2 Consensus size: 146
23815516 ACGATACCTC
*
23815526 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGATGCCGAAGCCATGTCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGCCGAAGCCATGTCC
*
23815591 CAAACATGGTCTTACACTAGG-TCACATAACGATG-C-C-GATGCCATGTCCTAGACATGGTCTT
66 CAAACATGGTCTTACA-TAGGCTCACATAACGATGCCGCTGATGCCATGTCCCAGACATGGTCTT
*
23815652 ACAC-GCTCACATAATG
130 ACACAGCTCACATAACG
* * * *
23815668 ATGCCTATGCCATGTCCCAGACATGGTCTTATACTGGCTTACATAACGATGCCGATGCCATGTCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGCCGAAGCCATGTCC
* *
23815733 CAGACATGGTCTTACATTGGCTCACATAACGATGCCGATGCTGATGCCATGTCCCAGACATGGTC
66 CAAACATGGTCTTACATAGGCTCACATAACGATGCC---GCTGATGCCATGTCCCAGACATGGTC
23815798 TTACACTAGCTCACATAACG
128 TTACAC-AGCTCACATAACG
* *
23815818 ATGCCGATGCAATGTCCCAGATATGGTCTTACACTG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
23815854 TTACACATAT
Statistics
Matches: 164, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
141 3 0.02
142 88 0.54
143 1 0.01
147 1 0.01
148 28 0.17
150 43 0.26
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (146 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGCCGAAGCCATGTCC
CAAACATGGTCTTACATAGGCTCACATAACGATGCCGCTGATGCCATGTCCCAGACATGGTCTTA
CACAGCTCACATAACG
Found at i:23815692 original size:94 final size:94
Alignment explanation
Indices: 23815526--23815851 Score: 447
Period size: 94 Copynumber: 3.4 Consensus size: 94
23815516 ACGATACCTC
* *
23815526 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGATGCCGAAGCCATGTCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACAC--GCTCACATAATGATGCCTATGCCATGTCC
*
23815591 CAAACATGGTCTTACACTAGGTCACATAACG
64 CAGACATGGTCTTACACTAGGTCACATAACG
*
23815622 ATGCCGATGCCATGTCCTAGACATGGTCTTACACGCTCACATAATGATGCCTATGCCATGTCCCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACGCTCACATAATGATGCCTATGCCATGTCCCA
* *
23815687 GACATGGTCTTATACT-GGCTTACATAACG
66 GACATGGTCTTACACTAGG-TCACATAACG
* *
23815716 ATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACGATGCCGATGCTGATGCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACA--CGCTCACATAATGATG-C----CT-ATGCC
*
23815781 ATGTCCCAGACATGGTCTTACACTAGCTCACATAACG
58 ATGTCCCAGACATGGTCTTACACTAGGTCACATAACG
* *
23815818 ATGCCGATGCAATGTCCCAGATATGGTCTTACAC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACAC
23815852 TGTTACACAT
Statistics
Matches: 205, Mismatches: 15, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
93 2 0.01
94 84 0.41
96 47 0.23
97 1 0.00
101 2 0.01
102 68 0.33
103 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (94 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACGCTCACATAATGATGCCTATGCCATGTCCCA
GACATGGTCTTACACTAGGTCACATAACG
Found at i:23815862 original size:48 final size:48
Alignment explanation
Indices: 23815526--23815853 Score: 464
Period size: 48 Copynumber: 6.8 Consensus size: 48
23815516 ACGATACCTC
*
23815526 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* *
23815574 ATGCCGAAGCCATGTCCCAAACATGGTCTTACACTAGG-TCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTCACATAACG
* *
23815622 ATGCCGATGCCATGTCCTAGACATGGTCTTACAC--GCTCACATAATG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * *
23815668 ATGCCTATGCCATGTCCCAGACATGGTCTTATACTGGCTTACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
*
23815716 ATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
*
23815764 ATGCCGATGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACG
1 ATG-C----C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* *
23815818 ATGCCGATGCAATGTCCCAGATATGGTCTTACACTG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
23815854 TTACACATAT
Statistics
Matches: 249, Mismatches: 21, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
45 1 0.00
46 40 0.16
48 158 0.63
49 4 0.02
53 2 0.01
54 44 0.18
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
Found at i:23816939 original size:20 final size:20
Alignment explanation
Indices: 23816881--23816940 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
23816871 AAAAAAATTG
*
23816881 AAATGTATATTTGAAATGTTTT
1 AAATATATATTTGAAA--TTTT
* *
23816903 ATAATAT-TTTTTAAAATTTT
1 A-AATATATATTTGAAATTTT
23816923 AAATATATATTTGAAATT
1 AAATATATATTTGAAATT
23816941 ATTTTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 5 0.16
20 14 0.45
22 8 0.26
23 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
AAATATATATTTGAAATTTT
Found at i:23816959 original size:20 final size:21
Alignment explanation
Indices: 23816931--23817000 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
23816921 TTAAATATAT
23816931 ATTTGAAAT-TATTTTTTAAAA
1 ATTT-AAATATATTTTTTAAAA
*
23816952 ATTTAAATGT-TTTTTTATAAA
1 ATTTAAATATATTTTTTA-AAA
* *
23816973 TTTTAAATATATTTTTTAATA
1 ATTTAAATATATTTTTTAAAA
*
23816994 ATATAAA
1 ATTTAAA
23817001 AATTTAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
20 11 0.27
21 23 0.56
22 7 0.17
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
ATTTAAATATATTTTTTAAAA
Found at i:23817187 original size:31 final size:28
Alignment explanation
Indices: 23817143--23817231 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 28
23817133 TTATTATTTG
*
23817143 TTTTATAATATTTTAAATGTATATTTTAAATA
1 TTTTTTAA-ATTTTAAAT-TA-ATTTTAAA-A
23817175 TTTTTTAAATTTTAAATATAATTTTTATAAA
1 TTTTTTAAATTTTAAAT-TAA-TTTTA-AAA
* *
23817206 -TTATTAATTTTTAAATTAATTTTAAA
1 TTTTTTAAATTTTAAATTAATTTTAAA
23817232 GATATCCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
27 2 0.04
28 5 0.10
29 3 0.06
30 15 0.29
31 17 0.33
32 9 0.18
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTTTTAAATTTTAAATTAATTTTAAAA
Found at i:23822436 original size:42 final size:42
Alignment explanation
Indices: 23822377--23822456 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
23822367 ATGAAGCGTC
23822377 GTTGTAAATCAAAAATTCTTTACCCAACTCAGGTTGAACTAA
1 GTTGTAAATCAAAAATTCTTTACCCAACTCAGGTTGAACTAA
*
23822419 GTTGTAAATCACAAATTCTTTACCCAACTCAGGTTGAA
1 GTTGTAAATCAAAAATTCTTTACCCAACTCAGGTTGAA
23822457 GTAACACTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (42 bp):
GTTGTAAATCAAAAATTCTTTACCCAACTCAGGTTGAACTAA
Found at i:23834135 original size:19 final size:19
Alignment explanation
Indices: 23834093--23834135 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
23834083 TAAAGTCATA
23834093 TTTTTTTAACAAATAAATC
1 TTTTTTTAACAAATAAATC
*
23834112 ATTTTTTAACAAATAAAT-
1 TTTTTTTAACAAATAAATC
23834130 TTTTTT
1 TTTTTT
23834136 ATTTTTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTTTTAACAAATAAATC
Found at i:23834213 original size:21 final size:22
Alignment explanation
Indices: 23834173--23834213 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
23834163 ATTTCTTTAA
* *
23834173 TAAAATATTATTTTTTAAAATT
1 TAAAATATTAATTTTAAAAATT
23834195 TAAAATA-TAATTTTAAAAA
1 TAAAATATTAATTTTAAAAA
23834214 AGGTTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAAATATTAATTTTAAAAATT
Found at i:23834214 original size:22 final size:22
Alignment explanation
Indices: 23834173--23834214 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23834163 ATTTCTTTAA
* **
23834173 TAAAATATTATTTTTTAAAATT
1 TAAAATATAATTTTAAAAAATT
23834195 TAAAATATAATTTTAAAAAA
1 TAAAATATAATTTTAAAAAA
23834215 GGTTTGAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAATATAATTTTAAAAAATT
Found at i:23834254 original size:15 final size:15
Alignment explanation
Indices: 23834234--23834266 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23834224 ATCCTTAAAA
23834234 ATAATTTAAAAAATT
1 ATAATTTAAAAAATT
*
23834249 ATAATTTTAAAAATT
1 ATAATTTAAAAAATT
23834264 ATA
1 ATA
23834267 TGTAAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAAAATT
Found at i:23835630 original size:48 final size:48
Alignment explanation
Indices: 23835563--23835890 Score: 464
Period size: 48 Copynumber: 6.8 Consensus size: 48
23835553 ATATGTGTAA
* *
23835563 CAGTGTAAGACCATATCTGGGACATTGCATCGGCATCGTTATGTGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGC
*
23835611 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGGCATCGTTATGTGAGC
1 CAGTGTAAGACCATGTCTGGGACAT-G-----GCATCGGCATCGTTATGTGAGC
* *
23835665 CAATGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTAAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGC
* * *
23835713 CAGTATAAGACCATGTCTGGGACATGGCATAGGCATCATTATGTGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGC
*
23835760 C-GTGTAAGACCATGTCTAGGACATGGCATCGGCATCGTTATGTGA-C
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGC
* * *
23835806 CTAGTGTAAGACCATGTTTGGGACATGGCTTCGGCATCATTATGTGAGC
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGC
23835855 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
23835891 GAGGTATCGT
Statistics
Matches: 249, Mismatches: 21, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
46 41 0.16
47 1 0.00
48 159 0.64
49 2 0.01
53 1 0.00
54 45 0.18
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGC
Found at i:23835785 original size:94 final size:96
Alignment explanation
Indices: 23835563--23835890 Score: 473
Period size: 94 Copynumber: 3.4 Consensus size: 96
23835553 ATATGTGTAA
* * *
23835563 CAGTGTAAGACCATATCTGGGACATTGCATCGGCATCGTTATGTGAGCTAGTGTAAGACCATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTGTAAGACCATGTC
*
23835628 TGGGACATGGCATCAGCATCGGCATCGTTATGTGAGC
66 TGGGACATGGCAT----A--GGCATCATTATGTGAGC
* * *
23835665 CAATGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTAAGCCAGTATAAGACCATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTGTAAGACCATGTC
23835730 TGGGACATGGCATAGGCATCATTATGTGAG-
66 TGGGACATGGCATAGGCATCATTATGTGAGC
*
23835760 C-GTGTAAGACCATGTCTAGGACATGGCATCGGCATCGTTATGTGA-CCTAGTGTAAGACCATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCC-AGTGTAAGACCATGT
* * *
23835823 TTGGGACATGGCTTCGGCATCATTATGTGAGC
65 CTGGGACATGGCATAGGCATCATTATGTGAGC
23835855 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
23835891 GAGGTATCGT
Statistics
Matches: 208, Mismatches: 15, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
93 2 0.01
94 83 0.40
95 2 0.01
96 48 0.23
98 1 0.00
102 72 0.35
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (96 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATAGGCATCATTATGTGAGC
Found at i:23835830 original size:142 final size:145
Alignment explanation
Indices: 23835563--23835890 Score: 475
Period size: 142 Copynumber: 2.2 Consensus size: 145
23835553 ATATGTGTAA
* * *
23835563 CAGTGTAAGACCATATCTGGGACATTGCATCGGCATCGTTATGTGAGCTAGTGTAAGACCATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGC-AGTGTAAGACCATGTC
*
23835628 TGGGACATGGCATCAGCATCGGCATCGTTATGTGAGCCAATGTAAGACCATGTCTGGGACATGGC
65 TAGGACATGG----AGCATCGGCATCGTTATGTGAGCCAATGTAAGACCATGTCTGGGACATGGC
*
23835693 ATCGGCATCGTTATGTAAGC
126 ATCGGCATCATTATGTAAGC
* *
23835713 CAGTATAAGACCATGTCTGGGACATGGCATAGGCATCATTATGTGAGC-GTGTAAGACCATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCAGTGTAAGACCATGTCT
* * *
23835777 AGGACAT-G-GCATCGGCATCGTTATGTGA-CCTAGTGTAAGACCATGTTTGGGACATGGCTTCG
66 AGGACATGGAGCATCGGCATCGTTATGTGAGCC-AATGTAAGACCATGTCTGGGACATGGCATCG
*
23835839 GCATCATTATGTGAGC
130 GCATCATTATGTAAGC
23835855 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
23835891 GAGGTATCGT
Statistics
Matches: 164, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
141 2 0.01
142 96 0.59
147 1 0.01
148 22 0.13
150 43 0.26
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (145 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCAGTGTAAGACCATGTCT
AGGACATGGAGCATCGGCATCGTTATGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGG
CATCATTATGTAAGC
Found at i:23838765 original size:37 final size:37
Alignment explanation
Indices: 23838686--23838789 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 37
23838676 AAAGTATGGA
* *
23838686 ATGTAAGACCATAGCTAGGCTATGGCATCGTAATGAC
1 ATGTAAGACCATAGCTGGGCTATGGCATCATAATGAC
* * ***
23838723 ATGTAAGACCATAGCTGGGCTATGGCATTATGATTTT
1 ATGTAAGACCATAGCTGGGCTATGGCATCATAATGAC
* * *
23838760 GTGTAAGACCATAGTTGGACTATGGCATCA
1 ATGTAAGACCATAGCTGGGCTATGGCATCA
23838790 AGTAAACGAT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (37 bp):
ATGTAAGACCATAGCTGGGCTATGGCATCATAATGAC
Found at i:23839490 original size:22 final size:22
Alignment explanation
Indices: 23839462--23839503 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23839452 AATAGATTTT
* *
23839462 AATGATCTTTTTTTAGTATTAC
1 AATGATCTTTTCTGAGTATTAC
23839484 AATGATCTTTTCTGAGTATT
1 AATGATCTTTTCTGAGTATT
23839504 CTGAGTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (22 bp):
AATGATCTTTTCTGAGTATTAC
Found at i:23849966 original size:35 final size:36
Alignment explanation
Indices: 23849896--23850016 Score: 111
Period size: 35 Copynumber: 3.4 Consensus size: 36
23849886 TTTGATATTC
* * * ** *
23849896 TGATTCGCATCTTAAGCATGCTATTA-AGCTGATTT
1 TGATTCGCATGTTAAACATGCCATTATTTCTAATTT
* * * *
23849931 TGACTCGCATGTTAAGCATGCCATT-TTTTTTATTT
1 TGATTCGCATGTTAAACATGCCATTATTTCTAATTT
* *
23849966 TGATTCACATGTGAAACATGCCATTATTTCTAATTT
1 TGATTCGCATGTTAAACATGCCATTATTTCTAATTT
*
23850002 TGATTCGCTTGTTAA
1 TGATTCGCATGTTAA
23850017 TTATGTTACT
Statistics
Matches: 68, Mismatches: 16, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
35 48 0.71
36 20 0.29
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (36 bp):
TGATTCGCATGTTAAACATGCCATTATTTCTAATTT
Found at i:23850775 original size:21 final size:22
Alignment explanation
Indices: 23850749--23850798 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
23850739 TTATTAATCC
23850749 AACTCAACGATAGTGTTTTC-A
1 AACTCAACGATAGTGTTTTCAA
* **
23850770 AACTCAA-TATTTTGTTTTCAA
1 AACTCAACGATAGTGTTTTCAA
23850791 AACTCAAC
1 AACTCAAC
23850799 ACCACTTGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (22 bp):
AACTCAACGATAGTGTTTTCAA
Found at i:23851787 original size:36 final size:36
Alignment explanation
Indices: 23851747--23851833 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
23851737 TTTGACTCGT
* * * * *
23851747 ATGTTAAGCATGCCATTATTTTTTATTTTCATTTGC
1 ATGTTAAGAATGCCATTATTTCTGATTCTCATTCGC
*
23851783 ATGTTAAGAATGCCATTATTTCTGATTCTGATTCGC
1 ATGTTAAGAATGCCATTATTTCTGATTCTCATTCGC
23851819 ATGTTAAGAATGCCA
1 ATGTTAAGAATGCCA
23851834 ATGTATTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (36 bp):
ATGTTAAGAATGCCATTATTTCTGATTCTCATTCGC
Found at i:23855680 original size:22 final size:22
Alignment explanation
Indices: 23855638--23855680 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
23855628 AATTTATTAT
* *
23855638 AAATTTCTTATTAGAATATATA
1 AAATTTCTAATTACAATATATA
23855660 AAATTTCATAATTACAA-ATAT
1 AAATTTC-TAATTACAATATAT
23855681 TGTACAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATTTCTAATTACAATATATA
Found at i:23856891 original size:27 final size:27
Alignment explanation
Indices: 23856843--23856971 Score: 159
Period size: 27 Copynumber: 4.8 Consensus size: 27
23856833 GGTAGTTCAC
* *
23856843 TCAAAGTTCGCCTCAAAAGCTATTCTT
1 TCAAAGTTCGCCACAAAGGCTATTCTT
* ****
23856870 TCAGAGTTCGCTGTGAAGGCTATTCTT
1 TCAAAGTTCGCCACAAAGGCTATTCTT
23856897 TCAAAGTTCGCCACAAAGGCTATTCTT
1 TCAAAGTTCGCCACAAAGGCTATTCTT
* *
23856924 TCAAAGTTCACCACAATGGCTATTCTT
1 TCAAAGTTCGCCACAAAGGCTATTCTT
* *
23856951 TCAAAGTTCACCAAAAAGGCT
1 TCAAAGTTCGCCACAAAGGCT
23856972 TACAAAATGC
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (27 bp):
TCAAAGTTCGCCACAAAGGCTATTCTT
Found at i:23856925 original size:54 final size:54
Alignment explanation
Indices: 23856826--23856971 Score: 161
Period size: 54 Copynumber: 2.7 Consensus size: 54
23856816 TCAGGGTATG
** * * * *
23856826 CCACAATGG-TAGTTCACTCAAAGTTCGCCTCAAAAGCTATTCTTTCAGAGTTCG
1 CCACAATGGCTA-TTCTTTCAAAGTTCGCCACAAAGGCTATTCTTTCAAAGTTCA
***
23856880 CTGTGAA-GGCTATTCTTTCAAAGTTCGCCACAAAGGCTATTCTTTCAAAGTTCA
1 C-CACAATGGCTATTCTTTCAAAGTTCGCCACAAAGGCTATTCTTTCAAAGTTCA
* *
23856934 CCACAATGGCTATTCTTTCAAAGTTCACCAAAAAGGCT
1 CCACAATGGCTATTCTTTCAAAGTTCGCCACAAAGGCT
23856972 TACAAAATGC
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
53 2 0.03
54 69 0.92
55 4 0.05
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (54 bp):
CCACAATGGCTATTCTTTCAAAGTTCGCCACAAAGGCTATTCTTTCAAAGTTCA
Found at i:23857330 original size:12 final size:14
Alignment explanation
Indices: 23857297--23857330 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
23857287 AACCAATAGA
23857297 ACATACATTCCACG
1 ACATACATTCCACG
23857311 ACATACATTCCA-G
1 ACATACATTCCACG
23857324 A-ATACAT
1 ACATACAT
23857331 ATACAACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.30
13 2 0.10
14 12 0.60
ACGTcount: A:0.41, C:0.29, G:0.06, T:0.24
Consensus pattern (14 bp):
ACATACATTCCACG
Found at i:23859251 original size:41 final size:40
Alignment explanation
Indices: 23859175--23859260 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
23859165 CAAATACATT
*
23859175 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATTATAC
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAA-TATAA
* * * * **
23859216 TAAAACAATTCTTAAAACAATACACAAATTGAAAATATAA
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
23859256 TAAAA
1 TAAAA
23859261 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 9 0.24
41 29 0.76
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.22
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:23859311 original size:28 final size:27
Alignment explanation
Indices: 23859247--23859311 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
23859237 ACACAAATTG
* * *
23859247 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
23859274 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
23859303 AAAATAAAA
1 AAAATAAAA
23859312 AATATATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:23868672 original size:55 final size:55
Alignment explanation
Indices: 23868567--23868673 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
23868557 CAATCCTGCC
* * *
23868567 AAATCAACACGGGCGTACAACACGCCCGTGCCTATAAGCCGTTGTAGAAACTGAG
1 AAATCAACACGGGCGTACAACACGCCCGTGCCTACAACCCGTGGTAGAAACTGAG
* * * * *
23868622 AAATTAACACGGGCGTACGACATGCCCGTGCCTACCACCCGTGGTTGAAACT
1 AAATCAACACGGGCGTACAACACGCCCGTGCCTACAACCCGTGGTAGAAACT
23868674 TTTACGATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.18
Consensus pattern (55 bp):
AAATCAACACGGGCGTACAACACGCCCGTGCCTACAACCCGTGGTAGAAACTGAG
Found at i:23870695 original size:12 final size:12
Alignment explanation
Indices: 23870666--23870716 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
23870656 TTTTGAAGAT
* *
23870666 TTTTTATTTTTA
1 TTTTTATTTATC
*
23870678 TATTTATTTATC
1 TTTTTATTTATC
23870690 TTTTTAATTTA-C
1 TTTTT-ATTTATC
*
23870702 TTTTTATTTCTC
1 TTTTTATTTATC
23870714 TTT
1 TTT
23870717 AATACTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 4 0.12
12 23 0.72
13 5 0.16
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTATTTATC
Found at i:23873991 original size:27 final size:28
Alignment explanation
Indices: 23873944--23874006 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
23873934 ATAAAGGCTT
** *
23873944 TTCCTTCA-AGGTTCATTATACTTACCA
1 TTCCTTCAGAGGTTCACCATACATACCA
*
23873971 TTCCTTCAGA-GTTCACCATACATACTA
1 TTCCTTCAGAGGTTCACCATACATACCA
*
23873998 TCCCTTCAG
1 TTCCTTCAG
23874007 TGTTTGCCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.30, G:0.08, T:0.37
Consensus pattern (28 bp):
TTCCTTCAGAGGTTCACCATACATACCA
Found at i:23875317 original size:18 final size:18
Alignment explanation
Indices: 23875231--23875329 Score: 85
Period size: 18 Copynumber: 5.6 Consensus size: 18
23875221 GTTAATCTTT
*
23875231 ATTATTCAGTATCAGTCA
1 ATTATTCAGTAACAGTCA
* * * * *
23875249 GTCA-ACAGTAATAATCA
1 ATTATTCAGTAACAGTCA
* *
23875266 TTTATTCAGTAACAGTCG
1 ATTATTCAGTAACAGTCA
* *
23875284 TTTATTCAGTAACAGTTA
1 ATTATTCAGTAACAGTCA
*
23875302 ATTATTCAGTAGCAGTCA
1 ATTATTCAGTAACAGTCA
23875320 ATTATT-AGTA
1 ATTATTCAGTA
23875330 CTTTTATTTA
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
17 15 0.24
18 48 0.76
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.37
Consensus pattern (18 bp):
ATTATTCAGTAACAGTCA
Found at i:23876551 original size:14 final size:14
Alignment explanation
Indices: 23876532--23876570 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
23876522 GAGCATTCTG
23876532 TTTCTTTTCTTTGT-
1 TTTC-TTTCTTTGTC
*
23876546 TTTCTTTCTTTTTC
1 TTTCTTTCTTTGTC
23876560 TTTCTTTCTTT
1 TTTCTTTCTTT
23876571 ACTTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTCTTTCTTTGTC
Found at i:23876553 original size:18 final size:17
Alignment explanation
Indices: 23876532--23876575 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
23876522 GAGCATTCTG
*
23876532 TTTCTTTTCTTTGTTTTC
1 TTTCTTTTCTTT-CTTTC
23876550 TTTCTTTTTCTTTCTTTC
1 TTTC-TTTTCTTTCTTTC
23876568 TTTACTTT
1 TTT-CTTT
23876576 ATATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTCTTTTCTTTCTTTC
Found at i:23876776 original size:21 final size:22
Alignment explanation
Indices: 23876752--23876792 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
23876742 ATTATTTAAT
23876752 TAATAAATATCT-TTTACTAAA
1 TAATAAATATCTATTTACTAAA
23876773 TAATAAATATCTATTTACTA
1 TAATAAATATCTATTTACTA
23876793 TTAAATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATAAATATCTATTTACTAAA
Found at i:23876799 original size:25 final size:22
Alignment explanation
Indices: 23876747--23876791 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
23876737 ATATAATTAT
*
23876747 TTAATTAATAAATATCTTTTAC
1 TTAAATAATAAATATCTTTTAC
23876769 -TAAATAATAAATATCTATTTAC
1 TTAAATAATAAATATCT-TTTAC
23876791 T
1 T
23876792 ATTAAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAAATAATAAATATCTTTTAC
Found at i:23876918 original size:19 final size:19
Alignment explanation
Indices: 23876881--23876919 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23876871 TAATTTATTT
*
23876881 AATAATATAATATCAATTA
1 AATAATATAATAACAATTA
23876900 AATAATAATAATAAC-ATTA
1 AATAAT-ATAATAACAATTA
23876919 A
1 A
23876920 TATTTACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAATATAATAACAATTA
Found at i:23877461 original size:27 final size:27
Alignment explanation
Indices: 23877422--23877527 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
23877412 TTGCTTTCCT
*
23877422 TAGATCACCACAAAGGCTTCCAGTTT-A
1 TAGATCGCCACAAAGGCTTCCA-TTTCA
* *
23877449 TAGATCGCTACAAAGGCTTCTATTTCA
1 TAGATCGCCACAAAGGCTTCCATTTCA
* * *
23877476 TAGGTTGCCACAAAGGTTTCCATTTCA
1 TAGATCGCCACAAAGGCTTCCATTTCA
** * *
23877503 TAGATTACCACAAAGGATTCTATTT
1 TAGATCGCCACAAAGGCTTCCATTT
23877528 TCTAGCGTGT
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.05
27 63 0.95
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (27 bp):
TAGATCGCCACAAAGGCTTCCATTTCA
Found at i:23892249 original size:21 final size:21
Alignment explanation
Indices: 23892225--23892290 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
23892215 GCTGCTGTAA
*
23892225 CTGCTGCTG-ATTCTGCAACTG
1 CTGCTGCTGCAAT-TGCAACTG
*
23892246 CTGCGGCTGCAATTGCAA-T-
1 CTGCTGCTGCAATTGCAACTG
*
23892265 -TGCTGCTGCAGTTGCAACTG
1 CTGCTGCTGCAATTGCAACTG
*
23892285 TTGCTG
1 CTGCTG
23892291 TTGCTGGGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 15 0.41
19 1 0.03
20 1 0.03
21 18 0.49
22 2 0.05
ACGTcount: A:0.15, C:0.26, G:0.27, T:0.32
Consensus pattern (21 bp):
CTGCTGCTGCAATTGCAACTG
Found at i:23892289 original size:18 final size:18
Alignment explanation
Indices: 23892223--23892290 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
23892213 CAGCTGCTGT
*
23892223 AACTGCTGCTG-ATTCTGC
1 AACTGCTGCTGCAAT-TGC
23892241 AACTGCTGCGGCTGCAATTGC
1 AACTGCT---GCTGCAATTGC
* *
23892262 AATTGCTGCTGCAGTTGC
1 AACTGCTGCTGCAATTGC
*
23892280 AACTGTTGCTG
1 AACTGCTGCTG
23892291 TTGCTGGGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 26 0.63
21 13 0.32
22 2 0.05
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (18 bp):
AACTGCTGCTGCAATTGC
Found at i:23895521 original size:39 final size:39
Alignment explanation
Indices: 23895467--23895542 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
23895457 GAGTCATTTG
*
23895467 CACTTGAAGCCAAAGATGGGGTACCACCAACAGCAGGAA
1 CACTTGAAGCCAAAGACGGGGTACCACCAACAGCAGGAA
23895506 CACTTGAAGCCAAAGACGGGGTACCACCAACAGCAGG
1 CACTTGAAGCCAAAGACGGGGTACCACCAACAGCAGG
23895543 TATTGAGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.37, C:0.28, G:0.26, T:0.09
Consensus pattern (39 bp):
CACTTGAAGCCAAAGACGGGGTACCACCAACAGCAGGAA
Found at i:23899041 original size:43 final size:43
Alignment explanation
Indices: 23898980--23899066 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
23898970 CTACAAACAT
23898980 TATTTCAAAAGTAACTCCATATCCCACTACATTCGAGTAAATA
1 TATTTCAAAAGTAACTCCATATCCCACTACATTCGAGTAAATA
*
23899023 TATTTCAAAAGTAACTCCATATCCCACTACATTTGAGTAAATA
1 TATTTCAAAAGTAACTCCATATCCCACTACATTCGAGTAAATA
23899066 T
1 T
23899067 TTCTCTTTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (43 bp):
TATTTCAAAAGTAACTCCATATCCCACTACATTCGAGTAAATA
Found at i:23899857 original size:17 final size:17
Alignment explanation
Indices: 23899835--23899868 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23899825 AAATTACAAA
23899835 ATGAAATCTTCTAAGAT
1 ATGAAATCTTCTAAGAT
*
23899852 ATGAAATCTTTTAAGAT
1 ATGAAATCTTCTAAGAT
23899869 TAATTTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (17 bp):
ATGAAATCTTCTAAGAT
Found at i:23903459 original size:27 final size:27
Alignment explanation
Indices: 23903421--23903475 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
23903411 TACTGATACC
*
23903421 GACTAAACTGTTAGAATTTAAGGTTGT
1 GACTAAACTGTTAGAATTTAAGGCTGT
*
23903448 GACTAAATTGTTAGAATTTAAGGCTGT
1 GACTAAACTGTTAGAATTTAAGGCTGT
23903475 G
1 G
23903476 CTGTTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (27 bp):
GACTAAACTGTTAGAATTTAAGGCTGT
Found at i:23905495 original size:19 final size:20
Alignment explanation
Indices: 23905460--23905501 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 20
23905450 TCAAACGCCA
23905460 AAAATGTAAATCATTT-CAG
1 AAAATGTAAATCATTTCCAG
23905479 AAAA-GTAAATCATTTTCCAG
1 AAAATGTAAATCA-TTTCCAG
23905499 AAA
1 AAA
23905502 TTATTTTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 7 0.33
20 6 0.29
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.29
Consensus pattern (20 bp):
AAAATGTAAATCATTTCCAG
Found at i:23906519 original size:3 final size:3
Alignment explanation
Indices: 23906511--23906539 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
23906501 ATCATGTGTC
23906511 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
23906540 TCAAGGTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:23909086 original size:35 final size:35
Alignment explanation
Indices: 23909031--23909099 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
23909021 AACTCGGTTG
* *
23909031 ATTGTAAAACCTATTTCATTGAATAACCATTACAA
1 ATTGTAAAACATATTCCATTGAATAACCATTACAA
23909066 ATTGTAAAACATATTCCATTGAATAACCATTACA
1 ATTGTAAAACATATTCCATTGAATAACCATTACA
23909100 GATTCCCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.33
Consensus pattern (35 bp):
ATTGTAAAACATATTCCATTGAATAACCATTACAA
Found at i:23912597 original size:19 final size:20
Alignment explanation
Indices: 23912569--23912607 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
23912559 TCCCATTATT
23912569 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
23912588 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
23912608 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:23912625 original size:25 final size:23
Alignment explanation
Indices: 23912588--23912633 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
23912578 TTTGTTTTAA
*
23912588 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
23912611 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
23912634 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:23914632 original size:13 final size:13
Alignment explanation
Indices: 23914614--23914639 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23914604 CAAAAACATA
23914614 ATTATAATAATTT
1 ATTATAATAATTT
23914627 ATTATAATAATTT
1 ATTATAATAATTT
23914640 CGGTAAACTA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:23918122 original size:13 final size:13
Alignment explanation
Indices: 23918100--23918132 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
23918090 AAGGGTTTGT
23918100 TTAT-TAAACTAA
1 TTATCTAAACTAA
23918112 TTATCTAAACTAA
1 TTATCTAAACTAA
*
23918125 TTAACTAA
1 TTATCTAA
23918133 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:23921035 original size:7 final size:6
Alignment explanation
Indices: 23921015--23921105 Score: 89
Period size: 6 Copynumber: 15.3 Consensus size: 6
23921005 AAGAAAATTG
* * * * *
23921015 AAATGA AAATAA AAATCA AAAGAA AAATAA GAAT-A AAATAA ATAAAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-AATA-A
*
23921064 AAATAA AAATAA GAAT-- AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AA
23921106 TAGGAGGATT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
4 3 0.04
5 4 0.06
6 54 0.78
7 6 0.09
8 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:23921088 original size:22 final size:22
Alignment explanation
Indices: 23921015--23921104 Score: 82
Period size: 22 Copynumber: 4.1 Consensus size: 22
23921005 AAGAAAATTG
*
23921015 AAATGAAAATAAAAATCAAAAGAA-
1 AAATAAAAATAAAAAT---AAGAAT
*
23921039 AAATAAGAAT-AAAAT-A-AAT
1 AAATAAAAATAAAAATAAGAAT
23921058 AAA-ATAAAATAAAAATAAGAAT
1 AAATA-AAAATAAAAATAAGAAT
*
23921080 AAATAAAAATAAAAATAAAAAT
1 AAATAAAAATAAAAATAAGAAT
23921102 AAA
1 AAA
23921105 ATAGGAGGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
18 3 0.05
19 8 0.14
20 5 0.09
21 1 0.02
22 25 0.45
23 6 0.11
24 8 0.14
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (22 bp):
AAATAAAAATAAAAATAAGAAT
Found at i:23923124 original size:55 final size:55
Alignment explanation
Indices: 23923039--23923145 Score: 128
Period size: 55 Copynumber: 1.9 Consensus size: 55
23923029 GTGGTAATTG
* *
23923039 AACAGGCTCGACCATGGGTGTTAGACACGGGTGTGTC-ACACACCCGTGTTGTCTT
1 AACAGGCTCGACCATGGGTCTTAGACACGGGCGTGTCGA-ACACCCGTGTTGTCTT
* * * *
23923094 AACAGGTTCGACCATGGTTCTCTA-ATACGGGCGTGTCGAACGCCCGTGTTGT
1 AACAGGCTCGACCATGGGTCT-TAGACACGGGCGTGTCGAACACCCGTGTTGT
23923146 TTTGGCAGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
55 41 0.93
56 3 0.07
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.26
Consensus pattern (55 bp):
AACAGGCTCGACCATGGGTCTTAGACACGGGCGTGTCGAACACCCGTGTTGTCTT
Found at i:23924125 original size:57 final size:57
Alignment explanation
Indices: 23924058--23924171 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
23924048 AGTCTACTAA
*
23924058 GTAAATAAATTTATGAATTTTAACGAGAACGTCTTCAATAATACCCTTAGGAAATCT
1 GTAAATAAATTTATGAATTTTAACAAGAACGTCTTCAATAATACCCTTAGGAAATCT
23924115 GTAAATAAATTTATGAATTTTAACAAGAACGTCTTCAATAATACCCTTAGGAAATCT
1 GTAAATAAATTTATGAATTTTAACAAGAACGTCTTCAATAATACCCTTAGGAAATCT
23924172 AACTATTTTG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (57 bp):
GTAAATAAATTTATGAATTTTAACAAGAACGTCTTCAATAATACCCTTAGGAAATCT
Found at i:23926465 original size:13 final size:13
Alignment explanation
Indices: 23926443--23926475 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
23926433 AAGGGTTTGT
23926443 TTAT-TAAACTAA
1 TTATCTAAACTAA
23926455 TTATCTAAACTAA
1 TTATCTAAACTAA
*
23926468 TTAACTAA
1 TTATCTAA
23926476 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:23931724 original size:23 final size:24
Alignment explanation
Indices: 23931680--23931735 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
23931670 TGAGTATTTA
*
23931680 AATGTATAT-ATTTAATTGAATTG
1 AATGTATATGATTTAATTAAATTG
*
23931703 AATGTATATGATTTGA-TAAATTG
1 AATGTATATGATTTAATTAAATTG
23931726 AAT-TAT-TGAT
1 AATGTATATGAT
23931736 AATAAAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 18 0.60
24 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (24 bp):
AATGTATATGATTTAATTAAATTG
Found at i:23931928 original size:23 final size:23
Alignment explanation
Indices: 23931893--23931976 Score: 118
Period size: 23 Copynumber: 3.7 Consensus size: 23
23931883 TACTATTTTT
*
23931893 AGCTCATTAGAGCTTACCGTTTC
1 AGCTCAATAGAGCTTACCGTTTC
* *
23931916 AGCTC-GTATGAGCTTACTGTTT-
1 AGCTCAATA-GAGCTTACCGTTTC
23931938 AGCTCAATAGAGCTTACCGTTTC
1 AGCTCAATAGAGCTTACCGTTTC
23931961 AGCTCAATAGAGCTTA
1 AGCTCAATAGAGCTTA
23931977 TTGTTCATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
22 19 0.35
23 35 0.65
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACCGTTTC
Found at i:23931974 original size:45 final size:45
Alignment explanation
Indices: 23931869--23931981 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 45
23931859 GACTCACCAT
* * *
23931869 AGCTCATAAGAGCTTACTATTTTTAGCTCATTAGAGCTTACCGTTTC
1 AGCTCATATGAGCTTAC--TGTTTAGCTCAATAGAGCTTACCGTTTC
*
23931916 AGCTCGTATGAGCTTACTGTTTAGCTCAATAGAGCTTACCGTTTC
1 AGCTCATATGAGCTTACTGTTTAGCTCAATAGAGCTTACCGTTTC
*
23931961 AGCTCA-ATAGAGCTTATTGTT
1 AGCTCATAT-GAGCTTACTGTT
23931982 CATCAGCTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
44 2 0.03
45 42 0.71
47 15 0.25
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (45 bp):
AGCTCATATGAGCTTACTGTTTAGCTCAATAGAGCTTACCGTTTC
Found at i:23932192 original size:20 final size:20
Alignment explanation
Indices: 23932149--23932210 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
23932139 ATAAGATATG
* * *
23932149 TGTTGATACGGATGAATTAC
1 TGTTTATACGGATGAACTAT
*
23932169 TG-TTATTACTGATGAACTAT
1 TGTTTA-TACGGATGAACTAT
23932189 TGTTTATACGGATGAACTAT
1 TGTTTATACGGATGAACTAT
23932209 TG
1 TG
23932211 GTTACATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 2 0.06
20 30 0.86
21 3 0.09
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (20 bp):
TGTTTATACGGATGAACTAT
Found at i:23932223 original size:20 final size:20
Alignment explanation
Indices: 23932180--23932224 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
23932170 GTTATTACTG
* * *
23932180 ATGAACTATTGTTTATACGG
1 ATGAACTATTGGTTACACGA
*
23932200 ATGAACTATTGGTTACATGA
1 ATGAACTATTGGTTACACGA
23932220 ATGAA
1 ATGAA
23932225 TTACAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (20 bp):
ATGAACTATTGGTTACACGA
Found at i:23939898 original size:39 final size:40
Alignment explanation
Indices: 23939855--23939948 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 40
23939845 CGGTTATTTG
* *
23939855 TGGCACTTAGTGTGCGATTCGACTTAGCTTTGGCTAT-TA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATGTA
* *
23939894 TGGCACTTAGTGTGCGATTGGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATGTA
* *
23939934 CGGCAGTTAGTGTGC
1 TGGCACTTAGTGTGC
23939949 AAGATATCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.18, C:0.17, G:0.31, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATGTA
Found at i:23939977 original size:28 final size:28
Alignment explanation
Indices: 23939935--23940004 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
23939925 GGCTATGTAC
* *
23939935 GGCAGTTAGTGTGCAAGATATCAAGTGT
1 GGCACTTAGTGTGCAAGATATCAAGTAT
* *
23939963 GGCACTTAGTTTGCAAGATATCGAGTAT
1 GGCACTTAGTGTGCAAGATATCAAGTAT
23939991 GGCACTTAGTGTGC
1 GGCACTTAGTGTGC
23940005 GAGGCATTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
GGCACTTAGTGTGCAAGATATCAAGTAT
Found at i:23944557 original size:6 final size:6
Alignment explanation
Indices: 23944546--23944583 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
23944536 TGGCTCCTCC
23944546 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
23944584 TTCTCGACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (6 bp):
TCATCT
Found at i:23947791 original size:27 final size:27
Alignment explanation
Indices: 23947752--23947816 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
23947742 TGTGCATAGT
*
23947752 TCAACACATAGTTCCTATTTATAGAGAA
1 TCAATACA-AGTTCCTATTTATAGAGAA
23947780 TCAATACAAGTTCCTATTTATAGAGAA
1 TCAATACAAGTTCCTATTTATAGAGAA
*
23947807 TCTATACAAG
1 TCAATACAAG
23947817 AGTTCTGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 28 0.80
28 7 0.20
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (27 bp):
TCAATACAAGTTCCTATTTATAGAGAA
Found at i:23952593 original size:28 final size:28
Alignment explanation
Indices: 23952553--23952608 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
23952543 ATAAAATATG
*
23952553 CAAATTTTTGCTTTATTACATGAATTTT
1 CAAAATTTTGCTTTATTACATGAATTTT
23952581 CAAAATTTTGCTTTATTACATGAATTTT
1 CAAAATTTTGCTTTATTACATGAATTTT
23952609 GTGCATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (28 bp):
CAAAATTTTGCTTTATTACATGAATTTT
Found at i:23954902 original size:21 final size:21
Alignment explanation
Indices: 23954878--23954922 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23954868 GACTGCCTTT
* *
23954878 GATGTCACCACACAGCTTGAA
1 GATGTCACAACACACCTTGAA
* *
23954899 GATGTCGCAACATACCTTGAA
1 GATGTCACAACACACCTTGAA
23954920 GAT
1 GAT
23954923 AGAGTATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (21 bp):
GATGTCACAACACACCTTGAA
Found at i:23955169 original size:22 final size:23
Alignment explanation
Indices: 23955144--23955200 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
23955134 TATAATTTTA
*
23955144 TTTCTAGTTTTAGTCTTTA-GTT
1 TTTCTAGTTTTAGGCTTTAGGTT
**
23955166 TTTCTCTTTTTAGGCTTTAGGTT
1 TTTCTAGTTTTAGGCTTTAGGTT
*
23955189 TATTTTAGTTTT
1 T-TTCTAGTTTT
23955201 TTATTCTTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 16 0.59
23 4 0.15
24 7 0.26
ACGTcount: A:0.12, C:0.09, G:0.14, T:0.65
Consensus pattern (23 bp):
TTTCTAGTTTTAGGCTTTAGGTT
Found at i:23959257 original size:17 final size:18
Alignment explanation
Indices: 23959229--23959262 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23959219 ATAGATAACT
23959229 TAATTAATTTACCAACAA
1 TAATTAATTTACCAACAA
*
23959247 TAATT-ATTTACTAACA
1 TAATTAATTTACCAACA
23959263 TAAAATCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATTAATTTACCAACAA
Found at i:23959895 original size:27 final size:27
Alignment explanation
Indices: 23959856--23959983 Score: 132
Period size: 27 Copynumber: 4.8 Consensus size: 27
23959846 GTTTGGCGAA
** * *
23959856 TTGGCGAACTGGGGTTCGTCGGTTGGT
1 TTGGCGAGTTGGGGTTCGCCAGTTGGT
* *
23959883 TTGGCGAGTTGGGCTTCGCTAGTTGGT
1 TTGGCGAGTTGGGGTTCGCCAGTTGGT
* *
23959910 TTGGCTAGTTGGGGTACGCCAGTTGGT
1 TTGGCGAGTTGGGGTTCGCCAGTTGGT
* *
23959937 TTGGCGAGCTGGGGTTTGCCAGTTGGT
1 TTGGCGAGTTGGGGTTCGCCAGTTGGT
* * *
23959964 TTAGTGA-TTGGGGTTTGCCA
1 TTGGCGAGTTGGGGTTCGCCA
23959984 TTATAAGTAT
Statistics
Matches: 84, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 12 0.14
27 72 0.86
ACGTcount: A:0.09, C:0.14, G:0.41, T:0.35
Consensus pattern (27 bp):
TTGGCGAGTTGGGGTTCGCCAGTTGGT
Found at i:23959918 original size:13 final size:13
Alignment explanation
Indices: 23959877--23959921 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
23959867 GGGTTCGTCG
*
23959877 GTTGGTTTGGCGA
1 GTTGGTTTGGCTA
* *
23959890 GTTGGGCTTCGCTA
1 GTT-GGTTTGGCTA
23959904 GTTGGTTTGGCTA
1 GTTGGTTTGGCTA
23959917 GTTGG
1 GTTGG
23959922 GGTACGCCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.07, C:0.11, G:0.42, T:0.40
Consensus pattern (13 bp):
GTTGGTTTGGCTA
Found at i:23962255 original size:48 final size:48
Alignment explanation
Indices: 23962196--23962311 Score: 162
Period size: 48 Copynumber: 2.4 Consensus size: 48
23962186 TATTTGTGCT
* *
23962196 AGTGTAAGACATGTCT-GGGTAATGCATCAGCCTCGAGATATACCAGCC
1 AGTGTAAGACATGTCTAGGAT-ATGCATCAGCCTCGAGATATACAAGCC
* *
23962244 AGTGTAAGACATGTCTAGGATATGCATCGGCCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTAGGATATGCATCAGCCTCGAGATATACAAGCC
* *
23962292 AGTGTAAGACTTTTCTAGGA
1 AGTGTAAGACATGTCTAGGA
23962312 CATGGCGTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 58 0.95
49 3 0.05
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACATGTCTAGGATATGCATCAGCCTCGAGATATACAAGCC
Found at i:23965908 original size:12 final size:12
Alignment explanation
Indices: 23965877--23965980 Score: 57
Period size: 12 Copynumber: 8.2 Consensus size: 12
23965867 AATACAAGGA
23965877 ATAATATATATAGT
1 ATAATATA-ATA-T
*
23965891 AAAATATAATAT
1 ATAATATAATAT
* *
23965903 ATAATAAAATTT
1 ATAATATAATAT
* *
23965915 ATAAATAAAATGT
1 AT-AATATAATAT
*
23965928 ATAATA-ATATAA
1 ATAATATA-ATAT
**
23965940 ATAATATAATGG
1 ATAATATAATAT
*
23965952 ATAATATATATAG
1 ATAATATA-ATAT
*
23965965 ATAAAAATAATAT
1 AT-AATATAATAT
23965978 ATA
1 ATA
23965981 CTATTTTATA
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
11 1 0.01
12 35 0.48
13 25 0.34
14 12 0.16
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (12 bp):
ATAATATAATAT
Found at i:23966026 original size:26 final size:27
Alignment explanation
Indices: 23965997--23966048 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
23965987 TATATAACTA
23965997 GTATTTATAAA-AAAAT-AATATATAAG
1 GTATTTA-AAATAAAATAAATATATAAG
*
23966023 GTATTTAAAATAAATTAAATATATAA
1 GTATTTAAAATAAAATAAATATATAA
23966049 AAAGGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 3 0.13
26 11 0.48
27 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (27 bp):
GTATTTAAAATAAAATAAATATATAAG
Found at i:23969905 original size:48 final size:49
Alignment explanation
Indices: 23969844--23970009 Score: 175
Period size: 48 Copynumber: 3.5 Consensus size: 49
23969834 TATGTGTGCT
*
23969844 AGTGTAAGACATGTCTGGGTA-ATGCATCAGCCTCGAGATATACCAGCC
1 AGTGTAAGACATGTCTGGGTACATGCATCGGCCTCGAGATATACCAGCC
* * ** * *
23969892 AGT-TAAAGACATGTCT-GGTACATGCATCGGCATTGAGA-CGA-GAGCT
1 AGTGT-AAGACATGTCTGGGTACATGCATCGGCCTCGAGATATACCAGCC
* *
23969938 AGTGTAAGACATGTCTGGG-ACATGCATCGGCCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGTACATGCATCGGCCTCGAGATATACCAGCC
* *
23969986 AGTGTAAGACCTGTCTAGG-ACATG
1 AGTGTAAGACATGTCTGGGTACATG
23970010 GCGTCAGCTT
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
46 34 0.35
47 10 0.10
48 54 0.55
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGTACATGCATCGGCCTCGAGATATACCAGCC
Found at i:23973811 original size:27 final size:27
Alignment explanation
Indices: 23973772--23973911 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
23973762 GGAAGCGTCT
*
23973772 TGGTAGCTATGCCACAATTATCTGATC
1 TGGTGGCTATGCCACAATTATCTGATC
* *
23973799 TGGTGGCTCTGCCA-TATATATCTG-TCC
1 TGGTGGCTATGCCACAAT-TATCTGAT-C
23973826 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTATGCCACAATTATCTGATC
* *
23973853 TGGTGGCTTTGCCAC-ATATATCTGTTC
1 TGGTGGCTATGCCACAAT-TATCTGATC
*
23973880 TGGTGGCTCTGCCACAA-TATCTGTATC
1 TGGTGGCTATGCCACAATTATCTG-ATC
23973907 TGGTG
1 TGGTG
23973912 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
26 11 0.11
27 82 0.85
28 4 0.04
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TGGTGGCTATGCCACAATTATCTGATC
Found at i:23973859 original size:54 final size:54
Alignment explanation
Indices: 23973772--23973911 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 54
23973762 GGAAGCGTCT
* *
23973772 TGGTAGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTCC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
* *
23973826 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
*
23973880 TGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTG
23973912 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 6 0.08
54 74 0.93
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
Found at i:23973922 original size:27 final size:27
Alignment explanation
Indices: 23973782--23973929 Score: 139
Period size: 27 Copynumber: 5.5 Consensus size: 27
23973772 TGGTAGCTAT
23973782 GCCACAATTATCTG-ATCTGGTGGC-TC
1 GCCACAA-TATCTGTATCTGGTGGCTTC
* *
23973808 TGCCATATATATCTGT-CCTGGTGGCTAT-
1 -GCCACA-ATATCTGTATCTGGTGGCT-TC
*
23973836 GCCACAATTATCTG-ATCTGGTGGCTTT
1 GCCACAA-TATCTGTATCTGGTGGCTTC
23973863 GCCACATATATCTGT-TCTGGTGGC-TC
1 GCCACA-ATATCTGTATCTGGTGGCTTC
*
23973889 TGCCACAATATCTGTATCTGGTGACTTC
1 -GCCACAATATCTGTATCTGGTGGCTTC
*
23973917 GTCACAATATCTG
1 GCCACAATATCTG
23973930 GCAGCCTCGC
Statistics
Matches: 102, Mismatches: 7, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
26 11 0.11
27 86 0.84
28 4 0.04
29 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
GCCACAATATCTGTATCTGGTGGCTTC
Found at i:23973923 original size:81 final size:80
Alignment explanation
Indices: 23973772--23973929 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 80
23973762 GGAAGCGTCT
* *
23973772 TGGTAGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTCCTGGTGGCTATG
1 TGGTAGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATG
23973837 CCACAATTATCTGATC
66 CCACAA-TATCTGATC
* * * *
23973853 TGGTGGCTTTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-
1 TGGTAGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACTA
*
23973915 TCGTCACAATATCTG
64 T-GCCACAATATCTG
23973930 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
80 17 0.25
81 50 0.75
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (80 bp):
TGGTAGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATG
CCACAATATCTGATC
Found at i:23983003 original size:133 final size:133
Alignment explanation
Indices: 23982778--23983165 Score: 379
Period size: 133 Copynumber: 2.9 Consensus size: 133
23982768 TTCCAAAGAG
* * * * * * *
23982778 ATATTCGATTGTTTTGAACAAACGAGAGATTGCATCCCAGCGCGATAGGGCACAACTCTCGAATT
1 ATATTTGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCCCGAATT
* * * * * *
23982843 GCCAAACATCGAACATAGCCTTTGTTTTAAAGGGTTTTCTTAAAAGACATGAGTGAAAACCT-AA
66 GTCAAACACCGAATATTGCCTTCGTTTTAAAGGATTTT-TTAAAAGACATGAGTGAAAACCTCAA
23982907 AGGA
130 AGGA
* ** *
23982911 ATATTTGATCGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATT
1 ATATTTGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCCCGAATT
* * * * * * * * *
23982976 GTCAAACACCGAGTATTGCCTTCGTTTTAGAGGATTTTTTTAGAAGACCTAAATG-GAATCTCGA
66 GTCAAACACCGAATATTGCCTTCGTTTTAAAGGA-TTTTTTAAAAGACATGAGTGAAAACCTCAA
*
23983040 AGGG
130 AGGA
* * * * *
23983044 ATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGTACGATTCCGCGAAT
1 ATATTTGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCC-CGAAT
* * * * *
23983109 TGTCAAATATCAAACT-TTGCCTTCGTTTTAAA-GAATTTTTAAAAGGCATGAGTGAAA
65 TGTCAAACACCGAA-TATTGCCTTCGTTTTAAAGGATTTTTTAAAAGACATGAGTGAAA
23983166 GTTTGAAGGG
Statistics
Matches: 202, Mismatches: 48, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
132 18 0.09
133 149 0.74
134 34 0.17
135 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (133 bp):
ATATTTGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCCCGAATT
GTCAAACACCGAATATTGCCTTCGTTTTAAAGGATTTTTTAAAAGACATGAGTGAAAACCTCAAA
GGA
Found at i:23983205 original size:132 final size:132
Alignment explanation
Indices: 23983038--23983283 Score: 359
Period size: 132 Copynumber: 1.9 Consensus size: 132
23983028 ATGGAATCTC
* * *
23983038 GAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGTACGATTCC
1 GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC
* *
23983103 GCGAATTGTCAAATATCAAA-CTTTGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAG
66 GCGAATTGCCAAATATCAAATC-TCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAG
23983167 TTT
130 TTT
* * * * **
23983170 GAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGTAACCTAACATGTTAGGGCACTTTTCC
1 GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC
* *
23983235 GCGAATTGCCAAATATCGAATCTCGTCTTCGTTTTAAAGAATTTTTAAA
66 GCGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAA
23983284 TGTATAATCA
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
132 99 0.99
133 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (132 bp):
GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC
GCGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGT
TT
Found at i:23984291 original size:7 final size:7
Alignment explanation
Indices: 23984279--23984307 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
23984269 AGTGACAAAT
23984279 ATTACAA
1 ATTACAA
23984286 ATTACAA
1 ATTACAA
23984293 ATTACAA
1 ATTACAA
23984300 ATTACAA
1 ATTACAA
23984307 A
1 A
23984308 CCTTGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (7 bp):
ATTACAA
Found at i:23993111 original size:25 final size:25
Alignment explanation
Indices: 23993082--23993131 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
23993072 ACCAATAGTC
23993082 GGAAGCGCAAGTAAGTATTAAATAA
1 GGAAGCGCAAGTAAGTATTAAATAA
*
23993107 GGAAGCGCATGTAAGTATTAAATAA
1 GGAAGCGCAAGTAAGTATTAAATAA
23993132 AATATATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.24, T:0.22
Consensus pattern (25 bp):
GGAAGCGCAAGTAAGTATTAAATAA
Found at i:23993167 original size:28 final size:24
Alignment explanation
Indices: 23993115--23993164 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
23993105 AAGGAAGCGC
23993115 ATGTAAGTATTAAATAAAATATAT
1 ATGTAAGTATTAAATAAAATATAT
23993139 ATGTAAGTATTAAATAAAATATAT
1 ATGTAAGTATTAAATAAAATATAT
23993163 AT
1 AT
23993165 ATACATAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (24 bp):
ATGTAAGTATTAAATAAAATATAT
Found at i:24001845 original size:13 final size:13
Alignment explanation
Indices: 24001823--24001855 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24001813 AAGGGTTTGT
24001823 TTAT-TAAACTAA
1 TTATCTAAACTAA
24001835 TTATCTAAACTAA
1 TTATCTAAACTAA
*
24001848 TTAACTAA
1 TTATCTAA
24001856 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Done.