Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 83 of 292
Found at i:25486775 original size:23 final size:23
Alignment explanation
Indices: 25486748--25486796 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
25486738 GGTTTAAAAT
**
25486748 AAATATTTTTTTATAAAATTATA
1 AAATATTTAATTATAAAATTATA
* *
25486771 AAATATTTAATTATAAACTTCTA
1 AAATATTTAATTATAAAATTATA
25486794 AAA
1 AAA
25486797 AGGTATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATATTTAATTATAAAATTATA
Found at i:25489267 original size:12 final size:12
Alignment explanation
Indices: 25489250--25489274 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25489240 ATTGTAAAGA
25489250 ATTGATAAATTG
1 ATTGATAAATTG
25489262 ATTGATAAATTG
1 ATTGATAAATTG
25489274 A
1 A
25489275 ATATGATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTGATAAATTG
Found at i:25493510 original size:40 final size:40
Alignment explanation
Indices: 25493433--25493608 Score: 232
Period size: 40 Copynumber: 4.4 Consensus size: 40
25493423 AAACCAAGTA
* *
25493433 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
25493472 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
25493512 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
25493552 CCTTCGGGGCTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
25493592 CCTCCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
25493609 AGTTATCATC
Statistics
Matches: 122, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
39 17 0.14
40 105 0.86
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:25494886 original size:106 final size:106
Alignment explanation
Indices: 25494701--25494911 Score: 422
Period size: 106 Copynumber: 2.0 Consensus size: 106
25494691 AAACCTCCAA
25494701 TCAATCAAAATTTAATCCATGGAATGAATAGAACTTGAACTAACCACCTTCTTTATACATAATTT
1 TCAATCAAAATTTAATCCATGGAATGAATAGAACTTGAACTAACCACCTTCTTTATACATAATTT
25494766 TCCAAGAATTTCAAGGTACTTACCTCTTCCTAATCCTCATG
66 TCCAAGAATTTCAAGGTACTTACCTCTTCCTAATCCTCATG
25494807 TCAATCAAAATTTAATCCATGGAATGAATAGAACTTGAACTAACCACCTTCTTTATACATAATTT
1 TCAATCAAAATTTAATCCATGGAATGAATAGAACTTGAACTAACCACCTTCTTTATACATAATTT
25494872 TCCAAGAATTTCAAGGTACTTACCTCTTCCTAATCCTCAT
66 TCCAAGAATTTCAAGGTACTTACCTCTTCCTAATCCTCAT
25494912 CCAAGCCGAA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 105 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (106 bp):
TCAATCAAAATTTAATCCATGGAATGAATAGAACTTGAACTAACCACCTTCTTTATACATAATTT
TCCAAGAATTTCAAGGTACTTACCTCTTCCTAATCCTCATG
Found at i:25497294 original size:21 final size:21
Alignment explanation
Indices: 25497247--25497304 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
25497237 GGAAAGCAAC
*
25497247 TTCT-TTTGAATTGATTTTCT
1 TTCTGTTTGAATCGATTTTCT
25497267 TTCTGTTTGAATCGATTGTT-T
1 TTCTGTTTGAATCGATT-TTCT
* *
25497288 TTTTGTTAGAATCGATT
1 TTCTGTTTGAATCGATT
25497305 CCTTATTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 27 0.82
22 2 0.06
ACGTcount: A:0.17, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTCTGTTTGAATCGATTTTCT
Found at i:25499663 original size:13 final size:13
Alignment explanation
Indices: 25499645--25499669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25499635 TGGGTAGAGA
25499645 CATGGCTGTGTGT
1 CATGGCTGTGTGT
25499658 CATGGCTGTGTG
1 CATGGCTGTGTG
25499670 AGAGACATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.40, T:0.36
Consensus pattern (13 bp):
CATGGCTGTGTGT
Found at i:25499675 original size:30 final size:30
Alignment explanation
Indices: 25499640--25499711 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
25499630 ACACATGGGT
*
25499640 AGAGACATGGCTGTGTGTCATGG-CTGTGTG
1 AGAGACATGGCTGTGTGTCACGGTC-GTGTG
25499670 AGAGACATGGCTGTGTGTCACGGTCGTGTG
1 AGAGACATGGCTGTGTGTCACGGTCGTGTG
*
25499700 AGAGACACGGCT
1 AGAGACATGGCT
25499712 TCAAAACACG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.17, G:0.39, T:0.25
Consensus pattern (30 bp):
AGAGACATGGCTGTGTGTCACGGTCGTGTG
Found at i:25501717 original size:66 final size:68
Alignment explanation
Indices: 25501639--25501825 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
25501629 TAGTACCACT
*
25501639 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
25501701 CACG
65 CACG
25501705 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
25501770 ATCACG
63 ATCACG
25501776 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
25501826 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:25501750 original size:71 final size:71
Alignment explanation
Indices: 25501662--25501825 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
25501652 CGATTTGTCT
25501662 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
25501727 CTTTCA
66 CTTTCA
25501733 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
25501798 CTTTCA
66 CTTTCA
25501804 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
25501826 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:25501863 original size:71 final size:70
Alignment explanation
Indices: 25501662--25501859 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
25501652 CGATTTGTCT
* * * *
25501662 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
25501727 CTTTCA
65 CTTTCA
* * * *
25501733 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
25501798 CTTTCA
65 CTTTCA
* *
25501804 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
25501860 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:25509288 original size:66 final size:68
Alignment explanation
Indices: 25509210--25509396 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
25509200 TAGTACCACT
*
25509210 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
25509272 CACG
65 CACG
25509276 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
25509341 ATCACG
63 ATCACG
25509347 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
25509397 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:25509321 original size:71 final size:71
Alignment explanation
Indices: 25509233--25509396 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
25509223 CGATTTGTCT
25509233 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
25509298 CTTTCA
66 CTTTCA
25509304 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
25509369 CTTTCA
66 CTTTCA
25509375 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
25509397 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:25509434 original size:71 final size:70
Alignment explanation
Indices: 25509233--25509430 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
25509223 CGATTTGTCT
* * * *
25509233 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
25509298 CTTTCA
65 CTTTCA
* * * *
25509304 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
25509369 CTTTCA
65 CTTTCA
* *
25509375 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
25509431 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:25514364 original size:40 final size:40
Alignment explanation
Indices: 25514284--25514482 Score: 226
Period size: 39 Copynumber: 5.0 Consensus size: 40
25514274 GCTACTCGTT
* * * * * * *
25514284 CAAACGCCTTCGGGACATAGCCTGGTTATGATAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACTCGCA
* *
25514324 CAAATGCCTTCGGGACTTAACCCGGATATTACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACTCGCA
* *
25514364 C-AATCGCCTTCGGGA-TTAGCCCGGATATCATATCTCGCA
1 CAAAT-GCCTTCGGGACTTAGCCCGGATATCACAACTCGCA
* *
25514403 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACTCGCA
* *
25514442 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACTCGCA
25514481 CA
1 CA
25514483 TTCATACACA
Statistics
Matches: 138, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 93 0.67
40 45 0.33
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACTCGCA
Found at i:25518672 original size:102 final size:102
Alignment explanation
Indices: 25518516--25518710 Score: 273
Period size: 102 Copynumber: 1.9 Consensus size: 102
25518506 TGTTTAAATA
* ** * * *
25518516 GATTGTTTTTCTATTAGAATTGATTTGTTATTGTTATTGATGTATTTGTGGAAAATGTTGGAAAG
1 GATTGTTTTTCTATTAGAATCGATTCCTTATTGTTATTAATGTATTTGTAGAAAATGTTGGAAAA
* *
25518581 CTGCTTCTTTTGAATTGATTGCCTTTCTATTTGAATT
66 CTACTTCTTTTGAATCGATTGCCTTTCTATTTGAATT
* * * *
25518618 GATTGTTTTTTTGTTAGAATCGGTTCCTTATTGTTATTAATGTGTTTGTAGAAAATGTTGGAAAA
1 GATTGTTTTTCTATTAGAATCGATTCCTTATTGTTATTAATGTATTTGTAGAAAATGTTGGAAAA
*
25518683 CTACTTCTTTTGAATCGATTGTCTTTCT
66 CTACTTCTTTTGAATCGATTGCCTTTCT
25518711 GTAACATCCC
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
102 80 1.00
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (102 bp):
GATTGTTTTTCTATTAGAATCGATTCCTTATTGTTATTAATGTATTTGTAGAAAATGTTGGAAAA
CTACTTCTTTTGAATCGATTGCCTTTCTATTTGAATT
Found at i:25529777 original size:38 final size:40
Alignment explanation
Indices: 25529723--25529935 Score: 223
Period size: 46 Copynumber: 4.9 Consensus size: 40
25529713 TCTGATATGA
25529723 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
25529763 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
25529801 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ------AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
**
25529852 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTG
1 -AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
25529893 ATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 A-ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
25529936 ATGACAGAAA
Statistics
Matches: 150, Mismatches: 4, Indels: 32
0.81 0.02 0.17
Matches are distributed among these distances:
38 37 0.25
39 1 0.01
40 1 0.01
41 5 0.03
44 2 0.01
45 1 0.01
46 101 0.67
51 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:25529831 original size:46 final size:46
Alignment explanation
Indices: 25529764--25529979 Score: 306
Period size: 46 Copynumber: 4.7 Consensus size: 46
25529754 GGCAACCTGA
25529764 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
25529810 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
** *
25529856 GTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
25529902 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
25529948 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
25529980 TCATGTCAAA
Statistics
Matches: 154, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 154 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:25529958 original size:138 final size:130
Alignment explanation
Indices: 25529714--25529979 Score: 370
Period size: 138 Copynumber: 2.0 Consensus size: 130
25529704 AGTGTGCTCT
*
25529714 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
25529779 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
**
25529844 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
25529909 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
25529974 ATGGCA
123 ATGGCA
25529980 TCATGTCAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
130 47 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.57
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:25535012 original size:18 final size:16
Alignment explanation
Indices: 25534975--25535014 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
25534965 GCAATGAACC
*
25534975 ATTTTGCTAAAACCAT
1 ATTTTGCTAAAACAAT
25534991 ATTTTGCTAAAAATCAAT
1 ATTTTGCT-AAAA-CAAT
25535009 ATTTTG
1 ATTTTG
25535015 TGTAATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (16 bp):
ATTTTGCTAAAACAAT
Found at i:25535693 original size:23 final size:24
Alignment explanation
Indices: 25535663--25535709 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
25535653 AAGATGCCAT
25535663 GTAGGTTGGGGAT-AAACCACCAA
1 GTAGGTTGGGGATGAAACCACCAA
*
25535686 GTAGGTTGTGGATGAAACCACCAA
1 GTAGGTTGGGGATGAAACCACCAA
25535710 TATTTACGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (24 bp):
GTAGGTTGGGGATGAAACCACCAA
Found at i:25537697 original size:40 final size:40
Alignment explanation
Indices: 25537652--25537819 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
25537642 CGGAATACAA
25537652 CCGGATATAACCACACACACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACACACGAATGCCTTCGGGTCTTAGC
* * * * *
25537692 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACACACGAATGCCTTCGGGTCTTAGC
* *** *
25537732 CCGGATATAACAACTTGCACGGATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACACACGAATGCCTTCGGGTCTTAGC
* * *
25537772 CCGGATA-AAGTCACTAGCACA--ATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-A-CACACGAATGCCTTCGGGTCTTAGC
25537812 CCGGATAT
1 CCGGATAT
25537820 CATTCAATTG
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 102 0.96
42 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACACACGAATGCCTTCGGGTCTTAGC
Found at i:25537792 original size:80 final size:80
Alignment explanation
Indices: 25537669--25537819 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 80
25537659 TAACCACACA
* *
25537669 CACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGCCC
1 CACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAACCC
25537734 GGATATAACAACTTG
66 GGATATAACAACTTG
* * *
25537749 CACGGATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAATGCCTTCGGGTATTAAC
25537812 CCGGATAT
64 CCGGATAT
25537820 CATTCAATTG
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
78 1 0.02
79 2 0.03
80 61 0.95
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAACCC
GGATATAACAACTTG
Found at i:25543129 original size:40 final size:40
Alignment explanation
Indices: 25543084--25543251 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
25543074 CGGAATACAA
25543084 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
25543124 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
25543164 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
25543204 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
25543244 CCGGATAT
1 CCGGATAT
25543252 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:25543224 original size:80 final size:80
Alignment explanation
Indices: 25543084--25543251 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
25543074 CGGAATACAA
* *
25543084 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
25543149 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
25543164 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
25543227 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
25543244 CCGGATAT
1 CCGGATAT
25543252 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:25551135 original size:40 final size:40
Alignment explanation
Indices: 25551090--25551257 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
25551080 CGGAATACAA
25551090 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
25551130 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
25551170 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
25551210 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
25551250 CCGGATAT
1 CCGGATAT
25551258 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:25551230 original size:80 final size:80
Alignment explanation
Indices: 25551090--25551257 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
25551080 CGGAATACAA
* *
25551090 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
25551155 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
25551170 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
25551233 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
25551250 CCGGATAT
1 CCGGATAT
25551258 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:25566184 original size:46 final size:46
Alignment explanation
Indices: 25566131--25566306 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
25566121 TATTTGGGCA
25566131 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
25566177 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
25566224 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
25566270 CCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25566307 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25566286 original size:93 final size:93
Alignment explanation
Indices: 25566127--25566298 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
25566117 AGGATATTTG
* *
25566127 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
25566192 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
25566220 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGATCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
25566285 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
25566299 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:25569241 original size:15 final size:15
Alignment explanation
Indices: 25569221--25569288 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
25569211 GTATCTTGGG
25569221 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
25569236 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
*
25569251 TTTCTTTATTCTGG-
1 TTTCTTTATCCTGGA
* *
25569265 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
25569280 TTTCTTTAT
1 TTTCTTTAT
25569289 TCAGTTTTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 11 0.24
15 34 0.76
ACGTcount: A:0.12, C:0.18, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:25569284 original size:29 final size:30
Alignment explanation
Indices: 25569212--25569290 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
25569202 GCATATATCG
* * *
25569212 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
*
25569242 TAT-TCTGGATTTCTTTATTCTGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
25569271 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
25569291 AGTTTTCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
29 23 0.53
30 20 0.47
ACGTcount: A:0.11, C:0.18, G:0.14, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:25573772 original size:22 final size:22
Alignment explanation
Indices: 25573727--25573772 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
25573717 ATAATTCATA
**
25573727 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAAAAC
*
25573749 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGCATTTAAAAC
25573771 AT
1 AT
25573773 ACTACCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAAAAC
Found at i:25593326 original size:19 final size:19
Alignment explanation
Indices: 25593299--25593338 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
25593289 CAGTCATAAA
25593299 AATTGATTTAAACTTAT-AT
1 AATTGATTTAAA-TTATGAT
*
25593318 AATTTATTTAAATTATGAT
1 AATTGATTTAAATTATGAT
25593337 AA
1 AA
25593339 GCTACTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (19 bp):
AATTGATTTAAATTATGAT
Found at i:25593606 original size:15 final size:15
Alignment explanation
Indices: 25593583--25593640 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
25593573 TTTAAGTGAT
25593583 TTAAGTGCTGAAAAA
1 TTAAGTGCTGAAAAA
*
25593598 TTAAATGCT-AAAAA
1 TTAAGTGCTGAAAAA
* * * *
25593612 ATAATTGTTGAACAA
1 TTAAGTGCTGAAAAA
*
25593627 TTAAGTACTGAAAA
1 TTAAGTGCTGAAAA
25593641 TATAGGTGTT
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (15 bp):
TTAAGTGCTGAAAAA
Found at i:25594113 original size:17 final size:17
Alignment explanation
Indices: 25594067--25594115 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
25594057 AATTTTGGTT
25594067 TTTTAAAAAATA-TAT-
1 TTTTAAAAAATATTATA
* * *
25594082 TTTT-TAATATTTTATA
1 TTTTAAAAAATATTATA
25594098 TTTTAAAAAATATTATA
1 TTTTAAAAAATATTATA
25594115 T
1 T
25594116 GTTTGTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 7 0.28
16 4 0.16
17 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTAAAAAATATTATA
Found at i:25594309 original size:18 final size:18
Alignment explanation
Indices: 25594288--25594322 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25594278 TTTATAATTT
25594288 ATAAAAATTCTAATTTAG
1 ATAAAAATTCTAATTTAG
**
25594306 ATAAATTTTCTAATTTA
1 ATAAAAATTCTAATTTA
25594323 AATTGTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
ATAAAAATTCTAATTTAG
Found at i:25598361 original size:39 final size:39
Alignment explanation
Indices: 25598317--25598553 Score: 384
Period size: 39 Copynumber: 6.1 Consensus size: 39
25598307 ATGCAAGACA
* *
25598317 CTGGAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* *
25598356 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* *
25598395 CTGGAAATATATCCAGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
25598434 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
25598473 CTAGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
** *
25598512 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
25598551 CTG
1 CTG
25598554 ATAATATAAT
Statistics
Matches: 185, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 185 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
Found at i:25601949 original size:44 final size:44
Alignment explanation
Indices: 25601857--25601968 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
25601847 CTTTCCACTA
* * * *
25601857 TCCCAGACAGGGTCTTACATGAAA--TCATATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCTCAAATACGATGCCAACG
25601899 TCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAATCTCAAATACGATGCCAACG
* *
25601943 TCCCAGACGTGGTCCTACACGAAATC
1 TCCCAGACATGGTCTTACACGAAATC
25601969 ACATACTGGG
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 19 0.31
43 8 0.13
44 29 0.48
45 5 0.08
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGAAATCTCAAATACGATGCCAACG
Found at i:25602115 original size:79 final size:80
Alignment explanation
Indices: 25601983--25602142 Score: 277
Period size: 79 Copynumber: 2.0 Consensus size: 80
25601973 ACTGGGATCC
*
25601983 TATGTCATATGTATCTTAACTATTTCCTATGGTACGTACGGGGCTTTCGGACGCCATAATTCGAT
1 TATGTCATATGTATCCTAACTATTTCCTATGGTACGTACGGGGCTTTCGGACGCCATAATTCGAT
25602048 CGATGTTTTCTCAAT
66 CGATGTTTTCTCAAT
* * *
25602063 TATGTCATATGTATCCTAATTA-TTCCTATGGTTCGTACGGGGCTTTCGGACGCCATAATTTGAT
1 TATGTCATATGTATCCTAACTATTTCCTATGGTACGTACGGGGCTTTCGGACGCCATAATTCGAT
25602127 CGATGTTTTCTCAAT
66 CGATGTTTTCTCAAT
25602142 T
1 T
25602143 TCACATATTC
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 56 0.74
80 20 0.26
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (80 bp):
TATGTCATATGTATCCTAACTATTTCCTATGGTACGTACGGGGCTTTCGGACGCCATAATTCGAT
CGATGTTTTCTCAAT
Found at i:25607829 original size:40 final size:40
Alignment explanation
Indices: 25607785--25607970 Score: 128
Period size: 40 Copynumber: 4.7 Consensus size: 40
25607775 GCTACTCGTT
* * *
25607785 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* * *
25607825 CAAATGCCTTTGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** * **
25607865 CAAATGCCTTC-GGATCTTAGTCAGGATTTAGTAACTAACA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* ** * * *
25607905 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
25607946 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
25607971 CATCATTCGA
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 109 0.87
41 13 0.10
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:25615887 original size:40 final size:39
Alignment explanation
Indices: 25615805--25615895 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 39
25615795 GCTACTCGTT
* * * *
25615805 CAAATACCTTCGGGACATAGCCGGTTGTAGTAGCTCGTA
1 CAAATGCCTTCGGGACATACCCGGTTGTAGTAACTCGCA
*
25615844 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACAT-ACCCGG-TTGTAGTAACTCGCA
25615884 CAAATG-CTTCGG
1 CAAATGCCTTCGG
25615896 ATCTTAGTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
39 22 0.49
40 21 0.47
41 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACATACCCGGTTGTAGTAACTCGCA
Found at i:25624427 original size:40 final size:40
Alignment explanation
Indices: 25624347--25624564 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
25624337 ACCCAAGTTT
* * * *
25624347 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
25624386 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
25624426 CTTCGGGTCTTAGCCC-GATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
25624465 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
25624505 CTTCGGGTCTTAGCCCGGATATAACAACT--CACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
25624543 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
25624565 CATTCAAATG
Statistics
Matches: 165, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
38 31 0.19
39 47 0.28
40 87 0.53
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:25624482 original size:79 final size:79
Alignment explanation
Indices: 25624347--25624561 Score: 310
Period size: 79 Copynumber: 2.7 Consensus size: 79
25624337 ACCCAAGTTT
* * * * * * *
25624347 CTTCGGGAT-TTAGCCGGATATAACCACACGCCCAATTGCCTTCGGGTCTTAACCCGGACATAGC
1 CTTCGGG-TCTTAGCCCGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGACATAAC
25624411 AACTCGCACAAATGC
65 AACTCGCACAAATGC
*
25624426 CTTCGGGTCTTAGCCCGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACA
1 CTTCGGGTCTTAGCCCGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGACATAACA
25624491 ACTCGCACAAATGC
66 ACTCGCACAAATGC
*
25624505 CTTCGGGTCTTAGCCCGGATATAACAACT--CACAAATGCCTTCGGGGCTTAGCCCGGA
1 CTTCGGGTCTTAGCCC-GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
25624562 TATCATTCAA
Statistics
Matches: 125, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
78 28 0.22
79 85 0.68
80 12 0.10
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCCGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGACATAACA
ACTCGCACAAATGC
Found at i:25627720 original size:41 final size:43
Alignment explanation
Indices: 25627624--25627745 Score: 169
Period size: 41 Copynumber: 2.9 Consensus size: 43
25627614 TTTTCCCATC
* * *
25627624 TAAGACCACGTCAGGGACGTTGGCATCGATATGTGATTACGTG
1 TAAGACCATGTCTGGGACATTGGCATCGATATGTGATTACGTG
25627667 TAAGACCATGTCTGGGACATTGGCATC-ATAAT-TGATT-CGTG
1 TAAGACCATGTCTGGGACATTGGCATCGAT-ATGTGATTACGTG
* *
25627708 TAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATT
1 TAAGACCATGTCTGGGACATTGGCATCGATATGTGATT
25627746 GCATATAAGA
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
41 31 0.44
42 14 0.20
43 26 0.37
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTGGCATCGATATGTGATTACGTG
Found at i:25629181 original size:93 final size:93
Alignment explanation
Indices: 25629055--25629225 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
25629045 GCCCCTAAGT
* *
25629055 GAACTCGGACTCAACTCAACGAGCCCGGGCATTCGCATCCATAAGTGAACTCGAAATCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCCCGGACATTCGCATCCATAAGTGAACTCGAAATCAACTCAA
*
25629120 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
** * *
25629148 GAACTCGGACTCAACTCAAAGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCCCGGACATTCGCATCCATAAGTGAACTCGAAATCAACTCAA
25629213 CGAGTTCAGATGC
66 CGAGTTCAGATGC
25629226 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAAAGAGCCCGGACATTCGCATCCATAAGTGAACTCGAAATCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:25629211 original size:46 final size:46
Alignment explanation
Indices: 25629050--25629219 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
25629040 AACCCGCCCC
** *
25629050 TAAGTGAACTCGGACTCAACTCAACGAGCCCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
25629096 TAAGTGAACTCGAAATCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
25629144 TCA-CGAACTCGGACTCAACTCAAAGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
25629189 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
25629220 AGATGCTCAA
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 54 0.54
47 26 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:25640970 original size:37 final size:37
Alignment explanation
Indices: 25640929--25641007 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
25640919 GAAGGGGGTT
*
25640929 CTTGTATAGGTTGTGGCCAAGGGTGATTGGTGCTTTG
1 CTTGTAAAGGTTGTGGCCAAGGGTGATTGGTGCTTTG
25640966 CTTGTAAAGGTTGTGGCCAAGGGTGATTGGTGCTTTG
1 CTTGTAAAGGTTGTGGCCAAGGGTGATTGGTGCTTTG
25641003 CTTGT
1 CTTGT
25641008 GAACTGAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.14, C:0.11, G:0.37, T:0.38
Consensus pattern (37 bp):
CTTGTAAAGGTTGTGGCCAAGGGTGATTGGTGCTTTG
Found at i:25642090 original size:28 final size:28
Alignment explanation
Indices: 25642050--25642115 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
25642040 ACTGCACTGT
* * *
25642050 ACTGATACTGTATTGGGCTTAAGCCCAC
1 ACTGTTACTGTATAGGGCTCAAGCCCAC
* *
25642078 ACTGTTACTGTATAGGGCTCAGGCCCAG
1 ACTGTTACTGTATAGGGCTCAAGCCCAC
25642106 ACTGTTACTG
1 ACTGTTACTG
25642116 CATGCATTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (28 bp):
ACTGTTACTGTATAGGGCTCAAGCCCAC
Found at i:25643444 original size:24 final size:24
Alignment explanation
Indices: 25643393--25643444 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
25643383 ATAAACAATC
25643393 CATA-ATCCAAACACATACAAATA
1 CATATATCCAAACACATACAAATA
*
25643416 TATATATCCAAAACACA-A-AACATA
1 CATATATCC-AAACACATACAA-ATA
25643440 CATAT
1 CATAT
25643445 CATATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 5 0.21
24 12 0.50
25 7 0.29
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (24 bp):
CATATATCCAAACACATACAAATA
Found at i:25645841 original size:49 final size:50
Alignment explanation
Indices: 25645777--25646008 Score: 279
Period size: 49 Copynumber: 4.7 Consensus size: 50
25645767 CTGGTACGCA
*
25645777 TAGTAGCCTGCACTTAGTACTACACATGCGATC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCGAATTATCCGGTACACG
* * * ** * *
25645826 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCGAATTATCCGGTACACG
* * * * * * * *
25645876 TAGTAGCCTACACTTAGTGCTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCGAA-TTATCCGGTACACG
25645927 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCGAATTATCCGGTACACG
* *
25645976 TAGTAGCCTACACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
25646009 TCACAATAGT
Statistics
Matches: 154, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 72 0.47
50 46 0.30
51 36 0.23
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCGAATTATCCGGTACACG
Found at i:25645903 original size:28 final size:27
Alignment explanation
Indices: 25645821--25645904 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
25645811 ATTATCCGGT
*
25645821 ACACGTAGTAGCCTGCACTTAGTACTAC
1 ACACGTAGTAGCCTACACTTAGT-CTAC
* *
25645849 ACACGT-G-A-CCTA-AC-CA-TCTGAT
1 ACACGTAGTAGCCTACACTTAGTCT-AC
25645871 ACACGTAGTAGCCTACACTTAGTGCTAC
1 ACACGTAGTAGCCTACACTTAGT-CTAC
25645899 ACACGT
1 ACACGT
25645905 GATCGAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 7 0.16
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (27 bp):
ACACGTAGTAGCCTACACTTAGTCTAC
Found at i:25645945 original size:101 final size:98
Alignment explanation
Indices: 25645777--25646006 Score: 316
Period size: 100 Copynumber: 2.3 Consensus size: 98
25645767 CTGGTACGCA
* * *
25645777 TAGTAGCCTGCACTTAGTACTACACATGCGATCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACATGTGATCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
25645842 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCCGATACACG
* * * *
25645876 TAGTAGCCTACACTTAGTGCTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACATGTGATC-AA-TTATCCGGTACACATAGTAGCCTGCACT
* ** *
25645941 TAGTACTACACATGCGACCAATTATCCGGTACACG
64 TAGTACTACACACGCGACCAACCATCCGATACACG
25645976 TAGTAGCCTACACTTAGTACTACACATGTGA
1 TAGTAGCCTACACTTAGTACTACACATGTGA
25646007 CCTCACAATA
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
99 29 0.25
100 43 0.38
101 42 0.37
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTACACTTAGTACTACACATGTGATCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCGATACACG
Found at i:25650620 original size:17 final size:18
Alignment explanation
Indices: 25650598--25650631 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25650588 CACATTGAAG
25650598 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
25650615 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
25650632 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:25656002 original size:28 final size:28
Alignment explanation
Indices: 25655958--25656036 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
25655948 TGGCCCCTTT
* *
25655958 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACTTTCATATGGCCCATC
*
25655986 GGGCCCAATCACTTTCATATGGCCCATC
1 AGGCCCAATCACTTTCATATGGCCCATC
* *
25656014 AGGCCCAACCATTTTCATATGGC
1 AGGCCCAATCACTTTCATATGGC
25656037 TCGTCAAGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.25
Consensus pattern (28 bp):
AGGCCCAATCACTTTCATATGGCCCATC
Found at i:25658412 original size:27 final size:27
Alignment explanation
Indices: 25658380--25658468 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
25658370 CAAAACAGTC
* *
25658380 ATTTTACCCTATAGGGGTATTTCGATA
1 ATTTTACACTACAGGGGTATTTCGATA
*
25658407 ATTTTACACTACAGGGGTATTTTGATA
1 ATTTTACACTACAGGGGTATTTCGATA
* *
25658434 ATTTTACA-AACTGGGGGTATTTC-AGTA
1 ATTTTACACTAC-AGGGGTATTTCGA-TA
25658461 ATTTTACA
1 ATTTTACA
25658469 AGTCAAGGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
26 3 0.06
27 51 0.94
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAGGGGTATTTCGATA
Found at i:25658451 original size:54 final size:53
Alignment explanation
Indices: 25658393--25658575 Score: 169
Period size: 54 Copynumber: 3.4 Consensus size: 53
25658383 TTACCCTATA
25658393 GGGGTATTTCGATAATTTTACACTACAGGGGTATTTTGATAATTTTACAAACTG
1 GGGGTATTTCGATAATTTTACA-TACAGGGGTATTTTGATAATTTTACAAACTG
* *
25658447 GGGGTATTTC-AGTAATTTTACA-AGTCA-AGGTATTTT-AGTAATTTCACAAA-TCG
1 GGGGTATTTCGA-TAATTTTACATA--CAGGGGTATTTTGA-TAATTTTACAAACT-G
* * * * * * * *
25658500 AGGGTATTTCGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTATAACCTA
1 GGGGTATTTCGATAATTTTACATA-CAGGGGTATTTTGATAATTTTACAAACTG
*
25658554 GGGGTATTTCAATAATTTTACA
1 GGGGTATTTCGATAATTTTACA
25658576 ACTCGAATAT
Statistics
Matches: 105, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
52 3 0.03
53 41 0.39
54 60 0.57
55 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (53 bp):
GGGGTATTTCGATAATTTTACATACAGGGGTATTTTGATAATTTTACAAACTG
Found at i:25658469 original size:27 final size:27
Alignment explanation
Indices: 25658391--25658576 Score: 134
Period size: 27 Copynumber: 6.9 Consensus size: 27
25658381 TTTTACCCTA
*
25658391 TAGGGGTATTTC-GATAATTTTACACTAC
1 TAGGGGTATTTCAG-TAATTTTACA-AAC
*
25658419 -AGGGGTATTT-TGATAATTTTACAAAC
1 TAGGGGTATTTCAG-TAATTTTACAAAC
* *
25658445 TGGGGGTATTTCAGTAATTTTAC-AAG
1 TAGGGGTATTTCAGTAATTTTACAAAC
* * *
25658471 TCA-AGGTATTTTAGTAATTTCACAAA-
1 T-AGGGGTATTTCAGTAATTTTACAAAC
* * *
25658497 TCGAGGGTATTTC-GATAATTTCACAAAT
1 TAG-GGGTATTTCAG-TAATTTTACAAAC
** * *
25658525 TAGGGGTATTTTGGTAATTTTATAACC
1 TAGGGGTATTTCAGTAATTTTACAAAC
*
25658552 TAGGGGTATTTCAATAATTTTACAA
1 TAGGGGTATTTCAGTAATTTTACAA
25658577 CTCGAATATC
Statistics
Matches: 127, Mismatches: 21, Indels: 21
0.75 0.12 0.12
Matches are distributed among these distances:
26 24 0.19
27 99 0.78
28 4 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
TAGGGGTATTTCAGTAATTTTACAAAC
Found at i:25658834 original size:19 final size:19
Alignment explanation
Indices: 25658799--25658836 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
25658789 CGTGTAGGCC
*
25658799 CACGAGCCCATTGGGCCCA
1 CACGAGCCCATTCGGCCCA
25658818 CACGA-CCCATTTCGGCCCA
1 CACGAGCCCA-TTCGGCCCA
25658837 TCGAGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.13
Consensus pattern (19 bp):
CACGAGCCCATTCGGCCCA
Found at i:25664403 original size:57 final size:58
Alignment explanation
Indices: 25664342--25664471 Score: 165
Period size: 57 Copynumber: 2.3 Consensus size: 58
25664332 ATTTAAGCCC
* * * *
25664342 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATA-TTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
25664399 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
25664457 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
25664472 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 38 0.60
58 25 0.40
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:25664432 original size:29 final size:29
Alignment explanation
Indices: 25664313--25664471 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
25664303 ACTCGATTTC
* * **
25664313 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
25664342 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
25664370 CGCACACCCAGTGCCGTATA-TTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
25664399 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
25664428 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
25664457 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
25664472 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.22
29 86 0.78
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:25672437 original size:29 final size:29
Alignment explanation
Indices: 25672347--25672506 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
25672337 ACTCGATTTC
* * **
25672347 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
25672376 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
25672404 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
*
25672434 GCACACTTAGTGCCATATATTTCTAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
25672463 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
25672492 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
25672507 ATCTCGTCAC
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
28 2 0.02
29 106 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:25674479 original size:40 final size:40
Alignment explanation
Indices: 25674394--25674544 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
25674384 AATTGAATGA
* * *
25674394 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
25674434 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
25674475 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
*
25674514 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
25674545 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.05
40 82 0.90
41 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:25674558 original size:40 final size:40
Alignment explanation
Indices: 25674430--25674560 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
25674420 TATGCTGGAA
* * *
25674430 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
25674470 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
25674510 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
25674550 ATTATATCCGG
1 ATTATATCCGG
25674561 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:25682485 original size:40 final size:39
Alignment explanation
Indices: 25682440--25682549 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 39
25682430 CTGGAAATTA
* * *
25682440 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--ATAC
*
25682481 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTATAC
*
25682519 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
25682550 ACGTGATTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.03
39 29 0.48
40 30 0.49
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTATAC
Found at i:25682534 original size:39 final size:37
Alignment explanation
Indices: 25682440--25682549 Score: 130
Period size: 39 Copynumber: 2.8 Consensus size: 37
25682430 CTGGAAATTA
* *
25682440 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGGC
**
25682478 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTATTC
1 T--ATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGT-GGC
25682519 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCA-TTGTGC
25682550 ACGTGATTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
38 1 0.02
39 30 0.48
40 30 0.48
41 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (37 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGGC
Found at i:25689218 original size:46 final size:46
Alignment explanation
Indices: 25689004--25689219 Score: 233
Period size: 46 Copynumber: 4.7 Consensus size: 46
25688994 TAACCCGCCG
* * **
25689004 ATAAGCGAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCATCC
1 ATAAGTGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCC
* * * *
25689050 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C
1 ATAAGTGAACTCAGACTCAACTCAACGAGTTC--A-GAC--GTTCGCATCC
* * *
25689099 -TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCC
1 ATAAGTGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCC
*
25689143 ATAACTGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCC
1 ATAAGTGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCC
* *
25689189 ATAAGTGAACTCGGACTCAACTAAACGAGTT
1 ATAAGTGAACTCAGACTCAACTCAACGAGTT
25689220 TGGATGCCCA
Statistics
Matches: 143, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 3 0.02
45 2 0.01
46 97 0.68
47 24 0.17
48 3 0.02
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCC
Found at i:25692001 original size:15 final size:16
Alignment explanation
Indices: 25691962--25692016 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
25691952 CAAGAAAACT
*
25691962 GAATAAAGAAATCCAA
1 GAATAAAGAAATCCTA
**
25691978 G-ATTGAGAAA-CCTA
1 GAATAAAGAAATCCTA
25691992 GAATAAAGAAATCC-A
1 GAATAAAGAAATCCTA
25692007 GAATAAAGAA
1 GAATAAAGAA
25692017 CCCAAGATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.12
15 25 0.78
16 3 0.09
ACGTcount: A:0.58, C:0.11, G:0.16, T:0.15
Consensus pattern (16 bp):
GAATAAAGAAATCCTA
Found at i:25694661 original size:27 final size:27
Alignment explanation
Indices: 25694623--25694678 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
25694613 GGCTTGACAA
25694623 AACTACAAGGAGTGGAAGGGAGGGAGT
1 AACTACAAGGAGTGGAAGGGAGGGAGT
25694650 AACTACAAGGAGTGGAAGGGAGGGAGT
1 AACTACAAGGAGTGGAAGGGAGGGAGT
25694677 AA
1 AA
25694679 GCATAAATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.43, T:0.11
Consensus pattern (27 bp):
AACTACAAGGAGTGGAAGGGAGGGAGT
Found at i:25695088 original size:46 final size:44
Alignment explanation
Indices: 25695021--25695189 Score: 153
Period size: 46 Copynumber: 3.7 Consensus size: 44
25695011 TGTAACTCGC
* *
25695021 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCATGTGTTCGTGT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCATG-CTTCGT-T
* * * *
25695067 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC--ATGCTTCGTT
* * * *
25695113 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCA-GACTTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCATG-CTTCG-TT
*
25695159 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
25695190 TTTGGATGGC
Statistics
Matches: 99, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
44 3 0.03
45 27 0.27
46 37 0.37
47 27 0.27
48 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCATGCTTCGTT
Found at i:25695139 original size:47 final size:47
Alignment explanation
Indices: 25695075--25695242 Score: 184
Period size: 47 Copynumber: 3.6 Consensus size: 47
25695065 GTCCATAAGT
* * *
25695075 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGACTAGTTACATCTCAC
** * *
25695122 GAACTCGGACTCAACTCAACGAGTTC--A-GACT--TCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGACTAGTTACAT-C-TCA-C
* *
25695167 GAACTCGGACTCAACTCAACGAGTTTGGATGGCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGACTAGTTACATCTCAC
*
25695214 GAACTCGGACTCAACTCAATGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
25695243 CGTTCGCATC
Statistics
Matches: 98, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 4 0.04
43 1 0.01
44 5 0.05
45 26 0.27
47 52 0.53
48 5 0.05
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGACTAGTTACATCTCAC
Found at i:25695197 original size:92 final size:92
Alignment explanation
Indices: 25695028--25695292 Score: 368
Period size: 92 Copynumber: 2.9 Consensus size: 92
25695018 CGCCCATAAG
* * ** **
25695028 CGAACTTGGACTCAACTCAACGAGCTCATGTGTTCGTGTCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCA-GACTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
25695093 ATGAGCTCGGATGCCTAGTTACATCTCA
65 ACGAGTTCGGATGCCTAGTTACATCTCA
25695121 CGAACTCGGACTCAACTCAACGAGTTCAGACTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGTTCAGACTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
25695186 CGAGTTTGGATGGCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
* * * *
25695213 CGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCATCCATAAGTGAGCTCGGACTCAACTTA
1 CGAACTCGGACTCAACTCAACGAGTTCAGAC-TTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
25695278 AGGAGTTCAGATGCC
65 ACGAGTTCGGATGCC
25695293 CAAATATCCG
Statistics
Matches: 153, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
92 85 0.56
93 68 0.44
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGTTCAGACTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:25697434 original size:13 final size:13
Alignment explanation
Indices: 25697416--25697440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25697406 TCAAAAGTGT
25697416 AAAAATCATCAAG
1 AAAAATCATCAAG
25697429 AAAAATCATCAA
1 AAAAATCATCAA
25697441 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:25702541 original size:40 final size:40
Alignment explanation
Indices: 25702496--25702662 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
25702486 CGGAATATAA
25702496 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
25702536 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
25702576 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
25702616 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
25702655 CCGGATAT
1 CCGGATAT
25702663 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25702646 original size:80 final size:79
Alignment explanation
Indices: 25702496--25702662 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
25702486 CGGAATATAA
* *
25702496 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
25702561 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
25702576 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
25702638 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
25702655 CCGGATAT
1 CCGGATAT
25702663 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:25703508 original size:17 final size:19
Alignment explanation
Indices: 25703485--25703530 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
25703475 AAGAAGCATG
25703485 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
25703503 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
25703521 AATCATGCTC
1 AATCATGCTC
25703531 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:25714520 original size:40 final size:40
Alignment explanation
Indices: 25714461--25714668 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
25714451 CAATTGAATG
* * * *
25714461 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
25714501 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
25714541 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
25714581 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
25714621 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
25714661 ATATCCGG
1 ATATCCGG
25714669 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:25714599 original size:80 final size:80
Alignment explanation
Indices: 25714462--25714668 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
25714452 AATTGAATGA
* * ** * * *
25714462 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
25714527 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
25714540 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
25714605 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
25714622 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
25714669 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:25721236 original size:92 final size:92
Alignment explanation
Indices: 25721125--25721294 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
25721115 GCCCCTAAGT
* *
25721125 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25721190 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
25721217 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25721282 CGAGTTCGGATGC
66 CGAGTTCGGATGC
25721295 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:25721291 original size:46 final size:46
Alignment explanation
Indices: 25721120--25721291 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
25721110 AACCCGCCCC
* * *
25721120 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
25721166 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
25721212 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
25721258 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25721292 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 95 0.88
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:25721310 original size:46 final size:46
Alignment explanation
Indices: 25721122--25721310 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
25721112 CCCGCCCCTA
* ** * *
25721122 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
25721167 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
25721215 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
25721260 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
25721306 AGTGA
1 AGTGA
25721311 CATGTCACTT
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 95 0.82
47 1 0.01
48 4 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:25728782 original size:92 final size:92
Alignment explanation
Indices: 25728671--25728841 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
25728661 GCCCCTAAGT
* *
25728671 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25728736 CGAGTTCGGATGCTAGTTACATTTCAC
66 CGAGTTCGGATGCTAGTTACATTTCAC
*
25728763 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25728828 CGAGTTCGGATGCT
66 CGAGTTCGGATGCT
25728842 CAACCATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCTAGTTACATTTCAC
Found at i:25728837 original size:46 final size:46
Alignment explanation
Indices: 25728666--25728837 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
25728656 AACCCGCCCC
* * *
25728666 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
25728712 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--C-A-TTCGCATCCA
* *
25728759 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
25728804 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25728838 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 90 0.84
47 2 0.02
48 1 0.01
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:25741652 original size:48 final size:48
Alignment explanation
Indices: 25741577--25741697 Score: 188
Period size: 48 Copynumber: 2.5 Consensus size: 48
25741567 GGAACTTTAA
*
25741577 TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGATATAT
1 TGATTTGGCTTCGGGCCATGATATTAGCACTTCAGGTGCGAGATATAT
* * * *
25741625 TGATTTTGCTTTGGGCCATGATGTTAGCACTTCAGGTGCGAGATTTAT
1 TGATTTGGCTTCGGGCCATGATATTAGCACTTCAGGTGCGAGATATAT
*
25741673 TGAGTTGGCTTCGGGCCATGATATT
1 TGATTTGGCTTCGGGCCATGATATT
25741698 TTCATTTAGT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.19, C:0.16, G:0.29, T:0.36
Consensus pattern (48 bp):
TGATTTGGCTTCGGGCCATGATATTAGCACTTCAGGTGCGAGATATAT
Found at i:25741712 original size:48 final size:47
Alignment explanation
Indices: 25741572--25741715 Score: 162
Period size: 48 Copynumber: 3.0 Consensus size: 47
25741562 ATTAAGGAAC
* **
25741572 TTTAATGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGA
1 TTTATTGATTTGGCTTCGGGCCATGATATTAGCA-TTTAGGTGCGAGA
* * * * *
25741620 TATATTGATTTTGCTTTGGGCCATGATGTTAGCACTTCAGGTGCGAGA
1 TTTATTGATTTGGCTTCGGGCCATGATATTAGCA-TTTAGGTGCGAGA
* **
25741668 TTTATTGAGTTGGCTTCGGGCCATGATATTTTCATTTAGTGTGCGAGA
1 TTTATTGATTTGGCTTCGGGCCATGATATTAGCATTTAG-GTGCGAGA
25741716 CTCCTGAGTA
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 4 0.05
48 77 0.95
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.38
Consensus pattern (47 bp):
TTTATTGATTTGGCTTCGGGCCATGATATTAGCATTTAGGTGCGAGA
Found at i:25744279 original size:12 final size:12
Alignment explanation
Indices: 25744264--25744290 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25744254 TACTCACTCA
25744264 TGTACTAGGCTG
1 TGTACTAGGCTG
25744276 TGTACTAGGCTG
1 TGTACTAGGCTG
25744288 TGT
1 TGT
25744291 CAATCCTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.37
Consensus pattern (12 bp):
TGTACTAGGCTG
Found at i:25746320 original size:46 final size:46
Alignment explanation
Indices: 25746270--25746442 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
25746260 TGGTTGAGCA
25746270 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
25746316 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* **
25746361 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
25746409 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
25746443 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
45 3 0.03
46 61 0.56
47 29 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:25746426 original size:93 final size:93
Alignment explanation
Indices: 25746267--25746437 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
25746257 GGATGGTTGA
* ***
25746267 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
25746332 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
25746360 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
25746425 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
25746438 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25753826 original size:46 final size:46
Alignment explanation
Indices: 25753776--25753948 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
25753766 TGGTTGAGCA
*
25753776 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
25753822 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
25753869 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
25753915 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
25753949 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 28 0.26
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:25753932 original size:93 final size:93
Alignment explanation
Indices: 25753773--25753943 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
25753763 GGATGGTTGA
* *
25753773 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
25753838 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
25753866 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
25753931 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
25753944 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25754503 original size:41 final size:41
Alignment explanation
Indices: 25754441--25754622 Score: 294
Period size: 41 Copynumber: 4.5 Consensus size: 41
25754431 CATTTTTTAC
* *
25754441 TAAAACGCCACTAAAAA-CAGAGTATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
25754481 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
* * *
25754522 TAAAACGCCGCTAATAAGCAGAGCAGTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
* *
25754563 TAAAACGCCGCTAATAAGCAGAGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
25754604 TAAAACGCCGCTAAAAACC
1 TAAAACGCCGCTAAAAACC
25754623 CCATAACCCG
Statistics
Matches: 133, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
40 16 0.12
41 117 0.88
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
Found at i:25754801 original size:14 final size:15
Alignment explanation
Indices: 25754784--25754817 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
25754774 ATCATTATAT
25754784 TTTAAGGAT-TATGG
1 TTTAAGGATATATGG
25754798 TTTAA-GATATATGG
1 TTTAAGGATATATGG
25754812 TTTAAG
1 TTTAAG
25754818 CAGGTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (15 bp):
TTTAAGGATATATGG
Found at i:25754941 original size:17 final size:18
Alignment explanation
Indices: 25754912--25754950 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
25754902 GGATTATGAT
25754912 TTAGGGTTTAAAGGTTAA
1 TTAGGGTTTAAAGGTTAA
*
25754930 TTAGGG-TTAAAGTTTAA
1 TTAGGGTTTAAAGGTTAA
25754947 TTAG
1 TTAG
25754951 AGTGGGACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (18 bp):
TTAGGGTTTAAAGGTTAA
Found at i:25755409 original size:2 final size:2
Alignment explanation
Indices: 25755402--25755431 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25755392 GAATATAAAC
25755402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25755432 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25755436 original size:2 final size:2
Alignment explanation
Indices: 25755431--25755457 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25755421 TATATATATA
25755431 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
25755458 TTTAATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:25758258 original size:19 final size:19
Alignment explanation
Indices: 25758234--25758280 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
25758224 AAGCTTTATT
25758234 CAAGTTTTGAAATATAAAC
1 CAAGTTTTGAAATATAAAC
*
25758253 CAAGTTTTGAAATATAGAC
1 CAAGTTTTGAAATATAAAC
25758272 CAAGTTTTG
1 CAAGTTTTG
25758281 CATACATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (19 bp):
CAAGTTTTGAAATATAAAC
Found at i:25758778 original size:134 final size:133
Alignment explanation
Indices: 25758555--25758807 Score: 479
Period size: 134 Copynumber: 1.9 Consensus size: 133
25758545 TGGTGATTCC
25758555 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
25758620 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCGTGTTGCTCACGTTTTATATAATAAAGTTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCGTGTTGCTCACGTTTTATATAATAAAGTTGT
25758685 TAT
131 TAT
*
25758688 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGT
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTG-TTTTCATGTTTCTATCCAACTTATGTGTTTAGT
*
25758753 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
65 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCGTGTTGCTCACGTTTTATAT
25758808 TATTGAATTC
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
133 30 0.26
134 87 0.74
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.51
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCGTGTTGCTCACGTTTTATATAATAAAGTTGT
TAT
Found at i:25765467 original size:370 final size:371
Alignment explanation
Indices: 25764785--25765694 Score: 1761
Period size: 370 Copynumber: 2.5 Consensus size: 371
25764775 CTTGTCCATT
*
25764785 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAG-AT
*
25764850 ATAGGCTGGAAACATGACGGGTTGCCTTATATCGAGCTGCAAGATATAAT-GATCCTCCCTAGGT
65 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
25764914 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
130 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
25764979 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
195 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
25765044 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
260 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
25765109 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
325 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
25765156 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAG-TA
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGATA
25765220 TAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTG
66 TAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTG
25765285 TAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGCT
131 TAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGCT
25765350 CATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTAC
196 CATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTAC
25765415 GATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
261 GATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
25765480 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
326 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
25765526 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAG-AT
25765591 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
65 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
25765656 ATAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
130 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
25765695 TGTTTCAATT
Statistics
Matches: 533, Mismatches: 3, Indels: 5
0.99 0.01 0.01
Matches are distributed among these distances:
369 50 0.09
370 318 0.60
371 61 0.11
372 104 0.20
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (371 bp):
AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGATA
TAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTG
TAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGCT
CATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTAC
GATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
ATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
Found at i:25765847 original size:24 final size:24
Alignment explanation
Indices: 25765782--25765849 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
25765772 ATTATTATTG
* *
25765782 AAATATTCTCGTCCGTTCTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
25765806 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
25765830 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
25765850 CCATTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
23 2 0.05
24 35 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:25765939 original size:9 final size:9
Alignment explanation
Indices: 25765927--25766187 Score: 195
Period size: 9 Copynumber: 28.4 Consensus size: 9
25765917 CATAATTTAC
25765927 ATAACTTAT
1 ATAACTTAT
*
25765936 ATAACATAT
1 ATAACTTAT
*
25765945 ATAACTTAC
1 ATAACTTAT
25765954 ATAACTTAT
1 ATAACTTAT
* *
25765963 ATAACATAC
1 ATAACTTAT
25765972 ATAACTTAT
1 ATAACTTAT
25765981 ATAACTTAT
1 ATAACTTAT
*
25765990 ATAACTTAC
1 ATAACTTAT
25765999 ATAACTTAT
1 ATAACTTAT
* *
25766008 ATAACATAC
1 ATAACTTAT
25766017 ATAACTTAT
1 ATAACTTAT
25766026 ATAACTTAT
1 ATAACTTAT
*
25766035 ATAACTTAG
1 ATAACTTAT
*
25766044 ATAA-ATAT
1 ATAACTTAT
*
25766052 ATAACTTAC
1 ATAACTTAT
*
25766061 ATAACTTAC
1 ATAACTTAT
25766070 ATAATACTTAAAT
1 AT-A-ACTT--AT
**
25766083 ATATTTTATAT
1 ATA-ACT-TAT
* *
25766094 CATAATTTAC
1 -ATAACTTAT
*
25766104 ATAACTTAC
1 ATAACTTAT
25766113 ATAACTTAT
1 ATAACTTAT
*
25766122 ATAACTTAG
1 ATAACTTAT
*
25766131 ATAA-ATAT
1 ATAACTTAT
* *
25766139 ATAATTTAC
1 ATAACTTAT
*
25766148 ATAA-ATAT
1 ATAACTTAT
* *
25766156 ATATCATAT
1 ATAACTTAT
* *
25766165 CATAAATTAC
1 -ATAACTTAT
*
25766175 ATAACTTAC
1 ATAACTTAT
25766184 ATAA
1 ATAA
25766188 TACTTAAATA
Statistics
Matches: 203, Mismatches: 39, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
8 17 0.08
9 160 0.79
10 8 0.04
11 8 0.04
12 6 0.03
13 4 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
ATAACTTAT
Found at i:25771862 original size:21 final size:21
Alignment explanation
Indices: 25771829--25771879 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
25771819 ACAACTTAAA
*
25771829 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
25771850 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
25771871 GCAGAGGCA
1 GCAGAGGCA
25771880 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:25772298 original size:43 final size:43
Alignment explanation
Indices: 25772274--25772480 Score: 353
Period size: 43 Copynumber: 4.8 Consensus size: 43
25772264 GTAAAAAAAG
25772274 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
*
25772317 CGCCGCTAAAAGCCTTGACCTTTTGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
25772360 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
**
25772403 CGCCGCTAAAAGCCTTGACCTTTAATGGCGCTTTT-CCTACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACC-ACAAA
* *
25772446 CGCCGCTAAAAGCCTTGACCTTTAACGGCGTTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
25772481 TTCCAATAAA
Statistics
Matches: 157, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
42 2 0.01
43 155 0.99
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
Found at i:25777330 original size:343 final size:345
Alignment explanation
Indices: 25776659--25777347 Score: 1082
Period size: 343 Copynumber: 2.0 Consensus size: 345
25776649 CTTTATGGAA
* *
25776659 TTAATGAATCGGATCTTTAGACTGCTTTTAGACAGATTTGTTGTTGTGTTCATTAACGACATTCA
1 TTAATGAATCCGATCTTTAGACTGCTCTTAGACAGATTTGTTGTTGTGTTCATTAACGACATTCA
* * * *
25776724 GATCAATTCACGAGATGAGTTTGAGCATGCCGAACAATTTGAGGATTGTGTTACAAACTTTGAGA
66 GATCAATTCACGACATGAGTTTGAGCATACCAAACAATTTGAGGATTGTGTTACAAAATTTGAGA
*
25776789 GATAAGTAGATGTTCGTTAAATTCAGCAAATGTGAATTCTGGCTTTGAGAAGTCAGATTTTTAAG
131 GATAAGCAGATGTTCGTTAAATTCAGCAAATGTGAATTCTGGCTTTGAGAAGTCAGATTTTTAAG
*
25776854 GCACATTGTTTTAGCGGAAGGTATAAGAGTTGACCTGAGCAAGATTTCGATAGTTGTTGATTGGA
196 GCACATTGTTTTAGCGGAAGGTATAAGAGTTGACCTAAGCAAGATTTCGATAGTTGTTGATTGGA
* ** * *
25776919 AACCACCAAGGAATGTATCCAAAGTTTGAAATTTTTTGGGATTAGCTGGGTATTATCGATGTTTT
261 AACCACCAAGGAATGTATCCAAAGTTTAAAATTTTTTGGGATTAGCCAGCTACTATCGATGTTTT
25776984 GTTAAAGGATTTTCAATGAT
326 GTTAAAGGATTTTCAATGAT
* * *
25777004 TTAATGAATCCGATCTTTAGACCT-CTCTTAGACAGATTTTTTGTTGTGTTCATTGATGACATTC
1 TTAATGAATCCGATCTTTAGA-CTGCTCTTAGACAGATTTGTTGTTGTGTTCATTAACGACATTC
* *
25777068 TGATCTATTCACGACATGAGTTTGAGCATACCAAAC-ATTTGAGGATTGTGTTACAAAATTTGAG
65 AGATCAATTCACGACATGAGTTTGAGCATACCAAACAATTTGAGGATTGTGTTACAAAATTTGAG
* * * *
25777132 AGATAAGCAGTTGTTCGTTAAATTTAGCAAATGTGAATTCTGGCTTTGAGAAGTTAGATTTTTAG
130 AGATAAGCAGATGTTCGTTAAATTCAGCAAATGTGAATTCTGGCTTTGAGAAGTCAGATTTTTAA
*
25777197 GGCACATT-TTTTAGGGGAAGGTATAAGAGTTGATCC-AAGCAAGATTTCGATAGTTGTTGATTG
195 GGCACATTGTTTTAGCGGAAGGTATAAGAGTTGA-CCTAAGCAAGATTTCGATAGTTGTTGATTG
* * *
25777260 GAAACCATCGAGGAATGTATCCGAAG-TTAAAATATTTTTGGGATTAGCCAGCTACTATCGATGT
259 GAAACCACCAAGGAATGTATCCAAAGTTTAAAAT-TTTTTGGGATTAGCCAGCTACTATCGATGT
25777324 TTTGTTAAAGGATTTTCAATGAT
323 TTTGTTAAAGGATTTTCAATGAT
25777347 T
1 T
25777348 GCTATACTGA
Statistics
Matches: 315, Mismatches: 26, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
342 6 0.02
343 123 0.39
344 97 0.31
345 87 0.28
346 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (345 bp):
TTAATGAATCCGATCTTTAGACTGCTCTTAGACAGATTTGTTGTTGTGTTCATTAACGACATTCA
GATCAATTCACGACATGAGTTTGAGCATACCAAACAATTTGAGGATTGTGTTACAAAATTTGAGA
GATAAGCAGATGTTCGTTAAATTCAGCAAATGTGAATTCTGGCTTTGAGAAGTCAGATTTTTAAG
GCACATTGTTTTAGCGGAAGGTATAAGAGTTGACCTAAGCAAGATTTCGATAGTTGTTGATTGGA
AACCACCAAGGAATGTATCCAAAGTTTAAAATTTTTTGGGATTAGCCAGCTACTATCGATGTTTT
GTTAAAGGATTTTCAATGAT
Found at i:25784439 original size:52 final size:52
Alignment explanation
Indices: 25784372--25784475 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
25784362 TTTCTTGCTC
25784372 ACTTCCATCTTTTTCATTCGTTTCTTTCACATTCTCGATCTCTTTTTGCATT
1 ACTTCCATCTTTTTCATTCGTTTCTTTCACATTCTCGATCTCTTTTTGCATT
* *
25784424 ACTTTCATCTTTTTCATTCGTTTCTTTCATATTCTCGATCTCTTTTTGCATT
1 ACTTCCATCTTTTTCATTCGTTTCTTTCACATTCTCGATCTCTTTTTGCATT
25784476 CTCTCACTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (52 bp):
ACTTCCATCTTTTTCATTCGTTTCTTTCACATTCTCGATCTCTTTTTGCATT
Found at i:25784551 original size:27 final size:27
Alignment explanation
Indices: 25784521--25784581 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
25784511 ACTCTCAATC
25784521 TCTTTTTG-TTCTCTTTCGAT-CTCTTTT
1 TCTTTTTGATT-TCTTTC-ATCCTCTTTT
*
25784548 TCTTTTTGATTTCTTTCATCCTTTTTT
1 TCTTTTTGATTTCTTTCATCCTCTTTT
25784575 TCTTTTT
1 TCTTTTT
25784582 CACATGCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.06
27 27 0.87
28 2 0.06
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (27 bp):
TCTTTTTGATTTCTTTCATCCTCTTTT
Found at i:25785784 original size:11 final size:10
Alignment explanation
Indices: 25785767--25785794 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
25785757 TAATATACGG
25785767 ATTTTTTTGA
1 ATTTTTTTGA
25785777 ATTTTTTTGA
1 ATTTTTTTGA
25785787 ATTTTTTT
1 ATTTTTTT
25785795 AATGAAATAC
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:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (10 bp):
ATTTTTTTGA
Found at i:25787666 original size:27 final size:27
Alignment explanation
Indices: 25787631--25787722 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
25787621 TACTGAAATG
*
25787631 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
25787658 TCCTTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
**
25787685 CCCTCGATTTATAGAATTACCGGTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
25787712 CCCTCGATTTA
1 CCCTCGATTTA
25787723 CATAATGGAC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:25789718 original size:27 final size:27
Alignment explanation
Indices: 25789688--25789779 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
25789678 TACTGAAATG
*
25789688 CCCTCGATTTGTAGAAATACCATTTTA
1 CCCTCGATTTATAGAAATACCATTTTA
*
25789715 CCCTCGATTTATA-AAATTGCCATTTTA
1 CCCTCGATTTATAGAAA-TACCATTTTA
* * ** *
25789742 CCCTCAATTTATAGAATTTTCGTTTTA
1 CCCTCGATTTATAGAAATACCATTTTA
25789769 CCCTCGATTTA
1 CCCTCGATTTA
25789780 CATAATGGAC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.05
27 50 0.91
28 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAGAAATACCATTTTA
Found at i:25791805 original size:27 final size:27
Alignment explanation
Indices: 25791775--25791853 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
25791765 GATTTGTAAG
25791775 ATTACCATTTTACCCTTGATTTACAAA
1 ATTACCATTTTACCCTTGATTTACAAA
* * * *
25791802 ATTACCATTTTCCCCTCGATTTATAGA
1 ATTACCATTTTACCCTTGATTTACAAA
*
25791829 ATTACCGTTTTA-CCTTCGATTTACA
1 ATTACCATTTTACCCTT-GATTTACA
25791854 TAATGGACCT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.42
Consensus pattern (27 bp):
ATTACCATTTTACCCTTGATTTACAAA
Found at i:25793851 original size:27 final size:27
Alignment explanation
Indices: 25793821--25793879 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
25793811 TACTGAAATG
*
25793821 CCCTCGATTTGTAGAAA-TACCATTTTA
1 CCCTCGATTTATA-AAATTACCATTTTA
*
25793848 CCCTCGATTTATAAAATTGCCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
25793875 CCCTC
1 CCCTC
25793880 AATTGGGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:25795382 original size:27 final size:26
Alignment explanation
Indices: 25795352--25795441 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 26
25795342 TACTGAAATG
*
25795352 CCCTCGACTTGTAGAATTACCATTTTA
1 CCCTCGA-TTGCAGAATTACCATTTTA
* *
25795379 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGA-TTGCAGAATTACCATTTTA
** *
25795406 CCCTCGATTGACAGAATTTTCGTTTTA
1 CCCTCGATTG-CAGAATTACCATTTTA
25795433 CCCTCGATT
1 CCCTCGATT
25795442 TACATAATGG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.26, C:0.27, G:0.10, T:0.38
Consensus pattern (26 bp):
CCCTCGATTGCAGAATTACCATTTTA
Found at i:25797454 original size:27 final size:27
Alignment explanation
Indices: 25797424--25797515 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
25797414 TACTGAAATG
*
25797424 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
25797451 CCCTTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
25797478 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
25797505 CCCTCGATTTA
1 CCCTCGATTTA
25797516 CATAATGGAC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:25799481 original size:27 final size:27
Alignment explanation
Indices: 25799451--25799544 Score: 143
Period size: 27 Copynumber: 3.5 Consensus size: 27
25799441 TACTGAGATG
**
25799451 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
25799478 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
25799505 CCCTCGATTTACAGAATTTCCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
25799532 CCCTCGATTTACA
1 CCCTCGATTTACA
25799545 TAATGGACCT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:25802455 original size:40 final size:40
Alignment explanation
Indices: 25802407--25802612 Score: 326
Period size: 40 Copynumber: 5.2 Consensus size: 40
25802397 GGACTAAGAT
*
25802407 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
25802447 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
25802487 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
25802527 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
25802567 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAAATT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
25802606 CCGAAGG
1 CCGAAGG
25802613 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.09
40 142 0.90
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:25810512 original size:79 final size:80
Alignment explanation
Indices: 25810335--25810543 Score: 318
Period size: 79 Copynumber: 2.6 Consensus size: 80
25810325 TCGAATGATA
* *
25810335 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
25810399 TTGTGCTAGTGATTAT
65 TTGTGCTAGTGACTAT
25810415 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGT-CCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
25810479 TGTGCTAGTGACTAT
66 TGTGCTAGTGACTAT
* * *
25810494 GTCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAA
25810544 ATTCTGAAGG
Statistics
Matches: 121, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
78 6 0.05
79 64 0.53
80 51 0.42
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
TGTGCTAGTGACTAT
Found at i:25810553 original size:39 final size:40
Alignment explanation
Indices: 25810335--25810543 Score: 318
Period size: 40 Copynumber: 5.3 Consensus size: 40
25810325 TCGAATGATA
* *
25810335 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTGATTAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACTAT
*
25810375 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
25810415 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
25810455 ATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* * *
25810494 GTCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
25810534 ATCC-GGCTAA
1 ATCCGGGCTAA
25810544 ATTCTGAAGG
Statistics
Matches: 160, Mismatches: 6, Indels: 7
0.92 0.03 0.04
Matches are distributed among these distances:
39 45 0.28
40 113 0.71
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:25812640 original size:27 final size:27
Alignment explanation
Indices: 25812610--25812703 Score: 134
Period size: 27 Copynumber: 3.5 Consensus size: 27
25812600 TACTGAAATG
** *
25812610 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
25812637 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
25812664 CCCTCAATTTACAAAATTTCCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
25812691 CCCTCGATTTACA
1 CCCTCGATTTACA
25812704 TAATGGACCT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:25816051 original size:27 final size:28
Alignment explanation
Indices: 25815999--25816064 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 28
25815989 TTGTACAGCG
25815999 CTAAGTGTGCGAGTTTGATCATATAGCA
1 CTAAGTGTGCGAGTTTGATCATATAGCA
* *
25816027 CTAAATGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATCATATAGCA
25816054 CTAAGTGTGCG
1 CTAAGTGTGCG
25816065 GACTCACTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 23 0.66
28 12 0.34
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATCATATAGCA
Found at i:25816075 original size:27 final size:27
Alignment explanation
Indices: 25816019--25816076 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
25816009 GAGTTTGATC
* * *
25816019 ATATAGCACTAAATGTGCGAGTTGATT
1 ATATAGCACTAAATGTGCGAGCTCACT
*
25816046 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAATGTGCGAG-CTCACT
25816073 ATAT
1 ATAT
25816077 GCTTTTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAATGTGCGAGCTCACT
Found at i:25817951 original size:27 final size:27
Alignment explanation
Indices: 25817921--25818012 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
25817911 TACTGAAATG
*
25817921 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
25817948 CCCTTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
**
25817975 CCCTCGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
25818002 CCCTCGATTTA
1 CCCTCGATTTA
25818013 CATAATGGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:25820009 original size:27 final size:27
Alignment explanation
Indices: 25819979--25820072 Score: 134
Period size: 27 Copynumber: 3.5 Consensus size: 27
25819969 TACTGAAATG
**
25819979 CCCTCAATTTGTAGAATTACCATTTTA
1 CCCTCAATTTACAGAATTACCATTTTA
* *
25820006 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCAATTTACAGAATTACCATTTTA
* *
25820033 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCAATTTACAGAATTACCATTTTA
25820060 CCCTCAATTTACA
1 CCCTCAATTTACA
25820073 TAATGGACCT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (27 bp):
CCCTCAATTTACAGAATTACCATTTTA
Found at i:25820609 original size:24 final size:23
Alignment explanation
Indices: 25820546--25820616 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
25820536 TCAAAGGATA
*
25820546 TATAATGCTCTCCTTTAAATGATG
1 TATAATGCTCT-CTTTAAGTGATG
*
25820570 --TAATAGGTC-CTTTAAGTGATG
1 TATAAT-GCTCTCTTTAAGTGATG
*
25820591 TATAATGCTCTTCTTTAAGTAATG
1 TATAATGCTC-TCTTTAAGTGATG
25820615 TA
1 TA
25820617 ACAGCCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 11 0.29
22 7 0.18
23 7 0.18
24 13 0.34
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (23 bp):
TATAATGCTCTCTTTAAGTGATG
Done.