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 112 of 292
Found at i:34078137 original size:29 final size:29
Alignment explanation
Indices: 34078104--34078177 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
34078094 CCTTCGAGCT
34078104 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
34078133 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34078162 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
34078178 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:34078138 original size:58 final size:58
Alignment explanation
Indices: 34078045--34078177 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
34078035 ATACTCGATT
* * * * *
34078045 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
34078103 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
34078161 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
34078178 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:34086010 original size:29 final size:29
Alignment explanation
Indices: 34085977--34086050 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
34085967 CCTTCGAGCT
34085977 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
34086006 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34086035 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
34086051 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:34086011 original size:58 final size:58
Alignment explanation
Indices: 34085918--34086050 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
34085908 ATACTCGATT
* * * * *
34085918 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
34085976 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
34086034 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
34086051 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:34090520 original size:32 final size:31
Alignment explanation
Indices: 34090450--34090525 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 31
34090440 AATGTTAAAT
* * *
34090450 TTAATTTAATACTTATCTTAAAAATATTTTA
1 TTAATTTAATATTTAGCTTAAAAATATTATA
* *
34090481 TTAATTTAATATTTAGCTTGATAAGTATTATA
1 TTAATTTAATATTTAGCTT-AAAAATATTATA
34090513 TTAATTTAATATT
1 TTAATTTAATATT
34090526 AAAGTTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 17 0.44
32 22 0.56
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (31 bp):
TTAATTTAATATTTAGCTTAAAAATATTATA
Found at i:34094924 original size:40 final size:40
Alignment explanation
Indices: 34094864--34095088 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
34094854 TCGAATGATG
* * * *
34094864 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
34094904 TCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
34094944 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
34094984 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
**
34095024 TCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
34095064 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
34095089 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 35 0.21
40 126 0.75
41 8 0.05
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34095118 original size:79 final size:79
Alignment explanation
Indices: 34094864--34095121 Score: 274
Period size: 80 Copynumber: 3.2 Consensus size: 79
34094854 TCGAATGATG
* * * * *
34094864 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCAAAGGCATT
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
** *
34094928 TGTGCGAGTTATTAAA
64 TGAACGAGTTACTAAA
**
34094944 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
**
34095009 GTGCGAGTTACTAAA
65 GAACGAGTTACTAAA
* *
34095024 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATT
1 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATT
*
34095087 TGAACGAG-TAGCTATA
64 TGAACGAGTTA-CTAAA
*
34095103 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTT-AAGTCCGAAGG
34095122 TACGTGATTC
Statistics
Matches: 158, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
78 7 0.04
79 68 0.43
80 75 0.47
81 8 0.05
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTG
AACGAGTTACTAAA
Found at i:34098033 original size:43 final size:43
Alignment explanation
Indices: 34097981--34098064 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
34097971 GATATATGTG
*
34097981 GCATCCGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGTGGTCTGAGTTCATAATGGATGCGA
*
34098024 GCATCCGAGCTCGTTGAGTGGTTTGAGTTCATAATGGATGC
1 GCATCCGAGCTCGTTGAGTGGTCTGAGTTCATAATGGATGC
34098065 AATACATGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGTGGTCTGAGTTCATAATGGATGCGA
Found at i:34098449 original size:41 final size:41
Alignment explanation
Indices: 34098369--34098478 Score: 150
Period size: 41 Copynumber: 2.7 Consensus size: 41
34098359 ATTGTCAAAC
* * * *
34098369 ACAGAGCAATAGCGGCGTCTTA-CAAAAAACGCTGCTAAAA
1 ACAGAGCAATAGCGGCGTTTTAGTAAAAAACACCGCTAAAA
34098409 ACAGAGCAATAGCGGCGTTTTAGTAAAAAACACCGCTAAAA
1 ACAGAGCAATAGCGGCGTTTTAGTAAAAAACACCGCTAAAA
* *
34098450 ACAGAGCATTAGCGGCGCTTTTGGTAAAA
1 ACAGAGCAATAGCGGCG-TTTTAGTAAAA
34098479 CGCCGCTAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
40 21 0.34
41 31 0.50
42 10 0.16
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (41 bp):
ACAGAGCAATAGCGGCGTTTTAGTAAAAAACACCGCTAAAA
Found at i:34098498 original size:41 final size:40
Alignment explanation
Indices: 34098394--34098530 Score: 177
Period size: 41 Copynumber: 3.4 Consensus size: 40
34098384 CGTCTTACAA
* * *
34098394 AAAACGCTGCTAAAAACAGAGCAATAGCGGCG-TTTTAGT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
*
34098433 AAAAAACACCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
1 --AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
* * *
34098475 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCACTTTTGGT
1 AAAACGCCGCTAAA-AACAGAGCATTAGCGGCGCTTTTGGT
34098516 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
34098531 GTCATATAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
40 14 0.16
41 66 0.77
42 6 0.07
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
Found at i:34098812 original size:2 final size:2
Alignment explanation
Indices: 34098805--34098831 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34098795 GTCCCTTGTA
34098805 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
34098832 GGGTTTATGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34098872 original size:21 final size:21
Alignment explanation
Indices: 34098830--34098873 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
34098820 TATATATATA
* *
34098830 TAGGGTTTATGATTTGGAGTT
1 TAGGGTTTAGGATGTGGAGTT
* *
34098851 TAGGGTTTAGGGTGTGGGGTT
1 TAGGGTTTAGGATGTGGAGTT
34098872 TA
1 TA
34098874 TGATTTAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (21 bp):
TAGGGTTTAGGATGTGGAGTT
Found at i:34098906 original size:35 final size:35
Alignment explanation
Indices: 34098830--34098908 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
34098820 TATATATATA
*
34098830 TAGGGTTTATGATTTGGAGTTTAGGGTTTAGGGTG
1 TAGGGTTTATGATTTGAAGTTTAGGGTTTAGGGTG
* * *
34098865 TGGGGTTTATGATTT-AATTGTTAGGGTTTGGGGAT-
1 TAGGGTTTATGATTTGAAGT-TTAGGGTTTAGGG-TG
34098900 TAGGGTTTA
1 TAGGGTTTA
34098909 AGGTTTAAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 2 0.05
35 34 0.92
36 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (35 bp):
TAGGGTTTATGATTTGAAGTTTAGGGTTTAGGGTG
Found at i:34098916 original size:35 final size:35
Alignment explanation
Indices: 34098850--34098916 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
34098840 GATTTGGAGT
* *
34098850 TTAGGGTTTAGGGTGTGGGGTTTATGATTTAATTG
1 TTAGGGTTTAGGGTGTAGGGTTTAAGATTTAATTG
* *
34098885 TTAGGGTTTGGGGAT-TAGGGTTTAAGGTTTAA
1 TTAGGGTTTAGGG-TGTAGGGTTTAAGATTTAA
34098917 GGATTTAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 26 0.96
36 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.43
Consensus pattern (35 bp):
TTAGGGTTTAGGGTGTAGGGTTTAAGATTTAATTG
Found at i:34099440 original size:80 final size:80
Alignment explanation
Indices: 34099345--34099513 Score: 250
Period size: 80 Copynumber: 2.1 Consensus size: 80
34099335 CTGGCGTTTA
34099345 TTTAAAAAACGCCGCAAAAAACATAGCAG-TTAACAAAAACGACGTCGTTTTAATTGGATATTTA
1 TTTAAAAAACGCCGCAAAAAACATAGCAGTTTAACAAAAACGACGTCGTTTTAATTGGATATTTA
*
34099409 GGAGAGTAGCGGCATT
66 GG-GAGTACCGGCATT
* * * * * *
34099425 TTTTAAAAACGCCGCAAAGAACATAGCAGTTTAACGAAAACGGCGTCGTTTTTATTGGATTTTTA
1 TTTAAAAAACGCCGCAAAAAACATAGCAGTTTAACAAAAACGACGTCGTTTTAATTGGATATTTA
*
34099490 GGGAGTACCGGCGTT
66 GGGAGTACCGGCATT
34099505 TTTAAAAAA
1 TTTAAAAAA
34099514 AACGCCACAA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 46 0.58
81 33 0.42
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.28
Consensus pattern (80 bp):
TTTAAAAAACGCCGCAAAAAACATAGCAGTTTAACAAAAACGACGTCGTTTTAATTGGATATTTA
GGGAGTACCGGCATT
Found at i:34099482 original size:81 final size:80
Alignment explanation
Indices: 34099345--34099612 Score: 269
Period size: 81 Copynumber: 3.3 Consensus size: 80
34099335 CTGGCGTTTA
* * * *
34099345 TTTAAAAAACGCCGCAAAAAACATAGCAG-TTAACAAAAACGACGTCGTTTTAATTGGATATTTA
1 TTTAAAAAACGCCGCAAAGAACATAGCAGTTTAACGAAAACGGCGTCGTTTTTATTGGATATTTA
*
34099409 GGAGAGTAGCGGCATT
66 GG-GAGTAGCGGCGTT
* *
34099425 TTTTAAAAACGCCGCAAAGAACATAGCAGTTTAACGAAAACGGCGTCGTTTTTATTGGATTTTTA
1 TTTAAAAAACGCCGCAAAGAACATAGCAGTTTAACGAAAACGGCGTCGTTTTTATTGGATATTTA
*
34099490 GGGAGTACCGGCGTT
66 GGGAGTAGCGGCGTT
* ** * * * *
34099505 TTTAAAAAAAACGCCACAAAAAGAA-A-AAAAGTATAACG-TAACGGCGTCG-TTTTATATGAAG
1 TTT--AAAAAACGCCGC--AAAGAACATAGCAGTTTAACGAAAACGGCGTCGTTTTTAT-TGGAT
*
34099566 ATTTAGGGGATTAGCGGCGTT
61 ATTTA-GGGAGTAGCGGCGTT
*
34099587 TTAAAAAAAGCGCCGCAAA-AACATAG
1 TTTAAAAAA-CGCCGCAAAGAACATAG
34099613 TACTTTAAAG
Statistics
Matches: 156, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
78 2 0.01
79 4 0.03
80 54 0.35
81 55 0.35
82 34 0.22
83 1 0.01
84 6 0.04
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (80 bp):
TTTAAAAAACGCCGCAAAGAACATAGCAGTTTAACGAAAACGGCGTCGTTTTTATTGGATATTTA
GGGAGTAGCGGCGTT
Found at i:34104871 original size:241 final size:241
Alignment explanation
Indices: 34104448--34104934 Score: 902
Period size: 241 Copynumber: 2.0 Consensus size: 241
34104438 ATGAATTAAT
34104448 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACCTTCTCTCCAACCTT
34104513 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
34104578 CTGTAAGATATAATGGATCCTTCCTAGGTGTAACAACGCCACGCATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGCATGATGAATCTTAAAAAATTC
34104643 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
* *
34104689 TTTATTACCATGTAGCTTGCTTGTTCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACCTTCTCTCCAACCTT
34104754 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
* * *
34104819 GTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATTTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGCATGATGAATCTTAAAAAATTC
* *
34104884 AAAAAGACTTGGAAAAAGTTCTATCGATCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
34104930 TTTAT
1 TTTAT
34104935 ATAACCTTAA
Statistics
Matches: 238, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 238 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGCATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:34105141 original size:9 final size:9
Alignment explanation
Indices: 34105114--34105280 Score: 136
Period size: 9 Copynumber: 17.6 Consensus size: 9
34105104 ATTGATCATT
*
34105114 ACTTAAATA
1 ACTTACATA
*
34105123 AATTACATA
1 ACTTACATA
*
34105132 ACTTAAATA
1 ACTTACATA
* *
34105141 ACTCATATA
1 ACTTACATA
34105150 ACTTACATA
1 ACTTACATA
*
34105159 ATTTACATAACA
1 ACTTACAT---A
*
34105171 ACTTACTTA
1 ACTTACATA
*
34105180 ACTCACATA
1 ACTTACATA
34105189 ACTTACATA
1 ACTTACATA
*
34105198 ATTTACATAACA
1 ACTTACAT---A
34105210 ACTTACATA
1 ACTTACATA
*
34105219 ACTCACATA
1 ACTTACATA
34105228 ACTTACATA
1 ACTTACATA
*
34105237 ATTTACATA
1 ACTTACATA
*
34105246 ACTCACATA
1 ACTTACATA
*
34105255 ACGTACATAACA
1 ACTTACAT---A
34105267 ACTTACATA
1 ACTTACATA
34105276 ACTTA
1 ACTTA
34105281 ACTAATACAT
Statistics
Matches: 125, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
9 102 0.82
12 23 0.18
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:34105190 original size:39 final size:39
Alignment explanation
Indices: 34105131--34105247 Score: 207
Period size: 39 Copynumber: 3.0 Consensus size: 39
34105121 TAAATTACAT
* *
34105131 AACTTAAATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
*
34105170 AACTTACTTAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
34105209 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
34105248 TCACATAACG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:34105231 original size:57 final size:57
Alignment explanation
Indices: 34105170--34105278 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
34105160 TTTACATAAC
* * **
34105170 AACTTACTTAACTCACATAACTTACATAATTTACATAACAACTTACATAACTCACAT
1 AACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTCACAT
* *
34105227 AACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 AACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
34105279 TAACTAATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (57 bp):
AACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTCACAT
Found at i:34105276 original size:39 final size:37
Alignment explanation
Indices: 34105114--34105265 Score: 184
Period size: 39 Copynumber: 4.1 Consensus size: 37
34105104 ATTGATCATT
* * * *
34105114 ACTTAAATAAATTACAT-AACTTAAATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACTCACATA
*
34105150 ACTTACATAATTTACATAACAACTTACTTAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
34105189 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
*
34105228 ACTTACATAATTTACAT-AACTCACATAACGT-ACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TCACATA
34105264 AC
1 AC
34105266 AACTTACATA
Statistics
Matches: 105, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
36 33 0.31
37 1 0.01
39 71 0.68
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (37 bp):
ACTTACATAATTTACATAAACTTACATAACTCACATA
Found at i:34105279 original size:48 final size:47
Alignment explanation
Indices: 34105125--34105280 Score: 168
Period size: 48 Copynumber: 3.3 Consensus size: 47
34105115 CTTAAATAAA
* * * *
34105125 TTACATAACTTAAATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * * *
34105173 TTACTTAACTCACATAACTTACATAATTTACATAACAACTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTACATA-ACAAC
* * *
34105221 TCACATAACTTACATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAAC-TACATAACAAC
34105269 TTACATAACTTA
1 TTACATAACTTA
34105281 ACTAATACAT
Statistics
Matches: 86, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
47 4 0.05
48 78 0.91
49 4 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.32
Consensus pattern (47 bp):
TTACATAACTTACATAACTTACATAACTTACATAACTACATAACAAC
Found at i:34107183 original size:24 final size:24
Alignment explanation
Indices: 34107151--34107213 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
34107141 AATCTCAAAT
34107151 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
34107175 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
34107199 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
34107214 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:34115383 original size:21 final size:20
Alignment explanation
Indices: 34115359--34115403 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
34115349 AACTTAGAGT
34115359 GGAGGCAGCAACGAGGGAGGC
1 GGAGGCAGCAACGAGGGA-GC
*
34115380 GGAGGCAGCAGCGAGGGAGC
1 GGAGGCAGCAACGAGGGAGC
34115400 GGAG
1 GGAG
34115404 CAGAACAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.27, C:0.18, G:0.56, T:0.00
Consensus pattern (20 bp):
GGAGGCAGCAACGAGGGAGC
Found at i:34115798 original size:43 final size:43
Alignment explanation
Indices: 34115697--34115805 Score: 164
Period size: 43 Copynumber: 2.5 Consensus size: 43
34115687 ACTGGGCAAA
* * *
34115697 TTAGCGGCGCTTTTTAAAAAAGCGCCGCTAAAGATCCTGGTCT
1 TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGATCCTGGTCT
* * *
34115740 GTAGCGGTGTTTTTTGAAGAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGATCCTGGTCT
34115783 TTAGCGGCGTTTTTTGAAGAAGC
1 TTAGCGGCGTTTTTTGAAGAAGC
34115806 AGTCTTTAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGATCCTGGTCT
Found at i:34115857 original size:71 final size:71
Alignment explanation
Indices: 34115736--34115876 Score: 228
Period size: 71 Copynumber: 2.0 Consensus size: 71
34115726 AAAGATCCTG
* * *
34115736 GTCTGTAGCGGTGTTTTTTGAAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTTGAA
1 GTCTGTAGCGGCGTTTTTTGAAGAAACGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTATGAA
34115801 GAAGCA
66 GAAGCA
* * *
34115807 GTCTTTAGCGGCGTTTTTTGTAGAAACGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTATGTA
1 GTCTGTAGCGGCGTTTTTTGAAGAAACGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTATGAA
34115872 GAAGC
66 GAAGC
34115877 GCCGCTAAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (71 bp):
GTCTGTAGCGGCGTTTTTTGAAGAAACGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTATGAA
GAAGCA
Found at i:34115872 original size:43 final size:43
Alignment explanation
Indices: 34115807--34115997 Score: 337
Period size: 43 Copynumber: 4.4 Consensus size: 43
34115797 TGAAGAAGCA
*
34115807 GTCTTTAGCGGCGTTTTTTGTAGAAACGCCGCTAAAGGTCCTG
1 GTCTTTAGCGGCGTTTTTTGTAGAAGCGCCGCTAAAGGTCCTG
* *
34115850 GTCTTTAGCGGCGTTTTATGTAGAAGCGCCGCTAAAGGTCATG
1 GTCTTTAGCGGCGTTTTTTGTAGAAGCGCCGCTAAAGGTCCTG
*
34115893 GTCTTTAGCGGCGTTTTTTGTAGAAGCGCCGTTAAAGGTCCTG
1 GTCTTTAGCGGCGTTTTTTGTAGAAGCGCCGCTAAAGGTCCTG
*
34115936 GTCTTTAGCGGCGTTTTTTGTAGAAGCACCGCTAAAGGTCCTG
1 GTCTTTAGCGGCGTTTTTTGTAGAAGCGCCGCTAAAGGTCCTG
34115979 GTCTTTAGCGGCGTTTTTT
1 GTCTTTAGCGGCGTTTTTT
34115998 CTGAAAAACG
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 140 1.00
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (43 bp):
GTCTTTAGCGGCGTTTTTTGTAGAAGCGCCGCTAAAGGTCCTG
Found at i:34115897 original size:114 final size:114
Alignment explanation
Indices: 34115697--34115919 Score: 340
Period size: 114 Copynumber: 2.0 Consensus size: 114
34115687 ACTGGGCAAA
* *
34115697 TTAGCGGCGCTTTTTAAAAAAGCGCCGCTAAAGATCCTGGTCTGTAGCGGTGTTTTTTGAAGAAG
1 TTAGCGGCGCTTTTTAAAAAAGCGCCGCTAAAGATCCTGGTCTGTAGCGGCGTTTTATGAAGAAG
*
34115762 CGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTTGAAGAAGCAGTCT
66 CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTGAAGAAGCAGTCT
* * * * * *
34115811 TTAGCGGCGTTTTTTGTAGAAA-CGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTATGTAGAA
1 TTAGCGGCGCTTTTT-AAAAAAGCGCCGCTAAAGATCCTGGTCTGTAGCGGCGTTTTATGAAGAA
*
34115875 GCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTGTAGAAGC
65 GCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTGAAGAAGC
34115920 GCCGTTAAAG
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
114 94 0.96
115 4 0.04
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (114 bp):
TTAGCGGCGCTTTTTAAAAAAGCGCCGCTAAAGATCCTGGTCTGTAGCGGCGTTTTATGAAGAAG
CGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTTGAAGAAGCAGTCT
Found at i:34119111 original size:40 final size:40
Alignment explanation
Indices: 34119049--34119266 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
34119039 AAGCCAAGTA
* * *
34119049 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
34119088 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
34119128 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
34119168 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
34119208 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
34119248 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34119267 TTATCATCCA
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.08
40 154 0.92
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:34127237 original size:40 final size:40
Alignment explanation
Indices: 34127175--34127391 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
34127165 AAGCCAAGTA
* * *
34127175 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
34127214 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
34127254 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
34127294 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
34127334 CCTTCGGGACTTAGCCC-GA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
34127373 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34127392 TTATCATCCA
Statistics
Matches: 165, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 46 0.28
40 118 0.72
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:34136112 original size:29 final size:29
Alignment explanation
Indices: 34136040--34136097 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
34136030 GCCGAAAAAT
34136040 AATGACCTCTAATCATCAAAGGGCATTTC
1 AATGACCTCTAATCATCAAAGGGCATTTC
34136069 AATGACCTCTAATCATCAAAGGGCATTTC
1 AATGACCTCTAATCATCAAAGGGCATTTC
34136098 TTACATACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (29 bp):
AATGACCTCTAATCATCAAAGGGCATTTC
Found at i:34140315 original size:21 final size:21
Alignment explanation
Indices: 34140248--34140318 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
34140238 GCACATGGCT
*
34140248 GTGTGGCTGAGGCACACGCCC
1 GTGTGACTGAGGCACACGCCC
** * * *
34140269 GTGTGA-AAAGGGATACACGGCT
1 GTGTGACTGA-GG-CACACGCCC
34140291 GTGTGACTGAGGCACACGCCC
1 GTGTGACTGAGGCACACGCCC
34140312 GTGTGAC
1 GTGTGAC
34140319 CCGAAACATG
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
20 1 0.03
21 20 0.56
22 14 0.39
23 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.37, T:0.17
Consensus pattern (21 bp):
GTGTGACTGAGGCACACGCCC
Found at i:34141811 original size:46 final size:46
Alignment explanation
Indices: 34141743--34141908 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 46
34141733 TGTAACCCAC
* * *
34141743 CCATAAGAGAACTCGGATTCAACTCAATGAGCTCAGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGACGTTCACAT
* *
34141789 CCATAAGTGAACTTGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTC--A-GAC--GTTCACAT
* * * * *
34141839 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGACGTTCACAT
34141882 CCATAAGTGAACTCGGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
34141909 CGAGTTCGGA
Statistics
Matches: 98, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 3 0.03
45 3 0.03
46 50 0.51
47 23 0.23
48 3 0.03
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGACGTTCACAT
Found at i:34141877 original size:93 final size:93
Alignment explanation
Indices: 34141751--34141922 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
34141741 ACCCATAAGA
* * * *
34141751 GAACTCGGATTCAACTCAATGAGCTCAGGCGTTCACATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
34141816 TGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
34141844 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
34141909 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
34141923 CAAATATCCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:34146279 original size:40 final size:40
Alignment explanation
Indices: 34146224--34146401 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
34146214 TGGATGATAA
34146224 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
34146264 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34146304 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
34146344 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
34146384 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34146402 TACTTGGCTT
Statistics
Matches: 129, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 15 0.12
40 114 0.88
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:34154330 original size:40 final size:40
Alignment explanation
Indices: 34154275--34154452 Score: 279
Period size: 40 Copynumber: 4.5 Consensus size: 40
34154265 TGGATGATAA
34154275 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
34154315 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
34154355 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
34154395 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
34154435 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34154453 TACTTGGCTT
Statistics
Matches: 130, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 15 0.12
40 115 0.88
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:34162069 original size:50 final size:50
Alignment explanation
Indices: 34161973--34162070 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 50
34161963 ACCTTATTCT
* * * *
34161973 AATCAATGTCAAATAGAATAAGAAAAGTTCTATATGAACTCTACTTGTAC
1 AATCAATATCAAATAGAAGAAGAAAAGTTCTATACGAACTCCACTTGTAC
* ** * *
34162023 AATCAATATCAAATATAAGAAGAGTAGTTCTATACGGATTCCACTTGT
1 AATCAATATCAAATAGAAGAAGAAAAGTTCTATACGAACTCCACTTGT
34162071 GCAGCCTGGT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (50 bp):
AATCAATATCAAATAGAAGAAGAAAAGTTCTATACGAACTCCACTTGTAC
Found at i:34164718 original size:32 final size:32
Alignment explanation
Indices: 34164674--34164734 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
34164664 TAATCAATAC
* *
34164674 GAGTTATCAAATTAAATTAATTAATTTATCAT
1 GAGTTATCAAATTAAAGTAATCAATTTATCAT
*
34164706 GAGTTA-CTAAATTCAAGTAATCAATTTAT
1 GAGTTATC-AAATTAAAGTAATCAATTTAT
34164735 AAGTTTATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.04
32 24 0.96
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (32 bp):
GAGTTATCAAATTAAAGTAATCAATTTATCAT
Found at i:34167733 original size:18 final size:19
Alignment explanation
Indices: 34167702--34167738 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
34167692 TTCCATTAGG
34167702 TTAATTTAGGTTAATTAAT
1 TTAATTTAGGTTAATTAAT
*
34167721 TTAA-TTAGTTTAATTAAT
1 TTAATTTAGGTTAATTAAT
34167739 ATTTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTAATTTAGGTTAATTAAT
Found at i:34168129 original size:21 final size:22
Alignment explanation
Indices: 34168087--34168131 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
34168077 ACGAGCTAGA
*
34168087 TAGTGTTCTAACTTTTAATTTT
1 TAGTGTGCTAACTTTTAATTTT
*
34168109 TAGTGTGCTAA-TTTTATTTTT
1 TAGTGTGCTAACTTTTAATTTT
34168130 TA
1 TA
34168132 TTATTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.60
Consensus pattern (22 bp):
TAGTGTGCTAACTTTTAATTTT
Found at i:34171775 original size:24 final size:23
Alignment explanation
Indices: 34171747--34171792 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
34171737 ATAGATCCCA
*
34171747 TCCATCCAACTGCTACACACCATC
1 TCCATCC-ACTGATACACACCATC
*
34171771 TCCATCCCCTGATACACACCAT
1 TCCATCCACTGATACACACCAT
34171793 GTGGGGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.28, C:0.46, G:0.04, T:0.22
Consensus pattern (23 bp):
TCCATCCACTGATACACACCATC
Found at i:34172481 original size:28 final size:28
Alignment explanation
Indices: 34172386--34172503 Score: 114
Period size: 28 Copynumber: 4.2 Consensus size: 28
34172376 TCCATACTTA
* * * *
34172386 TTCATTTGGCCCCTTTAGGCCCAATCTCA
1 TTCATATGG-CCCTTCAGGCCCAATCACT
* * *
34172415 TTCATAGGGCCCATCATGCCCAA-CA-T
1 TTCATATGGCCCTTCAGGCCCAATCACT
* *
34172441 ATTCATATAGCCCTTTAGGCCCAATCACT
1 -TTCATATGGCCCTTCAGGCCCAATCACT
*
34172470 TTCATATGGCCCGTCAGGCCCAATCACT
1 TTCATATGGCCCTTCAGGCCCAATCACT
34172498 TTCATA
1 TTCATA
34172504 GTCATGCAAT
Statistics
Matches: 71, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
27 19 0.27
28 44 0.62
29 8 0.11
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.30
Consensus pattern (28 bp):
TTCATATGGCCCTTCAGGCCCAATCACT
Found at i:34172741 original size:16 final size:16
Alignment explanation
Indices: 34172720--34172750 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34172710 CCAAACTTCC
34172720 AGCTTTTTGGCATTTT
1 AGCTTTTTGGCATTTT
*
34172736 AGCTTTTTGGTATTT
1 AGCTTTTTGGCATTT
34172751 CGGTATTTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.19, T:0.58
Consensus pattern (16 bp):
AGCTTTTTGGCATTTT
Found at i:34176326 original size:27 final size:27
Alignment explanation
Indices: 34176296--34176436 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
34176286 GTGATGAAGT
34176296 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
*
34176323 CACCAGA-ACAAATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
34176350 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
34176377 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
34176404 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
34176431 CACCAG
1 CACCAG
34176437 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 9 0.09
27 87 0.87
28 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:34176437 original size:54 final size:54
Alignment explanation
Indices: 34176296--34176439 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
34176286 GTGATGAAGT
* *
34176296 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
*
34176350 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
34176404 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
34176440 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAAATATATGTGGCAGAGC
Found at i:34178088 original size:26 final size:26
Alignment explanation
Indices: 34178057--34178164 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
34178047 TGAAATGCCC
*
34178057 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
34178083 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
34178109 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
34178135 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34178161 ATCA
1 ATCA
34178165 ATTTGTACTA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34183462 original size:27 final size:27
Alignment explanation
Indices: 34183432--34183544 Score: 133
Period size: 27 Copynumber: 4.2 Consensus size: 27
34183422 GTGACGAAGT
* *
34183432 CACCAGATACAGAT-ATTATGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGC
* *
34183459 CACCAGATCAGATAATTGTGGTATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
34183486 CACCAGA-CAGAT-ATATGTGGCAGAGC
1 CACCAGATCAGATAAT-TGTGGCAGAGC
* *
34183512 CACTAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
34183539 CACCAG
1 CACCAG
34183545 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
25 2 0.03
26 25 0.33
27 46 0.61
28 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGATCAGATAATTGTGGCAGAGC
Found at i:34183496 original size:26 final size:26
Alignment explanation
Indices: 34183414--34183544 Score: 131
Period size: 27 Copynumber: 4.9 Consensus size: 26
34183404 GCGAGGCTGC
* *
34183414 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
* *
34183440 ACAGATATTATGGTAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
* *
34183467 CAGATAATTGTGGTATAGCCACCAGA-
1 CAGAT-ATTGTGGCAGAGCCACCAGAT
*
34183493 CAGATATATGTGGCAGAGCCACTAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
34183520 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
34183545 GACGCTTCCT
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
25 2 0.02
26 25 0.28
27 58 0.66
28 3 0.03
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:34183513 original size:53 final size:52
Alignment explanation
Indices: 34183440--34183544 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 52
34183430 GTCACCAGAT
* *
34183440 ACAGATATTATGGTAGAGCCACCAGATCAGATAATTGTGGTATAGCCACCAG
1 ACAGATATTATGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
* *
34183492 ACAGATATATGTGGCAGAGCCACTAGATCAGATAATTGTGGCATAGCCACCAG
1 ACAGATAT-TATGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
34183545 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
52 8 0.17
53 40 0.83
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (52 bp):
ACAGATATTATGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
Found at i:34185194 original size:26 final size:26
Alignment explanation
Indices: 34185163--34185270 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
34185153 TGAAATGCCC
*
34185163 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
34185189 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
34185215 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
34185241 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34185267 ATCA
1 ATCA
34185271 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34187503 original size:40 final size:40
Alignment explanation
Indices: 34187419--34187624 Score: 308
Period size: 40 Copynumber: 5.2 Consensus size: 40
34187409 AACCCAAGTA
* * * *
34187419 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
34187458 CCTTCGGGACTTAGCCTGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
34187498 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
34187538 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
34187578 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
34187618 CCTTCGG
1 CCTTCGG
34187625 ATCTTAGTCC
Statistics
Matches: 154, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 12 0.08
40 141 0.92
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:34189751 original size:19 final size:18
Alignment explanation
Indices: 34189709--34189753 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
34189699 TGTTTTATCG
* * *
34189709 AAAACCTTTTTTTAATTG
1 AAAACCTTTTTTGAAATA
34189727 AAAACCTTTCTTTGAAATA
1 AAAACCTTT-TTTGAAATA
34189746 AAAACCTT
1 AAAACCTT
34189754 GAGTAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (18 bp):
AAAACCTTTTTTGAAATA
Found at i:34191065 original size:28 final size:28
Alignment explanation
Indices: 34191003--34191095 Score: 84
Period size: 28 Copynumber: 3.3 Consensus size: 28
34190993 TGGCCCCTTT
*
34191003 AGGCCCAATT-TCATTCATATGGCCCATC
1 AGGCCCAATTAT-ATTCATATAGCCCATC
* **
34191031 -GACCCCAATTATATTCATATTTCCCATC
1 AG-GCCCAATTATATTCATATAGCCCATC
* *
34191059 AGGCCCAATCACT-TTCATATAGCCCGTC
1 AGGCCCAATTA-TATTCATATAGCCCATC
34191087 AGGCCCAAT
1 AGGCCCAAT
34191096 CACTTTTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
27 1 0.02
28 49 0.92
29 3 0.06
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (28 bp):
AGGCCCAATTATATTCATATAGCCCATC
Found at i:34191296 original size:16 final size:16
Alignment explanation
Indices: 34191275--34191306 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34191265 GCCAAACTTC
*
34191275 CGGCTTTTCGGCATTT
1 CGGCTTTTCAGCATTT
34191291 CGGCTTTTCAGCATTT
1 CGGCTTTTCAGCATTT
34191307 TGGGATTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.25, G:0.22, T:0.44
Consensus pattern (16 bp):
CGGCTTTTCAGCATTT
Found at i:34195938 original size:40 final size:40
Alignment explanation
Indices: 34195892--34196099 Score: 195
Period size: 40 Copynumber: 5.2 Consensus size: 40
34195882 CGGAATACAA
* *
34195892 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * * *
34195932 TCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
*
34195972 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* ** ** *
34196012 CCGGATGTGGTC-ACTAACAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAT-AACAACTTGCACGAAT-GCCTTCGGGTCTTAGC
** * ** * *
34196052 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
34196092 CCGGATAT
1 CCGGATAT
34196100 CATTCAATTG
Statistics
Matches: 137, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
39 3 0.02
40 130 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:34196033 original size:80 final size:80
Alignment explanation
Indices: 34195892--34196098 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
34195882 CGGAATACAA
* * * **
34195892 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCTCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAACAC-AATG
*
34195956 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
34195972 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAACACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAACACAATG
*
34196036 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
34196052 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
34196099 TCATTCAATT
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 100 0.95
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAACACAATGG
CCTTCGGGTATTAAC
Found at i:34211973 original size:124 final size:122
Alignment explanation
Indices: 34211753--34211974 Score: 293
Period size: 124 Copynumber: 1.8 Consensus size: 122
34211743 GAATTATGTG
* * * *
34211753 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATACCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
34211818 TAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
34211875 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
*
34211939 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
34211975 TCCGGGTTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
122 16 0.19
124 65 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:34212058 original size:40 final size:40
Alignment explanation
Indices: 34211932--34212059 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
34211922 AAATTGAATG
* * * * ***
34211932 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
34211972 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
*
34212012 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGGTT
34212052 ATATCCGG
1 ATATCCGG
34212060 TTATATTCCG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
39 4 0.05
40 69 0.95
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
Found at i:34216412 original size:40 final size:40
Alignment explanation
Indices: 34216268--34216435 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
34216258 CGGAATATAA
* **
34216268 CCGGATATAATCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAACCAGCAC-AATTGCCTTCGGGTCTTAGC
*
34216308 CCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
*** * *
34216348 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
34216388 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
34216428 CCGGATAT
1 CCGGATAT
34216436 CATTCAATTT
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 105 0.98
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:34224322 original size:40 final size:40
Alignment explanation
Indices: 34224277--34224444 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
34224267 CGGAATATAA
34224277 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
34224317 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
34224357 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
34224397 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
34224437 CCGGATAT
1 CCGGATAT
34224445 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:34250958 original size:40 final size:39
Alignment explanation
Indices: 34250914--34251039 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
34250904 GGGACTCAAC
*
34250914 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
34250954 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
34250994 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
34251034 CCGGAT
1 CCGGAT
34251040 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:34250998 original size:80 final size:80
Alignment explanation
Indices: 34250853--34251039 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
34250843 GCTACACATT
* * *
34250853 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
34250917 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
34250933 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
34250996 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
34251014 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
34251040 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:34256854 original size:13 final size:13
Alignment explanation
Indices: 34256838--34256871 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
34256828 AAGACACATT
*
34256838 CCCGTGTGGCCTG
1 CCCGTGTAGCCTG
34256851 CCCGTGTAGCCTG
1 CCCGTGTAGCCTG
34256864 CCCGTGTA
1 CCCGTGTA
34256872 CAACACTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.38, G:0.32, T:0.24
Consensus pattern (13 bp):
CCCGTGTAGCCTG
Found at i:34261459 original size:39 final size:39
Alignment explanation
Indices: 34261405--34261557 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
34261395 GAATGTTCGA
*
34261405 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
34261444 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
34261483 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
34261522 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
34261558 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:34261573 original size:40 final size:39
Alignment explanation
Indices: 34261406--34261587 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
34261396 AATGTTCGAG
* *
34261406 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
34261445 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
34261484 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
34261523 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
34261563 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
34261588 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:34269606 original size:40 final size:39
Alignment explanation
Indices: 34269478--34269619 Score: 185
Period size: 39 Copynumber: 3.6 Consensus size: 39
34269468 AATGTTCGAG
*
34269478 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
34269517 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
34269556 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * * *
34269596 CCATAACCGGGCTATGTCCGAAGG
1 TGATATCCGGGCTAAGCCCGAAGG
34269620 TGTTTTGAAC
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
39 59 0.66
40 31 0.34
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:34277610 original size:40 final size:39
Alignment explanation
Indices: 34277482--34277624 Score: 187
Period size: 39 Copynumber: 3.6 Consensus size: 39
34277472 AATGTTCGAG
*
34277482 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
34277521 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
34277560 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
34277600 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
34277625 TGTTTTGAAC
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 52 0.57
40 40 0.43
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:34285206 original size:20 final size:20
Alignment explanation
Indices: 34285181--34285221 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
34285171 CAAAGTAAGC
34285181 TTCATAACTTAGTAAACTCG
1 TTCATAACTTAGTAAACTCG
*
34285201 TTCATAGCTTAGTAAACTCG
1 TTCATAACTTAGTAAACTCG
34285221 T
1 T
34285222 ATTATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TTCATAACTTAGTAAACTCG
Found at i:34285572 original size:40 final size:41
Alignment explanation
Indices: 34285496--34285582 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 41
34285486 AATAGTAGAT
* *
34285496 GCTATCTCAAATCGCACACTAAGTTCCATATATATAGCCGAA
1 GCTATCTCAAATCACACACTAAGTGCCA-ATATATAGCCGAA
* * *
34285538 GCTATGTCGAATCACACACTAAGTGCC-ATATATAGCTGAA
1 GCTATCTCAAATCACACACTAAGTGCCAATATATAGCCGAA
34285578 GCTAT
1 GCTAT
34285583 ATTATATCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 17 0.43
42 23 0.57
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (41 bp):
GCTATCTCAAATCACACACTAAGTGCCAATATATAGCCGAA
Found at i:34285596 original size:40 final size:41
Alignment explanation
Indices: 34285496--34285602 Score: 110
Period size: 40 Copynumber: 2.6 Consensus size: 41
34285486 AATAGTAGAT
* * *
34285496 GCTATCTCAAATCGCACACTAAGTTCCATATATATAGCCGAA
1 GCTATATCGAATCGCACACTAAGTGCCA-ATATATAGCCGAA
* * *
34285538 GCTATGTCGAATCACACACTAAGTGCC-ATATATAGCTGAA
1 GCTATATCGAATCGCACACTAAGTGCCAATATATAGCCGAA
* *
34285578 GCTATAT-TATATCGCACACCAAGTG
1 GCTATATCGA-ATCGCACACTAAGTG
34285603 GCACAAATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.02
40 31 0.56
42 23 0.42
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (41 bp):
GCTATATCGAATCGCACACTAAGTGCCAATATATAGCCGAA
Found at i:34292000 original size:29 final size:28
Alignment explanation
Indices: 34291949--34292042 Score: 125
Period size: 28 Copynumber: 3.3 Consensus size: 28
34291939 ATTGCATGAC
*
34291949 TATGAATGTGATTGGGCCTAATGCGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
34291977 TATGAATTTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
* * *
34292006 TATGAAAGAGATTGGGCCTAGTGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
34292034 TATGCATGT
1 TATGAATGT
34292043 ATGTAGACTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 32 0.57
29 24 0.43
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:34293453 original size:13 final size:12
Alignment explanation
Indices: 34293418--34293453 Score: 63
Period size: 12 Copynumber: 2.9 Consensus size: 12
34293408 AGAGAAAAAT
34293418 AGGCCATTTGCA
1 AGGCCATTTGCA
34293430 AGGCCATTTGCA
1 AGGCCATTTGCA
34293442 AGGCCAATTTGC
1 AGGCC-ATTTGC
34293454 CACCCTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (12 bp):
AGGCCATTTGCA
Found at i:34294351 original size:40 final size:40
Alignment explanation
Indices: 34294301--34294413 Score: 145
Period size: 42 Copynumber: 2.8 Consensus size: 40
34294291 ACTCAATTTC
* * * *
34294301 TCACAGACTAACTGCCGTACATAGCCGAAGCTATCTCAAA
1 TCACACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
*
34294341 TCACACACTAAGTGCCATATATATAGCCGAAGCTATGTCAAA
1 TCACACACTAAGTGCC--ATATATAGCCGAAGCTATCTCAAA
* *
34294383 TCGCACACTAAGTGCCATATATAGCTGAAGC
1 TCACACACTAAGTGCCATATATAGCCGAAGC
34294414 CATATTATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
40 28 0.44
42 36 0.56
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (40 bp):
TCACACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
Found at i:34294372 original size:42 final size:42
Alignment explanation
Indices: 34294321--34294405 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
34294311 ACTGCCGTAC
34294321 ATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCATATAT
1 ATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCATATAT
* *
34294363 ATAGCCGAAGCTATGTCAAATCGCACACTAAGTGCCATATAT
1 ATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCATATAT
34294405 A
1 A
34294406 GCTGAAGCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.24
Consensus pattern (42 bp):
ATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCATATAT
Found at i:34294429 original size:40 final size:40
Alignment explanation
Indices: 34294307--34294439 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 40
34294297 TTTCTCACAG
* * * * * *
34294307 ACTAACTGCCGTACATAGCCGAAGCTATCTCAAATCACAC
1 ACTAAGTGCCATATATAGCCGAAGCCATATCAAATCGCAC
* *
34294347 ACTAAGTGCCATATATATAGCCGAAGCTATGTCAAATCGCAC
1 ACTAAGTGCC--ATATATAGCCGAAGCCATATCAAATCGCAC
* * * *
34294389 ACTAAGTGCCATATATAGCTGAAGCCATATTATATTGCAC
1 ACTAAGTGCCATATATAGCCGAAGCCATATCAAATCGCAC
34294429 ACTAAGTGCCA
1 ACTAAGTGCCA
34294440 CAAATAATCG
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 44 0.55
42 36 0.45
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (40 bp):
ACTAAGTGCCATATATAGCCGAAGCCATATCAAATCGCAC
Found at i:34295017 original size:12 final size:11
Alignment explanation
Indices: 34294991--34295018 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
34294981 TCAAAAACAT
34294991 AAAAATGGGAC
1 AAAAATGGGAC
34295002 AAAAATGGGAC
1 AAAAATGGGAC
34295013 AAAAAT
1 AAAAAT
34295019 CATACTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.07, G:0.21, T:0.11
Consensus pattern (11 bp):
AAAAATGGGAC
Found at i:34296589 original size:37 final size:37
Alignment explanation
Indices: 34296531--34296633 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
34296521 CGAATAGTCC
*
34296531 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* * *
34296568 CCACACATAGTCATCGAGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
34296605 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
34296634 ATATATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:34296832 original size:48 final size:48
Alignment explanation
Indices: 34296774--34296967 Score: 343
Period size: 48 Copynumber: 4.0 Consensus size: 48
34296764 ATATACACAC
*
34296774 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
34296822 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
34296870 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
34296918 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
34296966 AT
1 AT
34296968 ATTTATCTTG
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 139 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:34300156 original size:40 final size:40
Alignment explanation
Indices: 34299973--34300157 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 40
34299963 TATTCAAATG
* * * *
34299973 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCT-AGTGACT
* * * * *
34300014 ATATCCGGACTAAGATCCAAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * *
34300054 ATATCCGGGCCAAAACCCGAAGACATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
34300094 ATATCCGAGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
34300133 CATATCCGGGCTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
34300158 CTTGTGCGAG
Statistics
Matches: 115, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 89 0.77
41 25 0.22
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:34305868 original size:25 final size:25
Alignment explanation
Indices: 34305831--34305878 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
34305821 TAAACTTGAG
*
34305831 AATTCTCTGAAAAGCCTTTGTGGAA
1 AATTCTCTAAAAAGCCTTTGTGGAA
*
34305856 AATTCTCTAAAAAGCTTTTGTGG
1 AATTCTCTAAAAAGCCTTTGTGG
34305879 TATACCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (25 bp):
AATTCTCTAAAAAGCCTTTGTGGAA
Found at i:34305938 original size:50 final size:48
Alignment explanation
Indices: 34305841--34305980 Score: 129
Period size: 50 Copynumber: 2.8 Consensus size: 48
34305831 AATTCTCTGA
* * * * *
34305841 AAAGCCTTTGTGGAAAATTCTCTAAAAAGCTTTTGTGGTATACCATTTGG
1 AAAGCCTTTATGG-CAATTCTCTAGAAAGC-TTTATGGCATACCATTTGG
*
34305891 AAAGCCTTTATAGTG-AATTCTCTAGAAAGTCTTTATGGCATATCATTTGG
1 AAAGCCTTTAT-G-GCAATTCTCTAGAAAG-CTTTATGGCATACCATTTGG
* *
34305941 AAAGTCTTTGTGGCAAGTTCTCTAGAAAAGCCTTTATGGC
1 AAAGCCTTTATGGCAA-TTCTCTAG-AAAG-CTTTATGGC
34305981 GTGTTATCTG
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
48 1 0.01
49 3 0.04
50 56 0.74
51 15 0.20
52 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (48 bp):
AAAGCCTTTATGGCAATTCTCTAGAAAGCTTTATGGCATACCATTTGG
Found at i:34305968 original size:25 final size:23
Alignment explanation
Indices: 34305907--34305980 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 23
34305897 TTTATAGTGA
34305907 ATTCTCTAGAAAGTCTTTATGGC
1 ATTCTCTAGAAAGTCTTTATGGC
* * *
34305930 ATATCATTTGGAAAGTCTTTGTGGC
1 AT-TC-TCTAGAAAGTCTTTATGGC
*
34305955 AAGTTCTCTAGAAAAGCCTTTATGGC
1 -A-TTCTCTAG-AAAGTCTTTATGGC
34305981 GTGTTATCTG
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
23 2 0.05
24 2 0.05
25 19 0.49
26 15 0.38
27 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (23 bp):
ATTCTCTAGAAAGTCTTTATGGC
Found at i:34308202 original size:43 final size:41
Alignment explanation
Indices: 34308130--34308253 Score: 106
Period size: 43 Copynumber: 2.9 Consensus size: 41
34308120 TACCACAAAT
* * * *
34308130 CAATGCCACTGTCCCAAACAGGGTTTTACATGAAATCAATTA
1 CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAA-TA
* * * *
34308172 -ATGATGCTAATGTCCTAGACATGGTCTTACACGTAATCTCAATA
1 CA--ATGCCAATGTCCCAGACATGGTCTTACATG-AA-ATCAATA
* *
34308216 CAATGCCAATGTCCCAGACATGGTCTCACATGTAATCA
1 CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCA
34308254 CAACTCGATA
Statistics
Matches: 63, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
41 4 0.06
42 1 0.02
43 49 0.78
44 4 0.06
45 5 0.08
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (41 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAATA
Found at i:34315123 original size:20 final size:19
Alignment explanation
Indices: 34315098--34315155 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
34315088 TTGTATGTGT
*
34315098 TTGCACTTTGGTGCCTTTGG
1 TTGCACTTTGGTGCCTCT-G
34315118 TTGCACATTT-GTGCCTCTG
1 TTGCAC-TTTGGTGCCTCTG
*
34315137 TTGGCACTTCGGTGCCTCT
1 TT-GCACTTTGGTGCCTCT
34315156 TTTATGCATC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.07, C:0.26, G:0.26, T:0.41
Consensus pattern (19 bp):
TTGCACTTTGGTGCCTCTG
Found at i:34316621 original size:42 final size:44
Alignment explanation
Indices: 34316510--34316668 Score: 116
Period size: 43 Copynumber: 3.7 Consensus size: 44
34316500 ATCTTGTACA
** * * *
34316510 ATGCCAACGCCCCAGAAGTGGTCTTACATGT-AATCA-AATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCACAA-GTCG
* * * *
34316553 ATGCC-ACTGTCCCAAACAG-GGCCTTACACG-GAATCA-AA-TACG
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACACGTAAATCACAAGT-CG
* *
34316595 ATGTCAACATCCCAGGCGTGGTCTTACACGTAAATCACAAGTCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCACAAGTCG
**
34316639 ATGCCAATGTCCCAGACGTGGTCTTACACG
1 ATGCCAACATCCCAGACGTGGTCTTACACG
34316669 ATAACACATA
Statistics
Matches: 92, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
41 2 0.02
42 24 0.26
43 34 0.37
44 31 0.34
45 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (44 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCACAAGTCG
Found at i:34321105 original size:2 final size:2
Alignment explanation
Indices: 34321098--34321139 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
34321088 AGTATAGTTG
* *
34321098 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34321140 TCGGCCATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:34321761 original size:29 final size:29
Alignment explanation
Indices: 34321726--34321799 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
34321716 GTTGTGAGAT
* *
34321726 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
34321755 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
34321784 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34321800 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:34328621 original size:43 final size:42
Alignment explanation
Indices: 34328531--34328641 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 42
34328521 TCACAAATTG
* * * *
34328531 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCGATTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATC-ATTAACA
* *
34328574 ATGCCAATGTCCCAAACATGGTCTTACACGCAATC-TTAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATT-A-ACA
*
34328617 ATGCCAATGTCTCAGACATGGTCTT
1 ATGCCAATGTCCCAGACATGGTCTT
34328642 CTATGTAAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 2 0.03
42 1 0.02
43 55 0.95
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATTAACA
Found at i:34330534 original size:25 final size:25
Alignment explanation
Indices: 34330505--34330555 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
34330495 AGTTCCGACC
34330505 TCACTATGCCATCCTACCTCCCTCT
1 TCACTATGCCATCCTACCTCCCTCT
34330530 TCACTATGCCATCCTACCTCCCTCT
1 TCACTATGCCATCCTACCTCCCTCT
34330555 T
1 T
34330556 ACTCCCATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.47, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACTATGCCATCCTACCTCCCTCT
Found at i:34336454 original size:40 final size:40
Alignment explanation
Indices: 34336369--34336519 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
34336359 AATTGAATGA
* * *
34336369 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
34336409 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
34336450 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
34336489 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
34336520 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:34336533 original size:40 final size:40
Alignment explanation
Indices: 34336406--34336535 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
34336396 ATGCTGGAAA
* * * *
34336406 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
34336446 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
34336486 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
34336526 TTATATCCGG
1 TTATATCCGG
34336536 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:34344502 original size:40 final size:40
Alignment explanation
Indices: 34344376--34344503 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
34344366 AAATTGAATG
* * *
34344376 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAA--ATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCT--AATGGTT
* * *
34344416 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAATGGTT
* *
34344456 ACATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-ATGGTT
34344496 ATATCCGG
1 ATATCCGG
34344504 TTATATTCCG
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.96
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAATGGTT
Found at i:34347567 original size:40 final size:40
Alignment explanation
Indices: 34347441--34347568 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
34347431 AAATTGAATG
* * *
34347441 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAA--ATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCT--AATGGTT
* * *
34347481 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAATGGTT
* *
34347521 ACATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-ATGGTT
34347561 ATATCCGG
1 ATATCCGG
34347569 TTATATTCCG
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.96
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAATGGTT
Found at i:34349306 original size:42 final size:43
Alignment explanation
Indices: 34349244--34349359 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
34349234 AAAATCTGAA
* *
34349244 CTCGTTGAGTGGTCCAAGTTCATTA-GGTATG-TAGAATCCGAG
1 CTCGTTGAGTGGTCCGAGTTCATTATGG-ATGCGAGAATCCGAG
* * * *
34349286 CTTGTTGAGAGGTCCGAGTTCATTATGGATGCGAGCATTCGAG
1 CTCGTTGAGTGGTCCGAGTTCATTATGGATGCGAGAATCCGAG
* *
34349329 CTCATTGAGTGGTCCGAGTTCATGATGGATG
1 CTCGTTGAGTGGTCCGAGTTCATTATGGATG
34349360 TGATTCATGT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 25 0.40
43 37 0.60
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (43 bp):
CTCGTTGAGTGGTCCGAGTTCATTATGGATGCGAGAATCCGAG
Found at i:34350155 original size:17 final size:19
Alignment explanation
Indices: 34350113--34350156 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
34350103 ATGAAATTTT
*
34350113 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
34350132 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
34350150 AA-TATTA
1 AATTATTA
34350157 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:34354067 original size:17 final size:19
Alignment explanation
Indices: 34354025--34354068 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
34354015 ATGAAATTTT
*
34354025 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
34354044 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
34354062 AA-TATTA
1 AATTATTA
34354069 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:34364263 original size:43 final size:43
Alignment explanation
Indices: 34364202--34364286 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
34364192 TGAGGTATGT
*
34364202 AGCATCCAAGCTCATTGAGAGGTCTGAGTTCATTATGGATGCA
1 AGCATCCAAGCTCATTGAGAGGTCTGAGTTCATGATGGATGCA
* *
34364245 AGCATCGAAGCTCATTGAGTGGTCTGAGTTCATGATGGATGC
1 AGCATCCAAGCTCATTGAGAGGTCTGAGTTCATGATGGATGC
34364287 GATTCATGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
AGCATCCAAGCTCATTGAGAGGTCTGAGTTCATGATGGATGCA
Found at i:34366369 original size:19 final size:19
Alignment explanation
Indices: 34366345--34366383 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
34366335 TTATTATATT
34366345 ACTAATACTACTCCTTACC
1 ACTAATACTACTCCTTACC
34366364 ACTAATACTACTCCTTACC
1 ACTAATACTACTCCTTACC
34366383 A
1 A
34366384 TCTTGATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (19 bp):
ACTAATACTACTCCTTACC
Found at i:34368378 original size:39 final size:39
Alignment explanation
Indices: 34368260--34368442 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
34368250 TCGTTCAAAC
* * ** * **
34368260 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
34368300 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
34368340 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
34368379 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
34368418 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
34368443 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:34375773 original size:39 final size:39
Alignment explanation
Indices: 34375655--34375837 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
34375645 TCGTTCAAAC
* * ** * **
34375655 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
34375695 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
34375735 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
34375774 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
34375813 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
34375838 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:34384089 original size:24 final size:24
Alignment explanation
Indices: 34384047--34384092 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
34384037 TTATACCATG
* * *
34384047 AAAATGACCGTTTTGCCCCTAGTA
1 AAAATGACCATTATACCCCTAGTA
34384071 AAAATGACCATTATACCCCTAG
1 AAAATGACCATTATACCCCTAG
34384093 GGTTTATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGTA
Found at i:34384195 original size:20 final size:20
Alignment explanation
Indices: 34384135--34384195 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
34384125 ATAAATATGG
*
34384135 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
34384155 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
34384175 TATGTATGATATACACATGA
1 TATGTATGATATGCACATGA
34384195 T
1 T
34384196 GTAATCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:34384271 original size:24 final size:24
Alignment explanation
Indices: 34384244--34384386 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
34384234 GAGGAAGTGA
34384244 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34384268 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34384292 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
34384315 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
34384339 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
34384363 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34384387 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:34384337 original size:47 final size:47
Alignment explanation
Indices: 34384244--34384386 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
34384234 GAGGAAGTGA
34384244 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
34384292 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
34384339 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
34384387 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:34384360 original size:71 final size:72
Alignment explanation
Indices: 34384244--34384387 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
34384234 GAGGAAGTGA
*
34384244 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
34384307 CCAGTTAT
65 CCAGTTAT
** * *
34384315 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
34384380 CAGTTAT
66 CAGTTAT
34384387 A
1 A
34384388 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:34384614 original size:30 final size:30
Alignment explanation
Indices: 34384578--34384639 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
34384568 CGTTTACAGT
34384578 AAAGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGCTTCGGCCCAGTAATATGAAATATGA
** *
34384608 AAAGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGCTTCGGCCCAGTAATATGAAATATGA
34384638 AA
1 AA
34384640 CATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (30 bp):
AAAGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34392059 original size:25 final size:25
Alignment explanation
Indices: 34392030--34392077 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34392020 TTATAATATG
* * *
34392030 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34392055 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34392078 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34392149 original size:9 final size:9
Alignment explanation
Indices: 34392116--34392191 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
34392106 TTTGATAAAC
34392116 ATGATATGT
1 ATGATATGT
*
34392125 ATG-TATGCAC
1 ATGATATG--T
34392135 ATGATATGT
1 ATGATATGT
*
34392144 ATGATATGCAC
1 ATGATATG--T
*
34392155 ATGACATGT
1 ATGATATGT
*
34392164 ATGATATGCAC
1 ATGATATG--T
34392175 ATGATATGT
1 ATGATATGT
34392184 ATGATATG
1 ATGATATG
34392192 CACACGAGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
8 4 0.08
9 26 0.50
10 3 0.06
11 19 0.37
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:34392203 original size:20 final size:20
Alignment explanation
Indices: 34392114--34392195 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
34392104 ATTTTGATAA
34392114 ACATGATATGTATG-TATGC
1 ACATGATATGTATGATATGC
34392133 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34392153 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
34392173 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34392193 ACA
1 ACA
34392196 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
19 14 0.23
20 46 0.77
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34392321 original size:48 final size:47
Alignment explanation
Indices: 34392249--34392367 Score: 170
Period size: 48 Copynumber: 2.5 Consensus size: 47
34392239 GAGGAAGTGC
34392249 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCCAGTTATG
*
34392296 ATAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTATG
*
34392344 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34392368 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
47 10 0.15
48 47 0.71
49 9 0.14
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTATG
Found at i:34392347 original size:23 final size:24
Alignment explanation
Indices: 34392249--34392367 Score: 172
Period size: 23 Copynumber: 5.0 Consensus size: 24
34392239 GAGGAAGTGC
34392249 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
34392273 -AAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATT
34392296 ATAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATT
34392321 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
34392344 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34392368 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
23 41 0.47
24 15 0.17
25 31 0.36
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:34392594 original size:31 final size:31
Alignment explanation
Indices: 34392559--34392639 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
34392549 CGTTTACAGT
34392559 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
34392590 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34392621 AAAGGGCTAT-GGCCCAGTA
1 AAA-GGCT-TCGGCCCAGTA
34392640 CATGTTGAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 32 0.71
32 12 0.27
33 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34398182 original size:31 final size:31
Alignment explanation
Indices: 34398144--34398207 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
34398134 CCTTTTCATA
34398144 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
34398175 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
34398206 TT
1 TT
34398208 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:34398445 original size:24 final size:24
Alignment explanation
Indices: 34398399--34398517 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
34398389 GCTTTATCAT
*
34398399 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
34398424 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
34398448 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
34398471 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
34398495 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34398518 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.28
24 48 0.56
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:34398478 original size:47 final size:48
Alignment explanation
Indices: 34398399--34398517 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
34398389 GCTTTATCAT
*
34398399 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
34398448 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
34398495 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34398518 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 2 0.03
47 43 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:34398593 original size:20 final size:20
Alignment explanation
Indices: 34398568--34398627 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
34398558 TATGATTACC
34398568 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
34398588 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
34398608 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
34398628 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:34398702 original size:25 final size:25
Alignment explanation
Indices: 34398670--34398717 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34398660 ATACATAAAC
* * *
34398670 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
34398695 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
34398718 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:34407322 original size:29 final size:29
Alignment explanation
Indices: 34407290--34407421 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
34407280 ATAGTGAATC
34407290 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
34407319 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
34407349 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
34407378 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
34407407 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34407422 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:34407431 original size:59 final size:59
Alignment explanation
Indices: 34407290--34407421 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
34407280 ATAGTGAATC
34407290 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
34407349 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
34407407 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34407422 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:34408743 original size:19 final size:18
Alignment explanation
Indices: 34408719--34408754 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34408709 CCCCCTTTTT
*
34408719 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
34408738 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
34408755 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Done.