Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 116 of 284
Found at i:38308218 original size:10 final size:10
Alignment explanation
Indices: 38308203--38308227 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38308193 TTATTATCAT
38308203 TGAATTGCTA
1 TGAATTGCTA
38308213 TGAATTGCTA
1 TGAATTGCTA
38308223 TGAAT
1 TGAAT
38308228 GCCGAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (10 bp):
TGAATTGCTA
Found at i:38308390 original size:43 final size:43
Alignment explanation
Indices: 38308342--38308504 Score: 174
Period size: 43 Copynumber: 3.8 Consensus size: 43
38308332 ATTGAGATGT
38308342 GATTACATGTAAGACCATGTCTGGGACATTGGCATC-ATATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATA-TGA
* * *
38308385 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATCA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT-ATGA
* * *
38308429 -ATTTA-GTGTAAGACCCA-GTCTGGGACAGTGGCATCGATATGT
1 GA-TTACATGTAAGA-CCATGTCTGGGACATTGGCATCGATATGA
* * *
38308471 GATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
38308505 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
42 13 0.13
43 79 0.77
44 9 0.09
45 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATGA
Found at i:38309100 original size:12 final size:12
Alignment explanation
Indices: 38309083--38309116 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
38309073 TGGCCCGCCC
38309083 ATATTAATTTTT
1 ATATTAATTTTT
*
38309095 ATATTATTTTTT
1 ATATTAATTTTT
38309107 ATA-TAATTTT
1 ATATTAATTTT
38309117 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:38309356 original size:22 final size:22
Alignment explanation
Indices: 38309331--38309373 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
38309321 TATCCAAACA
38309331 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
38309353 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
38309374 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:38309377 original size:11 final size:11
Alignment explanation
Indices: 38309338--38309378 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
38309328 ACAATAACAA
38309338 CAAAATAGTAG
1 CAAAATAGTAG
* *
38309349 CAACATAATAG
1 CAAAATAGTAG
*
38309360 TAAAATAGTAG
1 CAAAATAGTAG
38309371 CAAAATAG
1 CAAAATAG
38309379 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:38309779 original size:59 final size:58
Alignment explanation
Indices: 38309689--38309800 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 58
38309679 TTGAATTATG
*
38309689 GGTTTAATATGTGATACATGATTCATCAACTAAGCCAACATAAGCCTT-AAATGGGTT
1 GGTTTAATATGTGATACATAATTCATCAACTAAGCCAACATAAGCCTTCAAATGGGTT
38309746 GGTTTGAATTATGTTGAT-CATAATTCATCAACTAAGCCAACATAAGCCTTCAAAT
1 GGTTT-AA-TATG-TGATACATAATTCATCAACTAAGCCAACATAAGCCTTCAAAT
38309801 TTTCTGATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
57 5 0.10
58 2 0.04
59 35 0.70
60 8 0.16
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (58 bp):
GGTTTAATATGTGATACATAATTCATCAACTAAGCCAACATAAGCCTTCAAATGGGTT
Found at i:38314992 original size:79 final size:78
Alignment explanation
Indices: 38314848--38315069 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 78
38314838 GAATCACATA
* * * * *
38314848 CCTTCGGAATTTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGGACTTAACCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
38314913 AACTCGCACAAATG
65 AACTCGCACAAATG
* *
38314927 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATTA
1 CCTTCGGGACTTAA-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TA
38314990 GTAACTCGCACAAATG
63 GTAACTCGCACAAATG
* * * *
38315006 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGAATAT
1 CCTTCGGGA-CTTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
38315070 CATTCGAATA
Statistics
Matches: 121, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
78 4 0.03
79 61 0.50
80 44 0.36
81 11 0.09
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
CCTTCGGGACTTAACCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
ACTCGCACAAATG
Found at i:38314995 original size:39 final size:40
Alignment explanation
Indices: 38314862--38315069 Score: 253
Period size: 40 Copynumber: 5.2 Consensus size: 40
38314852 CGGAATTTAA
* *
38314862 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38314902 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38314942 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
38314981 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38315021 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
*
38315062 CCGAATAT
1 CCGGATAT
38315070 CATTCGAATA
Statistics
Matches: 145, Mismatches: 16, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 80 0.55
41 27 0.19
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38315606 original size:67 final size:67
Alignment explanation
Indices: 38315498--38315632 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
38315488 ACTTCCTTTT
*
38315498 AGCCGATTGTCTAAGCCAAGAAAAAAGCATCAATATGCTTGCCTCTAACCAAATACATGCAACGC
1 AGCCGATTGCCTAAGCCAAGAAAAAAGCATCAATATGCTTGCCTCTAACCAAATACATGCAACGC
38315563 CA
66 CA
* *
38315565 AGCCGATTGCCTAAGCCAAGATAAAAGCATCAATATGCTTGCCTCTAACCGAATACATGCAACGC
1 AGCCGATTGCCTAAGCCAAGAAAAAAGCATCAATATGCTTGCCTCTAACCAAATACATGCAACGC
38315630 CA
66 CA
38315632 A
1 A
38315633 TCCATCTCAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (67 bp):
AGCCGATTGCCTAAGCCAAGAAAAAAGCATCAATATGCTTGCCTCTAACCAAATACATGCAACGC
CA
Found at i:38322958 original size:79 final size:79
Alignment explanation
Indices: 38322825--38323043 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 79
38322815 GAATCACATA
* * * * * *
38322825 CCTTCGGAATTTAACCGGATATAGCTAA-TCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATA
1 CCTTCGGGACTTAACCGGATTTAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
38322888 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
*
38322904 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAG
1 CCTTCGGGACTTAA-CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
38322968 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* * * * *
38322983 CCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCGCAAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
38323044 TATCATTCGA
Statistics
Matches: 120, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 64 0.53
80 42 0.35
81 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
AACTCGCACAAATG
Found at i:38322972 original size:39 final size:40
Alignment explanation
Indices: 38322839--38323044 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
38322829 CGGAATTTAA
* * *
38322839 CCGGATATAGCTAA-TCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATTTAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
38322879 CCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
38322919 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38322958 CCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
38322998 CCGGATTTAGTCACTTAGCGCAAAAGCCTTCGGGACTTAGC
1 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38323039 CCGGAT
1 CCGGAT
38323045 ATCATTCGAA
Statistics
Matches: 144, Mismatches: 15, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 37 0.26
40 76 0.53
41 26 0.18
42 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38326208 original size:41 final size:41
Alignment explanation
Indices: 38326157--38326245 Score: 115
Period size: 41 Copynumber: 2.2 Consensus size: 41
38326147 CTCGAACTCA
** *
38326157 ACTCAACGAGTTTTGACGTTTGCATCCATAAGTGAACTCGG
1 ACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGG
* * * *
38326198 ACTCAGCGAGTTCGGATGTTCGTATCCATAATTGAACTCGG
1 ACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGG
38326239 ACTCAAC
1 ACTCAAC
38326246 TCAATGAGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (41 bp):
ACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGG
Found at i:38330269 original size:29 final size:28
Alignment explanation
Indices: 38330206--38330285 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 28
38330196 AGCATGACTG
38330206 TAAATGTGATTTGGGCCTAATGGCCATA
1 TAAATGTGATTTGGGCCTAATGGCCATA
*
38330234 TGAATGTGATTTGGGCCTAATAGGCCATA
1 TAAATGTGATTTGGGCCTAAT-GGCCATA
*
38330263 TAAATGTGATTTGGGCCTCATGG
1 TAAATGTGATTTGGGCCTAATGG
38330286 GTCATGTGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
28 22 0.46
29 26 0.54
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (28 bp):
TAAATGTGATTTGGGCCTAATGGCCATA
Found at i:38330302 original size:29 final size:28
Alignment explanation
Indices: 38330211--38330309 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 28
38330201 GACTGTAAAT
*
38330211 GTGATTTGGGCCTAATGGCCATATGAAT
1 GTGATTTGGGCCTAATGGCCATATGAAA
38330239 GTGATTTGGGCCTAATAGGCCATAT-AAA
1 GTGATTTGGGCCTAAT-GGCCATATGAAA
* * *
38330267 TGTGATTTGGGCCTCATGGGTCATGTGAAA
1 -GTGATTTGGGCCTAAT-GGCCATATGAAA
*
38330297 GAGA-TTGGGCCTA
1 GTGATTTGGGCCTA
38330310 GTGGGCTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
28 26 0.43
29 32 0.52
30 3 0.05
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
GTGATTTGGGCCTAATGGCCATATGAAA
Found at i:38336521 original size:19 final size:20
Alignment explanation
Indices: 38336468--38336521 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 20
38336458 TATTTTTTGC
38336468 AAAATCAAAG-TTTTCTTTTTA
1 AAAATCAAAGCTTTTC--TTTA
*
38336489 AAAATCACTA-CTTTTC-TTA
1 AAAATCA-AAGCTTTTCTTTA
38336508 AAAATCAAAGCTTT
1 AAAATCAAAGCTTT
38336522 ATTTCGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 1 0.04
19 14 0.50
21 7 0.25
22 6 0.21
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.41
Consensus pattern (20 bp):
AAAATCAAAGCTTTTCTTTA
Found at i:38337491 original size:42 final size:42
Alignment explanation
Indices: 38337441--38337742 Score: 360
Period size: 42 Copynumber: 7.2 Consensus size: 42
38337431 CATATACAAA
* *
38337441 GCAATGAAAAGTAAATAGATCTCCACACCAGGGCCTCTAAAT
1 GCAATGAAAAGTAAATGGACCTCCACACCAGGGCCTCTAAAT
* *
38337483 GCAATGAAAGGTAAATGGGCCTCCACACCTA-GGCCTCTAAAT
1 GCAATGAAAAGTAAATGGACCTCCACACC-AGGGCCTCTAAAT
* * * ** *
38337525 GCAATGAAACGTAAACGGACCTCCACGCTTGGGCTTCTAAAT
1 GCAATGAAAAGTAAATGGACCTCCACACCAGGGCCTCTAAAT
* * *
38337567 GCAATGAAAGGTAAATGGGCCTCCACACCTA-GACCTCTAAAT
1 GCAATGAAAAGTAAATGGACCTCCACACC-AGGGCCTCTAAAT
* **
38337609 GCAATGAAACGTAAATGGACCTCCACACCTAGGTTC-CTAAAT
1 GCAATGAAAAGTAAATGGACCTCCACACC-AGGGCCTCTAAAT
**
38337651 GCAAT-AAAAGGTAAATGGACCTCCACACCTTGGCCTCTAAAT
1 GCAATGAAAA-GTAAATGGACCTCCACACCAGGGCCTCTAAAT
* *
38337693 GCAATAAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAAT
1 GCAATGAAAAGTAAATGGACCTCCACACCAGGGCCTCTAAAT
38337735 GCAATGAA
1 GCAATGAA
38337743 TGCTTTCCTT
Statistics
Matches: 223, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
41 5 0.02
42 211 0.95
43 7 0.03
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (42 bp):
GCAATGAAAAGTAAATGGACCTCCACACCAGGGCCTCTAAAT
Found at i:38337539 original size:84 final size:84
Alignment explanation
Indices: 38337441--38337742 Score: 435
Period size: 84 Copynumber: 3.6 Consensus size: 84
38337431 CATATACAAA
* *
38337441 GCAATGAAAAGTAAATAGATCTCCACACCAGGGCCTCTAAATGCAATGAAAGGTAAATGGGCCTC
1 GCAATGAAAAGTAAATGGACCTCCACACCAGGGCCTCTAAATGCAATGAAAGGTAAATGGGCCTC
38337506 CACACCTAGGCCTCTAAAT
66 CACACCTAGGCCTCTAAAT
* * * ** *
38337525 GCAATGAAACGTAAACGGACCTCCACGCTTGGGCTTCTAAATGCAATGAAAGGTAAATGGGCCTC
1 GCAATGAAAAGTAAATGGACCTCCACACCAGGGCCTCTAAATGCAATGAAAGGTAAATGGGCCTC
*
38337590 CACACCTAGACCTCTAAAT
66 CACACCTAGGCCTCTAAAT
* ** * *
38337609 GCAATGAAACGTAAATGGACCTCCACACCTAGGTTC-CTAAATGCAATAAAAGGTAAATGGACCT
1 GCAATGAAAAGTAAATGGACCTCCACACC-AGGGCCTCTAAATGCAATGAAAGGTAAATGGGCCT
*
38337673 CCACACCTTGGCCTCTAAAT
65 CCACACCTAGGCCTCTAAAT
* *
38337693 GCAATAAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATGAA
1 GCAATGAAAAGTAAATGGACCTCCACACCAGGGCCTCTAAATGCAATGAA
38337743 TGCTTTCCTT
Statistics
Matches: 190, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
83 3 0.02
84 185 0.97
85 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (84 bp):
GCAATGAAAAGTAAATGGACCTCCACACCAGGGCCTCTAAATGCAATGAAAGGTAAATGGGCCTC
CACACCTAGGCCTCTAAAT
Found at i:38337623 original size:126 final size:126
Alignment explanation
Indices: 38337441--38337742 Score: 421
Period size: 126 Copynumber: 2.4 Consensus size: 126
38337431 CATATACAAA
* * * *
38337441 GCAATGAAAAGTAAATAGATCTCCACACC-AGGGCCTCTAAATGCAATGAAAGGTAAATGGGCCT
1 GCAATGAAAAGTAAATGGACCTCCACACCTA-GGCCTCTAAATGCAATGAAACGTAAATGGACCT
* * *
38337505 CCACACCTAGGC-CTCTAAATGCAATGAAACGTAAACGGACCTCCAC-GCTTGGGCTTCTAAAT
65 CCACACCTAGGCTC-CTAAATGCAATAAAACGTAAACGGACCTCCACACCTT-GGCCTCTAAAT
* * *
38337567 GCAATGAAAGGTAAATGGGCCTCCACACCTAGACCTCTAAATGCAATGAAACGTAAATGGACCTC
1 GCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAACGTAAATGGACCTC
* * *
38337632 CACACCTAGGTTCCTAAATGCAATAAAAGGTAAATGGACCTCCACACCTTGGCCTCTAAAT
66 CACACCTAGGCTCCTAAATGCAATAAAACGTAAACGGACCTCCACACCTTGGCCTCTAAAT
* *
38337693 GCAATAAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATGAA
1 GCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAA
38337743 TGCTTTCCTT
Statistics
Matches: 155, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
126 150 0.97
127 5 0.03
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (126 bp):
GCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAACGTAAATGGACCTC
CACACCTAGGCTCCTAAATGCAATAAAACGTAAACGGACCTCCACACCTTGGCCTCTAAAT
Found at i:38338166 original size:16 final size:16
Alignment explanation
Indices: 38338145--38338206 Score: 74
Period size: 15 Copynumber: 3.9 Consensus size: 16
38338135 CTCTCCCTAT
38338145 TTTTTCTTTTTTTTTC
1 TTTTTCTTTTTTTTTC
*
38338161 TTTTTC-TTTTGTTTC
1 TTTTTCTTTTTTTTTC
*
38338176 TTTTATCTTTTGTTTT-
1 TTTT-TCTTTTTTTTTC
*
38338192 TTTTCCTTTTTTTTT
1 TTTTTCTTTTTTTTT
38338207 TGTTTAGGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
15 21 0.54
16 12 0.31
17 6 0.15
ACGTcount: A:0.02, C:0.11, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTC
Found at i:38338191 original size:21 final size:21
Alignment explanation
Indices: 38338155--38338211 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
38338145 TTTTTCTTTT
*
38338155 TTTTTCTTTTTCTTTTGTTT-C
1 TTTTTC-TTTTGTTTTGTTTCC
*
38338176 TTTTATCTTTTGTTTTTTTTCC
1 TTTT-TCTTTTGTTTTGTTTCC
*
38338198 TTTTTTTTTTGTTT
1 TTTTTCTTTTGTTT
38338212 AGGCAAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 24 0.77
22 7 0.23
ACGTcount: A:0.02, C:0.11, G:0.05, T:0.82
Consensus pattern (21 bp):
TTTTTCTTTTGTTTTGTTTCC
Found at i:38338207 original size:16 final size:15
Alignment explanation
Indices: 38338144--38338207 Score: 74
Period size: 16 Copynumber: 4.1 Consensus size: 15
38338134 TCTCTCCCTA
38338144 TTTTTTCTTTTTTTT
1 TTTTTTCTTTTTTTT
*
38338159 TCTTTTTCTTTTGTTTC
1 T-TTTTTCTTTT-TTTT
* *
38338176 TTTTATCTTTTGTTT
1 TTTTTTCTTTTTTTT
*
38338191 TTTTTCCTTTTTTTT
1 TTTTTTCTTTTTTTT
38338206 TT
1 TT
38338208 GTTTAGGCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
15 17 0.43
16 19 0.47
17 4 0.10
ACGTcount: A:0.02, C:0.11, G:0.03, T:0.84
Consensus pattern (15 bp):
TTTTTTCTTTTTTTT
Found at i:38340629 original size:30 final size:30
Alignment explanation
Indices: 38340583--38340642 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
38340573 TTCCCGAGCC
38340583 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
38340613 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
38340643 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:38346214 original size:67 final size:67
Alignment explanation
Indices: 38346106--38346234 Score: 249
Period size: 67 Copynumber: 1.9 Consensus size: 67
38346096 ACAGGGTTTG
38346106 TGTAATATCCCGAATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGGGA
1 TGTAATATCCCGAATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGGGA
38346171 GT
66 GT
*
38346173 TGTAATATCCCGAATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATTCGAGATAG
1 TGTAATATCCCGAATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAG
38346235 AAATAATTAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (67 bp):
TGTAATATCCCGAATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGGGA
GT
Found at i:38347498 original size:47 final size:47
Alignment explanation
Indices: 38347429--38347652 Score: 448
Period size: 47 Copynumber: 4.8 Consensus size: 47
38347419 CTAGGATGGT
38347429 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
38347476 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
38347523 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
38347570 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
38347617 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
38347653 CTTATGGGCG
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 177 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (47 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
Found at i:38370287 original size:21 final size:22
Alignment explanation
Indices: 38370248--38370288 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
38370238 AGGACTCAGG
**
38370248 TTTTAAAAAGCTTTGGCACATA
1 TTTTAAAAAGCTTCCGCACATA
38370270 TTTT-AAAAGCTTCCGCACA
1 TTTTAAAAAGCTTCCGCACA
38370289 AATAATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (22 bp):
TTTTAAAAAGCTTCCGCACATA
Found at i:38372086 original size:43 final size:43
Alignment explanation
Indices: 38372032--38372118 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
38372022 GGTGGAATAC
*
38372032 TCTGATTTCTGTTGTACAAAGGGAGAATGTTACATGGGAATTT
1 TCTGATTTCTGTTGTACAAAGGGAAAATGTTACATGGGAATTT
* *
38372075 TCTGATTTCTGTTGTACCAAGGGAAAATGTTACATGGGAGTTT
1 TCTGATTTCTGTTGTACAAAGGGAAAATGTTACATGGGAATTT
38372118 T
1 T
38372119 TCTAAACGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.10, G:0.25, T:0.38
Consensus pattern (43 bp):
TCTGATTTCTGTTGTACAAAGGGAAAATGTTACATGGGAATTT
Found at i:38373409 original size:53 final size:52
Alignment explanation
Indices: 38373306--38373433 Score: 150
Period size: 53 Copynumber: 2.4 Consensus size: 52
38373296 ATACTAAGGA
* * *
38373306 TACATGGGTATCTTTCCTTTTTAAACTTACCATTGCCATGTCTTGACATGGTCT
1 TACAT-GGTATCTTTCC-TTATAAACTCACCATTGCCATGCCTTGACATGGTCT
* *
38373360 TACATGGTATCCTTTCCTTATGAACTCACCATTGTCATGCCTT-AGCATGGTCT
1 TACATGGTAT-CTTTCCTTATAAACTCACCATTGCCATGCCTTGA-CATGGTCT
*
38373413 TACATGGGATCTTTGCCTTAT
1 TACATGGTATCTTT-CCTTAT
38373434 CCTAGTTTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
52 5 0.08
53 49 0.75
54 11 0.17
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (52 bp):
TACATGGTATCTTTCCTTATAAACTCACCATTGCCATGCCTTGACATGGTCT
Found at i:38379743 original size:53 final size:53
Alignment explanation
Indices: 38379674--38379778 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
38379664 TTCCTTTTCA
* * * * * *
38379674 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATCGCCATGCCTTGACATGGTATTACATGGGATCCTTGCCTTATG
** *
38379727 AACTCACCATCGCCATGCCTTGGTATGGTATTACATGGGATCTTTGCCTTAT
1 AACTCACCATCGCCATGCCTTGACATGGTATTACATGGGATCCTTGCCTTAT
38379779 TGTAGTTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (53 bp):
AACTCACCATCGCCATGCCTTGACATGGTATTACATGGGATCCTTGCCTTATG
Found at i:38382948 original size:25 final size:25
Alignment explanation
Indices: 38382898--38382948 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
38382888 GTACAGAACA
* **
38382898 TTTTGAACGAAGCTCATAATGGTAC
1 TTTTGAACAAAGCTCATAATAATAC
*
38382923 TTTTGAACAAAGCTCGTAATAATAC
1 TTTTGAACAAAGCTCATAATAATAC
38382948 T
1 T
38382949 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (25 bp):
TTTTGAACAAAGCTCATAATAATAC
Found at i:38386592 original size:10 final size:10
Alignment explanation
Indices: 38386579--38386606 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
38386569 TTAGATCAAG
38386579 AAAATGGACT
1 AAAATGGACT
38386589 AAAATGGACT
1 AAAATGGACT
38386599 AAAATGGA
1 AAAATGGA
38386607 GTAATTAGCC
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:0.54, C:0.07, G:0.21, T:0.18
Consensus pattern (10 bp):
AAAATGGACT
Found at i:38394026 original size:19 final size:19
Alignment explanation
Indices: 38394002--38394042 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
38393992 TTAAATTGTT
*
38394002 TTATAATATGAAATGAATA
1 TTATAATATGAAAGGAATA
*
38394021 TTATAATATTAAAGGAATA
1 TTATAATATGAAAGGAATA
38394040 TTA
1 TTA
38394043 ATATTATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (19 bp):
TTATAATATGAAAGGAATA
Found at i:38396084 original size:39 final size:39
Alignment explanation
Indices: 38396028--38396162 Score: 216
Period size: 39 Copynumber: 3.5 Consensus size: 39
38396018 TTATATGATT
*
38396028 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCTGGGCTAAGCCCCGAAGGCATTCGTGC
38396067 TGGTGTTATATCTGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCTGGGCTAAGCCCCGAAGGCATTCGTGC
* * *
38396106 TGGTGTTCTATCTAGGCTAAGCCCCGAAGGCATTTGTGC
1 TGGTGTTATATCTGGGCTAAGCCCCGAAGGCATTCGTGC
* *
38396145 TGGTATTATATTTGGGCT
1 TGGTGTTATATCTGGGCT
38396163 TAAAGTCCCG
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCTGGGCTAAGCCCCGAAGGCATTCGTGC
Found at i:38397839 original size:49 final size:49
Alignment explanation
Indices: 38397780--38397904 Score: 173
Period size: 48 Copynumber: 2.6 Consensus size: 49
38397770 TGTTGTGTGT
*
38397780 CAGTGTAAGACCTGTCCTGGACATGGCATCGACATCGATAGATGAAAGC
1 CAGTGTAAGACCTGTCCTGGACATGGCATCGACATAGATAGATGAAAGC
* * * *
38397829 CAGTGTAAGACCTG-CCTGGACATGGCATCGGCCTAGATATATGAAAGT
1 CAGTGTAAGACCTGTCCTGGACATGGCATCGACATAGATAGATGAAAGC
38397877 CAGTGTAAGACCATGT-CTGGGACATGGC
1 CAGTGTAAGACC-TGTCCT-GGACATGGC
38397905 CTTGACTTTG
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
48 41 0.60
49 18 0.26
50 9 0.13
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCCTGGACATGGCATCGACATAGATAGATGAAAGC
Found at i:38398796 original size:18 final size:18
Alignment explanation
Indices: 38398773--38398821 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
38398763 ATGGGTAAAT
38398773 TTATGGAATAAACTGTAC
1 TTATGGAATAAACTGTAC
*
38398791 TTATGGAATAAACTGTAT
1 TTATGGAATAAACTGTAC
38398809 TTATGGAATAAAC
1 TTATGGAATAAAC
38398822 AACTTGAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (18 bp):
TTATGGAATAAACTGTAC
Found at i:38401996 original size:40 final size:40
Alignment explanation
Indices: 38401915--38402176 Score: 341
Period size: 40 Copynumber: 6.6 Consensus size: 40
38401905 CAACCAAGTA
** * *
38401915 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
38401954 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
38401994 CCTTTGGGACTTAGCCTGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
38402034 CCTTTGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
38402074 CCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * * * *
38402114 CCTTCGAGACTTAGCCTGG-AATTAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
*
38402154 CCTTCGGGACTTGGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
38402177 CATCCGAATA
Statistics
Matches: 197, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 14 0.07
40 182 0.92
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:38406723 original size:24 final size:25
Alignment explanation
Indices: 38406694--38406741 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
38406684 CTTTATTATT
*
38406694 ATCATTATGAAGA-TTATGTGATTA
1 ATCATTATGAAGAGTTATATGATTA
*
38406718 ATCATTATGAGGAGTTATATGATT
1 ATCATTATGAAGAGTTATATGATT
38406742 GGTCCTCTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.42
Consensus pattern (25 bp):
ATCATTATGAAGAGTTATATGATTA
Found at i:38413622 original size:27 final size:27
Alignment explanation
Indices: 38413591--38413750 Score: 155
Period size: 27 Copynumber: 5.9 Consensus size: 27
38413581 TCAGCGCTAT
38413591 ATAATCAACTCGCACACTTAGTGCCAC
1 ATAATCAACTCGCACACTTAGTGCCAC
* * *
38413618 GTAATCAAATCGCACACTTAGTGCTAC
1 ATAATCAACTCGCACACTTAGTGCCAC
* *
38413645 ATAGTCAGACTCGCACACTTAGTGCCGC
1 ATAATCA-ACTCGCACACTTAGTGCCAC
** *
38413673 ATGGTCAATTCGCACACTTAGTG-CATC
1 ATAATCAACTCGCACACTTAGTGCCA-C
* ** *
38413700 ATATTCATTTCGCACACTTAGTGCAAC
1 ATAATCAACTCGCACACTTAGTGCCAC
38413727 A-AAGTCGAA-TCGCACACTTAGTGC
1 ATAA-TC-AACTCGCACACTTAGTGC
38413751 TGTACAATTT
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 84 0.76
28 25 0.23
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
ATAATCAACTCGCACACTTAGTGCCAC
Found at i:38413715 original size:82 final size:81
Alignment explanation
Indices: 38413595--38413750 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
38413585 CGCTATATAA
* * * *
38413595 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTC-GAATCGCA
38413660 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38413677 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACAAAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACAAAGTCGAATCGCA
38413741 CACTTAGTGC
65 CACTTAGTGC
38413751 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 19 0.29
82 46 0.71
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38421089 original size:27 final size:27
Alignment explanation
Indices: 38421059--38421236 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38421049 ATATTGAGCC
* * * *
38421059 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38421086 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38421113 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38421141 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38421168 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38421195 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38421222 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38421237 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38421198 original size:82 final size:81
Alignment explanation
Indices: 38421080--38421235 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38421070 TGCTATATAA
* *
38421080 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38421145 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38421162 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38421226 CACTTAGTGC
65 CACTTAGTGC
38421236 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38425055 original size:26 final size:26
Alignment explanation
Indices: 38425025--38425080 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
38425015 TACAAAATTG
38425025 GTTACAAATGGAGACAAAGATCTCGA
1 GTTACAAATGGAGACAAAGATCTCGA
38425051 GTTACAAATGGAGACAAAGATCTCGA
1 GTTACAAATGGAGACAAAGATCTCGA
38425077 GTTA
1 GTTA
38425081 GAGCGTCGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (26 bp):
GTTACAAATGGAGACAAAGATCTCGA
Found at i:38427308 original size:30 final size:30
Alignment explanation
Indices: 38427274--38427342 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
38427264 ATGTACCAGG
** *
38427274 CCATGTGTCACACACGGTCTAGACACATGC
1 CCATGTGTCACACACAATCTAGACACAAGC
*
38427304 CCATGTGCCACACACAATCTAGACACAAGC
1 CCATGTGTCACACACAATCTAGACACAAGC
*
38427334 CCGTGTGTC
1 CCATGTGTC
38427343 TGCCCGTGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.19
Consensus pattern (30 bp):
CCATGTGTCACACACAATCTAGACACAAGC
Found at i:38436856 original size:28 final size:27
Alignment explanation
Indices: 38436813--38436880 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
38436803 CGTGATTGTA
38436813 AATGTGATTTTGGCCTAGTAGCCATAAG
1 AATGTGA-TTTGGCCTAGTAGCCATAAG
* * * *
38436841 AATGTGCTTTGCGCCTAGTGGCTATATG
1 AATGTGATTTG-GCCTAGTAGCCATAAG
38436869 AATGTGATTTGG
1 AATGTGATTTGG
38436881 GCTTAATAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 5 0.15
28 29 0.85
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (27 bp):
AATGTGATTTGGCCTAGTAGCCATAAG
Found at i:38444090 original size:39 final size:39
Alignment explanation
Indices: 38444036--38444151 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
38444026 TTCAGTGATG
*
38444036 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
38444075 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
38444114 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
38444152 ATATGTCCAG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:38444175 original size:39 final size:39
Alignment explanation
Indices: 38444052--38444188 Score: 123
Period size: 39 Copynumber: 3.5 Consensus size: 39
38444042 CGGACTTAGG
* * * * * **
38444052 GTCCGCAGGTTATGTGCTGGAATTATATCCGGACTTAGG
1 GTCCGCAGGCTACGTGCTGGAAATATATCCAGACCTAAA
* * * * *
38444091 GTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAG
1 GTCCGCAGGCTACGTGCTGGAAATATATCCAGACCTAAA
*
38444130 GTCCGCAGGCTACGTGCTGGAAATATGTCCAG-CCTAAA
1 GTCCGCAGGCTACGTGCTGGAAATATATCCAGACCTAAA
* *
38444168 GTCCCGCAGGCTTCGAGCTGG
1 GT-CCGCAGGCTACGTGCTGG
38444189 TATTATACCG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 6 0.07
39 81 0.93
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (39 bp):
GTCCGCAGGCTACGTGCTGGAAATATATCCAGACCTAAA
Found at i:38444175 original size:78 final size:78
Alignment explanation
Indices: 38444036--38444179 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 78
38444026 TTCAGTGATG
* * * * * * **
38444036 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCAGACCTAAAGTCCGCAGGC
38444101 TATGTGCTGGAAT
66 TATGTGCTGGAAT
*
38444114 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCAG-CCTAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCAGACCTAAAGT-CCGCAGG
38444178 CT
65 CT
38444180 TCGAGCTGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 5 0.09
78 51 0.91
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCAGACCTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:38444188 original size:78 final size:78
Alignment explanation
Indices: 38444036--38444199 Score: 190
Period size: 78 Copynumber: 2.1 Consensus size: 78
38444026 TTCAGTGATG
* * * * * * **
38444036 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCAGACCTAAAGTCCGCAGGC
*
38444101 TATGTGCTGGAAT
66 TATGAGCTGGAAT
*
38444114 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCAG-CCTAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCAGACCTAAAGT-CCGCAGG
*
38444178 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
38444192 TATA-CCGG
1 TATATCCGG
38444200 TTTTAAATTC
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 10 0.14
78 63 0.86
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCAGACCTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:38446408 original size:28 final size:28
Alignment explanation
Indices: 38446376--38446521 Score: 115
Period size: 28 Copynumber: 5.2 Consensus size: 28
38446366 CATGACTGTA
*
38446376 AATGTGATTTGGGCCTAGTGGCCATATG
1 AATGTGATTTGGGCCTAATGGCCATATG
38446404 AATGT-ACTTTGGGCCTAATGGCCATATG
1 AATGTGA-TTTGGGCCTAATGGCCATATG
* * **
38446432 AATGTGAATTGGGCTTAATGGGCC-TAAAA
1 AATGTGATTTGGGCCTAAT-GGCCAT-ATG
*
38446461 AATGTGA-ATGGGCCTAATGGGCCATATGG
1 AATGTGATTTGGGCCTAAT-GGCCATAT-G
*
38446490 AA-GAGA-TTGGGCC-AAGTGGGCCATATG
1 AATGTGATTTGGGCCTAA-T-GGCCATATG
*
38446517 CATGT
1 AATGT
38446522 ATGTAGGGGT
Statistics
Matches: 97, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
27 5 0.05
28 76 0.78
29 16 0.16
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.27
Consensus pattern (28 bp):
AATGTGATTTGGGCCTAATGGCCATATG
Found at i:38450534 original size:30 final size:30
Alignment explanation
Indices: 38450486--38450546 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38450476 TCCTTAACTC
*
38450486 AAACTTTTGAAAAATTACAATTTTGCTCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
38450516 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
38450546 A
1 A
38450547 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:38455431 original size:29 final size:30
Alignment explanation
Indices: 38455373--38455431 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
38455363 AGTAGCCGAG
* * *
38455373 GCTAGTTTAAATCTCACACTTAGTGGCAAA
1 GCTAGTCTAAATCGCACACTTAGTGCCAAA
38455403 GCTAGTCTAAATCGCA-ACTTAGTGCCAAA
1 GCTAGTCTAAATCGCACACTTAGTGCCAAA
38455432 ACTTCCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (30 bp):
GCTAGTCTAAATCGCACACTTAGTGCCAAA
Found at i:38459550 original size:30 final size:30
Alignment explanation
Indices: 38459514--38459573 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38459504 TTCTCGAGCC
*
38459514 TAGGGGCAAAAGTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAATGTAATTTTGCAAAAGTT
* *
38459544 TAGGGGCAAAAATGTAATTTTTCCAAAGTT
1 TAGGGGCAAAAATGTAATTTTGCAAAAGTT
38459574 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTTTGCAAAAGTT
Found at i:38472003 original size:38 final size:39
Alignment explanation
Indices: 38471894--38472032 Score: 172
Period size: 39 Copynumber: 3.6 Consensus size: 39
38471884 ACAGTGATTT
* * * *
38471894 GAAGCCCGAAGTCTAGCTGAAGCAGATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACAAAAGTGCTAAACG
* * *
38471933 GAAGCCCAAAGGCTAACTAAAGCACAAAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACAAAAGTGCTAAACG
* * *
38471972 GAAGCTCGAA-GCTAGCTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACAAAAGTGCTAAACG
*
38472010 GAAGCTCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
38472033 TCATCGGAGC
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 34 0.40
39 51 0.60
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACAAAAGTGCTAAACG
Found at i:38472033 original size:18 final size:18
Alignment explanation
Indices: 38471972--38472034 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
38471962 GTGCTAAATG
*
38471972 GAAGCTCGAA-GCTAGCT
1 GAAGCTCGAAGGCTAACT
* * *
38471989 GAAGCACACAAGTGCTAAACG
1 GAAGCTC-GAAG-GCT-AACT
38472010 GAAGCTCGAAGGCTAACT
1 GAAGCTCGAAGGCTAACT
38472028 GAAGCTC
1 GAAGCTC
38472035 ATCGGAGCTG
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
17 6 0.17
18 12 0.34
19 3 0.09
20 6 0.17
21 8 0.23
ACGTcount: A:0.35, C:0.24, G:0.27, T:0.14
Consensus pattern (18 bp):
GAAGCTCGAAGGCTAACT
Found at i:38482053 original size:28 final size:27
Alignment explanation
Indices: 38482013--38482096 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
38482003 GGAAGCATTT
38482013 TGGTGGCTCTGCCACAAATATCTGTTTC
1 TGGTGGCTCTGCCAC-AATATCTGTTTC
*
38482041 TGGTGGCTCTGCCACAATATCTGTATC
1 TGGTGGCTCTGCCACAATATCTGTTTC
* * *
38482068 TGGTGACTTTGTCACAATATCTG-TTC
1 TGGTGGCTCTGCCACAATATCTGTTTC
38482094 TGG
1 TGG
38482097 CAGCGATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.10
27 31 0.61
28 15 0.29
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATATCTGTTTC
Found at i:38485935 original size:43 final size:43
Alignment explanation
Indices: 38485797--38485951 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 43
38485787 CATAGGATTT
* *
38485797 TCGATATTTGATTTCGTGTAAGACCATGTACGGGACATTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTATGGGACAGTGGCA
* * * * * *
38485840 TTGAT-TTGAGATTTACGTGTAACACCATGTCTGGGA-TGTCGACA
1 TCGATATT-TGATTT-CGTGTAAGACCATGTATGGGACAGT-GGCA
* * *
38485884 TCG-TATTTGATTTCGTGTAAGACCCTGTGTGTGACAGTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTATGGGACAGTGGCA
* *
38485926 TCGATATTTGATTACATGTAAGACCA
1 TCGATATTTGATTTCGTGTAAGACCA
38485952 CCTCTAGGAC
Statistics
Matches: 87, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
42 25 0.29
43 37 0.43
44 25 0.29
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
TCGATATTTGATTTCGTGTAAGACCATGTATGGGACAGTGGCA
Found at i:38486204 original size:20 final size:20
Alignment explanation
Indices: 38486181--38486226 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
38486171 GAATTGAGAG
38486181 TATGTGAAATGTATATGAAC
1 TATGTGAAATGTATATGAAC
38486201 TATGTGAAATGTATATGAAC
1 TATGTGAAATGTATATGAAC
38486221 TATGTG
1 TATGTG
38486227 GTTTGTGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (20 bp):
TATGTGAAATGTATATGAAC
Found at i:38490914 original size:16 final size:16
Alignment explanation
Indices: 38490871--38490906 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
38490861 CTTATATCAC
38490871 ATATCACCACTTGCAA
1 ATATCACCACTTGCAA
38490887 ATATCACCACTTGCAA
1 ATATCACCACTTGCAA
38490903 ATAT
1 ATAT
38490907 ACTTACTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.28, G:0.06, T:0.28
Consensus pattern (16 bp):
ATATCACCACTTGCAA
Found at i:38494504 original size:40 final size:40
Alignment explanation
Indices: 38494410--38494634 Score: 224
Period size: 40 Copynumber: 5.6 Consensus size: 40
38494400 TATTCGAATG
*
38494410 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * * *
38494451 ATAACCAGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * * *
38494491 ATATCCGGGCTAAGAACCGAAGGTATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * * *
38494531 ATATCCGGGCTAAAACCCGTAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
38494571 ATATCCGGGCTAAG-TCTCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGTGACT
*
38494611 ACATCCGGGCTAAGA-CTCGAAGGC
1 ATATCCGGGCTAAGATC-CGAAGGC
38494635 CTTGTGCAAG
Statistics
Matches: 152, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.01
40 121 0.80
41 28 0.18
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:38494592 original size:80 final size:79
Alignment explanation
Indices: 38494410--38494670 Score: 224
Period size: 80 Copynumber: 3.3 Consensus size: 79
38494400 TATTCGAATG
* * * * *
38494410 ATATCCGGGCTAAGTCCCGAAGGCT-TTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGG
1 ATATCCGGGCTAAGT-CCGAAGG-TATTTGTGCTA-GTGACTATATCCGGGCTAAAACCCGAAGG
*
38494474 CATTCGTGCGAGTTGCT
63 CATTCGTGCGAGTCGCT
* * * *
38494491 ATATCCGGGCTAAGAACCGAAGGTATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGTAGGCA
1 ATATCCGGGCTAAG-TCCGAAGGTATTTGTGCTAGTGACTATATCCGGGCTAAAACCCGAAGGCA
* *
38494556 TTTGTGCTAG-CGACT
65 TTCGTGCGAGTCG-CT
* * * * * * *
38494571 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACTCGAAGGCC
1 ATATCCGGGCTAAGTC-CGAAGGTATTTGTGCTAGTGACTATATCCGGGCTAAAACCCGAAGGCA
* * *
38494636 TT-GTGCAAGTAGTT
65 TTCGTGCGAGTCGCT
*
38494650 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGT-CCGAAG
38494671 ATTTCTTGAG
Statistics
Matches: 147, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
78 12 0.08
79 16 0.11
80 89 0.61
81 30 0.20
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCGAAGGTATTTGTGCTAGTGACTATATCCGGGCTAAAACCCGAAGGCAT
TCGTGCGAGTCGCT
Found at i:38494624 original size:120 final size:121
Alignment explanation
Indices: 38494410--38494633 Score: 276
Period size: 120 Copynumber: 1.9 Consensus size: 121
38494400 TATTCGAATG
** * *
38494410 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
* * *
38494475 ATTCGTGCGAGTTGCTATATCCGGGCTAAGAAC-CGAAGGTATTTGTGCTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAG-ACTCGAAGGTATTTGTGCTAGCGATT
* * * *
38494531 ATATCCGGGCTAAAACCCGTAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCTCGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATC-CGAAGG
* *
38494594 CATTTATGCTAG-TGACCACATCCGGGCTAAGACTCGAAGG
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACTCGAAGG
38494634 CCTTGTGCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 6 0.07
120 51 0.59
121 30 0.34
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACTCGAAGGTATTTGTGCTAGCGATT
Found at i:38519314 original size:27 final size:27
Alignment explanation
Indices: 38519284--38519624 Score: 362
Period size: 27 Copynumber: 12.6 Consensus size: 27
38519274 TTAGTTTACC
38519284 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
38519311 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
38519338 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
38519365 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
38519392 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
38519419 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
38519446 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
38519473 AAATTACAAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
38519500 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
38519527 AAATTACCAAAATATCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** *** *
38519554 AAATTACTGAAATA-CCCTCGACCTATA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* **
38519581 AAATTACCAAAGTA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
38519608 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
38519625 TTGATTTACA
Statistics
Matches: 268, Mismatches: 44, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 4 0.01
27 262 0.98
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:38519625 original size:27 final size:27
Alignment explanation
Indices: 38519284--38519679 Score: 286
Period size: 27 Copynumber: 14.7 Consensus size: 27
38519274 TTAGTTTACC
*
38519284 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
38519311 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
38519338 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * **
38519365 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
38519392 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
38519419 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
38519446 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
38519473 AAATTACAAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
38519500 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
38519527 AAATTACCAAAATATCCCT-AATTTGTG
1 AAATTACCAAAATA-CCCTCGATTTGTA
** ** *
38519554 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
38519581 AAATTACCAAAGTACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
38519608 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** **
38519635 AAACTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
38519662 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
38519680 TGTAGGGTAG
Statistics
Matches: 300, Mismatches: 58, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
26 4 0.01
27 292 0.97
28 4 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:38519696 original size:27 final size:27
Alignment explanation
Indices: 38519663--38520370 Score: 1013
Period size: 27 Copynumber: 26.3 Consensus size: 27
38519653 CGATTTACAA
*
38519663 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38519690 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38519717 AATTACCGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38519744 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38519771 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
38519798 AATTACAGCAACACCCCTGTAGCGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38519825 AATTACCGAAACACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38519852 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38519879 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38519906 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38519933 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38519960 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38519987 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38520014 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
38520041 AATTATTGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38520068 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38520095 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
38520122 AATTACAGTAATACCCCTGTAGGGTTG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38520149 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
38520176 AATTACTGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38520203 AATTACCGAAATACCCCTGTTGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
38520230 AATTATCGTAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
38520257 AATTATCGCAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38520284 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * * *
38520311 AACTACTAAAATACCCCTATAGGCTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
38520338 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
38520364 AATTACC
1 AATTACC
38520371 ATTTTGCCCC
Statistics
Matches: 610, Mismatches: 71, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
26 14 0.02
27 596 0.98
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:38520849 original size:22 final size:22
Alignment explanation
Indices: 38520797--38520861 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
38520787 TTAAAGCCTT
* *
38520797 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
38520819 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
38520841 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
38520862 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:38521050 original size:27 final size:27
Alignment explanation
Indices: 38521020--38521121 Score: 86
Period size: 27 Copynumber: 3.8 Consensus size: 27
38521010 ATTTTGTTAA
*
38521020 GTGGCTTAGCCACATTATCTGTTTCTG
1 GTGGCTTAGCCACAATATCTGTTTCTG
* *
38521047 GTGGC-TATGCGACAAATATCT-ATTCTG
1 GTGGCTTA-GCCAC-AATATCTGTTTCTG
*
38521074 GTGGCTCTA-CCACAATATCTGTATCTG
1 GTGGCT-TAGCCACAATATCTGTTTCTG
* *
38521101 GTGACTCT-GTCACAATATCTG
1 GTGGCT-TAGCCACAATATCTG
38521122 ATAACTGAGT
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
26 9 0.15
27 44 0.72
28 6 0.10
29 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (27 bp):
GTGGCTTAGCCACAATATCTGTTTCTG
Found at i:38521275 original size:31 final size:31
Alignment explanation
Indices: 38521224--38521295 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
38521214 TTGCATTCAC
* *
38521224 ATTCTGATTTTTTATTCTGTTACCTGATACTT
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
38521256 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
38521287 ATTCTGATT
1 ATTCTGATT
38521296 CTGTCACCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 31 0.82
32 7 0.18
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.53
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:38521294 original size:25 final size:25
Alignment explanation
Indices: 38521259--38521323 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
38521249 GATACTTATT
* * *
38521259 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
*
38521284 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
38521309 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
38521324 GTTCTAGTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:38521295 original size:6 final size:6
Alignment explanation
Indices: 38521256--38521337 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
38521246 CCTGATACTT
* * * *
38521256 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
38521306 ATTCTG ATTCTG ATTCTG GTTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
38521338 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
5 3 0.05
6 47 0.81
7 6 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:38523308 original size:27 final size:27
Alignment explanation
Indices: 38523278--38523618 Score: 346
Period size: 27 Copynumber: 12.6 Consensus size: 27
38523268 TTAGTTTACC
*
38523278 AAATTAGCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * *
38523305 AAATTAATAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
38523332 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
38523359 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
38523386 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
38523413 AAATTACAAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
38523440 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
38523467 AAATTACCAAAATACCTCTGGTTTAG-A
1 AAATTACCAAAATACCCCTGGTTT-GTA
* * * * *
38523494 AAATTATCAAAGTAACCCTAGTTAGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
38523521 AAATTACCAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
38523548 AAATTACTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
** **
38523575 AAATTATTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
38523602 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
38523619 TTGATTTACA
Statistics
Matches: 261, Mismatches: 49, Indels: 7
0.82 0.15 0.02
Matches are distributed among these distances:
26 5 0.02
27 253 0.97
28 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:38523344 original size:54 final size:54
Alignment explanation
Indices: 38523278--38523618 Score: 382
Period size: 54 Copynumber: 6.3 Consensus size: 54
38523268 TTAGTTTACC
* **
38523278 AAATTAGCAAAATACCCCTGGTTTGTAAAATTAATAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
38523332 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
38523386 AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
38523440 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCTCTGGTTTAGA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCT-TGGTTTATA
* * * * * * * *
38523494 AAATTATCAAAGTAACCCTAGTTAGTAAAATTACCAAAATATCCC-TGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCCTTGGTTTATA
** ** ** * ** *
38523548 AAATTACTGAAATA-CCCTCGACTTGTAAAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
38523602 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
38523619 TTGATTTACA
Statistics
Matches: 243, Mismatches: 38, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
53 10 0.04
54 229 0.94
55 2 0.01
56 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:38523671 original size:27 final size:27
Alignment explanation
Indices: 38523558--38523673 Score: 92
Period size: 27 Copynumber: 4.3 Consensus size: 27
38523548 AAATTACTGA
** * *
38523558 AATACCCTCGACTTGTAAAATTATTAA
1 AATACCCTCGACTTACAAAATTATCAG
** *
38523585 AATACCCTCGACTTGTAAAATTACCA-
1 AATACCCTCGACTTACAAAATTATCAG
* *
38523611 AAGTACCCTTGATTTACAAAATTATC-G
1 AA-TACCCTCGACTTACAAAATTATCAG
** *
38523638 TTTTACCCTCGATTTACAAAATTATCAG
1 -AATACCCTCGACTTACAAAATTATCAG
38523666 AATACCCT
1 AATACCCT
38523674 TGTAGGGTAG
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.03
27 70 0.96
28 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
AATACCCTCGACTTACAAAATTATCAG
Found at i:38523696 original size:27 final size:27
Alignment explanation
Indices: 38523666--38524593 Score: 1173
Period size: 27 Copynumber: 33.9 Consensus size: 27
38523656 AAATTATCAG
* * *
38523666 AATACCCTTGTAGGGTAGAAATACCGT
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38523693 AATACCCATGTAGGGTAGAATTACCGC
1 AATACCCCTGTAGGGTAGAATTACCGA
*
38523720 AATACCCCTGTAGGGTAGAATTACCGC
1 AATACCCCTGTAGGGTAGAATTACCGA
*
38523747 AATACCCCTGTAGGGTAGAATTACTGA
1 AATACCCCTGTAGGGTAGAATTACCGA
38523774 AATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
*
38523801 AATACCCCTATAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38523828 AATACCCCTGTAGGATAGAATTACGGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38523855 AATACCCCTATAGGGAAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38523882 AATACCCCTGTAGGGTAGAATTACTGG
1 AATACCCCTGTAGGGTAGAATTACCGA
*
38523909 AATACCCCTGTAGGGTAGAATTATCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38523936 AATACCCCTGTAGGGTAGAATTCCCAA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38523963 AATACCCCTGTAGGGTAGAATTACAGC
1 AATACCCCTGTAGGGTAGAATTACCGA
*
38523990 AATACCCCTGTAGAGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38524017 AATACCCCTGCAGGATAGAATTACC-A
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38524043 GAATACCCCTATAGGGTAGAATTACCGG
1 -AATACCCCTGTAGGGTAGAATTACCGA
38524071 AATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38524098 AATACCCCTGTAGGATAGAATTACGGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38524125 AATACCCCTATAGGGAAGAATTACCGAGGTA
1 AATACCCCTGTAGGGTAGAATTACC---G-A
38524156 GAATTACCAAAATACCCCTGTAGGGTAGAATTACCGA
1 -AA-T--------ACCCCTGTAGGGTAGAATTACCGA
*
38524193 AAT-CCCCTATAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
38524219 AATACCCCTGTAGGGTAGAATTACC-A
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38524245 CAATACCCCTGTAGGGTAGAATTACAGC
1 -AATACCCCTGTAGGGTAGAATTACCGA
*
38524273 AATACCCCTGTAGAGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38524300 AATACCCCTGCAGGATAGAATTACC-A
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38524326 GAATACCCCTATAGGGTAGAATTACCGG
1 -AATACCCCTGTAGGGTAGAATTACCGA
38524354 AATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38524381 AATACCCCTGTAGGGTATAATTACTGA
1 AATACCCCTGTAGGGTAGAATTACCGA
*
38524408 AATGCCCCTGTAGGGTAGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* * *
38524435 AATACCCCTATAGGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGA
* *
38524462 AATACCCCTGTAGGGTAGAATTATCGC
1 AATACCCCTGTAGGGTAGAATTACCGA
* * * *
38524489 AATACGCATGTAGGGTAGAATTACTGC
1 AATACCCCTGTAGGGTAGAATTACCGA
**
38524516 AATACCCCTGTAGGGTAGAATTACTAA
1 AATACCCCTGTAGGGTAGAATTACCGA
*
38524543 AATACCCCTGTAGGGTGGAATTACCGA
1 AATACCCCTGTAGGGTAGAATTACCGA
* * * *
38524570 GATA-CCTTGTGGGGTAAAATTACC
1 AATACCCCTGTAGGGTAGAATTACC
38524594 ATTTTGCCCT
Statistics
Matches: 789, Mismatches: 91, Indels: 43
0.85 0.10 0.05
Matches are distributed among these distances:
26 44 0.06
27 715 0.91
30 1 0.00
31 1 0.00
32 2 0.00
33 1 0.00
35 1 0.00
36 2 0.00
37 1 0.00
38 1 0.00
41 20 0.03
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAGAATTACCGA
Found at i:38524170 original size:41 final size:41
Alignment explanation
Indices: 38524113--38524192 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
38524103 CCCTGTAGGA
**
38524113 TAGAATTACGGAAATACCCCTATAGGGAAGAATTACCGAGG
1 TAGAATTACCAAAATACCCCTATAGGGAAGAATTACCGAGG
* *
38524154 TAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGA
1 TAGAATTACCAAAATACCCCTATAGGGAAGAATTACCGA
38524193 AATCCCCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (41 bp):
TAGAATTACCAAAATACCCCTATAGGGAAGAATTACCGAGG
Found at i:38524195 original size:68 final size:67
Alignment explanation
Indices: 38524084--38524218 Score: 225
Period size: 68 Copynumber: 2.0 Consensus size: 67
38524074 ACCCCTGTAG
* *
38524084 GGTAGAATTACCGAAATACCCCTGTAGGATAGAATTACGGAAATACCCCTATAGGGAAGAATTAC
1 GGTAGAATTACCAAAATACCCCTGTAGGATAGAATTACCGAAAT-CCCCTATAGGGAAGAATTAC
38524149 CGA
65 CGA
* *
38524152 GGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATCCCCTATAGGGTAGAATTACC
1 GGTAGAATTACCAAAATACCCCTGTAGGATAGAATTACCGAAATCCCCTATAGGGAAGAATTACC
38524217 GA
66 GA
38524219 AATACCCCTG
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 22 0.35
68 41 0.65
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (67 bp):
GGTAGAATTACCAAAATACCCCTGTAGGATAGAATTACCGAAATCCCCTATAGGGAAGAATTACC
GA
Found at i:38525072 original size:22 final size:22
Alignment explanation
Indices: 38525021--38525084 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
38525011 TAAAGCCTCT
* *
38525021 TGATTATGGCTTTGTGTCAACC
1 TGATTATGGCTCTGTGCCAACC
* *
38525043 T-ACATATGGCTCTATGCCAACC
1 TGA-TTATGGCTCTGTGCCAACC
*
38525065 TGATTATGGCTGTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
38525085 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:38525274 original size:27 final size:27
Alignment explanation
Indices: 38525244--38525344 Score: 102
Period size: 27 Copynumber: 3.7 Consensus size: 27
38525234 TTTTGTTAAT
*
38525244 TGGCTTAGCCACATTATCTGTTTCTGG
1 TGGCTTAGCCACAATATCTGTTTCTGG
38525271 TGGC-TATGCCACAAATATCTG-TTCTGG
1 TGGCTTA-GCCAC-AATATCTGTTTCTGG
*
38525298 TGGCTCTA-CCACAATATCTGTATCTGG
1 TGGCT-TAGCCACAATATCTGTTTCTGG
* *
38525325 TGACTCT-GTCACAATATCTG
1 TGGCT-TAGCCACAATATCTG
38525345 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
26 10 0.16
27 45 0.70
28 7 0.11
29 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TGGCTTAGCCACAATATCTGTTTCTGG
Found at i:38525533 original size:25 final size:25
Alignment explanation
Indices: 38525494--38525575 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
38525484 CTGATTTTTT
* * *
38525494 ATTCTGTTATACTGATTTTGATTTTG
1 ATTCTGTTA-CCTGATTCTGATTCTG
*
38525520 ATTCTGTTACCTGATACTGATTCTG
1 ATTCTGTTACCTGATTCTGATTCTG
* *
38525545 ATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGTTACCTGATTCTGATTCTG
38525570 ATTCTG
1 ATTCTG
38525576 AGTCTAGTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 40 0.82
26 9 0.18
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (25 bp):
ATTCTGTTACCTGATTCTGATTCTG
Found at i:38527769 original size:27 final size:26
Alignment explanation
Indices: 38527721--38527776 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
38527711 GTGAGGCTGC
*
38527721 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
38527748 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
38527774 CAG
1 CAG
38527777 CTATATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:38532527 original size:74 final size:74
Alignment explanation
Indices: 38532436--38532582 Score: 258
Period size: 74 Copynumber: 2.0 Consensus size: 74
38532426 CTAACATGTA
** *
38532436 CTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTACTTGTTTTCACGTAAAATCGCTTAG
1 CTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTACTCATTTTCACGTAAAATCACTTAG
38532501 CAAAAGTCG
66 CAAAAGTCG
38532510 CTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTACTCATTTTCACGTAAAATCACTTAG
1 CTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTACTCATTTTCACGTAAAATCACTTAG
*
38532575 GAAAAGTC
66 CAAAAGTC
38532583 ATTTAACACA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (74 bp):
CTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTACTCATTTTCACGTAAAATCACTTAG
CAAAAGTCG
Found at i:38536234 original size:27 final size:27
Alignment explanation
Indices: 38536204--38536381 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
38536194 ATATTGAGTC
* *
38536204 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
38536231 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
38536258 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
38536286 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
38536313 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
38536340 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
38536367 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38536382 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38544119 original size:70 final size:70
Alignment explanation
Indices: 38544006--38544140 Score: 261
Period size: 70 Copynumber: 1.9 Consensus size: 70
38543996 CCTTTATGAA
*
38544006 CTAGAATACACATTTTACAACTTTTGCAATTTAGTCCTAAATATCAAATTGGACCCTTTATCGAT
1 CTAGAACACACATTTTACAACTTTTGCAATTTAGTCCTAAATATCAAATTGGACCCTTTATCGAT
38544071 GTGAG
66 GTGAG
38544076 CTAGAACACACATTTTACAACTTTTGCAATTTAGTCCTAAATATCAAATTGGACCCTTTATCGAT
1 CTAGAACACACATTTTACAACTTTTGCAATTTAGTCCTAAATATCAAATTGGACCCTTTATCGAT
38544141 AAAATTTCTA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (70 bp):
CTAGAACACACATTTTACAACTTTTGCAATTTAGTCCTAAATATCAAATTGGACCCTTTATCGAT
GTGAG
Found at i:38544447 original size:25 final size:24
Alignment explanation
Indices: 38544412--38544463 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
38544402 CATACTGCAA
*
38544412 CTCTTTATGAG-TGTCTTGATATAGG
1 CTCTTTATGAGCT-TATTGATAT-GG
*
38544437 CTCTTTGTGAGCTTATTGATATGG
1 CTCTTTATGAGCTTATTGATATGG
38544461 CTC
1 CTC
38544464 ACTTGAACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 18 0.75
26 1 0.04
ACGTcount: A:0.17, C:0.15, G:0.23, T:0.44
Consensus pattern (24 bp):
CTCTTTATGAGCTTATTGATATGG
Found at i:38548973 original size:21 final size:20
Alignment explanation
Indices: 38548947--38548989 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
38548937 GTAATTTAAA
38548947 TTGAGT-AGTTGAGGGAGTGGT
1 TTGAGTGAGTTGA-GGAG-GGT
*
38548968 TTGAGTGATTTGAGGAGGGT
1 TTGAGTGAGTTGAGGAGGGT
38548988 TT
1 TT
38548990 TTCGGATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (20 bp):
TTGAGTGAGTTGAGGAGGGT
Found at i:38552441 original size:50 final size:48
Alignment explanation
Indices: 38552321--38552445 Score: 155
Period size: 48 Copynumber: 2.6 Consensus size: 48
38552311 GAAATGTTTC
* *
38552321 AGTGTAAGACCAT-TATTGGGACATGGCATCGGCACGTATAGAGGTGTT
1 AGTGTAAGACCATGTA-TGGGACATGGCATCGGCACGTATAGAGGAGCT
* *
38552369 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAG-ATATGTGAGAGCT
1 AGTGTAAGACCATGTATGGGACATGGCATCGGCAC-GTATA-GAG-GAGCT
*
38552419 AGTGTAAGACCATGTATAGGACATGGC
1 AGTGTAAGACCATGTATGGGACATGGC
38552446 GTCAACCTCG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
48 35 0.52
49 4 0.06
50 28 0.42
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTATGGGACATGGCATCGGCACGTATAGAGGAGCT
Found at i:38552543 original size:48 final size:49
Alignment explanation
Indices: 38552419--38552592 Score: 221
Period size: 49 Copynumber: 3.6 Consensus size: 49
38552409 TGTGAGAGCT
* * * *
38552419 AGTGTAAGACCATGTATAGGACATGGCGTCAACCTCGATTTCGGTAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACCTCGATTTCGATAGTC
38552468 AGTGTAAGACCATGTCTGGGACATGGCATCAACCTCGATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACCTCGATTTCGATAGTC
* * * *
38552517 AGT-TAAGACCATGTCTGGGACATGGCATCGA-CTTGA--TGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACCTCGATTTCGAT-AGTC
* *
38552563 AGTGTAAGACCATGTCTTGGATATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
38552593 GGCATTATAC
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
45 4 0.04
46 6 0.05
47 28 0.25
48 27 0.24
49 48 0.42
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAACCTCGATTTCGATAGTC
Found at i:38552589 original size:47 final size:48
Alignment explanation
Indices: 38552369--38552593 Score: 206
Period size: 49 Copynumber: 4.6 Consensus size: 48
38552359 TAGAGGTGTT
* * * * * *
38552369 AGTGTAAGACCATGTTTGGGACATGGCATCGGCAC-AGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTCGAT-T-CGATAGCC
* * * * * *
38552419 AGTGTAAGACCATGTATAGGACATGGCGTCAACCTCGATTTCGGTAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGA-TTCGATAGCC
* *
38552468 AGTGTAAGACCATGTCTGGGACATGGCATCAACCTCGATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGA-TTCGATAGCC
* *
38552517 AGT-TAAGACCATGTCTGGGACATGGCATCGA-CTTGA-TGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATTCGAT-AGCC
* *
38552563 AGTGTAAGACCATGTCTTGGATATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
38552594 GCATTATACC
Statistics
Matches: 150, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
45 4 0.03
46 6 0.04
47 29 0.19
48 27 0.18
49 52 0.35
50 31 0.21
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATTCGATAGCC
Found at i:38554111 original size:37 final size:37
Alignment explanation
Indices: 38554069--38554157 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
38554059 TTGTAGTTAG
* *
38554069 CGGGTCTCACCCGGACAAAATCTCCACACGTAGTCAT
1 CGGGTCTTACCCGGACAAAATCACCACACGTAGTCAT
*
38554106 CGGGTCTTACCCGGACATAATCACCACACGTAGTCAT
1 CGGGTCTTACCCGGACAAAATCACCACACGTAGTCAT
38554143 CGGGTCTTACCCGGA
1 CGGGTCTTACCCGGA
38554158 ATATATTTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.25, C:0.34, G:0.21, T:0.20
Consensus pattern (37 bp):
CGGGTCTTACCCGGACAAAATCACCACACGTAGTCAT
Found at i:38554356 original size:48 final size:48
Alignment explanation
Indices: 38554298--38554538 Score: 378
Period size: 48 Copynumber: 5.0 Consensus size: 48
38554288 ATATACACAC
* * *
38554298 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38554346 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
38554394 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
38554442 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATA-TT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
* *
38554489 ATCTCATACATCTTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38554537 AT
1 AT
38554539 ATATATATAT
Statistics
Matches: 178, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
47 42 0.24
48 136 0.76
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:38557743 original size:29 final size:30
Alignment explanation
Indices: 38557710--38557767 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
38557700 TATTTTATTA
38557710 TTAATTTTGTTATTATTTTA-AGGCATTTG
1 TTAATTTTGTTATTATTTTAGAGGCATTTG
*
38557739 TTAATTTTTTTATTATTTTAGAGGCATTT
1 TTAATTTTGTTATTATTTTAGAGGCATTT
38557768 TCTTGTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.60
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAGAGGCATTTG
Found at i:38559582 original size:19 final size:19
Alignment explanation
Indices: 38559558--38559596 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
38559548 GATATGGTTG
38559558 ACTATATGTGTGATATGAC
1 ACTATATGTGTGATATGAC
38559577 ACTATATGTGTGATATGAC
1 ACTATATGTGTGATATGAC
38559596 A
1 A
38559597 TACTTCCTAT
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:0.10, G:0.21, T:0.36
Consensus pattern (19 bp):
ACTATATGTGTGATATGAC
Found at i:38564962 original size:37 final size:37
Alignment explanation
Indices: 38564911--38564986 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
38564901 ATGATCGATG
*
38564911 TTGTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGAT
1 TTGTTGTGATTAGCC--ATGAGATGTGGCTTATAATGAT
38564948 TTGTTGT-ATGTAGCCATGAGATGTGGCTTATAATGAT
1 TTGTTGTGAT-TAGCCATGAGATGTGGCTTATAATGAT
38564985 TT
1 TT
38564987 TGGCTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
35 3 0.09
36 4 0.11
37 28 0.80
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.43
Consensus pattern (37 bp):
TTGTTGTGATTAGCCATGAGATGTGGCTTATAATGAT
Found at i:38571105 original size:60 final size:60
Alignment explanation
Indices: 38571017--38571153 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
38571007 CAGATTTAAC
* *
38571017 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* *
38571078 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
38571138 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
38571154 TAACATAGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 53 0.78
61 13 0.19
62 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:38571117 original size:28 final size:27
Alignment explanation
Indices: 38571016--38571117 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
38571006 TCAGATTTAA
* *
38571016 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
38571044 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
38571076 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
38571104 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
38571118 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:38574833 original size:37 final size:37
Alignment explanation
Indices: 38574782--38574857 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
38574772 ATGATCGATG
*
38574782 TTGTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGAT
1 TTGTTGTGATTAGCC--ATGAGATGTGGCTTATAATGAT
38574819 TTGTTGT-ATGTAGCCATGAGATGTGGCTTATAATGAT
1 TTGTTGTGAT-TAGCCATGAGATGTGGCTTATAATGAT
38574856 TT
1 TT
38574858 TGGCTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
35 3 0.09
36 4 0.11
37 28 0.80
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.43
Consensus pattern (37 bp):
TTGTTGTGATTAGCCATGAGATGTGGCTTATAATGAT
Found at i:38576022 original size:38 final size:38
Alignment explanation
Indices: 38575971--38576047 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
38575961 GAATTAAATG
38575971 TCAATATGTTATATTATATTTAGACTCAAACTTAGCTT
1 TCAATATGTTATATTATATTTAGACTCAAACTTAGCTT
*
38576009 TCAATATGTTATATTATATTTAGACTCACACTTAGCTT
1 TCAATATGTTATATTATATTTAGACTCAAACTTAGCTT
38576047 T
1 T
38576048 TTTAGGCTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.45
Consensus pattern (38 bp):
TCAATATGTTATATTATATTTAGACTCAAACTTAGCTT
Found at i:38576669 original size:13 final size:13
Alignment explanation
Indices: 38576647--38576683 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
38576637 CCTCTAGGGA
*
38576647 CACGCTCGTGTCC
1 CACGCCCGTGTCC
38576660 CACGCCCGTGTCC
1 CACGCCCGTGTCC
38576673 CACGCCCGTGT
1 CACGCCCGTGT
38576684 GAAATAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.08, C:0.49, G:0.24, T:0.19
Consensus pattern (13 bp):
CACGCCCGTGTCC
Found at i:38577972 original size:47 final size:48
Alignment explanation
Indices: 38577773--38577996 Score: 181
Period size: 47 Copynumber: 4.7 Consensus size: 48
38577763 GTATAATACC
* * **
38577773 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCAC-CAATTC-
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCGACTCAAGGCT
* * * * * *
38577820 AATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCG-ACTCAAGGCT
** * * *
38577869 GGCGTCATGTCCCAGACATGGTCTTACACTGGCT-TAC-ATCTCGAGGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CGA-CTCAAGGCT
* * * * *
38577917 AATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGACTCAAGGCT
*
38577963 GATGCCATGTCCCAGACATGGTGTTACACTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
38577997 TACATAATGT
Statistics
Matches: 137, Mismatches: 31, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
46 25 0.18
47 59 0.43
48 24 0.18
49 29 0.21
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGACTCAAGGCT
Found at i:38578019 original size:47 final size:46
Alignment explanation
Indices: 38577874--38578038 Score: 142
Period size: 47 Copynumber: 3.5 Consensus size: 46
38577864 AGGCTGGCGT
* * *
38577874 CATGTCCCAGACATGGTCTTACACTGGCTTACAT-CTCGAGGCAAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTACATAAT-GTGGCAGATG
* * * *
38577921 CATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTCAA--T-GCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TAC--AT-AATGTGGCAGATG
* *
38577967 CCATGTCCCAGACATGGTGTTACACTGGCTTACATAATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTACATAATGTGGCAGATG
38578015 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
38578039 AGCACACAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
45 2 0.02
46 29 0.31
47 43 0.46
48 20 0.21
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATAATGTGGCAGATG
Found at i:38580590 original size:7 final size:8
Alignment explanation
Indices: 38580575--38580634 Score: 60
Period size: 7 Copynumber: 8.1 Consensus size: 8
38580565 AATGATGAAT
38580575 GATGA-GG
1 GATGAGGG
38580582 GAT-AGGG
1 GATGAGGG
38580589 GATGA-GG
1 GATGAGGG
38580596 GATGA-GG
1 GATGAGGG
38580603 GATGA-GG
1 GATGAGGG
38580610 GATGA-GG
1 GATGAGGG
38580617 GATGAGGG
1 GATGAGGG
*
38580625 AATGAAGGG
1 GATG-AGGG
38580634 G
1 G
38580635 TCATATTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
6 1 0.02
7 36 0.77
8 6 0.13
9 4 0.09
ACGTcount: A:0.30, C:0.00, G:0.57, T:0.13
Consensus pattern (8 bp):
GATGAGGG
Found at i:38580594 original size:14 final size:14
Alignment explanation
Indices: 38580575--38580625 Score: 86
Period size: 14 Copynumber: 3.6 Consensus size: 14
38580565 AATGATGAAT
38580575 GATGAGGGAT-AGGG
1 GATGAGGGATGA-GG
38580589 GATGAGGGATGAGG
1 GATGAGGGATGAGG
38580603 GATGAGGGATGAGG
1 GATGAGGGATGAGG
38580617 GATGAGGGA
1 GATGAGGGA
38580626 ATGAAGGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
14 35 0.97
15 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.57, T:0.14
Consensus pattern (14 bp):
GATGAGGGATGAGG
Found at i:38580599 original size:21 final size:21
Alignment explanation
Indices: 38580575--38580625 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
38580565 AATGATGAAT
38580575 GATGAGGGAT-AGGGGATGAGG
1 GATGAGGGATGA-GGGATGAGG
38580596 GATGAGGGATGAGGGATGAGG
1 GATGAGGGATGAGGGATGAGG
38580617 GATGAGGGA
1 GATGAGGGA
38580626 ATGAAGGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.57, T:0.14
Consensus pattern (21 bp):
GATGAGGGATGAGGGATGAGG
Found at i:38595708 original size:20 final size:20
Alignment explanation
Indices: 38595677--38595726 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
38595667 ATTTGCTACA
*
38595677 TGATTT-GTTGTTGTTTGAT
1 TGATTTAGTTGTTGTTAGAT
*
38595696 TGATTTAGTTGTTGTTAGCT
1 TGATTTAGTTGTTGTTAGAT
*
38595716 TAATTTAGTTG
1 TGATTTAGTTG
38595727 CTACAGCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.16, C:0.02, G:0.24, T:0.58
Consensus pattern (20 bp):
TGATTTAGTTGTTGTTAGAT
Found at i:38596384 original size:20 final size:22
Alignment explanation
Indices: 38596359--38596399 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
38596349 TAATATTAAA
38596359 TATTTA-TTTTTTTCC-TTTTT
1 TATTTACTTTTTTTCCATTTTT
38596379 TATTTACTTTTTTTCCATTTT
1 TATTTACTTTTTTTCCATTTT
38596400 CCCCTCTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (22 bp):
TATTTACTTTTTTTCCATTTTT
Found at i:38599734 original size:20 final size:19
Alignment explanation
Indices: 38599709--38599769 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
38599699 AAAGATGGGT
38599709 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCA-CGAAGTGCA
* *
38599729 AACAGAGGTACAAATGTGCA
1 AACAGAGGCACGAA-GTGCA
* *
38599749 ATCATAGGCATCGAAGTGCA
1 AACAGAGGCA-CGAAGTGCA
38599769 A
1 A
38599770 TCCCATACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (19 bp):
AACAGAGGCACGAAGTGCA
Found at i:38601541 original size:26 final size:26
Alignment explanation
Indices: 38601481--38601544 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
38601471 AACAATTTTC
* *
38601481 TCAAAATTTTACCAGGGGTAAAATCG
1 TCAAAATTTTAACAGGGGTAAAATCA
* *
38601507 TTAAGAATTTTAACAGGGTTAAAATCA
1 TCAA-AATTTTAACAGGGGTAAAATCA
38601534 TCAAAATTTTA
1 TCAAAATTTTA
38601545 TTGGGGTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTAACAGGGGTAAAATCA
Found at i:38604225 original size:13 final size:13
Alignment explanation
Indices: 38604201--38604241 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
38604191 GAGTTCTTAC
*
38604201 TAGATCTGTCAAT
1 TAGATCTATCAAT
*
38604214 TAGATTTATCAAT
1 TAGATCTATCAAT
38604227 TAGATCTATCAAT
1 TAGATCTATCAAT
38604240 TA
1 TA
38604242 TTATTCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (13 bp):
TAGATCTATCAAT
Found at i:38606707 original size:110 final size:110
Alignment explanation
Indices: 38606522--38606958 Score: 572
Period size: 110 Copynumber: 4.0 Consensus size: 110
38606512 TATACATAAT
* * * *
38606522 TTCATGTATCGTGATATGTCATTTTGATTCATACACTACCGAAGGCTACACCATGAATATAAATA
1 TTCATGTATCGTGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * * * * *
38606587 TAGACATATCATACT-ATGTGCCTTAACCACATGATCTTACATACA
66 CAAACATATCAT-CTCATGGGTCTTAACCACATGGTCTTACACACA
* *
38606632 TTCATTTATCGTGATCTACCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
1 TTCATGTATCGTGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * *
38606697 CAGACATATCATGTCATGGGTTTTAACCACATGGTCTTACACACA
66 CAAACATATCATCTCATGGGTCTTAACCACATGGTCTTACACACA
* * * *
38606742 TTCATGTATCGTAATCTTCCATTTCGATTCATACACTATCGAAGGATACAACATGAATATAAATA
1 TTCATGTATCGTGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * * *
38606807 CAAAAATATCATGTCATGGGTATTAACCATATGGTCTTACACACA
66 CAAACATATCATCTCATGGGTCTTAACCACATGGTCTTACACACA
* * * * *
38606852 TTTATGTATTGTGATCTGCTATTTCAATTCATACACTATCGAAGGCTACACTATGAATATAAATA
1 TTCATGTATCGTGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* *
38606917 CAAACACATCATGC-CATAGGTCTTAACCACATGGTCTTACAC
66 CAAACATATCAT-CTCATGGGTCTTAACCACATGGTCTTACAC
38606959 TTGTTTTCAT
Statistics
Matches: 288, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
109 1 0.00
110 287 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (110 bp):
TTCATGTATCGTGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
CAAACATATCATCTCATGGGTCTTAACCACATGGTCTTACACACA
Found at i:38611003 original size:44 final size:44
Alignment explanation
Indices: 38610954--38611039 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
38610944 GATGCAATTT
*
38610954 TGAAAGATTGTTATGACTATAAATGTGATTTTTGTATGTGGCCA
1 TGAAAGAGTGTTATGACTATAAATGTGATTTTTGTATGTGGCCA
38610998 TGAAAGAGTGTTATGACTATAAATGTGATTTTTGTATGTGGC
1 TGAAAGAGTGTTATGACTATAAATGTGATTTTTGTATGTGGC
38611040 TATGGAACTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (44 bp):
TGAAAGAGTGTTATGACTATAAATGTGATTTTTGTATGTGGCCA
Found at i:38611205 original size:40 final size:40
Alignment explanation
Indices: 38611150--38611501 Score: 566
Period size: 40 Copynumber: 8.8 Consensus size: 40
38611140 GAGAATTGAG
*
38611150 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATCCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
38611190 AGTGATATATCCGGGCTAAGTCCCG-AGAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAG-AGCATTCGTGCT
* *
38611230 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
38611270 AGTGATATATCCGGGCTAAGTCCCG-AGAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAG-AGCATTCGTGCT
* *
38611310 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
38611350 AGTGATATATCCGGGCTAAGTCCCG-AGAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAG-AGCATTCGTGCT
* *
38611390 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
38611430 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
38611470 AGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
38611502 ATCATGCTGG
Statistics
Matches: 291, Mismatches: 15, Indels: 12
0.92 0.05 0.04
Matches are distributed among these distances:
39 4 0.01
40 284 0.98
41 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:38611249 original size:80 final size:80
Alignment explanation
Indices: 38611150--38611501 Score: 632
Period size: 80 Copynumber: 4.4 Consensus size: 80
38611140 GAGAATTGAG
* * *
38611150 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATCCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
38611215 AGAAGCATTCGTGCT
66 AGAAGCATTCGTGCT
38611230 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
38611295 AGAAGCATTCGTGCT
66 AGAAGCATTCGTGCT
38611310 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
38611375 AGAAGCATTCGTGCT
66 AGAAGCATTCGTGCT
38611390 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
*
38611455 AGGAGCATTCGTGCT
66 AGAAGCATTCGTGCT
* * * *
38611470 AGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATTCGGGCTAAGTCCCGAGGAGCA
38611502 ATCATGCTGG
Statistics
Matches: 264, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 264 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AGAAGCATTCGTGCT
Found at i:38611718 original size:25 final size:25
Alignment explanation
Indices: 38611677--38611728 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
38611667 TGTGTATTAA
38611677 TGAATGAATAAGAGCACTATGTGTG
1 TGAATGAATAAGAGCACTATGTGTG
* *
38611702 TGAATG-ATTAGAGGCACTGTGTGTG
1 TGAATGAATAAGA-GCACTATGTGTG
38611727 TG
1 TG
38611729 CGAATTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (25 bp):
TGAATGAATAAGAGCACTATGTGTG
Found at i:38614059 original size:98 final size:98
Alignment explanation
Indices: 38613890--38614088 Score: 371
Period size: 98 Copynumber: 2.0 Consensus size: 98
38613880 AGTAATGCAT
38613890 GTGTTGAATTGATGGAATGGAGAGGATGTTTTAATAGTGCATAAATGTGTATTAGCCAAGTTTTG
1 GTGTTGAATTGATGGAATGGAGAGGATGTTTTAATAGTGCATAAATGTGTATTAGCCAAGTTTTG
38613955 AACTTGAAACAAAATGGTATTTGGTCAATACAA
66 AACTTGAAACAAAATGGTATTTGGTCAATACAA
* *
38613988 GTGTTGAATTGATGGAATGGATAGGATGTTTTAATAGTGCATATATGTGTATTAGCCAAGTTTTG
1 GTGTTGAATTGATGGAATGGAGAGGATGTTTTAATAGTGCATAAATGTGTATTAGCCAAGTTTTG
*
38614053 AGCTTGAAACAAAATGGTATTTGGTCAATACAA
66 AACTTGAAACAAAATGGTATTTGGTCAATACAA
38614086 GTG
1 GTG
38614089 ACCATACTTG
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (98 bp):
GTGTTGAATTGATGGAATGGAGAGGATGTTTTAATAGTGCATAAATGTGTATTAGCCAAGTTTTG
AACTTGAAACAAAATGGTATTTGGTCAATACAA
Found at i:38614321 original size:36 final size:36
Alignment explanation
Indices: 38614274--38614345 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
38614264 ATTGATATTA
38614274 GGTTAATGATGTGTGTATTCT-GTCATAAAGGTGCAC
1 GGTTAATGATGTGTGTATT-TGGTCATAAAGGTGCAC
38614310 GGTTAATGATGTGTGTATTTGGTCATAAAGGTGCAC
1 GGTTAATGATGTGTGTATTTGGTCATAAAGGTGCAC
38614346 ATGAGGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.25, C:0.10, G:0.29, T:0.36
Consensus pattern (36 bp):
GGTTAATGATGTGTGTATTTGGTCATAAAGGTGCAC
Found at i:38614857 original size:39 final size:39
Alignment explanation
Indices: 38614814--38614888 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
38614804 GTTGGTGTAG
38614814 AATTATAGGATGAATAAAATATGTAATCAAAGCTTAGTA
1 AATTATAGGATGAATAAAATATGTAATCAAAGCTTAGTA
* *
38614853 AATTATAGGCTGAATAAAATATGTAATCAAGGCTTA
1 AATTATAGGATGAATAAAATATGTAATCAAAGCTTA
38614889 ATTAGTCTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.31
Consensus pattern (39 bp):
AATTATAGGATGAATAAAATATGTAATCAAAGCTTAGTA
Found at i:38615562 original size:47 final size:47
Alignment explanation
Indices: 38615509--38615624 Score: 169
Period size: 47 Copynumber: 2.5 Consensus size: 47
38615499 ATTCAGCCAA
* *
38615509 GAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGT
* * * *
38615556 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGT
*
38615603 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
38615625 TCCCGAAGGG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGT
Found at i:38615799 original size:37 final size:37
Alignment explanation
Indices: 38615743--38615821 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38615733 CCGAGCTCTA
* * *
38615743 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
38615780 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38615817 AAGAC
1 AAGAC
38615822 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38618323 original size:15 final size:13
Alignment explanation
Indices: 38618297--38618338 Score: 57
Period size: 15 Copynumber: 3.0 Consensus size: 13
38618287 ATATTTTGTT
38618297 TTCTTTTTTTTTA
1 TTCTTTTTTTTTA
38618310 TTCTTTATTCTTTTA
1 TTCTTT-TT-TTTTA
38618325 TTCTTTTATTTTTA
1 TTCTTTT-TTTTTA
38618339 ATTAATCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 6 0.23
14 8 0.31
15 12 0.46
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTTTTTTTTTA
Found at i:38618324 original size:8 final size:8
Alignment explanation
Indices: 38618305--38618334 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
38618295 TTTTCTTTTT
38618305 TTTTATTC
1 TTTTATTC
38618313 -TTTATTC
1 TTTTATTC
38618320 TTTTATTC
1 TTTTATTC
38618328 TTTTATT
1 TTTTATT
38618335 TTTAATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTC
Found at i:38618358 original size:7 final size:7
Alignment explanation
Indices: 38618303--38618359 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
38618293 TGTTTTCTTT
38618303 TTTTTTA
1 TTTTTTA
*
38618310 TTCTTTA
1 TTTTTTA
38618317 TTCTTTTA
1 TT-TTTTA
38618325 TTCTTTTA
1 TT-TTTTA
*
38618333 TTTTTAA
1 TTTTTTA
*
38618340 TTAATCTTA
1 TT--TTTTA
38618349 TTTTTTA
1 TTTTTTA
38618356 TTTT
1 TTTT
38618360 AAATTATTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
7 22 0.54
8 14 0.34
9 5 0.12
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTTA
Found at i:38623030 original size:12 final size:12
Alignment explanation
Indices: 38623013--38623037 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38623003 GTTAGAATTT
38623013 AATTAAATTGAA
1 AATTAAATTGAA
38623025 AATTAAATTGAA
1 AATTAAATTGAA
38623037 A
1 A
38623038 GACCAATTGT
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
AATTAAATTGAA
Done.