Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 53 of 235
Found at i:17702853 original size:120 final size:119
Alignment explanation
Indices: 17702612--17702874 Score: 363
Period size: 119 Copynumber: 2.2 Consensus size: 119
17702602 TATTCGGATG
* * * *
17702612 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAC
* **
17702677 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTACGATTTACT
66 TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAAGTACT
*
17702731 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
17702795 ACTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG-A-GCAAGTAGCT
64 ACTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACG-AAGTA-CT
* * *
17702851 ATATCC-GGCTAAATTCCGAAGGTA
1 ATAACCGGGCTAAGTCCCGAAGGTA
17702875 CTTGGTTTGG
Statistics
Matches: 129, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
118 3 0.02
119 67 0.52
120 59 0.46
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAC
TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAAGTACT
Found at i:17707718 original size:53 final size:53
Alignment explanation
Indices: 17707524--17707751 Score: 215
Period size: 53 Copynumber: 4.2 Consensus size: 53
17707514 ATTAGGGTTT
* * *
17707524 AAGGATACCAAGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-TTACGAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATA--AGGC
* * * * * * ** * * **
17707578 AAAGAAATCATGTAAGACCATGTCAAGACATGGCATTCATAAACTACGATAACAC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
17707633 AAAGATCCCATGTAAGACCATGCCAAGCCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
17707686 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
17707739 AAGGATACCACGT
1 AAGGATACCACGT
17707752 GTATCCTTAG
Statistics
Matches: 141, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
53 66 0.47
54 36 0.26
55 37 0.26
57 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (53 bp):
AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:17719572 original size:40 final size:40
Alignment explanation
Indices: 17719528--17719789 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
17719518 GCTCCTCGTT
* *
17719528 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
17719568 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
17719608 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
17719647 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
17719686 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
17719725 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
17719766 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17719790 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:17726794 original size:14 final size:14
Alignment explanation
Indices: 17726771--17726808 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
17726761 AATAAATGGG
*
17726771 AAGAAGAAAAGAAA
1 AAGAAAAAAAGAAA
17726785 AAGAAAAAAAGAAA
1 AAGAAAAAAAGAAA
17726799 AAGAAAAAAA
1 AAGAAAAAAA
17726809 TTAAATTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAGAAA
Found at i:17731885 original size:344 final size:344
Alignment explanation
Indices: 17731258--17731945 Score: 1207
Period size: 344 Copynumber: 2.0 Consensus size: 344
17731248 ATTTTTGAGA
17731258 TATCTGACATTCTCTTACCTATCTCTTGACATAAGTGGTAAGGCTTTTCTAGTATACAAGGCTTG
1 TATCTGACATTCTCTTACCTATCTCTTGACATAAGTGGTAAGGCTTTTCTAGTATACAAGGCTTG
17731323 TTAGTCTCTTCTTAGTTGCATTTACCCCTGAATGTCCCCCTAGAGTACTATCACAGAAGAGCTAA
66 TTAGTCTCTTCTTAGTTGCATTTACCCCTGAATGTCCCCCTAGAGTACTATCACAGAAGAGCTAA
*
17731388 AACAATTCCTTCTTGAGACCAGCAACATTTCCCACCATAATCTTCCCTTTTTTTTCTGAGGAACC
131 AACAATTCCTTCTTGAGACCAGCAACATTTCCCACCATAATCTTCCCTTTTTCTTCTGAGGAACC
*
17731453 TTCCATCCAGGAGTATTTTGGATGTTTGGAACCTTACTGTTGTACCTCTGAACATAACCTCTGAG
196 TACCATCCAGGAGTATTTTGGATGTTTGGAACCTTACTGTTGTACCTCTGAACATAACCTCTGAG
* * *
17731518 CTTTAGGGTCCACCAAATATGATTCCTGCACTTGAGCCAATAAATTGAAACTAATAGTGCTTCTA
261 CTTTAGGGTCCACCAAATATGATTCCTACACTCGAGCCAATAAATTAAAACTAATAGTGCTTCTA
*
17731583 GTGAGCTAAAAATATTGCC
326 GTGAACTAAAAATATTGCC
* *
17731602 TATCTGACATTCTCTTACCTATCTTTTGACATCAGTGGTAAGGCTTTTCTAGTATACAAGGCTTG
1 TATCTGACATTCTCTTACCTATCTCTTGACATAAGTGGTAAGGCTTTTCTAGTATACAAGGCTTG
* * * * *
17731667 TTAGTCTCTTTTTAGTTGCATTTACCCCTGAATGTCCCCTTAGAGTGCTATCACAGAATAGCTGA
66 TTAGTCTCTTCTTAGTTGCATTTACCCCTGAATGTCCCCCTAGAGTACTATCACAGAAGAGCTAA
* *
17731732 AACAATTCCTTCTTGAGACCAGCAACATTTCGCACCATAATCTTCCC-TTTTCTTCTGAGGAGCC
131 AACAATTCCTTCTTGAGACCAGCAACATTTCCCACCATAATCTTCCCTTTTTCTTCTGAGGAACC
17731796 TACCATCCCAGGAGTATTTTGGATGTTTGGAACCTTACTGTTGTACCTCTGAACATAACCTCTGA
196 TACCAT-CCAGGAGTATTTTGGATGTTTGGAACCTTACTGTTGTACCTCTGAACATAACCTCTGA
*
17731861 GCTTTAGGGTCCACCAATTATGATTCCTACACTCGAGCCAATAAATTAAAACTAATAGTGCTTCT
260 GCTTTAGGGTCCACCAAATATGATTCCTACACTCGAGCCAATAAATTAAAACTAATAGTGCTTCT
*
17731926 AGTGAACTGAAAATATTGCC
325 AGTGAACTAAAAATATTGCC
17731946 CTTCTTTCAA
Statistics
Matches: 326, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
343 20 0.06
344 306 0.94
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (344 bp):
TATCTGACATTCTCTTACCTATCTCTTGACATAAGTGGTAAGGCTTTTCTAGTATACAAGGCTTG
TTAGTCTCTTCTTAGTTGCATTTACCCCTGAATGTCCCCCTAGAGTACTATCACAGAAGAGCTAA
AACAATTCCTTCTTGAGACCAGCAACATTTCCCACCATAATCTTCCCTTTTTCTTCTGAGGAACC
TACCATCCAGGAGTATTTTGGATGTTTGGAACCTTACTGTTGTACCTCTGAACATAACCTCTGAG
CTTTAGGGTCCACCAAATATGATTCCTACACTCGAGCCAATAAATTAAAACTAATAGTGCTTCTA
GTGAACTAAAAATATTGCC
Found at i:17736968 original size:198 final size:199
Alignment explanation
Indices: 17736629--17737029 Score: 725
Period size: 198 Copynumber: 2.0 Consensus size: 199
17736619 AGAACTCAAG
*
17736629 TTATGACCATTTTAGTGATGAACGCACGAGTATAATTTTTGGACGGGATTATCACAGAAATTATG
1 TTATGACCAATTTAGTGATGAACGCACGAGTATAATTTTTGGACGGGATTATCACAGAAATTATG
17736694 AGTTTTGAGCTTTTAGTTCAAGTTTAAATCATATTGGGTTCGTGTTTTAGGTTTAATTTTTATTA
66 AGTTTTGAGCTTTTAGTTCAAGTTTAAATCATATTGGGTTCGTGTTTTAGGTTTAATTTTTATTA
* * *
17736759 TATATGAGCCCAATGTTGTATTTATTAGCTCTTATTATTTTATTATTTTTTATTCTGAGTTTTTG
131 TATATGAGCCCAATATTGTATTTATTAGCTATTATTATTTTATTATTTTTTATTCTGAATTTTTG
17736824 ATAA
196 ATAA
*
17736828 TTATGACCAATTTAGTGATG-ACGCACGAGTATAATTTTTGGACGGGATTATTAC-GAAAATTAT
1 TTATGACCAATTTAGTGATGAACGCACGAGTATAATTTTTGGACGGGATTATCACAG-AAATTAT
*
17736891 GAGTTTTGAGCTTTTAGTTCGAGTTTAAATCATATTGGGTTCGTGTTTTAGGTTTAATTTTTATT
65 GAGTTTTGAGCTTTTAGTTCAAGTTTAAATCATATTGGGTTCGTGTTTTAGGTTTAATTTTTATT
17736956 ATATATGAGCCCAATATTGTATTTATTAGCTATTATTATTTTATTATTTTTTATTCTGAATTTTT
130 ATATATGAGCCCAATATTGTATTTATTAGCTATTATTATTTTATTATTTTTTATTCTGAATTTTT
17737021 GATAA
195 GATAA
17737026 TTAT
1 TTAT
17737030 TAAGTATTTA
Statistics
Matches: 195, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
197 1 0.01
198 175 0.90
199 19 0.10
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (199 bp):
TTATGACCAATTTAGTGATGAACGCACGAGTATAATTTTTGGACGGGATTATCACAGAAATTATG
AGTTTTGAGCTTTTAGTTCAAGTTTAAATCATATTGGGTTCGTGTTTTAGGTTTAATTTTTATTA
TATATGAGCCCAATATTGTATTTATTAGCTATTATTATTTTATTATTTTTTATTCTGAATTTTTG
ATAA
Found at i:17738952 original size:6 final size:6
Alignment explanation
Indices: 17738941--17738990 Score: 73
Period size: 6 Copynumber: 7.8 Consensus size: 6
17738931 TTTTCTCTAC
17738941 AATGAA AATGAA AATGAA AATGAAA AATGAAA AATGAAA AATGAA AATGA
1 AATGAA AATGAA AATGAA AATG-AA AATG-AA AATG-AA AATGAA AATGA
17738991 CTTAAAAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 23 0.53
7 20 0.47
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AATGAA
Found at i:17738969 original size:7 final size:7
Alignment explanation
Indices: 17738941--17738987 Score: 73
Period size: 7 Copynumber: 7.1 Consensus size: 7
17738931 TTTTCTCTAC
17738941 AATG-AA
1 AATGAAA
17738947 AATG-AA
1 AATGAAA
17738953 AATG-AA
1 AATGAAA
17738959 AATGAAA
1 AATGAAA
17738966 AATGAAA
1 AATGAAA
17738973 AATGAAA
1 AATGAAA
17738980 AATGAAA
1 AATGAAA
17738987 A
1 A
17738988 TGACTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 16 0.40
7 24 0.60
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AATGAAA
Found at i:17738976 original size:14 final size:13
Alignment explanation
Indices: 17738941--17738990 Score: 84
Period size: 13 Copynumber: 3.8 Consensus size: 13
17738931 TTTTCTCTAC
17738941 AATGAAAATG-AA
1 AATGAAAATGAAA
17738953 AATGAAAATGAAA
1 AATGAAAATGAAA
17738966 AATGAAAAATGAAA
1 AATG-AAAATGAAA
17738980 AATGAAAATGA
1 AATGAAAATGA
17738991 CTTAAAAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.28
13 13 0.36
14 13 0.36
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AATGAAAATGAAA
Found at i:17740819 original size:46 final size:45
Alignment explanation
Indices: 17740763--17740890 Score: 132
Period size: 46 Copynumber: 2.8 Consensus size: 45
17740753 TCATCTTGTA
* * * *
17740763 GCCAACGCATGTCCCAGACATGTCTTACATTGGCTTAC-GTCTCGAG
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGC--ACTGTCTCAAG
* * * *
17740809 GCCGATGCATGTCCCAGACACGTTTTACACTAGCACTTGTCTCAAT
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGCAC-TGTCTCAAG
17740855 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTAGC
17740891 TCTCACAAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
44 2 0.03
46 40 0.60
47 13 0.19
48 12 0.18
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (45 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTAGCACTGTCTCAAG
Found at i:17742836 original size:29 final size:29
Alignment explanation
Indices: 17742804--17742863 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
17742794 TTATCTTCTC
*
17742804 ATGGCCCATTAGGCCCAAATTACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
**
17742833 ATGGCCTTTTAGGCCCAAATCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
17742862 AT
1 AT
17742864 TCATGCTCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATTTAT
Found at i:17744526 original size:42 final size:41
Alignment explanation
Indices: 17744418--17744541 Score: 117
Period size: 43 Copynumber: 3.0 Consensus size: 41
17744408 ATCTATTTGA
* *
17744418 GATA-TTGTGTAAGACCGTGTCTGGGACACAGGCCTCGATT
1 GATATTTGTGTAAGACCATGTCTGGGACACAGGCATCGATT
* **
17744458 GATATTTACGTATAAGACCATGTCTGGGACATTGGCATCGTATCT
1 GATATTT--GTGTAAGACCATGTCTGGGACACAGGCATCG-AT-T
* * * *
17744503 GAT-TTTGTGTAAGACCCTATCTGGGATAGAGGCATCGAT
1 GATATTTGTGTAAGACCATGTCTGGGACACAGGCATCGAT
17744542 ATTAAATTAC
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
40 4 0.06
41 4 0.06
42 25 0.37
43 26 0.38
44 5 0.07
45 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (41 bp):
GATATTTGTGTAAGACCATGTCTGGGACACAGGCATCGATT
Found at i:17749109 original size:99 final size:99
Alignment explanation
Indices: 17748938--17749136 Score: 389
Period size: 99 Copynumber: 2.0 Consensus size: 99
17748928 AAAATGTATA
17748938 ATGATCTGAAGAAGCATTATTGGTGGTCCGAAATGAAAAGAGATATCTCTGATTTTGTTTCTAAA
1 ATGATCTGAAGAAGCATTATTGGTGGTCCGAAATGAAAAGAGATATCTCTGATTTTGTTTCTAAA
17749003 TGTTTAATCTGTCAGCAAGTTAAAGTTGAACATC
66 TGTTTAATCTGTCAGCAAGTTAAAGTTGAACATC
*
17749037 ATGATCTGGAGAAGCATTATTGGTGGTCCGAAATGAAAAGAGATATCTCTGATTTTGTTTCTAAA
1 ATGATCTGAAGAAGCATTATTGGTGGTCCGAAATGAAAAGAGATATCTCTGATTTTGTTTCTAAA
17749102 TGTTTAATCTGTCAGCAAGTTAAAGTTGAACATC
66 TGTTTAATCTGTCAGCAAGTTAAAGTTGAACATC
17749136 A
1 A
17749137 GGTGCCATTT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (99 bp):
ATGATCTGAAGAAGCATTATTGGTGGTCCGAAATGAAAAGAGATATCTCTGATTTTGTTTCTAAA
TGTTTAATCTGTCAGCAAGTTAAAGTTGAACATC
Found at i:17749192 original size:23 final size:23
Alignment explanation
Indices: 17749162--17749209 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
17749152 CAAAAAAGTG
17749162 CAAAAGTGCACTAAATATGTGTT
1 CAAAAGTGCACTAAATATGTGTT
17749185 CAAAAGTGCACTAAATATGTGTT
1 CAAAAGTGCACTAAATATGTGTT
17749208 CA
1 CA
17749210 TGGACGTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (23 bp):
CAAAAGTGCACTAAATATGTGTT
Found at i:17752130 original size:39 final size:40
Alignment explanation
Indices: 17752085--17752256 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
17752075 GCTCCTCGTT
* * *
17752085 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
17752125 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
17752164 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
17752204 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
17752244 CAAATGCCTTCGG
1 CAAATGCCTTCGG
17752257 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:17752185 original size:40 final size:39
Alignment explanation
Indices: 17752087--17752309 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
17752077 TCCTCGTTCA
* * * *
17752087 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
17752126 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
17752165 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
17752205 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
17752245 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
17752286 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17752310 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:17752269 original size:80 final size:79
Alignment explanation
Indices: 17752085--17752309 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
17752075 GCTCCTCGTT
* * * * *
17752085 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
17752149 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
17752164 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
17752229 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
17752244 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
17752308 GA
63 GA
17752310 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:17752318 original size:41 final size:41
Alignment explanation
Indices: 17752241--17752318 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17752231 TTTGTATCTC
* * *
17752241 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17752282 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17752319 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17766394 original size:27 final size:27
Alignment explanation
Indices: 17766340--17766477 Score: 181
Period size: 27 Copynumber: 5.1 Consensus size: 27
17766330 AGCATGGCTT
* *
17766340 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
*
17766366 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
17766393 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
*
17766420 CCAGATCAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * * *
17766447 TCAGATCAGATA-ATTTTGGCATAGCCA
1 CCAGAACAGATATA-TGTGGCAGAGCCA
17766474 CCAG
1 CCAG
17766478 GACGTTTCCT
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 13 0.13
27 88 0.87
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:17769923 original size:27 final size:27
Alignment explanation
Indices: 17769871--17769979 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 27
17769861 CATGGCTTCT
* *
17769871 AGAACAGATAA-TGTGACAGAGTCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
17769897 AGAACAGATAATTGTGGCAGAGCCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
*
17769924 AAAACAGAT-ATATGTGGCAGAGCCACC
1 AGAACAGATAAT-TGTGGCAGAGCCACC
* * *
17769951 ACATCAGATAATTGTGGCACAGCCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
17769978 AG
1 AG
17769980 GATGCTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 13 0.18
27 58 0.79
28 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
AGAACAGATAATTGTGGCAGAGCCACC
Found at i:17769959 original size:54 final size:53
Alignment explanation
Indices: 17769873--17769978 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 53
17769863 TGGCTTCTAG
* * *
17769873 AACAGATAATGTGACAGAGTCACCAGAACAGATAATTGTGGCAGAGCCACCAA
1 AACAGATAATGTGACAGAGCCACCACAACAGATAATTGTGGCACAGCCACCAA
* *
17769926 AACAGATATATGTGGCAGAGCCACCACATCAGATAATTGTGGCACAGCCACCA
1 AACAGATA-ATGTGACAGAGCCACCACAACAGATAATTGTGGCACAGCCACCA
17769979 GGATGCTTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 8 0.17
54 39 0.83
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.16
Consensus pattern (53 bp):
AACAGATAATGTGACAGAGCCACCACAACAGATAATTGTGGCACAGCCACCAA
Found at i:17770537 original size:17 final size:17
Alignment explanation
Indices: 17770498--17770540 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
17770488 TCCACGCAAG
17770498 AACTACCTACAATCATAT
1 AACTACC-ACAATCATAT
* * *
17770516 TACTACCACATTCATCT
1 AACTACCACAATCATAT
17770533 AACTACCA
1 AACTACCA
17770541 AGTTCCCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.28
Consensus pattern (17 bp):
AACTACCACAATCATAT
Found at i:17770643 original size:160 final size:160
Alignment explanation
Indices: 17770379--17770699 Score: 588
Period size: 160 Copynumber: 2.0 Consensus size: 160
17770369 CGCACACTCG
*
17770379 CAAGTTCCCAAAATACTGACTTTTCGGCATTTCAGCTTTTCGGCTTTCGCCAATCTAGTCTATGA
1 CAAGTTCCCAAAATACCGACTTTTCGGCATTTCAGCTTTTCGGCTTTCGCCAATCTAGTCTATGA
*
17770444 GAGGTGTCAGTTATACACCTATTTGCAACGATTCATTGACGAGATCCACGCAAGAACTACCTACA
66 GAGGTGTCAGTTACACACCTATTTGCAACGATTCATTGACGAGATCCACGCAAGAACTACCTACA
*
17770509 ATCATATTACTACCACATTCATCTAACTAC
131 ATCATATTACTACCACATTAATCTAACTAC
*
17770539 CAAGTTCCCAAAATACCGACTTTTCGGCATTTCAGCTTTTCGGCTTTCGCCGATCTAGTCTATGA
1 CAAGTTCCCAAAATACCGACTTTTCGGCATTTCAGCTTTTCGGCTTTCGCCAATCTAGTCTATGA
*
17770604 GAGGTGTCAGTTACACACCTATTTGCAACGATTCATTGACGAGATCCACGCACGAACTACCTACA
66 GAGGTGTCAGTTACACACCTATTTGCAACGATTCATTGACGAGATCCACGCAAGAACTACCTACA
*
17770669 ATCATATTACTACCACGTTAATCTAACTAC
131 ATCATATTACTACCACATTAATCTAACTAC
17770699 C
1 C
17770700 GAAATGAACT
Statistics
Matches: 155, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
160 155 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (160 bp):
CAAGTTCCCAAAATACCGACTTTTCGGCATTTCAGCTTTTCGGCTTTCGCCAATCTAGTCTATGA
GAGGTGTCAGTTACACACCTATTTGCAACGATTCATTGACGAGATCCACGCAAGAACTACCTACA
ATCATATTACTACCACATTAATCTAACTAC
Found at i:17770910 original size:92 final size:92
Alignment explanation
Indices: 17770753--17770944 Score: 357
Period size: 92 Copynumber: 2.1 Consensus size: 92
17770743 ACACCTTAGG
* * *
17770753 CACTAGCAATCCTACCTTTGTCGAAGTTAGCGACTAGATTTAGATCCAGTTGTTCCCCTTGTCCA
1 CACTATCAATCCTACCTTTGCCGAAGTTAGCAACTAGATTTAGATCCAGTTGTTCCCCTTGTCCA
17770818 AGTCCTTGATCAGCAGCCTCTATATCA
66 AGTCCTTGATCAGCAGCCTCTATATCA
17770845 CACTATCAATCCTACCTTTGCCGAAGTTAGCAACTAGATTTAGATCCAGTTGTTCCCCTTGTCCA
1 CACTATCAATCCTACCTTTGCCGAAGTTAGCAACTAGATTTAGATCCAGTTGTTCCCCTTGTCCA
17770910 AGTCCTTGATCAGCAGCCTCTATATCA
66 AGTCCTTGATCAGCAGCCTCTATATCA
17770937 CACTATCA
1 CACTATCA
17770945 TCAAGATAAA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 97 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (92 bp):
CACTATCAATCCTACCTTTGCCGAAGTTAGCAACTAGATTTAGATCCAGTTGTTCCCCTTGTCCA
AGTCCTTGATCAGCAGCCTCTATATCA
Found at i:17771697 original size:24 final size:24
Alignment explanation
Indices: 17771662--17771730 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
17771652 CCAACACCGT
*
17771662 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
17771686 TCTCCCTTATCAGATTCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
17771710 TCTCCCTTATCAGCACCTAAA
1 TCTCCCTTATCAGCTCCTAAA
17771731 CTTCTCCTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.26, C:0.38, G:0.04, T:0.32
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:17783198 original size:24 final size:24
Alignment explanation
Indices: 17783152--17783223 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
17783142 GCTTTATCAT
** *
17783152 ATAACTGGAGGCCTAGCCTTTTTTA
1 ATAACTGG-GGCAAAGCCCTTTTTA
*
17783177 ATAACTGGGGCAAAGCCCTTTTTG
1 ATAACTGGGGCAAAGCCCTTTTTA
*
17783201 ATAAATTGGGGCAAAGCCCTTTT
1 AT-AACTGGGGCAAAGCCCTTTT
17783224 CGGTAAACTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 14 0.34
25 27 0.66
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCCTTTTTA
Found at i:17783236 original size:24 final size:25
Alignment explanation
Indices: 17783179--17783247 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
17783169 CTTTTTTAAT
*
17783179 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
17783204 AATTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
17783229 AACT-GGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
17783248 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 14 0.36
25 25 0.64
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:17783905 original size:26 final size:27
Alignment explanation
Indices: 17783876--17783939 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
17783866 GGGCATATTC
*
17783876 GTCATTTTACCATACA-GGGTTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
** *
17783902 GTCACCTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
*
17783929 GTCTTTTTACC
1 GTCATTTTACC
17783940 TAATAGGGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 13 0.43
27 17 0.57
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTTACG
Found at i:17784023 original size:27 final size:27
Alignment explanation
Indices: 17783997--17784194 Score: 150
Period size: 27 Copynumber: 7.3 Consensus size: 27
17783987 ATCTACAAAC
*
17783997 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
17784024 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
*
17784053 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** ** *
17784080 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* * ** *
17784107 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
17784133 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *** * *
17784160 CGAGGGTAAAACAGTAATTCTGCAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
17784187 CAAGGGTA
1 CAAGGGTA
17784195 AAATAGTAAT
Statistics
Matches: 138, Mismatches: 26, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
26 23 0.17
27 89 0.64
28 7 0.05
29 18 0.13
30 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:17784098 original size:56 final size:54
Alignment explanation
Indices: 17783990--17784153 Score: 163
Period size: 56 Copynumber: 3.0 Consensus size: 54
17783980 TTGGTAAATC
*
17783990 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTT
1 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAA-TTT
* * * * * *
17784045 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTT-TGGTAATTT
1 TACAAA-CCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCT-ATAATTT
* * ** *
17784100 TACAAACCAAGGGTATTTTAGCAATTTTACAGA-CAAGGGTATTT-TAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTA-TAATTT
17784153 T
1 T
17784154 GTAAATCGAG
Statistics
Matches: 89, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
53 18 0.20
54 20 0.22
55 14 0.16
56 37 0.42
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTT
Found at i:17784136 original size:26 final size:27
Alignment explanation
Indices: 17783970--17784153 Score: 158
Period size: 27 Copynumber: 6.8 Consensus size: 27
17783960 TTTCACCTTA
* * * *
17783970 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* **
17783997 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
17784024 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-C
** *
17784053 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAC
* *
17784080 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
17784107 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTAGTAATTTTACAAAC
17784133 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
17784154 GTAAATCGAG
Statistics
Matches: 128, Mismatches: 24, Indels: 11
0.79 0.15 0.07
Matches are distributed among these distances:
26 21 0.16
27 77 0.60
28 15 0.12
29 15 0.12
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:17784195 original size:27 final size:27
Alignment explanation
Indices: 17784145--17784275 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 27
17784135 AGGGTATTTT
*
17784145 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
17784172 AGTAATTCTGCAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
17784199 AGTAATTCTATAAATCGAGGTTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
17784226 -GATAATTCTGTAAATTGAGAGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
17784253 GGTAATTATGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
17784276 CTTTGGTAAT
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 83 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:17786602 original size:31 final size:31
Alignment explanation
Indices: 17786555--17786668 Score: 185
Period size: 31 Copynumber: 3.7 Consensus size: 31
17786545 TTAGTCTTGG
*
17786555 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTATCATAAAT
* *
17786585 CACATCACTGGGTCGAAGCCTTATCATAAAT
1 CATATCACTGGGCCGAAGCCTTATCATAAAT
17786616 CATATCACTGGGCCGAAGCCTTATCATAAAT
1 CATATCACTGGGCCGAAGCCTTATCATAAAT
*
17786647 CATATCTCTGGGCCGAAGCCTT
1 CATATCACTGGGCCGAAGCCTT
17786669 TACTGTAAAC
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 4 0.05
31 73 0.95
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTATCATAAAT
Found at i:17790288 original size:27 final size:27
Alignment explanation
Indices: 17790258--17790322 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
17790248 GGGCATATTC
*
17790258 GTCATTTTACCATACAGGGGTTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
* *
17790285 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
*
17790312 GTCTTTTTACC
1 GTCATTTTACC
17790323 TAATAGGGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTTACG
Found at i:17790406 original size:27 final size:26
Alignment explanation
Indices: 17790376--17790675 Score: 178
Period size: 27 Copynumber: 11.1 Consensus size: 26
17790366 GTAAATCTAC
**
17790376 AAACCAGGGTTATTTCAGTAATTTTGT
1 AAACCAGGG-TATTTTGGTAATTTTGT
* *
17790403 AAACCAAAGGTATTTCT-ATAATTTTCAG-
1 AAACC-AGGGTATTT-TGGTAATTTT--GT
*
17790431 AAAGTCAAGGGTATTTCT-GTAATTTTGT
1 AAA--CCAGGGTATTT-TGGTAATTTTGT
* **
17790459 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCA-GGGTATTTTGGTAATTTTGT
** * *
17790486 AAATTGAGGGTATTTCGGTAA-TTT-C
1 AAA-CCAGGGTATTTTGGTAATTTTGT
**
17790511 ACAACCAGTGGTATTTTGGTAATTTTAC
1 A-AACCAG-GGTATTTTGGTAATTTTGT
* *
17790539 AAACTAGGGGTATTTTGGTAATTTTAT
1 AAACCA-GGGTATTTTGGTAATTTTGT
* * **
17790566 AAACCAGGGGTATTTTAGCAATTTTAC
1 AAACCA-GGGTATTTTGGTAATTTTGT
* * *
17790593 AGACTAGGGTATTTTGGTAATTTTACT
1 AAACCAGGGTATTTTGGTAATTTT-GT
* * *
17790620 GATCGAGGGTATTTTGGTAATTTTGT
1 AAACCAGGGTATTTTGGTAATTTTGT
*
17790646 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACC-AGGGTATTTTGGTAATTTTGT
17790673 AAA
1 AAA
17790676 NAATAGTAAT
Statistics
Matches: 220, Mismatches: 36, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
25 4 0.02
26 38 0.17
27 145 0.66
28 14 0.06
29 18 0.08
30 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
AAACCAGGGTATTTTGGTAATTTTGT
Found at i:17790670 original size:54 final size:54
Alignment explanation
Indices: 17790356--17790675 Score: 247
Period size: 53 Copynumber: 5.9 Consensus size: 54
17790346 CACCCTACAA
* * * ** * *
17790356 GGGTGTTTTGGTAAATCTACAAACC-AGGGTTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAAGGG-TATTTTGGTAATTTTATAAACCAG
* * * * * *
17790410 AGGTATTTCT-ATAATTTTCAGAAAGTCAAGGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTT-ACAAA-CCAAGGGTATTT-TGGTAATTTTATAAACCAG
*** * * *
17790466 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCA-CAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAG
* * *
17790519 TGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAG
* * * * * * *
17790573 GGGTATTTTAGCAATTTTACAGA-CTAGGGTATTTTGGTAATTTTACTGATCGA-
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTA-TAAACCAG
** * *
17790626 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAA
17790676 NAATAGTAAT
Statistics
Matches: 209, Mismatches: 47, Indels: 21
0.75 0.17 0.08
Matches are distributed among these distances:
53 84 0.40
54 76 0.36
55 10 0.05
56 35 0.17
57 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAG
Found at i:17790670 original size:80 final size:80
Alignment explanation
Indices: 17790329--17790670 Score: 275
Period size: 80 Copynumber: 4.2 Consensus size: 80
17790319 TACCTAATAG
* * ** * * * * * * **
17790329 GGGTATTTTAGTCATTTCACCCTACAAGGGTGTTTTGGTAAATCTACAAACCAGGGTTATTTCAG
1 GGGTATTTTAGTAATTTTA-CAGACAAGGGTATTTTGGTAATTTTACTAATCAGGGGTATTTTGG
*
17790394 TAATTTTGTAAACCAA
65 TAATTTTATAAACCAA
* *
17790410 AGGTATTTCTA-TAATTTT-CAGAAAGTCAAGGGTATTTCT-GTAATTTT-GTAAATCAGGGGTA
1 GGGTATTT-TAGTAATTTTACAG--A--CAAGGGTATTT-TGGTAATTTTACT-AATCAGGGGTA
* ***
17790471 TTTTGGTAATTTTACAAATTGA
59 TTTTGGTAATTTTATAAACCAA
** * * *
17790493 GGGTATTTCGGTAATTTCACA-ACCAGTGGTATTTTGGTAATTTTAC-AAACTAGGGGTATTTTG
1 GGGTATTTTAGTAATTTTACAGACAAG-GGTATTTTGGTAATTTTACTAATC-AGGGGTATTTTG
*
17790556 GTAATTTTATAAACCAG
64 GTAATTTTATAAACCAA
* * *
17790573 GGGTATTTTAGCAATTTTACAGACTAGGGTATTTTGGTAATTTTACTGATC-GAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAGACAAGGGTATTTTGGTAATTTTACTAATCAG-GGGTATTTTGG
*
17790637 TAATTTTGTAAACCAA
65 TAATTTTATAAACCAA
17790653 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
17790671 GTAAANAATA
Statistics
Matches: 204, Mismatches: 41, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
79 9 0.04
80 117 0.57
81 20 0.10
82 2 0.01
83 53 0.26
84 3 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (80 bp):
GGGTATTTTAGTAATTTTACAGACAAGGGTATTTTGGTAATTTTACTAATCAGGGGTATTTTGGT
AATTTTATAAACCAA
Found at i:17790713 original size:27 final size:27
Alignment explanation
Indices: 17790681--17790783 Score: 143
Period size: 27 Copynumber: 3.8 Consensus size: 27
17790671 GTAAANAATA
* *
17790681 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
17790708 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
17790735 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
17790762 GTAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
17790784 CTTTGGTAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:17795204 original size:40 final size:40
Alignment explanation
Indices: 17795121--17795383 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
17795111 TTGAATGCTG
* * * * * *
17795121 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
17795161 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
17795201 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
17795241 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
17795281 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
17795321 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
17795360 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17795384 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:17795403 original size:79 final size:80
Alignment explanation
Indices: 17795160--17795418 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
17795150 AAGTGAATAT
* * * * * *
17795160 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
17795224 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
17795240 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
17795305 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
17795320 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
17795384 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
17795399 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
17795419 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:17803312 original size:39 final size:40
Alignment explanation
Indices: 17803108--17803330 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
17803098 TTGAATGCTG
* * * * * *
17803108 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * *
17803148 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
17803188 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
17803228 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
17803268 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
17803307 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17803331 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 119 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:17803350 original size:79 final size:80
Alignment explanation
Indices: 17803184--17803365 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 80
17803174 TGCGAGATAT
* * *
17803184 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
** ** *
17803249 ATTCGTGCGAGTTGT
66 ATTCGAACGAGGAGC
* * *
17803264 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
*
17803328 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
* *
17803343 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
17803366 TACGTGATTT
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:17807146 original size:47 final size:47
Alignment explanation
Indices: 17807076--17807208 Score: 162
Period size: 47 Copynumber: 2.8 Consensus size: 47
17807066 CACCATATTA
*
17807076 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGTA-ATGAT
1 ATGTGTGCTTGTGTAAGACCATGTCTGGGACATGGCATCG-ACATGAT
* * *
17807123 ATGTGTGCTTGTGTAAAAACATGTCTGGGACATGGCATTGACTATGAT
1 ATGTGTGCTTGTGTAAGACCATGTCTGGGACATGGCATCGAC-ATGAT
* * *
17807171 ATGTG-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 ATGTGTGCTT-GTGTAAGACCATGTCTGGGACATGGCAT
17807209 TGGTACTTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.01
47 39 0.53
48 34 0.46
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGTGCTTGTGTAAGACCATGTCTGGGACATGGCATCGACATGAT
Found at i:17807194 original size:48 final size:47
Alignment explanation
Indices: 17807087--17807210 Score: 153
Period size: 48 Copynumber: 2.6 Consensus size: 47
17807077 TGTGTGCCTG
* * *
17807087 TGTAAGACCATGTCTGGGACATGGCATCGTAATGATATGTGTGCTTG
1 TGTAAGACCATGTCTGGGACATGGCATTGTAATGATATGTGTGATTA
* *
17807134 TGTAAAAACATGTCTGGGACATGGCATTG-ACTATGATATGTG-GATTCA
1 TGTAAGACCATGTCTGGGACATGGCATTGTA--ATGATATGTGTGATT-A
*
17807182 TGTAAGACCATGTCGGGGACATGGCATTG
1 TGTAAGACCATGTCTGGGACATGGCATTG
17807211 GTACTTTATT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.02
47 29 0.44
48 36 0.55
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATTGTAATGATATGTGTGATTA
Found at i:17810969 original size:39 final size:39
Alignment explanation
Indices: 17810926--17811005 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
17810916 CGAAGACCTC
17810926 ATCACACTATCAAGCTATCACTTTGGTACTTTTGAATCT
1 ATCACACTATCAAGCTATCACTTTGGTACTTTTGAATCT
*
17810965 ATCACACTATCAAGCTATCAGTTTGGTACTTTTGAATCT
1 ATCACACTATCAAGCTATCACTTTGGTACTTTTGAATCT
17811004 AT
1 AT
17811006 GTATTTTGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (39 bp):
ATCACACTATCAAGCTATCACTTTGGTACTTTTGAATCT
Found at i:17830511 original size:13 final size:15
Alignment explanation
Indices: 17830475--17830514 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
17830465 ACTTATTGCC
17830475 TATTTTTTA-TACTA
1 TATTTTTTATTACTA
17830489 TATATTTTTATTA-T-
1 TAT-TTTTTATTACTA
17830503 TATTTTTTATTA
1 TATTTTTTATTA
17830515 ATTAACCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.38
14 6 0.25
15 7 0.29
16 2 0.08
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTTATTACTA
Found at i:17840512 original size:43 final size:44
Alignment explanation
Indices: 17840434--17840598 Score: 153
Period size: 43 Copynumber: 3.8 Consensus size: 44
17840424 AGCCTGTACA
* * * * *
17840434 ATGCCAGC-GTCCCAGACGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
17840477 ATGCC-ACTGTCCCAGACAAGGTCATACACGAAATCATATA-CG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * * *
17840519 ATGCCTA-TGTCCCAGACATGGTTTTACACGTAGATCTCAA-GTCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACG-AAATC-AAATATCG
17840563 ATGCCAACT-TCCCAGACATGGTCTTACACGAAATCA
1 ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCA
17840599 CATGTTGGAA
Statistics
Matches: 97, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
42 27 0.28
43 40 0.41
44 29 0.30
45 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:17843127 original size:23 final size:23
Alignment explanation
Indices: 17843101--17843161 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
17843091 CAACTCATTG
17843101 GAGCTTACCATTTCAGCTAG-TA
1 GAGCTTACCATTTCAGCTAGATA
* *
17843123 TGAGCTTA--TTGTTCAGCTTGATA
1 -GAGCTTACCAT-TTCAGCTAGATA
17843146 GAGCTTACCATTTCAG
1 GAGCTTACCATTTCAG
17843162 TTCAATAGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 1 0.03
22 15 0.48
23 14 0.45
24 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (23 bp):
GAGCTTACCATTTCAGCTAGATA
Found at i:17843367 original size:20 final size:20
Alignment explanation
Indices: 17843338--17843377 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17843328 AATAAGGTAT
*
17843338 GTGTTTATATGGATGAATTA
1 GTGTTAATATGGATGAATTA
*
17843358 GTGTTAATATGGTTGAATTA
1 GTGTTAATATGGATGAATTA
17843378 CTATTATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (20 bp):
GTGTTAATATGGATGAATTA
Found at i:17860998 original size:11 final size:10
Alignment explanation
Indices: 17860960--17861008 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
17860950 GATTCAGTCG
*
17860960 AAAATT-ATC
1 AAAATTAATT
17860969 AAAATTAATT
1 AAAATTAATT
17860979 AAAATTTAATAT
1 AAAA-TTAAT-T
17860991 AAAATTAATT
1 AAAATTAATT
17861001 AAAATTAA
1 AAAATTAA
17861009 ACATATTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 6 0.17
10 15 0.42
11 10 0.28
12 5 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAATTAATT
Found at i:17879191 original size:40 final size:40
Alignment explanation
Indices: 17879147--17879408 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
17879137 GCTCCTCGTT
* *
17879147 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
17879187 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
17879227 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
17879266 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
17879305 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
17879344 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
17879385 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17879409 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:17901229 original size:8 final size:8
Alignment explanation
Indices: 17901216--17901244 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
17901206 GGTCGAAAAA
17901216 GGGCCAAT
1 GGGCCAAT
17901224 GGGCCAAT
1 GGGCCAAT
17901232 GGGCCAAT
1 GGGCCAAT
17901240 GGGCC
1 GGGCC
17901245 CACTTTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.41, T:0.10
Consensus pattern (8 bp):
GGGCCAAT
Found at i:17902778 original size:43 final size:43
Alignment explanation
Indices: 17902655--17902781 Score: 114
Period size: 43 Copynumber: 3.0 Consensus size: 43
17902645 AATAGGTCGT
* * *
17902655 ACAATACC-ATATCCCAGATATGGTCTTACATGTTATCACATA
1 ACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACATA
* * * * * * * * *
17902697 TCGATGCCACTATTCCAAACAGGGTCTTAC-CGAAAATCATATA
1 ACAATGCCAATATCCCAGACATGGTCTTACATG-TAATCACATA
*
17902740 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACAT
17902782 CTCTATAACC
Statistics
Matches: 60, Mismatches: 22, Indels: 5
0.69 0.25 0.06
Matches are distributed among these distances:
42 6 0.10
43 53 0.88
44 1 0.02
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.28
Consensus pattern (43 bp):
ACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACATA
Found at i:17921816 original size:29 final size:29
Alignment explanation
Indices: 17921775--17921856 Score: 114
Period size: 29 Copynumber: 2.9 Consensus size: 29
17921765 GACTGTAAAA
17921775 GTGATTGGGCCTAGTGGGCCATATAG-AT
1 GTGATTGGGCCTAGTGGGCCATATAGAAT
*
17921803 GTGATTTGGGCCTAATGGGCCATAT-GAAT
1 GTGA-TTGGGCCTAGTGGGCCATATAGAAT
* *
17921832 GAGATTGGGCCTAGTTGGCCATATA
1 GTGATTGGGCCTAGTGGGCCATATA
17921857 CAAGTATGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 23 0.49
29 24 0.51
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (29 bp):
GTGATTGGGCCTAGTGGGCCATATAGAAT
Found at i:17939188 original size:55 final size:53
Alignment explanation
Indices: 17939121--17939252 Score: 129
Period size: 53 Copynumber: 2.5 Consensus size: 53
17939111 GCAAGGAAAT
* * *
17939121 CATGAAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCC
1 CATGTAAGACCATGTCAAGACATGGCAATGAT-AACTAC-ATAAGGCAAAGATAC
* ** * * * * *
17939176 CATGTAAGACCATGCCAAGGTATGGCAATGGTGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAAGATAC
* *
17939229 CACGTAAGACCATTTCAAGACATG
1 CATGTAAGACCATGTCAAGACATG
17939253 AAAATGGTAA
Statistics
Matches: 61, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
53 32 0.52
54 3 0.05
55 26 0.43
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAAGATAC
Found at i:17939259 original size:53 final size:53
Alignment explanation
Indices: 17939161--17939265 Score: 120
Period size: 53 Copynumber: 2.0 Consensus size: 53
17939151 ATAAACTACT
* * ** ** *
17939161 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGTATGGCAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTTC
* **
17939214 ATAAGGCAAGGATACCACGTAAGACCATTTCAAGACATGAAAATGGTAAGTT
1 ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTT
17939266 TAAAAAGGAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTTC
Found at i:17949950 original size:40 final size:40
Alignment explanation
Indices: 17949869--17949970 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
17949859 CAACCAAGTA
* ** *
17949869 CCTTCGGGATTTAG-CCGGACATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGCTACTCGCACAAATG
17949908 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGCT-ACTCGCACAAATG
17949948 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
17949971 CATCCGAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
39 14 0.25
40 43 0.75
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGCTACTCGCACAAATG
Found at i:17954860 original size:48 final size:48
Alignment explanation
Indices: 17954705--17954852 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
17954695 ATATATACAC
* **
17954705 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
**
17954753 GGCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* * *
17954801 ATCTCATACATATTTTACATGAGCCATTCAGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
17954849 ATCT
1 ATCT
17954853 TGTACATAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:17958474 original size:77 final size:77
Alignment explanation
Indices: 17958338--17958500 Score: 299
Period size: 77 Copynumber: 2.1 Consensus size: 77
17958328 CGGCCATGGT
* *
17958338 ATATCCATAAGTATGATTTATGCTTGTTATGTTACTCATGGTTAAAATGATTCGGCTATGCTTCA
1 ATATACATGAGTATGATTTATGCTTGTTATGTTACTCATGGTTAAAATGATTCGGCTATGCTTCA
17958403 TGTAAAAATAAA
66 TGTAAAAATAAA
*
17958415 ATATACATGAGTATGATTTATGCTTGTTATGTTACTCATGGTTAAAATGATTCGGCTATGCTTTA
1 ATATACATGAGTATGATTTATGCTTGTTATGTTACTCATGGTTAAAATGATTCGGCTATGCTTCA
17958480 TGTAAAAATAAA
66 TGTAAAAATAAA
17958492 ATATACATG
1 ATATACATG
17958501 TGAATTCGGA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 83 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (77 bp):
ATATACATGAGTATGATTTATGCTTGTTATGTTACTCATGGTTAAAATGATTCGGCTATGCTTCA
TGTAAAAATAAA
Found at i:17959485 original size:40 final size:40
Alignment explanation
Indices: 17959380--17959530 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
17959370 TGGATGAAAA
* * * **
17959380 CCGGGCTAAGTCCCGAAGGC-ATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCAAT-TGTGCGAGTTACTAAAT
* *
17959420 CTGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAT
*
17959459 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AAAT
* * *
17959499 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGT
17959531 AGCTATATCC
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
39 30 0.32
40 63 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAT
Found at i:17965627 original size:15 final size:16
Alignment explanation
Indices: 17965609--17965638 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17965599 TAATTTAATA
17965609 TTATAT-CAATTAAAT
1 TTATATACAATTAAAT
17965624 TTATATACAATTAAA
1 TTATATACAATTAAA
17965639 GGAAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TTATATACAATTAAAT
Found at i:17967194 original size:13 final size:13
Alignment explanation
Indices: 17967178--17967212 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
17967168 TGCTGTGGAA
17967178 AAGTACTTTTAAG
1 AAGTACTTTTAAG
*
17967191 AAGTACTTTTGAG
1 AAGTACTTTTAAG
*
17967204 AAGTGCTTT
1 AAGTACTTT
17967213 AGAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (13 bp):
AAGTACTTTTAAG
Found at i:17972812 original size:30 final size:30
Alignment explanation
Indices: 17972778--17972851 Score: 130
Period size: 30 Copynumber: 2.5 Consensus size: 30
17972768 ACCTAAGGGT
17972778 AAAATGGTCATTTTGCAAAAGTCTAGGAGC
1 AAAATGGTCATTTTGCAAAAGTCTAGGAGC
* *
17972808 AAAATGTTCATTTTGCAAAAGTCTAGGGGC
1 AAAATGGTCATTTTGCAAAAGTCTAGGAGC
17972838 AAAATGGTCATTTT
1 AAAATGGTCATTTT
17972852 TCCCAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (30 bp):
AAAATGGTCATTTTGCAAAAGTCTAGGAGC
Found at i:17976353 original size:48 final size:48
Alignment explanation
Indices: 17976289--17976436 Score: 215
Period size: 48 Copynumber: 3.1 Consensus size: 48
17976279 TTGATGTACA
* * *
17976289 AGATATATATATGTGGTAAAGCTGAATGGCTCATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
17976337 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** ** * *
17976385 AGCCATGCATATGTGGTAAAGCCAAATGGTTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
17976433 AGAT
1 AGAT
17976437 GTGTATATAT
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 89 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.31
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:17980671 original size:40 final size:40
Alignment explanation
Indices: 17980615--17980879 Score: 383
Period size: 40 Copynumber: 6.6 Consensus size: 40
17980605 TATTCGGATG
*
17980615 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
17980655 ATATCCGGGCTCAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
17980695 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
17980735 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
17980778 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
17980818 ATATCCGGGCTAAGACCCGACGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
17980858 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
17980880 TACTTGGGTT
Statistics
Matches: 205, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 15 0.07
40 151 0.74
41 2 0.01
43 35 0.17
44 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:17980831 original size:123 final size:120
Alignment explanation
Indices: 17980615--17980879 Score: 383
Period size: 123 Copynumber: 2.2 Consensus size: 120
17980605 TATTCGGATG
* * *
17980615 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACTATATCCGGGCTCAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATACCCGGGCTAAGTCCCGAAGGCA
* * *
17980680 TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
66 TTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
*
17980735 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CTATACCCGGGCTAAGTCCCGAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACTATACCCGGGCTAAGTCCCGAA
*
17980799 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGACGGCATGTGTGCGAGTTGCT
62 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTGCT
*
17980858 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
17980880 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
120 30 0.23
122 14 0.11
123 82 0.63
124 4 0.03
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (120 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATACCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTGCT
Found at i:17988322 original size:40 final size:40
Alignment explanation
Indices: 17988267--17988491 Score: 321
Period size: 40 Copynumber: 5.6 Consensus size: 40
17988257 TATTCGGATG
*
17988267 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
17988307 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
17988347 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
17988390 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
17988430 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
17988470 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
17988492 TACTTGGGTT
Statistics
Matches: 169, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
39 16 0.09
40 114 0.67
41 2 0.01
43 35 0.21
44 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:17988424 original size:83 final size:81
Alignment explanation
Indices: 17988267--17988491 Score: 341
Period size: 83 Copynumber: 2.8 Consensus size: 81
17988257 TATTCGGATG
*
17988267 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAG-TGACCATATCCGGGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTG-CTATATCCGGGCTAAGTCCCGAAGG
17988330 CATTTGTGCTAGTGACT
65 CATTTGTGCTAGTGACT
* *
17988347 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--GTAGTTGCTATATCCGGGCTAAGTCCCGAAG
17988412 GCATTTGTGCTAGTGACT
64 GCATTTGTGCTAGTGACT
* * *
17988430 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCG-AGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATATCCGGGCTAAGTCCCGAAGG
17988492 TACTTGGGTT
Statistics
Matches: 133, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
79 15 0.11
80 43 0.32
81 1 0.01
83 72 0.54
84 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCTAGTGACT
Found at i:17994694 original size:46 final size:45
Alignment explanation
Indices: 17994638--17994811 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
17994628 ATGTTTGTGT
*
17994638 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCATGTTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG-GCATGTTATGAGA
* * *
17994684 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAAGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-TGTTATGAGA
* * *
17994732 GGTAGTGTAAGACATGTCTGGGACATGCATCGGGC-TCTTGATCTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCATGTT-AT-GAGA
*
17994778 GCTAGTGTAAGACATGTCTAGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
17994812 TACAAGATGT
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
45 5 0.05
46 47 0.43
47 34 0.31
48 24 0.22
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATGTTATGAGA
Found at i:17994943 original size:47 final size:49
Alignment explanation
Indices: 17994830--17994952 Score: 180
Period size: 47 Copynumber: 2.5 Consensus size: 49
17994820 GTGTCAGTAC
*
17994830 AAGACCATGTTTGGGACATGGCATCAGCACGGATACGTGGGAGTCAGTGT
1 AAGACCATGTTTGGGACATGGCATC-GCACGGATACGTGGGAGCCAGTGT
**
17994880 AAGACCATGTTTGGGACATGGCATCG-ACTTA-ACG-GGAGAGCCAGTGT
1 AAGACCATGTTTGGGACATGGCATCGCACGGATACGTGG-GAGCCAGTGT
17994927 AAGACCATGTTTGGGACATGGCATCG
1 AAGACCATGTTTGGGACATGGCATCG
17994953 GCATTATACC
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
46 2 0.03
47 38 0.55
48 3 0.04
49 1 0.01
50 25 0.36
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.22
Consensus pattern (49 bp):
AAGACCATGTTTGGGACATGGCATCGCACGGATACGTGGGAGCCAGTGT
Found at i:17997148 original size:154 final size:154
Alignment explanation
Indices: 17996868--17997178 Score: 586
Period size: 154 Copynumber: 2.0 Consensus size: 154
17996858 GTTCTTGATA
* *
17996868 GATGAATTGGTTTCCATCTTCTGATATCAATTTTTGACTGAATAATATGTCCCACCCATTACATG
1 GATGAATTGGTTTCCATCGTCTGATATCAATTTTCGACTGAATAATATGTCCCACCCATTACATG
*
17996933 CAGAGCACAGAAAGATAATGTGATAAAGGGCATCCCTGACGAATACCTCTGACCGGTTTAAACTT
66 CAGAGCACAGAAAGATAAGGTGATAAAGGGCATCCCTGACGAATACCTCTGACCGGTTTAAACTT
17996998 CTGAGTGGGAACGACACTCCAGAT
131 CTGAGTGGGAACGACACTCCAGAT
17997022 GATGAATTGGTTTCCATCGTCTGATATCAATTTTCGACTGAATAATATGTCCCACCCATTACATG
1 GATGAATTGGTTTCCATCGTCTGATATCAATTTTCGACTGAATAATATGTCCCACCCATTACATG
*
17997087 TAGAGCACAGAAAGATAAGGTGATAAAGGGCATCCCTGACGAATACCTCTGACCGGTTTAAACTT
66 CAGAGCACAGAAAGATAAGGTGATAAAGGGCATCCCTGACGAATACCTCTGACCGGTTTAAACTT
17997152 CTGAGTGGGAACGACACTCCAGAT
131 CTGAGTGGGAACGACACTCCAGAT
17997176 GAT
1 GAT
17997179 TTGCATAAAA
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 153 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (154 bp):
GATGAATTGGTTTCCATCGTCTGATATCAATTTTCGACTGAATAATATGTCCCACCCATTACATG
CAGAGCACAGAAAGATAAGGTGATAAAGGGCATCCCTGACGAATACCTCTGACCGGTTTAAACTT
CTGAGTGGGAACGACACTCCAGAT
Found at i:17997988 original size:17 final size:17
Alignment explanation
Indices: 17997954--17997987 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17997944 GGCGCAACTT
17997954 ATTTTTTTAATATTAAA
1 ATTTTTTTAATATTAAA
*
17997971 ATTTTTTTCAT-TTAAA
1 ATTTTTTTAATATTAAA
17997987 A
1 A
17997988 AATTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTTTTAATATTAAA
Found at i:17998098 original size:27 final size:27
Alignment explanation
Indices: 17998060--17998117 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
17998050 ATACATACAT
* *
17998060 GTTGCGCCTATCTGACAGGCTCAACTA
1 GTTGAGCCTATCTGACAGGCGCAACTA
* *
17998087 GTTGAGCCTATCTGATAGGCGCGACTA
1 GTTGAGCCTATCTGACAGGCGCAACTA
17998114 GTTG
1 GTTG
17998118 TACCTTCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (27 bp):
GTTGAGCCTATCTGACAGGCGCAACTA
Found at i:18002524 original size:40 final size:41
Alignment explanation
Indices: 18002428--18002532 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
18002418 TGAATGATGT
*
18002428 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
18002468 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
18002508 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18002533 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:18007278 original size:33 final size:33
Alignment explanation
Indices: 18007231--18007348 Score: 123
Period size: 33 Copynumber: 3.6 Consensus size: 33
18007221 ATGAACTTGA
* * *
18007231 GCCGAGAGGAGTAGAATACGGTGGTGGATACGG
1 GCCGGGAGGAGTAGAGTACGATGGTGGATACGG
* *
18007264 GCCGGGAGGAGTAGAGTATGACGGTGGATAC-G
1 GCCGGGAGGAGTAGAGTACGATGGTGGATACGG
* *
18007296 GCTCTGGAGGAGTTGAGTAC-ATGGGTGGATACGG
1 GC-CGGGAGGAGTAGAGTACGAT-GGTGGATACGG
* *
18007330 GCCGGAAGGAGTGGAGTAC
1 GCCGGGAGGAGTAGAGTAC
18007349 TGAGATAAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
32 4 0.06
33 63 0.90
34 3 0.04
ACGTcount: A:0.25, C:0.13, G:0.46, T:0.17
Consensus pattern (33 bp):
GCCGGGAGGAGTAGAGTACGATGGTGGATACGG
Found at i:18009416 original size:15 final size:16
Alignment explanation
Indices: 18009396--18009427 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18009386 ATAAATAATA
18009396 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
18009411 ATATAAAAATTACATT
1 ATATAAAAATTACATT
18009427 A
1 A
18009428 AAAATCACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:18009563 original size:111 final size:109
Alignment explanation
Indices: 18009427--18010004 Score: 564
Period size: 116 Copynumber: 5.3 Consensus size: 109
18009417 AAATTACATT
* * * *
18009427 AAAAATCACAA-ATCAC-AAAACACTAAACTA-TAAACACTAACAATTTA-GAATCATAAATTAC
1 AAAAATCACAATA-CACTAATACACTAAACCACTAAACACTAACAATTTACTAATCTTAAATTAC
* * *
18009488 TAACACAAAATAACTATAAAATTATTTTTTTAAAATACATTACT-AA
65 T-A-ATAAAATAGCTATAAAATTATTTTTTTAAAATATATTACTAAA
*
18009534 ATAAA--A-AAT-CA-TAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAA
1 AAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAA--T-T-T-A-CTAATCTTAA
18009594 ATTACTAATAAAATAGCTAT-AAA-T-TTTTTTT-AAATATATTACTAAA
60 ATTACTAATAAAATAGCTATAAAATTATTTTTTTAAAATATATTACTAAA
18009640 AAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAA
1 AAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAA--T-T-T-A-CTAATCTTAA
* *
18009705 ATTACTAATAAAATAGCTATAAAAATATATTTTTTAAATTATATTACTAAA
60 ATTACTAATAAAATAGCTATAAAATTAT-TTTTTTAAAATATATTACTAAA
*
18009756 AAAAATCACAATACACTAATACACAAAACCACTAAACACTAACAATTTATATAACCTAATCTTAA
1 AAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAA--T-T-T-A-CTAATCTTAA
* *
18009821 ATTACAAATAAAATAGCTATAAAATTATTTTTTAGAAAATATATTACT-AA
60 ATTACTAATAAAATAGCTATAAAATTATTTTTT-TAAAATATATTACTAAA
* * *
18009871 AAAAATCACAATATACTAATACACTAAACTACTAAACACTAACAATTTA-T-A---T-AA--CCT
1 AAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAATTTACTAATCTTAAATTACT
* *
18009928 AAT--CA-A-CTATAAAATTATTTTTTTAAAAATATATTATTACTAA
66 AATAAAATAGCTATAAAATTATTTTTTT-AAAATATATTACTA--AA
18009971 AAAAATCACAATACACTAATACACTAAA-CACTAA
1 AAAAATCACAATACACTAATACACTAAACCACTAA
18010005 CAATTTGTAA
Statistics
Matches: 420, Mismatches: 25, Indels: 60
0.83 0.05 0.12
Matches are distributed among these distances:
97 29 0.07
98 1 0.00
99 6 0.01
100 29 0.07
101 4 0.01
103 16 0.04
104 16 0.04
105 12 0.03
106 14 0.03
107 7 0.02
108 6 0.01
109 15 0.04
110 4 0.01
111 83 0.20
112 4 0.01
113 2 0.00
114 1 0.00
115 55 0.13
116 116 0.28
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.31
Consensus pattern (109 bp):
AAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAATTTACTAATCTTAAATTACT
AATAAAATAGCTATAAAATTATTTTTTTAAAATATATTACTAAA
Found at i:18009809 original size:227 final size:224
Alignment explanation
Indices: 18009475--18009932 Score: 692
Period size: 227 Copynumber: 2.0 Consensus size: 224
18009465 AACAATTTAG
* *
18009475 AATCATAAATTACTAACACAAAATAACTATAAAATTATTTTTTTAAAATACATTACTAAATAAAA
1 AATCATAAATTACTAACACAAAATAACTATAAAAATATTTTTTTAAAATACATTACTAAAAAAAA
* *
18009540 AATCATAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAA
66 AATCATAATACACAAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACAAATAA
18009605 AATAGCTAT-AAATT-TTTTTT-AAATATATTACTAAAAAAAATCACAATACACTAATACACTAA
131 AATAGCTATAAAATTATTTTTTAAAATATATTACT-AAAAAAATCACAATACACTAATACACTAA
18009667 ACCACTAAACACTAACAATTTATATAACCT
195 ACCACTAAACACTAACAATTTATATAACCT
* * * * *
18009697 AATCTTAAATTACT-A-ATAAAATAGCTATAAAAATATATTTTTTAAATTATATTACTAAAAAAA
1 AATCATAAATTACTAACACAAAATAACTATAAAAATAT-TTTTTTAAAATACATTACT-AAAAAA
18009760 ATCACAATACACTAATACACAAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTA
64 A--A-AAT-CA-TAATACACAAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTA
*
18009825 CAAATAAAATAGCTATAAAATTATTTTTTAGAAAATATATTACTAAAAAAATCACAATATACTAA
124 CAAATAAAATAGCTATAAAATTATTTTTT--AAAATATATTACTAAAAAAATCACAATACACTAA
*
18009890 TACACTAAACTACTAAACACTAACAATTTATATAACCT
187 TACACTAAACCACTAAACACTAACAATTTATATAACCT
18009928 AATCA
1 AATCA
18009933 ACTATAAAAT
Statistics
Matches: 212, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
220 18 0.08
221 18 0.08
222 19 0.09
224 1 0.00
225 3 0.01
226 2 0.01
227 67 0.32
228 5 0.02
229 6 0.03
231 61 0.29
232 12 0.06
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (224 bp):
AATCATAAATTACTAACACAAAATAACTATAAAAATATTTTTTTAAAATACATTACTAAAAAAAA
AATCATAATACACAAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACAAATAA
AATAGCTATAAAATTATTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAA
CCACTAAACACTAACAATTTATATAACCT
Found at i:18009810 original size:116 final size:112
Alignment explanation
Indices: 18009475--18009931 Score: 667
Period size: 116 Copynumber: 4.0 Consensus size: 112
18009465 AACAATTTAG
* * * * *
18009475 AATCATAAATTACTAACACAAAATAACTATAAAATTATTTTTTTAAAATACATTACTAAATAAA-
1 AATCTTAAATTACT-A-ATAAAATAGCTATAAAA-T-TTTTTTTAAAATATATTACTAAAAAAAT
18009539 -A-AAT-CA-TAATACACTAAACCACTAAACACTAACAATTTATATAACCT
62 CACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCT
18009586 AATCTTAAATTACTAATAAAATAGCTAT-AAATTTTTTTT-AAATATATTACTAAAAAAAATCAC
1 AATCTTAAATTACTAATAAAATAGCTATAAAATTTTTTTTAAAATATATTACT-AAAAAAATCAC
18009649 AATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCT
65 AATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCT
*
18009697 AATCTTAAATTACTAATAAAATAGCTATAAAAATATATTTTTTAAATTATATTACTAAAAAAAAT
1 AATCTTAAATTACTAATAAAATAGCTAT-AAAAT-T-TTTTTTAAAATATATTACT-AAAAAAAT
*
18009762 CACAATACACTAATACACAAAACCACTAAACACTAACAATTTATATAACCT
62 CACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCT
*
18009813 AATCTTAAATTACAAATAAAATAGCTATAAAATTATTTTTTAGAAAATATATTACTAAAAAAATC
1 AATCTTAAATTACTAATAAAATAGCTATAAAATT-TTTTTT--AAAATATATTACTAAAAAAATC
* *
18009878 ACAATATACTAATACACTAAACTACTAAACACTAACAATTTATATAACCT
63 ACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCT
18009928 AATC
1 AATC
18009932 AACTATAAAA
Statistics
Matches: 321, Mismatches: 12, Indels: 22
0.90 0.03 0.06
Matches are distributed among these distances:
105 11 0.03
106 13 0.04
107 1 0.00
108 4 0.01
109 14 0.04
110 3 0.01
111 82 0.26
113 4 0.01
114 9 0.03
115 71 0.22
116 109 0.34
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.32
Consensus pattern (112 bp):
AATCTTAAATTACTAATAAAATAGCTATAAAATTTTTTTTAAAATATATTACTAAAAAAATCACA
ATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCT
Found at i:18010195 original size:3 final size:3
Alignment explanation
Indices: 18010189--18010229 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
18010179 CTTTTTTTTT
*
18010189 TTC TTC TTC TTC TTC TTC TTCC TTC TTC TTC TTC TCC TTC T
1 TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC T
18010230 CCTTTCTCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:18010215 original size:19 final size:19
Alignment explanation
Indices: 18010191--18010228 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18010181 TTTTTTTTTT
*
18010191 CTTCTTCTTCTTCTTCTTC
1 CTTCTTCTTCTTCTCCTTC
18010210 CTTCTTCTTCTTCTCCTTC
1 CTTCTTCTTCTTCTCCTTC
18010229 TCCTTTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (19 bp):
CTTCTTCTTCTTCTCCTTC
Found at i:18010236 original size:19 final size:22
Alignment explanation
Indices: 18010189--18010233 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
18010179 CTTTTTTTTT
*
18010189 TTCTTCTTCTTCTTCTTCTTCC
1 TTCTTCTTCTTCTCCTTCTTCC
18010211 TTCTTCTTCTTCTCCTTC-TCC
1 TTCTTCTTCTTCTCCTTCTTCC
18010232 TT
1 TT
18010234 TCTCTCCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (22 bp):
TTCTTCTTCTTCTCCTTCTTCC
Found at i:18011045 original size:24 final size:24
Alignment explanation
Indices: 18011004--18011075 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
18010994 CCACGTGGCA
**
18011004 ATTAAATTTTTTTTAAAATAAAAAT
1 ATTAAA-TTTTTAAAAAATAAAAAT
* *
18011029 ATTAAATTTTTAAAAAATTATAAT
1 ATTAAATTTTTAAAAAATAAAAAT
* * *
18011053 ATTAAATATTTAAATATTAAAAA
1 ATTAAATTTTTAAAAAATAAAAA
18011076 ATACTATTGA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 32 0.84
25 6 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTAAATTTTTAAAAAATAAAAAT
Found at i:18018229 original size:15 final size:15
Alignment explanation
Indices: 18018173--18018237 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
18018163 TAAAGATAAC
*
18018173 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
18018187 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
18018202 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
18018217 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
18018232 AAGAAA
1 AAGAAA
18018238 ACCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:18026303 original size:16 final size:17
Alignment explanation
Indices: 18026282--18026320 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
18026272 ACTGTAACGC
18026282 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCGAAAT
*
18026298 CCCAAAAATCTCGAAAT
1 CCCAAAAATCCCGAAAT
18026315 CCCAAA
1 CCCAAA
18026321 CTTTCTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.49, C:0.36, G:0.05, T:0.10
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:18027858 original size:29 final size:29
Alignment explanation
Indices: 18027813--18027930 Score: 116
Period size: 29 Copynumber: 4.1 Consensus size: 29
18027803 GTGAGCATGT
*
18027813 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
18027841 ATATGAATGTGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* ** *
18027870 ATAAGAATATGAACAGGGCC-AGATAGGCC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * *
18027899 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
18027927 ATAT
1 ATAT
18027931 CATGTATGTA
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
28 19 0.27
29 51 0.73
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:18035208 original size:47 final size:50
Alignment explanation
Indices: 18035124--18035406 Score: 201
Period size: 46 Copynumber: 6.0 Consensus size: 50
18035114 CAAACATAGG
* * * *
18035124 GTAT-AATGCCGATGCCATGCCCCATACATGGTTTTACACTGGCTCTCAC
1 GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCAC
* *
18035173 GT-T-AA-GTCC-ATGCCATATCCCAGACATGGTCTTACACTGACTCTCAC
1 GTATCAATG-CCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCAC
* *
18035220 GTATCTATGCCGATGCCATGTTCCAAACATGGTCTTACACTGA----CAC
1 GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCAC
* * *
18035266 --ATCATGTGGCCAATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-AC
1 GTATCA-AT-GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCAC
* * * * *
18035312 ATCTCGAGGCCGATG-CATGTCCCAGACAT-GTCTTACACT-AGCTCTC-C
1 GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGA-CTCTCAC
* * * * *
18035359 -TCTCAATGCTGATGCCATGTCCCAAACATGCTCTTACAGTGGCTCTCA
1 GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCA
18035407 TAATGTGGCC
Statistics
Matches: 187, Mismatches: 28, Indels: 38
0.74 0.11 0.15
Matches are distributed among these distances:
44 14 0.07
45 14 0.07
46 53 0.28
47 51 0.27
48 21 0.11
49 5 0.03
50 29 0.16
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (50 bp):
GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCAC
Found at i:18035330 original size:46 final size:45
Alignment explanation
Indices: 18035131--18035444 Score: 199
Period size: 46 Copynumber: 6.7 Consensus size: 45
18035121 AGGGTATAAT
* * * *
18035131 GCCGATGCCATGCCCCATACATGGTTTTACACTGGCTCTCA-CGTTAAG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATC--TGAG
* * * * *
18035179 TCC-ATGCCATATCCCAGACATGGTCTTACACTGACTCTCACGTATCT-AT
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCT--C--ATCTGAG
* * * *
18035228 GCCGATGCCATGTTCCAAACATGGTCTTACACT-G-ACACATCATGTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATC-TGAG
*
18035274 GCCAATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATCT-GAG
* * * * *
18035320 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCCTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCT-GAG
* * * *
18035366 GCTGATGCCATGTCCCAAACATGCTCTTACAGTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAAACATG-TCTTACACTGGCTCTCAT-CTGAG
*
18035414 GCCGATGCATGTCCCAAACATATCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
18035445 AGCACACAAA
Statistics
Matches: 211, Mismatches: 39, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
44 13 0.06
45 16 0.08
46 65 0.31
47 59 0.28
48 24 0.11
49 5 0.02
50 27 0.13
51 1 0.00
52 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTGAG
Found at i:18035422 original size:140 final size:141
Alignment explanation
Indices: 18035190--18035444 Score: 356
Period size: 140 Copynumber: 1.8 Consensus size: 141
18035180 CCATGCCATA
* * *
18035190 TCCCAGACATGGTCTTACACTGACTCTCACGTATCTATGCCGATGCCATGTTCCAAACATGGTCT
1 TCCCAGACATGGTCTTACACTGACTCTCACGTATCAATGCCGATGCCATGTCCCAAACATGCTCT
* *
18035255 TACACTGACACATCATGTGGCCAATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGAG
66 TACACTGACACATAATGTGGCCAATGCATGTCCCAAACATATCTTACACTGGCTTACATCTCGAG
18035320 GCCGATGCATG
131 GCCGATGCATG
* *
18035331 TCCCAGACAT-GTCTTACACT-AGCTCTC-C-TCTCAATGCTGATGCCATGTCCCAAACATGCTC
1 TCCCAGACATGGTCTTACACTGA-CTCTCACGTATCAATGCCGATGCCATGTCCCAAACATGCTC
* * * *
18035392 TTACAGTGGCTCTCATAATGTGGCCGATGCATGTCCCAAACATATCTTACACT
65 TTACACT-G-ACACATAATGTGGCCAATGCATGTCCCAAACATATCTTACACT
18035445 AGCACACAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
138 34 0.34
139 3 0.03
140 53 0.53
141 10 0.10
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (141 bp):
TCCCAGACATGGTCTTACACTGACTCTCACGTATCAATGCCGATGCCATGTCCCAAACATGCTCT
TACACTGACACATAATGTGGCCAATGCATGTCCCAAACATATCTTACACTGGCTTACATCTCGAG
GCCGATGCATG
Found at i:18036851 original size:21 final size:21
Alignment explanation
Indices: 18036826--18036866 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
18036816 CATTGATTTA
18036826 GTAAATTAGTTTATGAAATTC
1 GTAAATTAGTTTATGAAATTC
18036847 GTAAATTAGTTTATGAAATT
1 GTAAATTAGTTTATGAAATT
18036867 AGAATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTAGTTTATGAAATTC
Found at i:18037566 original size:39 final size:39
Alignment explanation
Indices: 18037512--18037642 Score: 192
Period size: 39 Copynumber: 3.4 Consensus size: 39
18037502 GCATGATATT
18037512 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
* *
18037551 TGGAAACATATCCGGACTTGAGGTCTGCAGGCTATGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
* * * *
18037590 TGGAAACATATCCGGACTTAAGGTCCGTAGGCTACCTAC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
18037629 TGG-AATATATCCGG
1 TGGAAACATATCCGG
18037643 GCCTAAAGTC
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 10 0.12
39 73 0.88
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
Found at i:18037659 original size:78 final size:78
Alignment explanation
Indices: 18037512--18037668 Score: 199
Period size: 78 Copynumber: 2.0 Consensus size: 78
18037502 GCATGATATT
* * * * * * *
18037512 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAACATATCCGGACTTGAGGTCT
1 TGGAAACATATCCGGACTTAAGGTCCGCAGGCTACCTACTGGAAACATATCCGGACCTAAAGTCC
18037577 GCAGGCTATGTGC
66 GCAGGCTATGTGC
* * *
18037590 TGGAAACATATCCGGACTTAAGGTCCGTAGGCTACCTACTGG-AATATATCCGGGCCTAAAGTCC
1 TGGAAACATATCCGGACTTAAGGTCCGCAGGCTACCTACTGGAAACATATCCGGACCTAAAGT-C
*
18037654 CGCAGGCTTTGTGC
65 CGCAGGCTATGTGC
18037668 T
1 T
18037669 AGTAACTGGA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
77 15 0.22
78 52 0.78
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (78 bp):
TGGAAACATATCCGGACTTAAGGTCCGCAGGCTACCTACTGGAAACATATCCGGACCTAAAGTCC
GCAGGCTATGTGC
Found at i:18039643 original size:11 final size:11
Alignment explanation
Indices: 18039603--18039635 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
18039593 AAATTCCCCC
*
18039603 AAAAATCTTCT
1 AAAAATCCTCT
18039614 AAAAATCCTCT
1 AAAAATCCTCT
18039625 AAAAATCCTCT
1 AAAAATCCTCT
18039636 CCAAATCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAATCCTCT
Found at i:18039726 original size:18 final size:18
Alignment explanation
Indices: 18039703--18039775 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
18039693 ATAACAAGTA
18039703 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
*
18039721 GGGTGATGGACGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
18039739 ACGGT-TTAGTAGGGT-GTGG
1 -GGGTGAT-GGA-GGTAGTGG
18039758 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
18039776 ATGGTTTACT
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.07
18 27 0.64
19 10 0.24
20 2 0.05
ACGTcount: A:0.16, C:0.03, G:0.56, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:18039767 original size:37 final size:37
Alignment explanation
Indices: 18039717--18039791 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
18039707 GATGGAGGTA
*
18039717 GTGGGGGTGATGGACGTAGTGGACGGTTTAGTAGGGT
1 GTGGGGGTGATGGACGTAGTGGACGGTTTACTAGGGT
* *
18039754 GTGGGGGTGATGGAGGTAGTGGATGGTTTACTAGGGT
1 GTGGGGGTGATGGACGTAGTGGACGGTTTACTAGGGT
18039791 G
1 G
18039792 ATAGAGTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.16, C:0.04, G:0.52, T:0.28
Consensus pattern (37 bp):
GTGGGGGTGATGGACGTAGTGGACGGTTTACTAGGGT
Found at i:18039819 original size:29 final size:29
Alignment explanation
Indices: 18039757--18039820 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
18039747 GTAGGGTGTG
*
18039757 GGGGTGATGGAGGTAGTGGATGGTTTACT
1 GGGGTGATAGAGGTAGTGGATGGTTTACT
* * *
18039786 AGGGTGATAGAGTTAGTGG-TCGGTTTAGT
1 GGGGTGATAGAGGTAGTGGAT-GGTTTACT
18039815 GGGGTG
1 GGGGTG
18039821 TTTAATTTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.17, C:0.03, G:0.48, T:0.31
Consensus pattern (29 bp):
GGGGTGATAGAGGTAGTGGATGGTTTACT
Found at i:18040260 original size:133 final size:133
Alignment explanation
Indices: 18040080--18040474 Score: 682
Period size: 133 Copynumber: 3.0 Consensus size: 133
18040070 ATATGGTATG
* *
18040080 TTTAGTCTGCTCCACTCTTGCTCAGTGAAGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCTGA
1 TTTAGACTGCTCCACTCCTGCTCAGTGAAGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCTGA
18040145 TACATGGAGATAAGATTAACCAAAATTTGATCTGCTCCGCTCCTACTCAGCGAAGATAAGATCTA
66 TACATGGAGATAAGATTAACCAAAATTTGATCTGCTCCGCTCCTACTCAGCGAAGATAAGATCTA
18040210 GTA
131 GTA
*
18040213 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCTGA
1 TTTAGACTGCTCCACTCCTGCTCAGTGAAGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCTGA
18040278 TACATGGAGATAAGATTAACCAAAATTTGATCTGCTCCGCTCCTACTCAGCGAAGATAAGATCTA
66 TACATGGAGATAAGATTAACCAAAATTTGATCTGCTCCGCTCCTACTCAGCGAAGATAAGATCTA
18040343 GTA
131 GTA
* * * * *
18040346 TTTAGATTGCTCCACTCCTGCTTAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGA
1 TTTAGACTGCTCCACTCCTGCTCAGTGAAGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCTGA
* * **
18040411 TACATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTTCTGTTCAGCGAAGATAAGATCT
66 TACATGGAGATAAGATTAACCAAAATTTGATCTGCTCCGCTCCTACTCAGCGAAGATAAGATCT
18040475 GTCGAAATTT
Statistics
Matches: 250, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 250 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (133 bp):
TTTAGACTGCTCCACTCCTGCTCAGTGAAGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCTGA
TACATGGAGATAAGATTAACCAAAATTTGATCTGCTCCGCTCCTACTCAGCGAAGATAAGATCTA
GTA
Found at i:18040364 original size:43 final size:44
Alignment explanation
Indices: 18040169--18040380 Score: 134
Period size: 43 Copynumber: 4.8 Consensus size: 44
18040159 ATTAACCAAA
*
18040169 ATTT-GATCTGCTCCGCTCCTACTCAGCGAAGATAAGATCTAGT
1 ATTTAGATCTGCTCCACTCCTACTCAGCGAAGATAAGATCTAGT
* * * * *
18040212 ATTTAG-CCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTTGT
1 ATTTAGATCTGCTCCACTCCTACTCAGCGAAGATAAGATCTAGT
** * * * * * **
18040254 GGCTGAAATCTGCTCCATTGCTGA-TACATG-G-AGATAAGATTAACCAAA
1 -ATTTAGATCTGCTCCACTCCT-ACT-CA-GCGAAGATAAGA-T--CTAGT
*
18040302 ATTT-GATCTGCTCCGCTCCTACTCAGCGAAGATAAGATCTAGT
1 ATTTAGATCTGCTCCACTCCTACTCAGCGAAGATAAGATCTAGT
* * *
18040345 ATTTAGAT-TGCTCCACTCCTGCTTAGTGAAGATAAG
1 ATTTAGATCTGCTCCACTCCTACTCAGCGAAGATAAG
18040381 GCTGGTGGCT
Statistics
Matches: 122, Mismatches: 33, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
42 4 0.03
43 62 0.51
44 24 0.20
45 8 0.07
46 22 0.18
47 1 0.01
48 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
ATTTAGATCTGCTCCACTCCTACTCAGCGAAGATAAGATCTAGT
Found at i:18041445 original size:24 final size:24
Alignment explanation
Indices: 18041418--18041490 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
18041408 TAGCCTTGGC
*
18041418 CTCTCCTTTGCTTTTCTTTTCTTT
1 CTCTCCTTTGCTTTTCTCTTCTTT
** *
18041442 CTCTTTTTTGTTTTTCTCTTCTTT
1 CTCTCCTTTGCTTTTCTCTTCTTT
*
18041466 -T-TCCTTTTCCTTTTTTCTCTTCTTT
1 CTCTCC-TTTGC--TTTTCTCTTCTTT
18041491 TTTTTTTGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
22 1 0.03
23 4 0.11
24 20 0.53
25 13 0.34
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (24 bp):
CTCTCCTTTGCTTTTCTCTTCTTT
Found at i:18041467 original size:12 final size:12
Alignment explanation
Indices: 18041452--18041493 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
18041442 CTCTTTTTTG
18041452 TTTTTCTCTTCT
1 TTTTTCTCTTCT
* *
18041464 TTTTCCTTTTCCT
1 TTTTTCTCTT-CT
18041477 TTTTTCTCTTCT
1 TTTTTCTCTTCT
18041489 TTTTT
1 TTTTT
18041494 TTTTGAAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTCTTCT
Found at i:18041492 original size:13 final size:13
Alignment explanation
Indices: 18041431--18041494 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
18041421 TCCTTTGCTT
18041431 TTCTTTTCTTTCTC
1 TTCTTTT-TTTCTC
*
18041445 TTTTTTGTTTTTCTC
1 -TTCTT-TTTTTCTC
* *
18041460 TTC-TTTTTCCTT
1 TTCTTTTTTTCTC
*
18041472 TTCCTTTTTTCTC
1 TTCTTTTTTTCTC
18041485 TTCTTTTTTT
1 TTCTTTTTTT
18041495 TTTGAAAGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
12 9 0.22
13 17 0.43
14 2 0.05
15 10 0.25
16 2 0.05
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.77
Consensus pattern (13 bp):
TTCTTTTTTTCTC
Found at i:18042694 original size:15 final size:14
Alignment explanation
Indices: 18042669--18042734 Score: 53
Period size: 14 Copynumber: 4.5 Consensus size: 14
18042659 CTTTCTTTTC
*
18042669 TTTTCTTTCT-CTT
1 TTTTCTTTTTCCTT
*
18042682 TTTTGTTTTTCTCCTCT
1 TTTT-CTTTT-TCCT-T
*
18042699 TTTTCCTTTTCCTT
1 TTTTCTTTTTCCTT
*
18042713 TTTTCTCTTTCCTT
1 TTTTCTTTTTCCTT
18042727 TTTCTCTT
1 TTT-TCTT
18042735 CTTTTTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
13 4 0.10
14 19 0.46
15 8 0.20
16 5 0.12
17 5 0.12
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTCTTTTTCCTT
Found at i:18042741 original size:13 final size:13
Alignment explanation
Indices: 18042660--18042742 Score: 53
Period size: 13 Copynumber: 6.2 Consensus size: 13
18042650 TGGCCTCTCC
*
18042660 TTTCTTTTCTTTT
1 TTTCTCTTCTTTT
18042673 CTTTCTCTT-TTTT
1 -TTTCTCTTCTTTT
* *
18042686 GTTTTTCTCCTCTTT
1 -TTTCTCTTCT-TTT
* * *
18042701 TTCCTTTTCCTTT
1 TTTCTCTTCTTTT
*
18042714 TTTCTCTT-TCCTT
1 TTTCTCTTCT-TTT
18042727 TTTCTCTTCTTTT
1 TTTCTCTTCTTTT
18042740 TTT
1 TTT
18042743 TTGAAAGTGA
Statistics
Matches: 51, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
13 34 0.67
14 14 0.27
15 3 0.06
ACGTcount: A:0.00, C:0.24, G:0.01, T:0.75
Consensus pattern (13 bp):
TTTCTCTTCTTTT
Found at i:18042742 original size:40 final size:41
Alignment explanation
Indices: 18042663--18042742 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 41
18042653 CCTCTCCTTT
* * *
18042663 CTTTTCTTTTCTTTCTCTTTTTTGTTTTTCTCCTCTTTTTC
1 CTTTTCCTTTCTTTCTCTTTCTTGTTTCTCTCCTCTTTTTC
* *
18042704 CTTTTCCTTT-TTTCTCTTTCCTT-TTTCTCTTCTTTTTTT
1 CTTTTCCTTTCTTTCTCTTT-CTTGTTTCTCTCCTCTTTTT
18042743 TTGAAAGTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
40 22 0.67
41 11 0.33
ACGTcount: A:0.00, C:0.25, G:0.01, T:0.74
Consensus pattern (41 bp):
CTTTTCCTTTCTTTCTCTTTCTTGTTTCTCTCCTCTTTTTC
Found at i:18045283 original size:27 final size:26
Alignment explanation
Indices: 18045253--18045323 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
18045243 CTTCACTTTC
*
18045253 AAAAAAAAAGAAGAGAAAAAG-GAAAG
1 AAAAAAAAAAAAGAGAAAAAGAG-AAG
*
18045279 AAAAAAAAGGAAAAG-GAAAAAGAGGAG
1 AAAAAAAA--AAAAGAGAAAAAGAGAAG
*
18045306 AAAAACAAAAAAGAGAAA
1 AAAAAAAAAAAAGAGAAA
18045324 GAAAAGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 5 0.13
26 12 0.32
27 16 0.42
28 5 0.13
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAAAGAGAAAAAGAGAAG
Found at i:18045333 original size:16 final size:15
Alignment explanation
Indices: 18045268--18045335 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
18045258 AAAAGAAGAG
18045268 AAAAAG-GAAAGAAA
1 AAAAAGAGAAAGAAA
18045282 AAAAAG-GAAAAGGAAA
1 AAAAAGAG-AAA-GAAA
* *
18045298 AAGAGGAGAAA-AACA
1 AAAAAGAGAAAGAA-A
18045313 AAAAAGAGAAAGAAA
1 AAAAAGAGAAAGAAA
18045328 AGAAAAGA
1 A-AAAAGA
18045336 AAGGAGAGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 9 0.20
15 15 0.34
16 19 0.43
17 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAAAGAGAAAGAAA
Found at i:18045338 original size:4 final size:5
Alignment explanation
Indices: 18045253--18045337 Score: 50
Period size: 5 Copynumber: 16.6 Consensus size: 5
18045243 CTTCACTTTC
* * *
18045253 AAAAA AAAAG AAGAG AAAAAG GAAAG AAAA- AAAAGG AAAAGG AAAAAG
1 AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAA-G AAAA-G -AAAAG
** *
18045301 AGGAG AAAA- ACAA- AAAAG AGAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAA
18045338 GGAGAGGCCA
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
4 10 0.16
5 33 0.52
6 16 0.25
7 4 0.06
ACGTcount: A:0.76, C:0.01, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:18047075 original size:268 final size:268
Alignment explanation
Indices: 18046584--18047081 Score: 791
Period size: 268 Copynumber: 1.9 Consensus size: 268
18046574 AAAATTATAG
*
18046584 ATTTCAGCCACAAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAATACTAGATCTTATCT
1 ATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCT
* *** *
18046649 TCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGCCAATGGAG
66 TCACTGAGCAAGAGAAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGCCAATGGAG
* * *
18046714 CAGATTTCAGCCACCAGCCTTATCTTTACTAAGCAGGAGTGGAGCAGGCTAAACATACTAGATCT
131 CAGATTTCAACCACCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCTAAACATACCAGATCT
* **
18046779 TATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAA
196 TATCTTCACTGAGCAGGAGCAAAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAA
18046844 TGGAGCAT
261 TGGAGCAT
* *
18046852 ATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATATACTAGATCTTATCT
1 ATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCT
*
18046917 TCACTGAGCAAGAGAAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAG
66 TCACTGAGCAAGAGAAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGCCAATGGAG
* * *
18046982 CAGATTAT-AATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATC
131 CAGATT-TCAACCACCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCTAAACATACCAGATC
* * *
18047046 TTATCTTTACTGAGTAGGAGTAAAGCAGATCAAATT
195 TTATCTTCACTGAGCAGGAGCAAAGCAGATCAAATT
18047082 ACAGTAGATC
Statistics
Matches: 208, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
268 207 1.00
269 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (268 bp):
ATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCT
TCACTGAGCAAGAGAAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGCCAATGGAG
CAGATTTCAACCACCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCTAAACATACCAGATCT
TATCTTCACTGAGCAGGAGCAAAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAA
TGGAGCAT
Found at i:18047117 original size:135 final size:134
Alignment explanation
Indices: 18046582--18047081 Score: 754
Period size: 135 Copynumber: 3.7 Consensus size: 134
18046572 TTAAAATTAT
* *
18046582 AGATTTCAGCCACAAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAA-ATACTAGATCTTA
1 AGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAACATACTAGATCTTA
** *
18046646 TCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGCCAATG
66 TCTTCACTGAGCAGGAGCAAAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATG
18046711 GAGC
131 GAGC
* *
18046715 AGATTTCAGCCACCAGCCTTATCTTTACTAAGCAGGAGTGGAGCAGGCTAAACATACTAGATCTT
1 AGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AACATACTAGATCTT
* **
18046780 ATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAAT
65 ATCTTCACTGAGCAGGAGCAAAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAAT
18046845 GGAGC
130 GGAGC
* *
18046850 ATATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-ATATACTAGATCTTA
1 AGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAACATACTAGATCTTA
* * *
18046914 TCTTCACTGAGCAAGAGAAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATG
66 TCTTCACTGAGCAGGAGCAAAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATG
18046979 GAGC
131 GAGC
** * *
18046983 AGATTAT-AATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCT
1 AGATT-TCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AACATACTAGATCT
* * *
18047047 TATCTTTACTGAGTAGGAGTAAAGCAGATCAAATT
64 TATCTTCACTGAGCAGGAGCAAAGCAGATCAAATT
18047082 ACAGTAGATC
Statistics
Matches: 336, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
133 165 0.49
134 3 0.01
135 168 0.50
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (134 bp):
AGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAACATACTAGATCTTA
TCTTCACTGAGCAGGAGCAAAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATG
GAGC
Found at i:18047342 original size:29 final size:28
Alignment explanation
Indices: 18047310--18047385 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 28
18047300 ACTAGACCGA
*
18047310 CCACTCACTCTATCACCCTACTAAACCAT
1 CCACT-ACTCCATCACCCTACTAAACCAT
*
18047339 CCACTAACTCCATTACCCTACTAAACCAT
1 CCACT-ACTCCATCACCCTACTAAACCAT
18047368 CCACTACCTCCATCACCC
1 CCACTA-CTCCATCACCC
18047386 CCACACCCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 1 0.02
29 41 0.98
ACGTcount: A:0.30, C:0.47, G:0.00, T:0.22
Consensus pattern (28 bp):
CCACTACTCCATCACCCTACTAAACCAT
Found at i:18047375 original size:20 final size:19
Alignment explanation
Indices: 18047346--18047412 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 19
18047336 CATCCACTAA
*
18047346 CTCCATTACCCTACTAAAC
1 CTCCACTACCCTACTAAAC
* *
18047365 CATCCACTA-CCT-CCATCAC
1 C-TCCACTACCCTACTA-AAC
*
18047384 CCCCAC-ACCCTACTAAAC
1 CTCCACTACCCTACTAAAC
18047402 CGTCCACTACC
1 C-TCCACTACC
18047413 TCCATCACCC
Statistics
Matches: 35, Mismatches: 7, Indels: 11
0.66 0.13 0.21
Matches are distributed among these distances:
17 1 0.03
18 12 0.34
19 13 0.37
20 9 0.26
ACGTcount: A:0.28, C:0.51, G:0.01, T:0.19
Consensus pattern (19 bp):
CTCCACTACCCTACTAAAC
Found at i:18047856 original size:63 final size:62
Alignment explanation
Indices: 18047729--18047868 Score: 144
Period size: 63 Copynumber: 2.2 Consensus size: 62
18047719 TAACCCTTTT
* * *
18047729 TTTA-TTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATA
1 TTTATTTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTTATATA
* * *
18047791 TTTGTTTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATCATATT
1 TTTATTTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATT-T-ATA-T
18047853 A
62 A
*
18047854 TTTATTTATTATTAT
1 TTTATTTTTTATTAT
18047869 ATATTTATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
60 8 0.12
61 5 0.08
62 25 0.38
63 27 0.42
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.63
Consensus pattern (62 bp):
TTTATTTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTTATATA
Found at i:18047889 original size:17 final size:14
Alignment explanation
Indices: 18047849--18047879 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18047839 CATATTATCA
*
18047849 TATTATTTATTTAT
1 TATTATATATTTAT
18047863 TATTATATATTTAT
1 TATTATATATTTAT
18047877 TAT
1 TAT
18047880 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:18048101 original size:21 final size:21
Alignment explanation
Indices: 18048076--18048137 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
18048066 TATTATCCCC
*
18048076 CATATTTAATGTTATTGTCAA
1 CATATTTAATGTTATTATCAA
** *
18048097 CATATTTTTTGTTATTATCAT
1 CATATTTAATGTTATTATCAA
*
18048118 CATGATTTTAATATTATTAT
1 CAT-A-TTTAATGTTATTAT
18048138 TAATACTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 20 0.62
22 1 0.03
23 11 0.34
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (21 bp):
CATATTTAATGTTATTATCAA
Found at i:18048576 original size:126 final size:126
Alignment explanation
Indices: 18048341--18048584 Score: 425
Period size: 126 Copynumber: 1.9 Consensus size: 126
18048331 CATTGATCTT
* * * *
18048341 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCAAAGAATCGTGCCCTA
*
18048406 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACATACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
18048467 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCAAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCAAAGAATCGTGCCCTA
* *
18048532 ACATACTGGGTTTCGCTTTCTTTGTTTGTTTTGAGTATTCGAATATCCTCTTA
66 ACATACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
18048585 AGGCTAAAAA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 111 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAGTATTTAAAGAATTCAAAGAATCGTGCCCTA
ACATACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:18060464 original size:176 final size:176
Alignment explanation
Indices: 18060170--18060642 Score: 838
Period size: 176 Copynumber: 2.7 Consensus size: 176
18060160 AAAGATTACA
18060170 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
1 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
18060235 AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAGATGG
66 AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAGATGG
* * *
18060300 TGAGTCTTTTCTCCATATATTGACTATGGAGCAGATTTTAGCCACC
131 CGAGTCTTATCTCCATATATCGACTATGGAGCAGATTTTAGCCACC
*
18060346 AACCTTATCTCTCTAAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
1 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
** * *
18060411 AGGAAATAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAGGATGG
66 AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAGATGG
* *
18060476 CGAGTCTTATCTCCATATATCGGCTATGGAGTAGATTTTAGCCACC
131 CGAGTCTTATCTCCATATATCGACTATGGAGCAGATTTTAGCCACC
18060522 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
1 AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
* *
18060587 AGGAAGCAGACTGAAAGTTGCAGATCTTATCTCCATGTATCGGCTATTGAGCAGAT
66 AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
18060643 TTTAGGCACC
Statistics
Matches: 282, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
176 282 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (176 bp):
AACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
AGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAGATGG
CGAGTCTTATCTCCATATATCGACTATGGAGCAGATTTTAGCCACC
Found at i:18060596 original size:131 final size:132
Alignment explanation
Indices: 18060480--18060718 Score: 320
Period size: 131 Copynumber: 1.8 Consensus size: 132
18060470 GGATGGCGAG
* * *
18060480 TCTTATCTCCATATATCGGCTATGGAGTAGATTTTAGCCACCAACCTTATCTCTCTGAAGTTGCA
1 TCTTATCTCCATATATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCCCTGAAGTTGAA
** *
18060545 G-AGAGCAGGTTGAAGAT-ACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTGC
66 GTAGAGCAGGTTGAAG-TCACAAACCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTGGC
18060608 AGA
130 AGA
* * * ** * *
18060611 TCTTATCTCCATGTATCGGCTATTGAGCAGATTTTAGGCACCGGCTTTGTCTCCCTGAAGTTGAA
1 TCTTATCTCCATATATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCCCTGAAGTTGAA
* *
18060676 GTGGAGCAGGTTGAAGTCACAAACCTTATCTTCTTGAAGTTGC
66 GTAGAGCAGGTTGAAGTCACAAACCTTATCTTCCTGAAGTTGC
18060719 TGTAAGACTA
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
131 57 0.62
132 35 0.38
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (132 bp):
TCTTATCTCCATATATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCCCTGAAGTTGAA
GTAGAGCAGGTTGAAGTCACAAACCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTGGCA
GA
Found at i:18062006 original size:15 final size:16
Alignment explanation
Indices: 18061986--18062020 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
18061976 TTGGATTACT
18061986 TTATGATTATTA-TTA
1 TTATGATTATTATTTA
18062001 TTATGATTATTATTTA
1 TTATGATTATTATTTA
18062017 TTAT
1 TTAT
18062021 TTATTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (16 bp):
TTATGATTATTATTTA
Found at i:18062640 original size:37 final size:37
Alignment explanation
Indices: 18062593--18062664 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
18062583 CTAACTCTAT
18062593 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
** *
18062630 CACCCTACTAAACTGTCCACTACCTCTATCACCCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCCC
18062665 GACTACCTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.51, G:0.01, T:0.19
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:18062765 original size:11 final size:11
Alignment explanation
Indices: 18062749--18062792 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
18062739 GGGGATTTAG
18062749 AGAGGAATTTT
1 AGAGGAATTTT
*
18062760 AGAGGATTTTT
1 AGAGGAATTTT
*
18062771 AGAGGATTTTT
1 AGAGGAATTTT
* *
18062782 GGGGGAATTTT
1 AGAGGAATTTT
18062793 TTAGAGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (11 bp):
AGAGGAATTTT
Done.