Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 27 of 75
Found at i:8103497 original size:30 final size:30
Alignment explanation
Indices: 8103458--8103526 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
8103448 TAACCAAGTC
*
8103458 AAATAATTTCAATCAAATTAAAATCATTTT
1 AAATGATTTCAATCAAATTAAAATCATTTT
*
8103488 AAATGATTTCAATCAAGTTAAAATCATTTT
1 AAATGATTTCAATCAAATTAAAATCATTTT
8103518 AAATGATTT
1 AAATGATTT
8103527 TCAAACAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (30 bp):
AAATGATTTCAATCAAATTAAAATCATTTT
Found at i:8104853 original size:43 final size:44
Alignment explanation
Indices: 8104801--8105014 Score: 223
Period size: 45 Copynumber: 4.8 Consensus size: 44
8104791 ATTTACAGAT
* ** * *
8104801 AGCTTCCATGTATATTGCGGATAAACCACCAA-ATTTGCAAACA
1 AGCTGCCATGTAGGTTGTGGATAAACCACCAATATTCGCAAACA
* * *
8104844 AGCTGCCATGTAGGTTGTGGACGAAGCCACCAATATTCGAAAACA
1 AGCTGCCATGTAGGTTGTGGA-TAAACCACCAATATTCGCAAACA
* * *
8104889 AGTTGCCATGTAGGTTGTGGGTGAAACCACCAATATCCGCAAACA
1 AGCTGCCATGTAGGTTGTGGAT-AAACCACCAATATTCGCAAACA
* * *
8104934 AGCTGCCATGTAGGTTGTGGACGAAGCCACCAATATTCGCAGACA
1 AGCTGCCATGTAGGTTGTGGA-TAAACCACCAATATTCGCAAACA
* * **
8104979 AGTTTCCATGTAGGTTGTGGCCGAAACCACCAATAT
1 AGCTGCCATGTAGGTTGTGG-ATAAACCACCAATAT
8105015 CTGTAGACAA
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
43 17 0.12
44 9 0.06
45 116 0.82
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (44 bp):
AGCTGCCATGTAGGTTGTGGATAAACCACCAATATTCGCAAACA
Found at i:8104890 original size:45 final size:45
Alignment explanation
Indices: 8104826--8105057 Score: 279
Period size: 45 Copynumber: 5.2 Consensus size: 45
8104816 TGCGGATAAA
* *
8104826 CCACCAA-ATTTGCAAACAAGCTGCCATGTAGGTTGTGGACGAAG
1 CCACCAATATTCGCAAACAAGTTGCCATGTAGGTTGTGGACGAAG
* ** *
8104870 CCACCAATATTCGAAAACAAGTTGCCATGTAGGTTGTGGGTGAAA
1 CCACCAATATTCGCAAACAAGTTGCCATGTAGGTTGTGGACGAAG
* *
8104915 CCACCAATATCCGCAAACAAGCTGCCATGTAGGTTGTGGACGAAG
1 CCACCAATATTCGCAAACAAGTTGCCATGTAGGTTGTGGACGAAG
* * * *
8104960 CCACCAATATTCGCAGACAAGTTTCCATGTAGGTTGTGGCCGAAA
1 CCACCAATATTCGCAAACAAGTTGCCATGTAGGTTGTGGACGAAG
* * ***
8105005 CCACCAATA-TCTGTAGACAAGTTGATGTGTAGGTTGTGGACGAAG
1 CCACCAATATTC-GCAAACAAGTTGCCATGTAGGTTGTGGACGAAG
*
8105050 CTACCAAT
1 CCACCAAT
8105058 TCTTCCTCCT
Statistics
Matches: 160, Mismatches: 26, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
44 9 0.06
45 151 0.94
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (45 bp):
CCACCAATATTCGCAAACAAGTTGCCATGTAGGTTGTGGACGAAG
Found at i:8104947 original size:90 final size:90
Alignment explanation
Indices: 8104823--8105057 Score: 337
Period size: 90 Copynumber: 2.6 Consensus size: 90
8104813 TATTGCGGAT
*
8104823 AAACCACCAA-ATTTGCAAACAAGCTGCCATGTAGGTTGTGGACGAAGCCACCAATATTCGAAAA
1 AAACCACCAATATCTGCAAACAAGCTGCCATGTAGGTTGTGGACGAAGCCACCAATATTCGAAAA
**
8104887 CAAGTTGCCATGTAGGTTGTGGGTG
66 CAAGTTGCCATGTAGGTTGTGGCCG
* * *
8104912 AAACCACCAATATCCGCAAACAAGCTGCCATGTAGGTTGTGGACGAAGCCACCAATATTCGCAGA
1 AAACCACCAATATCTGCAAACAAGCTGCCATGTAGGTTGTGGACGAAGCCACCAATATTCGAAAA
*
8104977 CAAGTTTCCATGTAGGTTGTGGCCG
66 CAAGTTGCCATGTAGGTTGTGGCCG
* * * *** *
8105002 AAACCACCAATATCTGTAGACAAGTTGATGTGTAGGTTGTGGACGAAGCTACCAAT
1 AAACCACCAATATCTGCAAACAAGCTGCCATGTAGGTTGTGGACGAAGCCACCAAT
8105058 TCTTCCTCCT
Statistics
Matches: 130, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
89 10 0.08
90 120 0.92
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.23
Consensus pattern (90 bp):
AAACCACCAATATCTGCAAACAAGCTGCCATGTAGGTTGTGGACGAAGCCACCAATATTCGAAAA
CAAGTTGCCATGTAGGTTGTGGCCG
Found at i:8106516 original size:307 final size:307
Alignment explanation
Indices: 8105962--8106576 Score: 1230
Period size: 307 Copynumber: 2.0 Consensus size: 307
8105952 CTAGAAAAAG
8105962 GATCACTTGAAAAGTGAGTCACTAAATACAACATTTAGGAATAAATTAAAAACTAATTCAAATAG
1 GATCACTTGAAAAGTGAGTCACTAAATACAACATTTAGGAATAAATTAAAAACTAATTCAAATAG
8106027 ATGATATTGAATTTTCAATTATTAAAGAGAATGATAGAGACCAAAAATAGTGAAGAAAAGAGAAA
66 ATGATATTGAATTTTCAATTATTAAAGAGAATGATAGAGACCAAAAATAGTGAAGAAAAGAGAAA
8106092 GAATCACCAAAGCCGGTGGAGGCGCGGCAGTAGGGACGATTCAGCGAGAATCTGATGGAGGAGGA
131 GAATCACCAAAGCCGGTGGAGGCGCGGCAGTAGGGACGATTCAGCGAGAATCTGATGGAGGAGGA
8106157 AGAAAGGTAAAGGGTGCTATACTTGAGAGAAGGAGAAGATTATAAAATAAAAATAATAAATAAGT
196 AGAAAGGTAAAGGGTGCTATACTTGAGAGAAGGAGAAGATTATAAAATAAAAATAATAAATAAGT
8106222 GAAGAGAAAAAATAGTATTATCGATGGTGGAGCAAGGTGGTGGCCAC
261 GAAGAGAAAAAATAGTATTATCGATGGTGGAGCAAGGTGGTGGCCAC
8106269 GATCACTTGAAAAGTGAGTCACTAAATACAACATTTAGGAATAAATTAAAAACTAATTCAAATAG
1 GATCACTTGAAAAGTGAGTCACTAAATACAACATTTAGGAATAAATTAAAAACTAATTCAAATAG
8106334 ATGATATTGAATTTTCAATTATTAAAGAGAATGATAGAGACCAAAAATAGTGAAGAAAAGAGAAA
66 ATGATATTGAATTTTCAATTATTAAAGAGAATGATAGAGACCAAAAATAGTGAAGAAAAGAGAAA
8106399 GAATCACCAAAGCCGGTGGAGGCGCGGCAGTAGGGACGATTCAGCGAGAATCTGATGGAGGAGGA
131 GAATCACCAAAGCCGGTGGAGGCGCGGCAGTAGGGACGATTCAGCGAGAATCTGATGGAGGAGGA
8106464 AGAAAGGTAAAGGGTGCTATACTTGAGAGAAGGAGAAGATTATAAAATAAAAATAATAAATAAGT
196 AGAAAGGTAAAGGGTGCTATACTTGAGAGAAGGAGAAGATTATAAAATAAAAATAATAAATAAGT
8106529 GAAGAGAAAAAATAGTATTATCGATGGTGGAGCAAGGTGGTGGCCAC
261 GAAGAGAAAAAATAGTATTATCGATGGTGGAGCAAGGTGGTGGCCAC
8106576 G
1 G
8106577 GTGGTGAGTG
Statistics
Matches: 308, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
307 308 1.00
ACGTcount: A:0.44, C:0.10, G:0.25, T:0.21
Consensus pattern (307 bp):
GATCACTTGAAAAGTGAGTCACTAAATACAACATTTAGGAATAAATTAAAAACTAATTCAAATAG
ATGATATTGAATTTTCAATTATTAAAGAGAATGATAGAGACCAAAAATAGTGAAGAAAAGAGAAA
GAATCACCAAAGCCGGTGGAGGCGCGGCAGTAGGGACGATTCAGCGAGAATCTGATGGAGGAGGA
AGAAAGGTAAAGGGTGCTATACTTGAGAGAAGGAGAAGATTATAAAATAAAAATAATAAATAAGT
GAAGAGAAAAAATAGTATTATCGATGGTGGAGCAAGGTGGTGGCCAC
Found at i:8110319 original size:39 final size:38
Alignment explanation
Indices: 8110265--8110379 Score: 149
Period size: 39 Copynumber: 3.0 Consensus size: 38
8110255 TAGAAATACG
*
8110265 GTGATTATTCGGGCTATGTGCCTAGTAAGTTGTGTGTC
1 GTGATTATTCGGGCTATGTGCCTAGCAAGTTGTGTGTC
* *
8110303 AGTGATTATTCGGGCTATGTGCCTAGCAGGTTGTGTGAC
1 -GTGATTATTCGGGCTATGTGCCTAGCAAGTTGTGTGTC
* * * *
8110342 GATGATTATTTGGGCTTTTTGCCTAGCAAGCTGTGTGT
1 G-TGATTATTCGGGCTATGTGCCTAGCAAGTTGTGTGT
8110380 TGGTGTACTA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
38 1 0.02
39 65 0.98
ACGTcount: A:0.17, C:0.14, G:0.31, T:0.38
Consensus pattern (38 bp):
GTGATTATTCGGGCTATGTGCCTAGCAAGTTGTGTGTC
Found at i:8113973 original size:22 final size:22
Alignment explanation
Indices: 8113948--8114067 Score: 62
Period size: 22 Copynumber: 5.5 Consensus size: 22
8113938 AGAGCACCGT
8113948 AGTGCTAAACAGAGAGCACAAA
1 AGTGCTAAACAGAGAGCACAAA
* * **
8113970 AGTGCTAACCAAAGAGCATC-TG
1 AGTGCTAAACAGAGAGCA-CAAA
* * * * *
8113992 AGTGCTGATCAGATAGTACCAA
1 AGTGCTAAACAGAGAGCACAAA
* * * * **
8114014 AGTACTGAACAAAGAGTACCGA
1 AGTGCTAAACAGAGAGCACAAA
* * *
8114036 AGTACTGAACAGAGAGCACAGA
1 AGTGCTAAACAGAGAGCACAAA
8114058 AGTGCTAAAC
1 AGTGCTAAAC
8114068 TCATACAAGC
Statistics
Matches: 75, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
21 1 0.01
22 73 0.97
23 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.15
Consensus pattern (22 bp):
AGTGCTAAACAGAGAGCACAAA
Found at i:8115076 original size:20 final size:21
Alignment explanation
Indices: 8115053--8115092 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8115043 AACTAAGAAA
8115053 AATTAACCTAAT-TAAACATT
1 AATTAACCTAATATAAACATT
**
8115073 AATTAATTTAATATAAACAT
1 AATTAACCTAATATAAACAT
8115093 GATTAACAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTAACCTAATATAAACATT
Found at i:8125040 original size:101 final size:101
Alignment explanation
Indices: 8124865--8125060 Score: 356
Period size: 101 Copynumber: 1.9 Consensus size: 101
8124855 TTTTATTTTA
* * *
8124865 TTTTACCACTGTATTTTATTTAAATAATGATTCGAGTTTCTCGATTCTAACAGATGATATCAACC
1 TTTTACCACTATATTTTATTTAAATAATGATTCGAGTTACTCGATTCTAACAGATGATAACAACC
8124930 ATTATCATCTTCCTTATTGATTAGCAAATAATATAG
66 ATTATCATCTTCCTTATTGATTAGCAAATAATATAG
8124966 TTTTACCACTATATTTTATTTAAATAATGATTCGAGTTACTCGATTCTAACAGATGATAACAACC
1 TTTTACCACTATATTTTATTTAAATAATGATTCGAGTTACTCGATTCTAACAGATGATAACAACC
*
8125031 ATTATCATCTTCCTTATTGCTTAGCAAATA
66 ATTATCATCTTCCTTATTGATTAGCAAATA
8125061 GCATAGTTGT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 91 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (101 bp):
TTTTACCACTATATTTTATTTAAATAATGATTCGAGTTACTCGATTCTAACAGATGATAACAACC
ATTATCATCTTCCTTATTGATTAGCAAATAATATAG
Found at i:8126128 original size:18 final size:18
Alignment explanation
Indices: 8126105--8126140 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8126095 CGACAAAGAA
8126105 CAAATCAGGAAAATAAAT
1 CAAATCAGGAAAATAAAT
8126123 CAAATCAGGAAAATAAAT
1 CAAATCAGGAAAATAAAT
8126141 TATTAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.17
Consensus pattern (18 bp):
CAAATCAGGAAAATAAAT
Found at i:8129682 original size:20 final size:19
Alignment explanation
Indices: 8129656--8129706 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
8129646 TTAAAGTAGG
*
8129656 AATATCGATACCTTAGGAA
1 AATATCGATACCTTAAGAA
8129675 ATATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
8129695 AAGTATCGATAC
1 AA-TATCGATAC
8129707 TGGATTGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:8132801 original size:20 final size:20
Alignment explanation
Indices: 8132756--8132805 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
8132746 TGGAGCAGGA
*
8132756 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
8132776 ACATCGATACCTTAAGAAA-
1 ATATCGATACCTTAAGAAAT
8132795 AGTATCGATAC
1 A-TATCGATAC
8132806 TGGATCAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:8135766 original size:17 final size:17
Alignment explanation
Indices: 8135740--8135772 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8135730 TCAAATTAAC
*
8135740 TAAATCATTTTCTCAAT
1 TAAATAATTTTCTCAAT
8135757 TAAATAATTTTCTCAA
1 TAAATAATTTTCTCAA
8135773 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATTTTCTCAAT
Found at i:8138916 original size:17 final size:17
Alignment explanation
Indices: 8138896--8138928 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8138886 CTCAACCAAA
*
8138896 TTTATATTTTAATTTTT
1 TTTACATTTTAATTTTT
8138913 TTTACATTTTAATTTT
1 TTTACATTTTAATTTT
8138929 ATTATTCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTACATTTTAATTTTT
Found at i:8142430 original size:44 final size:44
Alignment explanation
Indices: 8142381--8142470 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
8142371 TTTGAAATAA
* * *
8142381 AATAGAAGTCGTGATAATTATACATTTAAAAACAATTATAATTT
1 AATAGAAGTCATGATAATTACACATTTAAAAACAATTAGAATTT
* *
8142425 AATAGAAGTTATGATAATTACACATTTAAAAATAATTAGAATTT
1 AATAGAAGTCATGATAATTACACATTTAAAAACAATTAGAATTT
8142469 AA
1 AA
8142471 ATTACAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.36
Consensus pattern (44 bp):
AATAGAAGTCATGATAATTACACATTTAAAAACAATTAGAATTT
Found at i:8142470 original size:17 final size:18
Alignment explanation
Indices: 8142438--8142471 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8142428 AGAAGTTATG
8142438 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
8142456 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
8142472 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:8143321 original size:146 final size:147
Alignment explanation
Indices: 8143156--8143449 Score: 581
Period size: 146 Copynumber: 2.0 Consensus size: 147
8143146 AAATATTTTA
8143156 ATTGAATAAATATAATTTTTATCTATAGATATGATTTTATTTTAAATATGATAACAATTAAATCA
1 ATTGAATAAATATAATTTTTATCTATAGATATGATTTTATTTTAAATATGATAACAATTAAATCA
8143221 TGTTAAAATCAATTTTTTATACTTAATAGAAATTAAATGAGTAAGATTCATATAAAAAATAATAT
66 TGTTAAAATCAATTTTTTATACTTAATAGAAATTAAATGAGTAAGATTCATATAAAAAATAATAT
8143286 CAATATATTGGTAATCT
131 CAATATATTGGTAATCT
8143303 ATTGAATAAA-ATAATTTTTATCTATAGATATGATTTTATTTTAAATATGATAACAATTAAATCA
1 ATTGAATAAATATAATTTTTATCTATAGATATGATTTTATTTTAAATATGATAACAATTAAATCA
8143367 TGTTAAAATCAATTTTTTATACTTAATAGAAATTAAATGAGTAAGATTCATATAAAAAATAATAT
66 TGTTAAAATCAATTTTTTATACTTAATAGAAATTAAATGAGTAAGATTCATATAAAAAATAATAT
8143432 CAATATATTGGTAATCT
131 CAATATATTGGTAATCT
8143449 A
1 A
8143450 ATAGTATACA
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
146 137 0.93
147 10 0.07
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (147 bp):
ATTGAATAAATATAATTTTTATCTATAGATATGATTTTATTTTAAATATGATAACAATTAAATCA
TGTTAAAATCAATTTTTTATACTTAATAGAAATTAAATGAGTAAGATTCATATAAAAAATAATAT
CAATATATTGGTAATCT
Found at i:8145068 original size:96 final size:97
Alignment explanation
Indices: 8144945--8145134 Score: 301
Period size: 96 Copynumber: 2.0 Consensus size: 97
8144935 TGCCTATCCC
* * *
8144945 CTAAAACAATCTTGTATGTAGCCATAACTTAAAACAGTAGTATGCTTTTAAAAAGAA-TTTCTTA
1 CTAAAACAATCTTATATGTAACCATAACTTAAAACAGTAATATGCTTTTAAAAAGAATTTTCTTA
* *
8145009 CCGTCATATCTCCCATCGATTTTCTACAACTG
66 CCGCCATATCTCCCATCGATTTGCTACAACTG
* * *
8145041 CTAAAACAATTTTATATGTAATCATAACTTAAAACAGTAATATGCTTTTAAAAATAATTTTCTTA
1 CTAAAACAATCTTATATGTAACCATAACTTAAAACAGTAATATGCTTTTAAAAAGAATTTTCTTA
8145106 CCGCCATATCTCCCATCGATTTGCTACAA
66 CCGCCATATCTCCCATCGATTTGCTACAA
8145135 ATTGGGCAGA
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 51 0.60
97 34 0.40
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.35
Consensus pattern (97 bp):
CTAAAACAATCTTATATGTAACCATAACTTAAAACAGTAATATGCTTTTAAAAAGAATTTTCTTA
CCGCCATATCTCCCATCGATTTGCTACAACTG
Found at i:8159887 original size:42 final size:42
Alignment explanation
Indices: 8159765--8159874 Score: 184
Period size: 42 Copynumber: 2.6 Consensus size: 42
8159755 GTACAGGGGT
**
8159765 CACACGGCCAAGACACACGCCCGTGTGCTAGGCCGTGTGTCA
1 CACACGGCTGAGACACACGCCCGTGTGCTAGGCCGTGTGTCA
8159807 CACACGGCTGAGACACACGCCCGTGTGCTAGGCCGTGTGTCA
1 CACACGGCTGAGACACACGCCCGTGTGCTAGGCCGTGTGTCA
* *
8159849 CATACGGTTGAGACACACGCCCGTGT
1 CACACGGCTGAGACACACGCCCGTGT
8159875 CTCTTCCTGT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.21, C:0.34, G:0.29, T:0.16
Consensus pattern (42 bp):
CACACGGCTGAGACACACGCCCGTGTGCTAGGCCGTGTGTCA
Found at i:8161088 original size:23 final size:25
Alignment explanation
Indices: 8161051--8161103 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
8161041 TGCTTCGGAT
*
8161051 AGCCATATATCGGGAAATTTAAGCG
1 AGCCATATATCGGGAAACTTAAGCG
* *
8161076 AGCCATAT-T-GGGAAGCTTATGCG
1 AGCCATATATCGGGAAACTTAAGCG
8161099 AGCCA
1 AGCCA
8161104 ATTAATCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.64
24 1 0.04
25 8 0.32
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (25 bp):
AGCCATATATCGGGAAACTTAAGCG
Found at i:8169022 original size:24 final size:24
Alignment explanation
Indices: 8168968--8169023 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
8168958 CTGTATAACA
*
8168968 GAAAGCTCATGCGAGCCATAATTG
1 GAAAGCTCATGCGAGCCATAATCG
8168992 GAAAGCTCATGCGAGCCAGTAA-CG
1 GAAAGCTCATGCGAGCCA-TAATCG
*
8169016 GACAGCTC
1 GAAAGCTC
8169024 TGAAGAGCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.16
Consensus pattern (24 bp):
GAAAGCTCATGCGAGCCATAATCG
Found at i:8172951 original size:3 final size:3
Alignment explanation
Indices: 8172945--8172981 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8172935 CAACAACCTG
8172945 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8172982 AAGGTTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8174246 original size:2 final size:2
Alignment explanation
Indices: 8174239--8174265 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8174229 ACTTTAATGG
8174239 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8174266 TTCAAATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8177108 original size:3 final size:3
Alignment explanation
Indices: 8177096--8177148 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
8177086 GTAATTATAT
* * *
8177096 TAA T-A TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TGA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8177143 TAA TAA
1 TAA TAA
8177149 CATTAAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:8177148 original size:12 final size:12
Alignment explanation
Indices: 8177102--8177159 Score: 64
Period size: 12 Copynumber: 4.9 Consensus size: 12
8177092 ATATTAATAT
* *
8177102 AATAATAGTAAT
1 AATAATAATAAC
*
8177114 AATAATAATAAT
1 AATAATAATAAC
*
8177126 AATAATGATAAC
1 AATAATAATAAC
8177138 AATAATAATAAC
1 AATAATAATAAC
*
8177150 ATTAA-AATAA
1 AATAATAATAA
8177160 TTAACTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 5 0.12
12 36 0.88
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:8178794 original size:45 final size:45
Alignment explanation
Indices: 8178642--8179277 Score: 884
Period size: 45 Copynumber: 14.2 Consensus size: 45
8178632 TTCGTTGTTT
* * * *
8178642 TTCGATCTGCTTTGCTGCCAGTACAGGAATG-CATGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAA-GACAAGATCTGCTATC
* * * ** * * * *
8178687 TTC-AGTCTGCTTCGTTGTCAGCACAGGAAGGCAAG-GCTGGTGTC
1 TTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* ** *
8178731 TTCGATCTGCTTTACTGCCAATACAGGAAGATAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
8178776 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
*
8178821 TTCGATCTACTTCGCTGCCAATACAGGAAGACAATATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
*
8178866 TTCGATCTACTTCGCTGCCAATACTGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
8178911 CTCGATCTACTTCGCTGCCAATATAGG-AGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
8178955 TTCGATCTACTTCGTTGCCAATATAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * *
8179000 TTCGATCTACTTCGCTGCCAATATAGAAAGACAAGATTTGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
*
8179045 CTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* ** *
8179090 CTCGATCTACTTTACTGCTAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
8179135 TTCGATCTATTTTGCTGCCAATACAGGAAGACAAGATCTACTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
8179180 TTCGATCTACTTCGCTGCCAATACTGGAAGACAAGATATGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
*
8179225 TTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
8179270 TTCGATCT
1 TTCGATCT
8179278 GTTCTCTGAG
Statistics
Matches: 530, Mismatches: 56, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
44 75 0.14
45 455 0.86
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (45 bp):
TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
Found at i:8179562 original size:24 final size:24
Alignment explanation
Indices: 8179512--8179564 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8179502 CGGATTACCC
*
8179512 CCACTGTAATCTCCAAAGTTCTAT
1 CCACTGTAATCTCCAAAGTTCAAT
* *
8179536 CCACTGTAATCTTCAAGGTT-AAGT
1 CCACTGTAATCTCCAAAGTTCAA-T
8179560 CCACT
1 CCACT
8179565 ATAACTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.32
Consensus pattern (24 bp):
CCACTGTAATCTCCAAAGTTCAAT
Found at i:8187772 original size:45 final size:45
Alignment explanation
Indices: 8187715--8188311 Score: 1194
Period size: 45 Copynumber: 13.3 Consensus size: 45
8187705 GGAATGTTAA
8187715 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8187760 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8187805 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8187850 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8187895 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8187940 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8187985 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8188030 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8188075 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8188120 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8188165 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8188210 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8188255 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
1 ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
8188300 ACCTTTATGTGG
1 ACCTTTATGTGG
8188312 TGATAGTGGG
Statistics
Matches: 552, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 552 1.00
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.47
Consensus pattern (45 bp):
ACCTTTATGTGGCTAATTGTTTGAGTATGCCTTATTGAGTTAATT
Found at i:8188799 original size:20 final size:19
Alignment explanation
Indices: 8188755--8188807 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
8188745 AAAAATAAAA
8188755 TAAAATAAAATATTTATTAT
1 TAAAAT-AAATATTTATTAT
*
8188775 AAAAATAAATA-TTATTTGAT
1 TAAAATAAATATTTA-TT-AT
8188795 TAAAAT-AATATTT
1 TAAAATAAATATTT
8188808 TTAAATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 3 0.11
19 11 0.39
20 14 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TAAAATAAATATTTATTAT
Found at i:8188932 original size:44 final size:43
Alignment explanation
Indices: 8188840--8189006 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 43
8188830 CGTTTTTGCA
* * * * * *
8188840 AGAAGCGTCACTAAAAGT-TTGTTCTATAGCGGCGTTTTTTAT
1 AGAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTTGT
* *
8188882 ATAAGCGCCGCTAAAAGGTCTTGATCTATAGCGGTGTTTGTTGT
1 AGAAGCGCCGCT-AAAGGTCTTGATCTATAGCGGCGTTTGTTGT
* * *
8188926 AGAAGCGCCGCTAAAGATCCTGATCTATAGTGGCGTTTG-TG-
1 AGAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTTGT
* * *
8188967 AGGAAAGCGCCGCTAAAGGTCATGGTCTATAGTGGCGTTT
1 A-G-AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT
8189007 ATTTCCAAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 12 0.11
43 61 0.58
44 31 0.30
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
AGAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTTGT
Found at i:8197101 original size:29 final size:29
Alignment explanation
Indices: 8197069--8197142 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
8197059 AATAAAAACC
8197069 AATAAAAATTATAAAAATTA-TTAA-ATTTT
1 AATAAAAATTATAAAAA-TACTTAATA-TTT
8197098 AATAAAAA-TATAAAAATACTTAATATTT
1 AATAAAAATTATAAAAATACTTAATATTT
* *
8197126 ATTAAAAATTAGAAAAA
1 AATAAAAATTATAAAAA
8197143 AAATTATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
27 2 0.05
28 22 0.55
29 16 0.40
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (29 bp):
AATAAAAATTATAAAAATACTTAATATTT
Found at i:8197153 original size:20 final size:19
Alignment explanation
Indices: 8197126--8197175 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
8197116 CTTAATATTT
8197126 ATTA-AAAATTAGAAAAAAA
1 ATTATAAAATTAG-AAAAAA
8197145 ATTATAAAATATAGAAAAAA
1 ATTATAAAAT-TAGAAAAAA
8197165 ATTATAAAATT
1 ATTATAAAATT
8197176 TTATAAAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.17
20 21 0.72
21 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (19 bp):
ATTATAAAATTAGAAAAAA
Found at i:8197285 original size:10 final size:10
Alignment explanation
Indices: 8197263--8197328 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 10
8197253 CTTTTATGCA
8197263 TTTTATAATTT
1 TTTTATAA-TT
*
8197274 TTTTATGA-T
1 TTTTATAATT
**
8197283 TTTTATAAAA
1 TTTTATAATT
*
8197293 TTTTACAATT
1 TTTTATAATT
8197303 TTTTAT-ATT
1 TTTTATAATT
*
8197312 TTTTAAATATT
1 TTTTATA-ATT
8197323 TTTTAT
1 TTTTAT
8197329 TAAAATTCAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
9 16 0.37
10 12 0.28
11 15 0.35
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:8197296 original size:20 final size:20
Alignment explanation
Indices: 8197254--8197296 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
8197244 TTAAAGGGTC
**
8197254 TTTTATGCATTTTATAATTT
1 TTTTATGCATTTTATAAAAT
8197274 TTTTATG-ATTTTTATAAAAT
1 TTTTATGCA-TTTTATAAAAT
8197294 TTT
1 TTT
8197297 ACAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTATGCATTTTATAAAAT
Found at i:8197308 original size:40 final size:39
Alignment explanation
Indices: 8197263--8197367 Score: 99
Period size: 41 Copynumber: 2.7 Consensus size: 39
8197253 CTTTTATGCA
**
8197263 TTTTATAATTTTTTTATGATTTTTATAAAATTTTACAAT
1 TTTTATAATTTTTTTATGATTTTTATAAAATTCAACAAT
* *
8197302 TTTT-TATATTTTTTAAAT-ATTTTTTATTAAAATTCAATAAT
1 TTTTATA-ATTTTTT-TATGA-TTTTTA-TAAAATTCAACAAT
* *
8197343 TTTTATAACTTTTAT-TGATTTTTAT
1 TTTTATAATTTTTTTATGATTTTTAT
8197368 TTTTATCATT
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
38 3 0.06
39 19 0.36
40 9 0.17
41 20 0.38
42 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (39 bp):
TTTTATAATTTTTTTATGATTTTTATAAAATTCAACAAT
Found at i:8203629 original size:3 final size:3
Alignment explanation
Indices: 8203621--8203662 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
8203611 ACAAATTTCA
* *
8203621 TAT TAT TAT TGT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8203663 AATTGCTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:8203854 original size:18 final size:19
Alignment explanation
Indices: 8203831--8203867 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
8203821 TTTTATAAAT
8203831 ATATATACATATTT-TTAC
1 ATATATACATATTTATTAC
*
8203849 ATATATATATATTTATTAC
1 ATATATACATATTTATTAC
8203868 TTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATATACATATTTATTAC
Found at i:8204132 original size:3 final size:3
Alignment explanation
Indices: 8204124--8204165 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
8204114 CAAAATTTCA
* *
8204124 TAT TAT TAT TGT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8204166 AATTGCTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:8205947 original size:37 final size:37
Alignment explanation
Indices: 8205868--8205947 Score: 101
Period size: 35 Copynumber: 2.2 Consensus size: 37
8205858 TATATACGTA
* * * *
8205868 TATTTTTTTTATTTAATATATATACTTGTACACATAC
1 TATTTTTTTTATGTAATATATATACATATAAACATAC
8205905 T-TTTTTTTT-TGTAATATATATACATATAAACATACC
1 TATTTTTTTTATGTAATATATATACATATAAACATA-C
8205941 TATTTTT
1 TATTTTT
8205948 ATAATTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 21 0.57
36 10 0.27
37 6 0.16
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.55
Consensus pattern (37 bp):
TATTTTTTTTATGTAATATATATACATATAAACATAC
Found at i:8208921 original size:30 final size:30
Alignment explanation
Indices: 8208887--8209061 Score: 114
Period size: 30 Copynumber: 5.9 Consensus size: 30
8208877 ACAAAAAAAT
8208887 AAATTACATTTTAGCCCCAAAACTTTTCAA
1 AAATTACATTTTAGCCCCAAAACTTTTCAA
** *
8208917 AAATTACATTTTAGCCCTTAAATTTTTCAA
1 AAATTACATTTTAGCCCCAAAACTTTTCAA
* *
8208947 AAATTACATCTT-GACCCCTAATACTTTGT---
1 AAATTACATTTTAG-CCCC-AAAACTTT-TCAA
* *
8208976 AAATTACA-CTTAGCCCCCTAAAC-TTTCTAA
1 AAATTACATTTTAG-CCCCAAAACTTTTC-AA
* * * *
8209006 AAATTACACTTTAG-CCCTATA-TTTTCCTA
1 AAATTACATTTTAGCCCCAAAACTTTT-CAA
* *
8209035 AAATTGCATTTTTGCCCCAGAAACTTT
1 AAATTACATTTTAGCCCCA-AAACTTT
8209062 GCACCCGTTA
Statistics
Matches: 112, Mismatches: 19, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
26 1 0.01
27 2 0.02
28 6 0.05
29 35 0.31
30 53 0.47
31 11 0.10
32 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.37
Consensus pattern (30 bp):
AAATTACATTTTAGCCCCAAAACTTTTCAA
Found at i:8209001 original size:28 final size:30
Alignment explanation
Indices: 8208941--8209022 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 30
8208931 CCCTTAAATT
* *
8208941 TTTCAAAAATTACATCTT-GACCCCTAATAC
1 TTTCTAAAATTACA-CTTAGCCCCCTAATAC
*
8208971 TTTGT-AAATTACACTTAGCCCCCTAA-AC
1 TTTCTAAAATTACACTTAGCCCCCTAATAC
8208999 TTTCTAAAAATTACACTTTAGCCC
1 TTTCT-AAAATTACAC-TTAGCCC
8209023 TATATTTTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
28 9 0.20
29 16 0.36
30 12 0.27
31 7 0.16
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (30 bp):
TTTCTAAAATTACACTTAGCCCCCTAATAC
Found at i:8209023 original size:29 final size:29
Alignment explanation
Indices: 8208887--8209024 Score: 115
Period size: 30 Copynumber: 4.7 Consensus size: 29
8208877 ACAAAAAAAT
* *
8208887 AAATTACATTTTAGCCCCAAAACTTTTCAA
1 AAATTACACTTTAG-CCCTAAACTTTTCAA
* *
8208917 AAATTACATTTTAGCCCTTAAATTTTTCAA
1 AAATTACACTTTAGCCC-TAAACTTTTCAA
* *
8208947 AAATTACATCTTGACCCCTAATACTTTGT---
1 AAATTACA-CTTTAGCCCTAA-ACTTT-TCAA
8208976 AAATTACAC-TTAGCCCCCTAAAC-TTTCTAA
1 AAATTACACTTTAG--CCCTAAACTTTTC-AA
8209006 AAATTACACTTTAGCCCTA
1 AAATTACACTTTAGCCCTA
8209025 TATTTTCCTA
Statistics
Matches: 89, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
26 1 0.01
27 4 0.04
28 3 0.03
29 22 0.25
30 44 0.49
31 14 0.16
32 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (29 bp):
AAATTACACTTTAGCCCTAAACTTTTCAA
Found at i:8209617 original size:18 final size:17
Alignment explanation
Indices: 8209593--8209631 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 17
8209583 GAAAGGGAAG
8209593 GAGAGAAAAGTGAAAGAGAA
1 GAGA-AAAAG-GAAA-AGAA
8209613 GAGAAAAAGGAAAAGAA
1 GAGAAAAAGGAAAAGAA
8209630 GA
1 GA
8209632 AAAGGAGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 5 0.26
20 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (17 bp):
GAGAAAAAGGAAAAGAA
Found at i:8209786 original size:10 final size:10
Alignment explanation
Indices: 8209769--8209804 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
8209759 AGAAGAAGGG
8209769 AGAAAGAAAA
1 AGAAAGAAAA
*
8209779 AGATAGAAAA
1 AGAAAGAAAA
8209789 AGAAAGAAAAA
1 AGAAAG-AAAA
8209800 AGAAA
1 AGAAA
8209805 ATAAAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (10 bp):
AGAAAGAAAA
Found at i:8209801 original size:27 final size:27
Alignment explanation
Indices: 8209733--8209805 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
8209723 CTTGGGTTTG
*
8209733 AAAGAAAGAAAAAAGAAAAGGGAAGAA
1 AAAGAAAGAAAAAAGAAAAGAGAAGAA
* * * *
8209760 GAAGAAGGGAGAAAGAAAA-AGATAGAA
1 AAAGAAAGAAAAAAGAAAAGAGA-AGAA
8209787 AAAGAAAGAAAAAAGAAAA
1 AAAGAAAGAAAAAAGAAAA
8209806 TAAAAAAGTA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (27 bp):
AAAGAAAGAAAAAAGAAAAGAGAAGAA
Found at i:8209813 original size:12 final size:11
Alignment explanation
Indices: 8209733--8209804 Score: 51
Period size: 10 Copynumber: 6.6 Consensus size: 11
8209723 CTTGGGTTTG
8209733 AAAGAAAGAAA
1 AAAGAAAGAAA
*
8209744 AAAGAAAAGGGAA
1 AAAG-AAA-GAAA
* *
8209757 GAAG-AAGAAG
1 AAAGAAAGAAA
**
8209767 GGAGAAAG-AA
1 AAAGAAAGAAA
*
8209777 AAAGATAG-AA
1 AAAGAAAGAAA
8209787 AAAGAAAGAAA
1 AAAGAAAGAAA
8209798 AAAGAAA
1 AAAGAAA
8209805 ATAAAAAAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
10 20 0.43
11 18 0.38
12 3 0.06
13 6 0.13
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.01
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:8210095 original size:19 final size:19
Alignment explanation
Indices: 8210067--8210103 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8210057 GGCTTTGGTA
*
8210067 ATTTTCTTTAATCTATTTT
1 ATTTTATTTAATCTATTTT
*
8210086 ATTTTATTTAATGTATTT
1 ATTTTATTTAATCTATTT
8210104 AAATGGTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (19 bp):
ATTTTATTTAATCTATTTT
Found at i:8210833 original size:35 final size:33
Alignment explanation
Indices: 8210742--8210836 Score: 86
Period size: 35 Copynumber: 2.7 Consensus size: 33
8210732 AAAATTCGTA
**
8210742 TTTCAAAAATTTTCATGTCTTCAAAATTGTCGTGT
1 TTTCAAAAATTCCCAT-T-TTCAAAATTGTCGTGT
*
8210777 TTT-AAAAATTCTCGCGTTTTCAATAATT-TCCGTGT
1 TTTCAAAAATTC-C-CATTTTCAA-AATTGT-CGTGT
8210812 TTTCAAAAATTCCCATATTTCAAAA
1 TTTCAAAAATTCCCAT-TTTCAAAA
8210837 ACTTTCTTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
34 17 0.34
35 23 0.46
36 10 0.20
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (33 bp):
TTTCAAAAATTCCCATTTTCAAAATTGTCGTGT
Found at i:8210896 original size:18 final size:18
Alignment explanation
Indices: 8210742--8210986 Score: 127
Period size: 17 Copynumber: 13.8 Consensus size: 18
8210732 AAAATTCGTA
* *
8210742 TTTCAAAAATTTTCATGT
1 TTTCAAAAATTCTCGTGT
* *
8210760 CTTC-AAAATTGTCGTGT
1 TTTCAAAAATTCTCGTGT
*
8210777 TTT-AAAAATTCTCGCGT
1 TTTCAAAAATTCTCGTGT
*
8210794 TTTCAATAATT-TCCGTGT
1 TTTCAAAAATTCT-CGTGT
* * *
8210812 TTTCAAAAATTCCCAT-A
1 TTTCAAAAATTCTCGTGT
* *
8210829 TTTCAAAAACTTTCTTGTTT
1 TTTCAAAAA--TTCTCGTGT
* *
8210849 TTTAGAAAAATT-TCCCTGT
1 TTT-CAAAAATTCT-CGTGT
* *
8210868 TTT-ATAAATTCTCATGT
1 TTTCAAAAATTCTCGTGT
8210885 TTTCAAAAATTCT-G-GT
1 TTTCAAAAATTCTCGTGT
*
8210901 ATTTCAAAAATTCTCGGGT
1 -TTTCAAAAATTCTCGTGT
* * *
8210920 TTTCAAAACTTCTGGTGA
1 TTTCAAAAATTCTCGTGT
* * *
8210938 TATAAAAAATT-TCATG-
1 TTTCAAAAATTCTCGTGT
8210954 TTTCAAAGAAAATT-TCGTG-
1 TTTC--A-AAAATTCTCGTGT
8210973 TTTCAAAAATTCTC
1 TTTCAAAAATTCTC
8210987 ACGTTTCAAA
Statistics
Matches: 173, Mismatches: 36, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
16 10 0.06
17 69 0.40
18 59 0.34
19 27 0.16
20 3 0.02
21 5 0.03
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (18 bp):
TTTCAAAAATTCTCGTGT
Found at i:8210912 original size:35 final size:34
Alignment explanation
Indices: 8210873--8210998 Score: 112
Period size: 35 Copynumber: 3.6 Consensus size: 34
8210863 CCTGTTTTAT
8210873 AAATTCTCATGTTTTCAAAAATTCTGGTATTTCAA
1 AAATTCTCATG-TTTCAAAAATTCTGGTATTTCAA
** * * *
8210908 AAATTCTCGGGTTTTCAAAACTTCTGGTGATATAAA
1 AAATTCTCATG-TTTCAAAAATTCTGGT-ATTTCAA
* *
8210944 AAATT-TCATGTTTCAAAGAAAATT-TCGTGTTTCAA
1 AAATTCTCATGTTTC--A-AAAATTCTGGTATTTCAA
*
8210979 AAATTCTCACGTTTCAAAAA
1 AAATTCTCATGTTTCAAAAA
8210999 AAAATAAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
33 4 0.05
34 5 0.07
35 37 0.51
36 22 0.30
37 5 0.07
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (34 bp):
AAATTCTCATGTTTCAAAAATTCTGGTATTTCAA
Found at i:8210965 original size:19 final size:19
Alignment explanation
Indices: 8210943--8210979 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8210933 GGTGATATAA
8210943 AAAATTTCATGTTTCAAAG
1 AAAATTTCATGTTTCAAAG
*
8210962 AAAATTTCGTGTTTCAAA
1 AAAATTTCATGTTTCAAA
8210980 AATTCTCACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (19 bp):
AAAATTTCATGTTTCAAAG
Found at i:8211132 original size:18 final size:19
Alignment explanation
Indices: 8211095--8211136 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
8211085 TCATGTCTTT
8211095 AAAATTCTTGTATTTCAAA
1 AAAATTCTTGTATTTCAAA
8211114 AAAATTCTGTGTA-TT-AAA
1 AAAATTCT-TGTATTTCAAA
8211132 AAAAT
1 AAAAT
8211137 AAAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.36
19 10 0.45
20 4 0.18
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (19 bp):
AAAATTCTTGTATTTCAAA
Found at i:8211241 original size:17 final size:17
Alignment explanation
Indices: 8211149--8211321 Score: 109
Period size: 17 Copynumber: 9.8 Consensus size: 17
8211139 AAAAAAATCC
*
8211149 TCGTGTTTTAAAAATTT
1 TCGTGTTTCAAAAATTT
* *
8211166 CCGTGTTTC-GAAATTT
1 TCGTGTTTCAAAAATTT
* *
8211182 TCGCGTTCTTAAAAATTT
1 TCGTGTT-TCAAAAATTT
* *
8211200 CTCGTTTTTCAAAAATTG
1 -TCGTGTTTCAAAAATTT
* **
8211218 TCATGTTTCGCAAATTT
1 TCGTGTTTCAAAAATTT
*
8211235 TCGTGTTGT-AAAATTTTT
1 TCGTGTT-TCAAAA-ATTT
* * *
8211253 TTGATTTTTCAGAAATTT
1 TCG-TGTTTCAAAAATTT
*
8211271 TCGTGTTTCTAAAAAATTC
1 TCGTGTTTC--AAAAATTT
8211290 TCGTGTTTGCAAAAATTT
1 TCGTGTTT-CAAAAATTT
8211308 TCGTGATTT-AAAAA
1 TCGTG-TTTCAAAAA
8211322 AAACTTTTAA
Statistics
Matches: 116, Mismatches: 29, Indels: 22
0.69 0.17 0.13
Matches are distributed among these distances:
16 11 0.09
17 38 0.33
18 38 0.33
19 28 0.24
20 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.47
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:8211263 original size:53 final size:52
Alignment explanation
Indices: 8211148--8211279 Score: 126
Period size: 53 Copynumber: 2.5 Consensus size: 52
8211138 AAAAAAAATC
* *
8211148 CTCGTGTTTT-AAAAATT-TCCGTGTTTCGAAATTTTCGCGTTCTTAAAAATTT
1 CTCGT-TTTTCAAAAATTGT-CATGTTTCGAAATTTTCGCGTTCGTAAAAATTT
* *
8211200 CTCGTTTTTCAAAAATTGTCATGTTTCGCAAATTTTCGTGTT-GTAAAATTTT
1 CTCGTTTTTCAAAAATTGTCATGTTTCG-AAATTTTCGCGTTCGTAAAAATTT
* * * * *
8211252 TTTGATTTTTCAGAAATTTTCGTGTTTC
1 CTCG-TTTTTCAAAAATTGTCATGTTTC
8211280 TAAAAAATTC
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
51 4 0.06
52 30 0.45
53 33 0.49
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (52 bp):
CTCGTTTTTCAAAAATTGTCATGTTTCGAAATTTTCGCGTTCGTAAAAATTT
Found at i:8211321 original size:18 final size:17
Alignment explanation
Indices: 8211149--8211322 Score: 80
Period size: 18 Copynumber: 9.8 Consensus size: 17
8211139 AAAAAAATCC
*
8211149 TCGTGTTTTAAAAATTT
1 TCGTGTTTAAAAAATTT
* **
8211166 CCGTGTTT-CGAAATTT
1 TCGTGTTTAAAAAATTT
* *
8211182 TCGCGTTCTTAAAAATTT
1 TCGTGTT-TAAAAAATTT
* * *
8211200 CTCGTTTTTCAAAAATTG
1 -TCGTGTTTAAAAAATTT
* ***
8211218 TCATGTTTCGCAAATTT
1 TCGTGTTTAAAAAATTT
**
8211235 TCGTGTTGTAAAATTTTT
1 TCGTGTT-TAAAAAATTT
* * * *
8211253 TTGATTTTTCAGAAATTT
1 TCG-TGTTTAAAAAATTT
*
8211271 TCGTGTTTCTAAAAAATTC
1 TCGTG-TT-TAAAAAATTT
*
8211290 TCGTGTTTGCAAAAATTT
1 TCGTGTTT-AAAAAATTT
8211308 TCGTGATTTAAAAAA
1 TCGTG-TTTAAAAAA
8211323 AACTTTTAAA
Statistics
Matches: 112, Mismatches: 36, Indels: 17
0.68 0.22 0.10
Matches are distributed among these distances:
16 11 0.10
17 28 0.25
18 50 0.45
19 23 0.21
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.47
Consensus pattern (17 bp):
TCGTGTTTAAAAAATTT
Found at i:8211323 original size:19 final size:18
Alignment explanation
Indices: 8211265--8211323 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
8211255 GATTTTTCAG
*
8211265 AAATTTTCGTGTTTCTAAA
1 AAATTTTCGTGTTT-AAAA
* **
8211284 AAATTCTCGTGTTTGCAA
1 AAATTTTCGTGTTTAAAA
8211302 AAATTTTCGTGATTTAAAA
1 AAATTTTCGTG-TTTAAAA
8211321 AAA
1 AAA
8211324 ACTTTTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 12 0.36
19 21 0.64
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (18 bp):
AAATTTTCGTGTTTAAAA
Found at i:8211375 original size:20 final size:20
Alignment explanation
Indices: 8211352--8211389 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8211342 TTCGTGCTTC
8211352 AAAATTCTCGTGTTTTAAAA
1 AAAATTCTCGTGTTTTAAAA
8211372 AAAATTCTCGTGTTTTAA
1 AAAATTCTCGTGTTTTAA
8211390 TCGGATCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
AAAATTCTCGTGTTTTAAAA
Found at i:8211949 original size:10 final size:10
Alignment explanation
Indices: 8211934--8212065 Score: 61
Period size: 9 Copynumber: 13.8 Consensus size: 10
8211924 NNNNNNNNNN
8211934 ATATTTTTAT
1 ATATTTTTAT
8211944 ATA-TTTTAGT
1 ATATTTTTA-T
*
8211954 A-A-TTTT-C
1 ATATTTTTAT
*
8211961 ATATTTTAAT
1 ATATTTTTAT
8211971 A-ATTTTTCAT
1 ATATTTTT-AT
* **
8211981 A-AATTGAAT
1 ATATTTTTAT
*
8211990 ATATTTCTAT
1 ATATTTTTAT
8212000 ATATTTCTATAT
1 ATATTT-T-TAT
* *
8212012 ATAATTCTAT
1 ATATTTTTAT
8212022 A-ATTTTTA-
1 ATATTTTTAT
8212030 ATATTTTTAT
1 ATATTTTTAT
*
8212040 -TGATTTTAAT
1 AT-ATTTTTAT
8212050 A-ATTTTTAT
1 ATATTTTTAT
8212059 A-ATTTTT
1 ATATTTTT
8212066 TCGCCACGTG
Statistics
Matches: 93, Mismatches: 17, Indels: 25
0.69 0.13 0.19
Matches are distributed among these distances:
7 1 0.01
8 2 0.02
9 48 0.52
10 34 0.37
12 8 0.09
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (10 bp):
ATATTTTTAT
Found at i:8211966 original size:17 final size:18
Alignment explanation
Indices: 8211944--8211981 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
8211934 ATATTTTTAT
*
8211944 ATATTTTAGTAA-TTTTC
1 ATATTTTAATAATTTTTC
8211961 ATATTTTAATAATTTTTC
1 ATATTTTAATAATTTTTC
8211979 ATA
1 ATA
8211982 AATTGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (18 bp):
ATATTTTAATAATTTTTC
Found at i:8212063 original size:18 final size:18
Alignment explanation
Indices: 8211936--8212064 Score: 91
Period size: 19 Copynumber: 6.8 Consensus size: 18
8211926 NNNNNNNNAT
*
8211936 ATTTTTATATATTTTAGTA
1 ATTTTTATA-ATTTTAATA
*
8211955 ATTTTCAT-ATTTTAATA
1 ATTTTTATAATTTTAATA
* *
8211972 ATTTTTCATAAATTGAATA
1 ATTTTT-ATAATTTTAATA
*
8211991 TATTTCTATATATTTCTATATA
1 -ATTTTTATA-ATTT-TA-ATA
* *
8212013 TAATTCTATAATTTTTAAT-
1 -ATTTTTATAA-TTTTAATA
*
8212032 ATTTTTATTGATTTTAATA
1 ATTTTTA-TAATTTTAATA
8212051 ATTTTTATAATTTT
1 ATTTTTATAATTTT
8212065 TTCGCCACGT
Statistics
Matches: 88, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
17 13 0.15
18 20 0.23
19 26 0.30
20 10 0.11
21 4 0.05
22 15 0.17
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTTTATAATTTTAATA
Found at i:8222809 original size:16 final size:17
Alignment explanation
Indices: 8222787--8222825 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
8222777 GACAATAATG
8222787 TTAATAACAATAACAAA
1 TTAATAACAATAACAAA
* *
8222804 -TAATAATAATAATAAA
1 TTAATAACAATAACAAA
8222820 TTAATA
1 TTAATA
8222826 TTAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAATAACAATAACAAA
Found at i:8223295 original size:15 final size:15
Alignment explanation
Indices: 8223267--8223306 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
8223257 TTCATTTTTC
8223267 AAAAACGAAA-ATAAA
1 AAAAAC-AAACATAAA
*
8223282 AAAAATAAACATAAA
1 AAAAACAAACATAAA
8223297 AAAAACAAAC
1 AAAAACAAAC
8223307 GCCCCCCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.80, C:0.10, G:0.03, T:0.07
Consensus pattern (15 bp):
AAAAACAAACATAAA
Found at i:8225184 original size:16 final size:15
Alignment explanation
Indices: 8225154--8225192 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
8225144 TCCAACTCAA
*
8225154 AATTTCATATTTTAT
1 AATTTAATATTTTAT
8225169 AATTTAATATTTTTAT
1 AATTTAATA-TTTTAT
*
8225185 CATTTAAT
1 AATTTAAT
8225193 TAAAAAGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTAATATTTTAT
Found at i:8234868 original size:25 final size:25
Alignment explanation
Indices: 8234834--8234886 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
8234824 TAACTAAGTC
*
8234834 GACACATTTTATCTTAGTCAGAACA
1 GACACATTTTATCCTAGTCAGAACA
8234859 GACACATTTTATCCTAGTCAGAACA
1 GACACATTTTATCCTAGTCAGAACA
8234884 GAC
1 GAC
8234887 TTTTCACTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (25 bp):
GACACATTTTATCCTAGTCAGAACA
Found at i:8239381 original size:16 final size:16
Alignment explanation
Indices: 8239349--8239388 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
8239339 ATATAAATGA
**
8239349 ATTTGAATGATTTTTG
1 ATTTGAATGATAATTG
8239365 ATTTGAATGATAATTG
1 ATTTGAATGATAATTG
8239381 ATTATGAA
1 ATT-TGAA
8239389 ATGTATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (16 bp):
ATTTGAATGATAATTG
Found at i:8246011 original size:122 final size:125
Alignment explanation
Indices: 8245885--8246138 Score: 361
Period size: 136 Copynumber: 2.0 Consensus size: 125
8245875 TTGATGCATA
* *
8245885 AGGATTCCATAATTGCAATTTATTTGCAATTCC-TTTGCAAGGCCTTATTTATTTGATGGA-C-T
1 AGGATTCCATAATTGCAACTTATTTGCAATTCCTTTTGCAAGACCTTATTTATTTGATGGATCAT
8245947 ACTTTGAACAACTTATATGTTATTCGTACTAACACAAAGGAAAACTTTTGCAATACTACT
66 ACTTTGAACAACTTATATGTTATTCGTACTAACACAAAGGAAAACTTTTGCAATACTACT
8246007 AGGATTCCATAATTGCAACTTATTTGCAATTCCTTTTGCAAGACCTTATTTATTTGATGGACTTC
1 AGGATTCCATAATTGCAACTTATTTGCAATTCCTTTTGCAAGACCTTATTTATTTGATGGA----
*
8246072 TTTCCATTAGTACTTTGAACAACTTATATGTTATTCGTACTAACCCAAAGGAAAACTTTTGCAAT
62 --T-C---A-TACTTTGAACAACTTATATGTTATTCGTACTAACACAAAGGAAAACTTTTGCAAT
8246137 AC
120 AC
8246139 CACTCACTAA
Statistics
Matches: 115, Mismatches: 3, Indels: 14
0.87 0.02 0.11
Matches are distributed among these distances:
122 32 0.28
123 26 0.23
131 1 0.01
136 56 0.49
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (125 bp):
AGGATTCCATAATTGCAACTTATTTGCAATTCCTTTTGCAAGACCTTATTTATTTGATGGATCAT
ACTTTGAACAACTTATATGTTATTCGTACTAACACAAAGGAAAACTTTTGCAATACTACT
Found at i:8248598 original size:19 final size:18
Alignment explanation
Indices: 8248574--8248615 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
8248564 TTTATCTTTC
8248574 ATTTTAAATATATTTAATA
1 ATTTTAAATATATTTAA-A
8248593 ATTTT--ATATATTTAAA
1 ATTTTAAATATATTTAAA
8248609 ATTTTAA
1 ATTTTAA
8248616 TAGTTAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.29
17 10 0.48
19 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAAATATATTTAAA
Found at i:8248603 original size:17 final size:17
Alignment explanation
Indices: 8248581--8248624 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
8248571 TTCATTTTAA
8248581 ATATATTTAATAATTTT
1 ATATATTTAATAATTTT
8248598 ATATATTTAA-AATTTT
1 ATATATTTAATAATTTT
*
8248614 A-ATAGTTAATA
1 ATATATTTAATA
8248625 GAGCAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 7 0.28
16 8 0.32
17 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATATATTTAATAATTTT
Found at i:8249566 original size:18 final size:17
Alignment explanation
Indices: 8249533--8249801 Score: 204
Period size: 17 Copynumber: 15.2 Consensus size: 17
8249523 CGAGATTTTT
8249533 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
8249551 TTTTTAAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
**
8249568 TTTTTGAAAACACGAGGA
1 TTTTT-AAAACACGAAAA
* *
8249586 TTTTTGAAATACGAAAAA
1 TTTTTAAAACACG-AAAA
*
8249604 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* * *
8249621 TTTTGAAAACACGGAAT
1 TTTTTAAAACACGAAAA
* *
8249638 TTTTTAAAACACGGGAAT
1 TTTTTAAAACAC-GAAAA
* *
8249656 TTTTTGAAACACCG-GAA
1 TTTTTAAAACA-CGAAAA
*
8249673 TTTTTGAAAACATC-AATA
1 TTTTT-AAAACA-CGAAAA
* *
8249691 TTTTTGAAACACGCAATA
1 TTTTTAAAACACG-AAAA
*
8249709 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
*
8249726 TTTTTGAAACAC-AGAAA
1 TTTTTAAAACACGA-AAA
*
8249743 TTTTTGAAAACAAGAAAA
1 TTTTT-AAAACACGAAAA
* *
8249761 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
8249778 TTTTTAGAAGACACGAAAAA
1 TTTTTA-AA-ACACG-AAAA
8249798 TTTT
1 TTTT
8249802 GGAAAATGGA
Statistics
Matches: 203, Mismatches: 32, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
16 2 0.01
17 98 0.48
18 89 0.44
19 7 0.03
20 7 0.03
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:8249579 original size:35 final size:35
Alignment explanation
Indices: 8249533--8249802 Score: 298
Period size: 35 Copynumber: 7.7 Consensus size: 35
8249523 CGAGATTTTT
*
8249533 TTTTTGAAAACACGAAAATTTTTAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
** *
8249568 TTTTTGAAAACACGAGGATTTTTGAAATA-CGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCG-AAA
* *
8249603 ATTTTGAAAACACGAAAA-TTTTGAAA-ACACGGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACAC-CGAAA
* * * *
8249637 TTTTTTAAAACACGGGAATTTTTTGAAACACCGGAA
1 TTTTTGAAAACAC-GAAAATTTTTGAAACACCGAAA
* *
8249673 TTTTTGAAAACATC-AATATTTTTGAAACA-CGCAA
1 TTTTTGAAAACA-CGAAAATTTTTGAAACACCGAAA
*
8249707 TATTTTGAAAACACGAAAATTTTTGAAACACAGAAA
1 T-TTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* *
8249743 TTTTTGAAAACAAGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* *
8249778 TTTTTAGAAGACACGAAAAATTTTG
1 TTTTT-GAAAACACGAAAATTTTTG
8249803 GAAAATGGAA
Statistics
Matches: 199, Mismatches: 25, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
33 1 0.01
34 29 0.15
35 122 0.61
36 44 0.22
37 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
Found at i:8249996 original size:19 final size:20
Alignment explanation
Indices: 8249959--8250000 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
8249949 CGTTGTCTTA
8249959 TTTTTGAAAACACGAGAAAAT
1 TTTTTGAAAACAC-AGAAAAT
*
8249980 TTTTTGAAGACAC-GAAAAT
1 TTTTTGAAAACACAGAAAAT
8249999 TT
1 TT
8250001 CGAAACCGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
21 12 0.60
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (20 bp):
TTTTTGAAAACACAGAAAAT
Found at i:8250175 original size:5 final size:5
Alignment explanation
Indices: 8250165--8250192 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8250155 AAATTATTTA
8250165 AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA
8250193 AATATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:8250323 original size:14 final size:15
Alignment explanation
Indices: 8250304--8250341 Score: 69
Period size: 14 Copynumber: 2.6 Consensus size: 15
8250294 TGAAACTCCC
8250304 TTTTTTTCTTCT-TT
1 TTTTTTTCTTCTCTT
8250318 TTTTTTTCTTCTCTT
1 TTTTTTTCTTCTCTT
8250333 TTTTTTTCT
1 TTTTTTTCT
8250342 CCACTGGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTCTTCTCTT
Found at i:8250755 original size:20 final size:20
Alignment explanation
Indices: 8250709--8250768 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 20
8250699 TCGGACCCTC
*
8250709 TCCTCTTC-TTCTC-CTTTC
1 TCCTCTTCTTTCTCTCTTTT
8250727 TCCTC-TCTTTCTCTCTTTT
1 TCCTCTTCTTTCTCTCTTTT
* *
8250746 TTCTCTTCTTTTTTCTCTTTT
1 TCCTCTTC-TTTCTCTCTTTT
8250767 TC
1 TC
8250769 GCAAGTTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 2 0.06
18 10 0.29
19 8 0.24
20 2 0.06
21 12 0.35
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
TCCTCTTCTTTCTCTCTTTT
Found at i:8250757 original size:12 final size:12
Alignment explanation
Indices: 8250734--8250764 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
8250724 TTCTCCTCTC
8250734 TTTCTC-TCTTT
1 TTTCTCTTCTTT
8250745 TTTCTCTTCTTT
1 TTTCTCTTCTTT
8250757 TTTCTCTT
1 TTTCTCTT
8250765 TTTCGCAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTCTCTTCTTT
Found at i:8251100 original size:30 final size:30
Alignment explanation
Indices: 8250962--8251108 Score: 156
Period size: 30 Copynumber: 4.9 Consensus size: 30
8250952 CAATTGTAGT
* *
8250962 AAAATTTCT-GGGGTCTAAACGTAATTTTAA
1 AAAATTT-TAGGGGTCAAAATGTAATTTTAA
*
8250992 GAAAATTTT-GGGGTCAAAACGTAA-TTTAA
1 -AAAATTTTAGGGGTCAAAATGTAATTTTAA
* * *
8251021 AAAATTTTATGGGTTAAAATGTAATTTCAA
1 AAAATTTTAGGGGTCAAAATGTAATTTTAA
* * * *
8251051 ACAAGTTTAGGGGTTAAAATATAATTTTAA
1 AAAATTTTAGGGGTCAAAATGTAATTTTAA
*
8251081 AAAATTTTAGGGGTCAAAATGCAATTTT
1 AAAATTTTAGGGGTCAAAATGTAATTTT
8251109 TTATTTTTTG
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
28 8 0.08
29 17 0.17
30 67 0.68
31 7 0.07
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.36
Consensus pattern (30 bp):
AAAATTTTAGGGGTCAAAATGTAATTTTAA
Found at i:8253785 original size:25 final size:27
Alignment explanation
Indices: 8253757--8253814 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
8253747 ACTTAATAAG
8253757 CAAATG-TCT-ATAATAACAAAATTAA
1 CAAATGCTCTAATAATAACAAAATTAA
*
8253782 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATG-CTCT--AATAATAACAAAATTAA
8253812 CAA
1 CAA
8253815 TAAAATAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.22
27 2 0.07
30 19 0.70
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.26
Consensus pattern (27 bp):
CAAATGCTCTAATAATAACAAAATTAA
Found at i:8254266 original size:20 final size:22
Alignment explanation
Indices: 8254238--8254277 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8254228 GCGCATTTTC
*
8254238 TTTTCAATT-TTATTTTTTTAG
1 TTTTCAATTAATATTTTTTTAG
8254259 TTTT-AATTAATATTTTTTT
1 TTTTCAATTAATATTTTTTT
8254278 TTTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (22 bp):
TTTTCAATTAATATTTTTTTAG
Found at i:8254721 original size:21 final size:21
Alignment explanation
Indices: 8254695--8254734 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8254685 GCATGTTTCG
8254695 TGGTTGTTCCTTAGGTAAGCA
1 TGGTTGTTCCTTAGGTAAGCA
*
8254716 TGGTTGTTCCTTTGGTAAG
1 TGGTTGTTCCTTAGGTAAG
8254735 GATTAGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.30, T:0.42
Consensus pattern (21 bp):
TGGTTGTTCCTTAGGTAAGCA
Found at i:8265345 original size:15 final size:15
Alignment explanation
Indices: 8265325--8265356 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8265315 TGTCTTGAGA
8265325 ATATCAGGCTCTCAC
1 ATATCAGGCTCTCAC
8265340 ATATCAGGCTCTCAC
1 ATATCAGGCTCTCAC
8265355 AT
1 AT
8265357 CTTGATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.28
Consensus pattern (15 bp):
ATATCAGGCTCTCAC
Found at i:8265962 original size:18 final size:18
Alignment explanation
Indices: 8265941--8265985 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
8265931 CATTCTTCTC
* *
8265941 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTACCCCTT
8265959 CCCTTTCCCCTACCCCTT
1 CCCTTTCCCCTACCCCTT
8265977 CCCTTTCCC
1 CCCTTTCCC
8265986 GTTTCGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.02, C:0.60, G:0.00, T:0.38
Consensus pattern (18 bp):
CCCTTTCCCCTACCCCTT
Found at i:8267446 original size:30 final size:30
Alignment explanation
Indices: 8267401--8267458 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
8267391 GCATTTGTAC
*
8267401 AAGATCATAACTACCAATTTGCTATGACAT
1 AAGACCATAACTACCAATTTGCTATGACAT
*
8267431 AAGACCATAAGTACCAATTTGCTATGAC
1 AAGACCATAACTACCAATTTGCTATGAC
8267459 TGGCATGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (30 bp):
AAGACCATAACTACCAATTTGCTATGACAT
Found at i:8268623 original size:20 final size:20
Alignment explanation
Indices: 8268598--8268637 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8268588 AATATTTTCC
*
8268598 AGTAAATTATTTTACAGAAA
1 AGTAAAATATTTTACAGAAA
*
8268618 AGTAAAATATTTTCCAGAAA
1 AGTAAAATATTTTACAGAAA
8268638 TCATTTTACG
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:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTAAAATATTTTACAGAAA
Found at i:8268652 original size:34 final size:35
Alignment explanation
Indices: 8268586--8268652 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
8268576 CAAACACCAG
*
8268586 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
8268621 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
8268653 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:8268859 original size:40 final size:39
Alignment explanation
Indices: 8268784--8268859 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 39
8268774 CCCAATTTTT
* * *
8268784 TCTTCCTTTTCTCTTTCTAAGTTTTTTTTTCTCTACTTC
1 TCTTCCTTTTCTCTCTCTAACTTTTTTCTTCTCTACTTC
*
8268823 TCTTCTCTTTTCTCTCTCTCACTTTATTTCTT-TCTAC
1 TCTTC-CTTTTCTCTCTCTAACTTT-TTTCTTCTCTAC
8268860 GCCTCTAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 5 0.16
40 21 0.68
41 5 0.16
ACGTcount: A:0.08, C:0.29, G:0.01, T:0.62
Consensus pattern (39 bp):
TCTTCCTTTTCTCTCTCTAACTTTTTTCTTCTCTACTTC
Found at i:8279136 original size:33 final size:33
Alignment explanation
Indices: 8279094--8279162 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
8279084 GTTAGCAAAT
* *
8279094 AGTGAAGTAAACTAACAGGTATTCTTTGGGGGA
1 AGTGAAGTAAACTAACAGGTATGCTTTAGGGGA
8279127 AGTGAAGTAAACTAACAGGTATGCTTTAGGGGA
1 AGTGAAGTAAACTAACAGGTATGCTTTAGGGGA
8279160 AGT
1 AGT
8279163 AGATTCGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.30, T:0.26
Consensus pattern (33 bp):
AGTGAAGTAAACTAACAGGTATGCTTTAGGGGA
Found at i:8293413 original size:7 final size:7
Alignment explanation
Indices: 8293401--8293426 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8293391 GATTTTTTTG
8293401 TTATTAA
1 TTATTAA
8293408 TTATTAA
1 TTATTAA
8293415 TTATTAA
1 TTATTAA
8293422 TTATT
1 TTATT
8293427 TATGTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTATTAA
Found at i:8293569 original size:60 final size:60
Alignment explanation
Indices: 8293494--8293608 Score: 185
Period size: 60 Copynumber: 1.9 Consensus size: 60
8293484 TTTTTATAAT
* * **
8293494 TATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTACAAATTTTTGTGTTTGTAAA
1 TATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTACAAATTGGTGTGTTTGTAAA
*
8293554 TATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGGTGTGTTT
1 TATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTACAAATTGGTGTGTTT
8293609 AGTTTAGTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.51
Consensus pattern (60 bp):
TATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTACAAATTGGTGTGTTTGTAAA
Found at i:8293999 original size:46 final size:46
Alignment explanation
Indices: 8293948--8294044 Score: 185
Period size: 46 Copynumber: 2.1 Consensus size: 46
8293938 TAAAAAGTCG
*
8293948 ATAATAATACATTAATAGTATCGATTAAAAGCGTTTCTCAAAACTC
1 ATAATAATACATTAATAGTATCAATTAAAAGCGTTTCTCAAAACTC
8293994 ATAATAATACATTAATAGTATCAATTAAAAGCGTTTCTCAAAACTC
1 ATAATAATACATTAATAGTATCAATTAAAAGCGTTTCTCAAAACTC
8294040 ATAAT
1 ATAAT
8294045 TAAGATTCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (46 bp):
ATAATAATACATTAATAGTATCAATTAAAAGCGTTTCTCAAAACTC
Found at i:8296203 original size:33 final size:33
Alignment explanation
Indices: 8296160--8296239 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
8296150 CAGTCATCAT
*
8296160 AGCTCGTATCCACCTTAGTAGTCCGCACCTTCC
1 AGCTCGTATCCACCTCAGTAGTCCGCACCTTCC
* * *
8296193 GGCTCGTATCCACCTCAGTATTCCGCTCCTTCC
1 AGCTCGTATCCACCTCAGTAGTCCGCACCTTCC
8296226 AGC-CTGTATCCACC
1 AGCTC-GTATCCACC
8296240 GCTGTACTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
32 1 0.02
33 40 0.98
ACGTcount: A:0.16, C:0.41, G:0.15, T:0.28
Consensus pattern (33 bp):
AGCTCGTATCCACCTCAGTAGTCCGCACCTTCC
Found at i:8296519 original size:29 final size:28
Alignment explanation
Indices: 8296464--8296519 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
8296454 ATTTGTGTAA
* **
8296464 TTAATTTTTTGGCATTTTATTTATCAAT
1 TTAATTTTTTGGCAATTTAAATATCAAT
*
8296492 TTAATTTTTTTGCAATTTAAATAGTCAA
1 TTAATTTTTTGGCAATTTAAATA-TCAA
8296520 CTTTGTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (28 bp):
TTAATTTTTTGGCAATTTAAATATCAAT
Found at i:8312349 original size:35 final size:35
Alignment explanation
Indices: 8312308--8312395 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
8312298 ATATCGACTT
8312308 GTCCTTCAATGCGACACCATGTAAACGATTTATAG
1 GTCCTTCAATGCGACACCATGTAAACGATTTATAG
* * *
8312343 GTCCTTCGA-GACAACACCATGTAAACGGTTTATAG
1 GTCCTTCAATG-CGACACCATGTAAACGATTTATAG
* * *
8312378 GCCCTTTAATGAGACACC
1 GTCCTTCAATGCGACACC
8312396 TCGTAAAGAG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
34 1 0.02
35 41 0.95
36 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (35 bp):
GTCCTTCAATGCGACACCATGTAAACGATTTATAG
Found at i:8317313 original size:17 final size:17
Alignment explanation
Indices: 8317293--8317326 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8317283 AATAAATATA
* *
8317293 TTTATTTTTTAAATTTT
1 TTTAATTTTAAAATTTT
8317310 TTTAATTTTAAAATTTT
1 TTTAATTTTAAAATTTT
8317327 AAAATATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTAATTTTAAAATTTT
Found at i:8317354 original size:12 final size:11
Alignment explanation
Indices: 8317323--8317364 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
8317313 AATTTTAAAA
8317323 TTTTAAAATAT
1 TTTTAAAATAT
8317334 TTTTAAAATACT
1 TTTTAAAATA-T
*
8317346 TTTT-TAA-AT
1 TTTTAAAATAT
8317355 TTTTAAAATA
1 TTTTAAAATA
8317365 AATTTTTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
9 5 0.19
10 3 0.12
11 13 0.50
12 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:8317370 original size:21 final size:21
Alignment explanation
Indices: 8317332--8317371 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8317322 ATTTTAAAAT
**
8317332 ATTTTTAAAATACTTTTTTAA
1 ATTTTTAAAATAAATTTTTAA
8317353 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
8317372 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTAA
Found at i:8317387 original size:25 final size:27
Alignment explanation
Indices: 8317359--8317416 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
8317349 TTAAATTTTT
*
8317359 AAAA-TAAATTTTTGGTGTTTATTAAA
1 AAAAGTAAATTTTTGGTATTTATTAAA
8317385 AAATAGTAAATTTTTGGTATTTATTAAA
1 AAA-AGTAAATTTTTGGTATTTATTAAA
8317413 AAAA
1 AAAA
8317417 TGGACCGGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 3 0.10
27 2 0.07
28 24 0.83
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (27 bp):
AAAAGTAAATTTTTGGTATTTATTAAA
Found at i:8321130 original size:42 final size:42
Alignment explanation
Indices: 8321070--8321153 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
8321060 CTCAGGCAAG
* * *
8321070 AAAGGCAATCCTGGGATACTCAAAATATCCCAAACGGGAAAC
1 AAAGGCAATCCTGAGATACCCAAAAAATCCCAAACGGGAAAC
*
8321112 AAAGGCAATCCTGAGATACCCAAAAAATCCCAAATGGGAAAC
1 AAAGGCAATCCTGAGATACCCAAAAAATCCCAAACGGGAAAC
8321154 GAAACCATCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.45, C:0.24, G:0.18, T:0.13
Consensus pattern (42 bp):
AAAGGCAATCCTGAGATACCCAAAAAATCCCAAACGGGAAAC
Found at i:8326133 original size:19 final size:19
Alignment explanation
Indices: 8326106--8326142 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8326096 TCAAACCAGG
8326106 CTTGCTATGTGAAATCGGA
1 CTTGCTATGTGAAATCGGA
*
8326125 CTTGTTATGTGAAATCGG
1 CTTGCTATGTGAAATCGG
8326143 GCCAATGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (19 bp):
CTTGCTATGTGAAATCGGA
Found at i:8326412 original size:37 final size:37
Alignment explanation
Indices: 8326370--8326644 Score: 149
Period size: 37 Copynumber: 7.9 Consensus size: 37
8326360 ATTCTGGAAA
*
8326370 TAATA-TTATTTTAATA-CATTTAATATTAAATTAAATT
1 TAATATTTATCTTAATAGCATTT--TATTAAATTAAATT
* *
8326407 TAATATTTATCTTAATAGTATTTTATTAAATTAATAAT
1 TAATATTTATCTTAATAGCATTTTATTAAATTAA-ATT
*
8326445 AAAGTGA-TTATC-T--TA--A---TATTAAATTAAATT
1 TAA-T-ATTTATCTTAATAGCATTTTATTAAATTAAATT
* *
8326475 TAATATTTATCTTAATAGTATTTTATTAAATTAATAAT
1 TAATATTTATCTTAATAGCATTTTATTAAATTAA-ATT
*
8326513 AAAGTGA-TTATC-T--TA--A---TATTAAATTAAATT
1 TAA-T-ATTTATCTTAATAGCATTTTATTAAATTAAATT
* *
8326543 TAATATTTATCTTAATAGTATTTTATTAAATTAATAAT
1 TAATATTTATCTTAATAGCATTTTATTAAATTAA-ATT
*
8326581 AAAGTGA-TTATC-T--TA--A---TATTAAATTAAATT
1 TAA-T-ATTTATCTTAATAGCATTTTATTAAATTAAATT
*
8326611 TAATATTTATCTTAATAGTATTTTATTAAATTAA
1 TAATATTTATCTTAATAGCATTTTATTAAATTAA
8326645 TAATAAAGTG
Statistics
Matches: 186, Mismatches: 14, Indels: 76
0.67 0.05 0.28
Matches are distributed among these distances:
28 3 0.02
29 18 0.10
30 15 0.08
31 33 0.18
32 6 0.03
34 6 0.03
36 6 0.03
37 49 0.26
38 25 0.13
39 22 0.12
40 3 0.02
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (37 bp):
TAATATTTATCTTAATAGCATTTTATTAAATTAAATT
Found at i:8326462 original size:68 final size:68
Alignment explanation
Indices: 8326389--8326673 Score: 570
Period size: 68 Copynumber: 4.2 Consensus size: 68
8326379 TTTAATACAT
8326389 TTAATATTAAATTAAATTTAATATTTATCTTAATAGTATTTTATTAAATTAATAATAAAGTGATT
1 TTAATATTAAATTAAATTTAATATTTATCTTAATAGTATTTTATTAAATTAATAATAAAGTGATT
8326454 ATC
66 ATC
8326457 TTAATATTAAATTAAATTTAATATTTATCTTAATAGTATTTTATTAAATTAATAATAAAGTGATT
1 TTAATATTAAATTAAATTTAATATTTATCTTAATAGTATTTTATTAAATTAATAATAAAGTGATT
8326522 ATC
66 ATC
8326525 TTAATATTAAATTAAATTTAATATTTATCTTAATAGTATTTTATTAAATTAATAATAAAGTGATT
1 TTAATATTAAATTAAATTTAATATTTATCTTAATAGTATTTTATTAAATTAATAATAAAGTGATT
8326590 ATC
66 ATC
8326593 TTAATATTAAATTAAATTTAATATTTATCTTAATAGTATTTTATTAAATTAATAATAAAGTGATT
1 TTAATATTAAATTAAATTTAATATTTATCTTAATAGTATTTTATTAAATTAATAATAAAGTGATT
8326658 ATC
66 ATC
8326661 TTAATATTAAATT
1 TTAATATTAAATT
8326674 TTATAGATAA
Statistics
Matches: 217, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 217 1.00
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (68 bp):
TTAATATTAAATTAAATTTAATATTTATCTTAATAGTATTTTATTAAATTAATAATAAAGTGATT
ATC
Found at i:8329656 original size:31 final size:31
Alignment explanation
Indices: 8329618--8329682 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
8329608 AATCTAGTTA
8329618 TCATCCAACTATT-AGTATATT-TCTTTTTTGG
1 TCATCCAACTATTCA--ATATTATCTTTTTTGG
*
8329649 TCATCCAACTATTCAATTTTATCTTTTTTGG
1 TCATCCAACTATTCAATATTATCTTTTTTGG
8329680 TCA
1 TCA
8329683 CCAGCTGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 4 0.13
31 26 0.84
32 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (31 bp):
TCATCCAACTATTCAATATTATCTTTTTTGG
Found at i:8333012 original size:60 final size:60
Alignment explanation
Indices: 8332938--8333064 Score: 182
Period size: 60 Copynumber: 2.1 Consensus size: 60
8332928 CAAAATTGAG
* * * **
8332938 TAGTTGGGTGACCATTTTGTAACTTTTCATAGTTTGATGACCAAAAAAGAAATTTACTAA
1 TAGTTGGATAACCATTTTATAACTTTTCATAGTTAAATGACCAAAAAAGAAATTTACTAA
* * *
8332998 TAGTTGGATAACCATTTTATAACTTTTCATAGTTAAATGACCAAAAGATAAATTTATTAA
1 TAGTTGGATAACCATTTTATAACTTTTCATAGTTAAATGACCAAAAAAGAAATTTACTAA
8333058 TAGTTGG
1 TAGTTGG
8333065 CTGACTACTA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (60 bp):
TAGTTGGATAACCATTTTATAACTTTTCATAGTTAAATGACCAAAAAAGAAATTTACTAA
Found at i:8335227 original size:19 final size:19
Alignment explanation
Indices: 8335203--8335256 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
8335193 AATCTTCAAG
8335203 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
8335222 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
8335241 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
8335257 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:8335232 original size:36 final size:36
Alignment explanation
Indices: 8335192--8335263 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
8335182 TATGGAAACA
8335192 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
8335228 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
8335264 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:8335247 original size:38 final size:40
Alignment explanation
Indices: 8335203--8335279 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
8335193 AATCTTCAAG
8335203 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
8335241 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
8335280 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:8339823 original size:7 final size:7
Alignment explanation
Indices: 8339811--8339836 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8339801 TTAACCTAGT
8339811 GATATTG
1 GATATTG
8339818 GATATTG
1 GATATTG
8339825 GATATTG
1 GATATTG
8339832 GATAT
1 GATAT
8339837 ATATTTCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (7 bp):
GATATTG
Found at i:8342945 original size:44 final size:45
Alignment explanation
Indices: 8342881--8342977 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
8342871 CTATTACACC
* * *
8342881 TCCATTCCATTCAACTAAACACA-AGAA-TACTATTACGTCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAATTACTATTACATCTCTAT
* *
8342925 TCCATTACATTCAACCAAACAATTGAATTGCTATTACATCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACATCTCTAT
8342970 TCCATTAC
1 TCCATTAC
8342978 GCCTCTATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACATCTCTAT
Found at i:8342983 original size:16 final size:16
Alignment explanation
Indices: 8342964--8343005 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
8342954 GCTATTACAT
8342964 CTCTATTCCATTACGC
1 CTCTATTCCATTACGC
**
8342980 CTCTATTATATTACGC
1 CTCTATTCCATTACGC
8342996 CTCTATTCCA
1 CTCTATTCCA
8343006 ATACAATGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.40
Consensus pattern (16 bp):
CTCTATTCCATTACGC
Found at i:8344709 original size:12 final size:12
Alignment explanation
Indices: 8344692--8344717 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8344682 CATGAAAATA
8344692 TTTTTTTTCCTT
1 TTTTTTTTCCTT
8344704 TTTTTTTTCCTT
1 TTTTTTTTCCTT
8344716 TT
1 TT
8344718 CCCCCAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTCCTT
Found at i:8345188 original size:172 final size:172
Alignment explanation
Indices: 8344993--8345335 Score: 677
Period size: 172 Copynumber: 2.0 Consensus size: 172
8344983 GTTATTAATT
8344993 TGGTCGTGTTTTATTAATGAATAAATTAAATAATTGTTATTGTGACTGTACATATAAATTCAAAA
1 TGGTCGTGTTTTATTAATGAATAAATTAAATAATTGTTATTGTGACTGTACATATAAATTCAAAA
8345058 AAATAACTTACATATTTTAATTAAACAATAATTATATTTAACGCGTGATTATATTAGAATATAAT
66 AAATAACTTACATATTTTAATTAAACAATAATTATATTTAACGCGTGATTATATTAGAATATAAT
8345123 ACAATTTATAATTTAATTTAATAGTTATTAAAATAATTTTAA
131 ACAATTTATAATTTAATTTAATAGTTATTAAAATAATTTTAA
8345165 TGGTCGTGTTTTATTAATGAATAAATTAAATAATTGTTATTGTGACTGTACATATAAATTCAAAA
1 TGGTCGTGTTTTATTAATGAATAAATTAAATAATTGTTATTGTGACTGTACATATAAATTCAAAA
8345230 AAATAACTTACATATTTTAATTAAACAATAATTATATTTAACGCGTGATTATATTAGAATATAAT
66 AAATAACTTACATATTTTAATTAAACAATAATTATATTTAACGCGTGATTATATTAGAATATAAT
*
8345295 ACAATTTATAATTTAATTTAATAGTTATTAAAATACTTTTA
131 ACAATTTATAATTTAATTTAATAGTTATTAAAATAATTTTA
8345336 TAACTAAAGA
Statistics
Matches: 170, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 170 1.00
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (172 bp):
TGGTCGTGTTTTATTAATGAATAAATTAAATAATTGTTATTGTGACTGTACATATAAATTCAAAA
AAATAACTTACATATTTTAATTAAACAATAATTATATTTAACGCGTGATTATATTAGAATATAAT
ACAATTTATAATTTAATTTAATAGTTATTAAAATAATTTTAA
Found at i:8354732 original size:11 final size:11
Alignment explanation
Indices: 8354679--8354733 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
8354669 AAACTAATCC
8354679 TCTCTCAAATT
1 TCTCTCAAATT
8354690 TCCTCTC-AATT
1 T-CTCTCAAATT
8354701 TACTCTCAAA-T
1 T-CTCTCAAATT
*
8354712 TCTTTCCAAATT
1 TCTCT-CAAATT
8354724 TCTCTCAAAT
1 TCTCTCAAAT
8354734 CCATATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 3 0.08
11 22 0.59
12 12 0.32
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:8354819 original size:16 final size:16
Alignment explanation
Indices: 8354795--8354826 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8354785 CCCTCTTTTT
8354795 AAATAATTTTTAAAAA
1 AAATAATTTTTAAAAA
*
8354811 AAATTATTTTTAAAAA
1 AAATAATTTTTAAAAA
8354827 TTTTTTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATAATTTTTAAAAA
Found at i:8355230 original size:27 final size:27
Alignment explanation
Indices: 8355196--8355248 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
8355186 GCACACATTC
8355196 CATCTTTCATGTGGAGAGTGCACTATT
1 CATCTTTCATGTGGAGAGTGCACTATT
8355223 CATCTTTCATGTGGAGAGTGCACTAT
1 CATCTTTCATGTGGAGAGTGCACTAT
8355249 CACTTTAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (27 bp):
CATCTTTCATGTGGAGAGTGCACTATT
Found at i:8357157 original size:14 final size:14
Alignment explanation
Indices: 8357140--8357189 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
8357130 TTAATTGACA
8357140 AACCTTAAACCCTT
1 AACCTTAAACCCTT
*
8357154 AACCTAAAAACCC-T
1 AACCT-TAAACCCTT
*
8357168 AACCCTAAACCCTT
1 AACCTTAAACCCTT
8357182 AA-CTTAAA
1 AACCTTAAA
8357190 AACCCTAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 11 0.37
14 13 0.43
15 6 0.20
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCTTAAACCCTT
Found at i:8357173 original size:21 final size:22
Alignment explanation
Indices: 8357168--8357887 Score: 443
Period size: 22 Copynumber: 33.0 Consensus size: 22
8357158 TAAAAACCCT
8357168 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
8357190 AACCCT-AACTCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
8357211 AACCCTAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
8357233 AACCATAAACCCTTAACTTACA
1 AACCCTAAACCCTTAACTTAAA
8357255 AACCCT-AACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
* *
8357275 AACCCTCAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAA
** *
8357297 AACTTTAAACCCTAAACTTTAAA
1 AACCCTAAACCCTTAAC-TTAAA
* *
8357320 ATCCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
8357342 AACCCT-AACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
8357362 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
** * * * *
8357384 ATTCCTAAATCATAAAAC-TATA
1 AACCCTAAACCCT-TAACTTAAA
** *
8357406 AACCCTAAATTCTTTACTTAAA
1 AACCCTAAACCCTTAACTTAAA
** * *
8357428 AACTTTAAACCCTAAACCCTAAA
1 AACCCTAAACCCTTAA-CTTAAA
* * *
8357451 AACCATAAACACTTAACCT-AA
1 AACCCTAAACCCTTAACTTAAA
*
8357472 AACCCT-AACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* * * *
8357493 AATCTTAAACCCTAAAACTTTAA
1 AACCCTAAACCCT-TAACTTAAA
* *
8357516 AACCCTAAACACATAAACCCTT---
1 AACCCTAAAC-CCTTAA--CTTAAA
* *
8357538 AA-CCTATAAACCTTAACCCT--A
1 AACCCTA-AACCCTTAA-CTTAAA
*
8357559 AACCCTAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* * *
8357581 AACCTTAAACTCTAAACTCT--A
1 AACCCTAAACCCTTAACT-TAAA
*
8357602 AACCCTAAAACCCTAAACCATTAACTTAA
1 AACCCT-AAACCCTTAA-C-TT-A---AA
* * *
8357631 AACCCTAAATCCTTAAATTAAT
1 AACCCTAAACCCTTAACTTAAA
* *
8357653 AACCCTAAACCATAAAACCTT-AA
1 AACCCTAAACCCT-TAA-CTTAAA
* * *
8357676 AATCTTAAACTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
8357698 ACCCCATAAACCCTTAAATTAAA
1 AACCC-TAAACCCTTAACTTAAA
* * *
8357721 AACCTTAAACTCTAAAACCTTAAA
1 AACCCTAAACCCT-TAA-CTTAAA
* * *
8357745 AA-CCTTAATCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
8357766 AACCCTAAA-----ACCTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
8357783 AACCCT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
8357804 AACCCTAAACCCTT-ACTTTAA
1 AACCCTAAACCCTTAACTTAAA
** * * *
8357825 AACTGT-AACCATTAAATAAAA
1 AACCCTAAACCCTTAACTTAAA
*
8357846 AACCCT-AACACTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
8357867 AACCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
8357888 TATAATTTGA
Statistics
Matches: 533, Mismatches: 121, Indels: 89
0.72 0.16 0.12
Matches are distributed among these distances:
16 2 0.00
17 12 0.02
20 35 0.07
21 174 0.33
22 181 0.34
23 96 0.18
24 12 0.02
25 4 0.01
26 2 0.00
28 8 0.02
29 7 0.01
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTAAA
Found at i:8357180 original size:28 final size:28
Alignment explanation
Indices: 8357140--8357198 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
8357130 TTAATTGACA
*
8357140 AACCTTAAACCCTTAACCTAAAAACCCT
1 AACCCTAAACCCTTAACCTAAAAACCCT
*
8357168 AACCCTAAACCCTTAACTTAAAAACCCT
1 AACCCTAAACCCTTAACCTAAAAACCCT
8357196 AAC
1 AAC
8357199 TCTTAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (28 bp):
AACCCTAAACCCTTAACCTAAAAACCCT
Found at i:8357199 original size:14 final size:15
Alignment explanation
Indices: 8357146--8357195 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
8357136 GACAAACCTT
8357146 AAACCCTTAACCTAA
1 AAACCCTTAACCTAA
8357161 AAACCC-TAACCCT--
1 AAACCCTTAA-CCTAA
*
8357174 AAACCCTTAACTTAA
1 AAACCCTTAACCTAA
8357189 AAACCCT
1 AAACCCT
8357196 AACTCTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 8 0.27
14 6 0.20
15 16 0.53
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (15 bp):
AAACCCTTAACCTAA
Found at i:8357339 original size:87 final size:85
Alignment explanation
Indices: 8357168--8357887 Score: 378
Period size: 87 Copynumber: 8.2 Consensus size: 85
8357158 TAAAAACCCT
* * * *
8357168 AACCCTAAACCCTTAACTTAAAAACCCTAACTCTTAAATTAAAAACCCTAAACCTTTAACTTAAA
1 AACCCT-AACCCTTAACTT-AAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTAAACTTAAA
*
8357233 AACCATAAACCCTTAACTTACA
64 AACCATAAACCCTTAACTTAAA
* **
8357255 AACCCTAACCCTTAACTTAAAACCCTCAACCCTTAACCTAAAAACTTTAAACCCTAAACTTTAAA
1 AACCCTAACCCTTAACTTAAAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTAAAC-TTAAA
*
8357320 ATCCATAAACCCTTAACTTAAA
64 AACCATAAACCCTTAACTTAAA
** * * *
8357342 AACCCTAACCCTTAACTTAAAACCCTAAACCCTTAACTTAAAATTCCTAAATCATAAAAC-TATA
1 AACCCTAACCCTTAACTTAAAACCCT-AACCCTTAACTTAAAAACCCTAAACCCT-AAACTTAAA
* ** *
8357406 AACCCTAAATTCTTTACTTAAA
64 AACCATAAACCCTTAACTTAAA
** * * * * * * *
8357428 AACTTTAAACCCTAAACCCTAAAAACCATAAACACTTAACCT-AAAACCCT-AACCTTTAACTTA
1 AACCCT-AACCCTTAA--CTTAAAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTAAACTTA
* * * *
8357491 AAAATCTTAAACCCTAAAACTTTAA
62 AAAACCATAAACCCT-TAACTTAAA
* * * * * * *
8357516 AACCCTAAACACATAAACCCTT--AACCTATAAACCTTAACCCT--AAACCCTAAACCTTTAACT
1 AACCCT-AAC-CCTTAA--CTTAAAACC-CTAACCCTTAA-CTTAAAAACCCTAAACCCTAAACT
* * *
8357577 TAAAAACCTTAAACTCTAAACTCTAAACCCTAA
60 TAAAAACCATAAACCCTTAACT-T--A----AA
* * * * *
8357610 AACCCTAAACCATTAACTTAAAACCCTAAATCCTTAAATTAATAACCCTAAACCATAAAACCTT-
1 AACCCT-AACCCTTAACTTAAAACCCT-AACCCTTAACTTAAAAACCCTAAACCCT-AAA-CTTA
* * *
8357674 AAAATCTTAAACTCTTAACTTAAA
62 AAAACCATAAACCCTTAACTTAAA
* * * * * * * *
8357698 ACCCCATAAACCCTTAAATTAAAAACCTTAAACTCTAAAACCTTAAAAACCTTAATCCTTAAA-T
1 AACCC-T-AACCCTTAACTT-AAAACCCT-AACCCT-TAA-CTTAAAAACCCTAAACCCTAAACT
* *
8357762 TAAAAACCCTAAA-----ACCTTAAA
60 TAAAAACCATAAACCCTTAACTTAAA
* * ** * *
8357783 AACCCTAACCCTTAAATTAAAAACCCTAAACCCTT-ACTTTAAAACTGT-AACCATTAAA-TAAA
1 AACCCTAACCCTTAACTT-AAAACCCT-AACCCTTAACTTAAAAACCCTAAACC-CTAAACTTAA
* *
8357845 AAACCCT-AACACTTAACTTAAA
63 AAACCATAAACCCTTAACTTAAA
8357867 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
8357888 TATAATTTGA
Statistics
Matches: 508, Mismatches: 88, Indels: 78
0.75 0.13 0.12
Matches are distributed among these distances:
79 5 0.01
80 24 0.05
81 1 0.00
83 29 0.06
84 25 0.05
85 19 0.04
86 64 0.13
87 125 0.25
88 62 0.12
89 43 0.08
90 21 0.04
91 8 0.02
92 17 0.03
93 17 0.03
94 25 0.05
95 20 0.04
96 3 0.01
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (85 bp):
AACCCTAACCCTTAACTTAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTAAACTTAAAAA
CCATAAACCCTTAACTTAAA
Found at i:8357515 original size:15 final size:15
Alignment explanation
Indices: 8357497--8357639 Score: 57
Period size: 14 Copynumber: 9.8 Consensus size: 15
8357487 CTTAAAAATC
8357497 TTAAACCCTAAAACT
1 TTAAACCCTAAAACT
8357512 TTAAAACCCTAAACAC-
1 TT-AAACCCTAAA-ACT
* * *
8357528 ATAAACCCTTAACCT
1 TTAAACCCTAAAACT
* * *
8357543 ATAAA-CCT-TAACC
1 TTAAACCCTAAAACT
* *
8357556 CTAAACCCTAAACCT
1 TTAAACCCTAAAACT
* *
8357571 TT-AA-CTTAAAAACC
1 TTAAACCCT-AAAACT
*
8357585 TTAAACTCT-AAACT
1 TTAAACCCTAAAACT
* *
8357599 CTAAACCCTAAAACC
1 TTAAACCCTAAAACT
* * *
8357614 CTAAACCAT-TAACT
1 TTAAACCCTAAAACT
*
8357628 TAAAACCCTAAA
1 TTAAACCCTAAA
8357640 TCCTTAAATT
Statistics
Matches: 91, Mismatches: 27, Indels: 20
0.66 0.20 0.14
Matches are distributed among these distances:
13 8 0.09
14 35 0.38
15 34 0.37
16 12 0.13
17 2 0.02
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (15 bp):
TTAAACCCTAAAACT
Found at i:8357525 original size:7 final size:7
Alignment explanation
Indices: 8357515--8357620 Score: 63
Period size: 7 Copynumber: 14.7 Consensus size: 7
8357505 TAAAACTTTA
8357515 AAACCCT
1 AAACCCT
*
8357522 AAACACAT
1 AAAC-CCT
8357530 AAACCCT
1 AAACCCT
*
8357537 TAA-CCT
1 AAACCCT
*
8357543 ATAAACCT
1 A-AACCCT
*
8357551 TAACCCT
1 AAACCCT
8357558 AAACCCT
1 AAACCCT
*
8357565 AAACCTT
1 AAACCCT
* *
8357572 TAA-CTT
1 AAACCCT
*
8357578 AAAAACCTT
1 --AAACCCT
*
8357587 AAACTCT
1 AAACCCT
*
8357594 AAACTCT
1 AAACCCT
8357601 AAACCCT
1 AAACCCT
8357608 AAAACCCT
1 -AAACCCT
8357616 AAACC
1 AAACC
8357621 ATTAACTTAA
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
6 6 0.08
7 52 0.66
8 18 0.23
9 3 0.04
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (7 bp):
AAACCCT
Done.