Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 99 of 167
Found at i:32743526 original size:54 final size:54
Alignment explanation
Indices: 32743425--32743568 Score: 139
Period size: 54 Copynumber: 2.7 Consensus size: 54
32743415 ATGAGTTCTT
* * * * * * *
32743425 AAAATCCTGTATGTAGAAGATTGTGATCGTAAATTAGTGGACCGTGAGACTT-GT
1 AAAATCCTATAAGTAGAAGGTCGTGATCGTAAATTAGCGAACCGTGAGA-TTCGA
**
32743479 AAAAT-CTCATAAGTAGAAGGTCGTGATCGTAAATTAGCGAATTGTGAGATTCGA
1 AAAATCCT-ATAAGTAGAAGGTCGTGATCGTAAATTAGCGAACCGTGAGATTCGA
* * **
32743533 AAAATCCTGTAAGTAAAAGGTCGCCATCGTAAATTA
1 AAAATCCTATAAGTAGAAGGTCGTGATCGTAAATTA
32743569 ATAGACCACG
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
53 4 0.05
54 68 0.92
55 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (54 bp):
AAAATCCTATAAGTAGAAGGTCGTGATCGTAAATTAGCGAACCGTGAGATTCGA
Found at i:32743825 original size:27 final size:27
Alignment explanation
Indices: 32743787--32743841 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
32743777 AAAGGCAATG
32743787 TAAGAAAATTGATTCCTCTATCCTCCT
1 TAAGAAAATTGATTCCTCTATCCTCCT
32743814 TAAGAAAATTGATTCCTCTATCCTCCT
1 TAAGAAAATTGATTCCTCTATCCTCCT
32743841 T
1 T
32743842 TCAAGGTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (27 bp):
TAAGAAAATTGATTCCTCTATCCTCCT
Found at i:32744031 original size:54 final size:54
Alignment explanation
Indices: 32743956--32744250 Score: 225
Period size: 54 Copynumber: 5.5 Consensus size: 54
32743946 GCGCCTAGAA
* * * * *
32743956 TCGTAAAATCGCATAACTAGAAGGTCATGAATGTCAATTAGA-GGACCGCGAGAT
1 TCGTAAAATCCCATAAGTAGAAGGTCATGAATGTAAATCA-ACGGACCGTGAGAT
* * * ** * * **
32744010 TTGTAAAATCCCGTAAGTAGAAGGTCACGAACATAAATTAACGGACTGCAAGAT
1 TCGTAAAATCCCATAAGTAGAAGGTCATGAATGTAAATCAACGGACCGTGAGAT
** * * * *
32744064 TCGTAAAATGTCATAAGTAGGAGGTCATGATTGTAAATCAATGGACTGTGAGAT
1 TCGTAAAATCCCATAAGTAGAAGGTCATGAATGTAAATCAACGGACCGTGAGAT
* ** ** * *
32744118 CCGTAAAATCCTGTAAGTAGAAAATCAT-CATCGTAAATCAACAGACCGTGAGAT
1 TCGTAAAATCCCATAAGTAGAAGGTCATGAAT-GTAAATCAACGGACCGTGAGAT
* * * * * * **
32744172 TTGTAAAACCCCGTAAGTAGAAGGTCCTGATTATAAATCAGTGGACCGTGAGAT
1 TCGTAAAATCCCATAAGTAGAAGGTCATGAATGTAAATCAACGGACCGTGAGAT
* *
32744226 TGGTAAAATCTCATAAGTAGAAGGT
1 TCGTAAAATCCCATAAGTAGAAGGT
32744251 GAAAGTTTCC
Statistics
Matches: 185, Mismatches: 53, Indels: 6
0.76 0.22 0.02
Matches are distributed among these distances:
53 2 0.01
54 182 0.98
55 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (54 bp):
TCGTAAAATCCCATAAGTAGAAGGTCATGAATGTAAATCAACGGACCGTGAGAT
Found at i:32744117 original size:108 final size:107
Alignment explanation
Indices: 32743956--32744250 Score: 270
Period size: 108 Copynumber: 2.7 Consensus size: 107
32743946 GCGCCTAGAA
* * * * * *
32743956 TCGTAAAATCGCATAACTAGAAGGTCATGAATGTCAATTAGA-GGACCGCGAGATTTGTAAAATC
1 TCGTAAAAT-GCATAAGTAGAAGGTCATGATTGTAAATCA-ATGGACCGTGAGATTCGTAAAATC
* * *
32744020 CCGTAAGTAGAAGGTCA-CGAACATAAATTAACGGACTGCAAGAT
64 CCGTAAGTAGAAGGTCATC-AACATAAATCAACAGACCGCAAGAT
* * *
32744064 TCGTAAAATGTCATAAGTAGGAGGTCATGATTGTAAATCAATGGACTGTGAGATCCGTAAAATCC
1 TCGTAAAATG-CATAAGTAGAAGGTCATGATTGTAAATCAATGGACCGTGAGATTCGTAAAATCC
* ** * * **
32744129 TGTAAGTAGAAAATCATCATCGTAAATCAACAGACCGTGAGAT
65 CGTAAGTAGAAGGTCATCAACATAAATCAACAGACCGCAAGAT
* ** * * * * * *
32744172 TTGTAAAACCCCGTAAGTAGAAGGTCCTGATTATAAATCAGTGGACCGTGAGATTGGTAAAATCT
1 TCGTAAAA-TGCATAAGTAGAAGGTCATGATTGTAAATCAATGGACCGTGAGATTCGTAAAATCC
*
32744237 CATAAGTAGAAGGT
65 CGTAAGTAGAAGGT
32744251 GAAAGTTTCC
Statistics
Matches: 148, Mismatches: 35, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
107 2 0.01
108 145 0.98
109 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (107 bp):
TCGTAAAATGCATAAGTAGAAGGTCATGATTGTAAATCAATGGACCGTGAGATTCGTAAAATCCC
GTAAGTAGAAGGTCATCAACATAAATCAACAGACCGCAAGAT
Found at i:32744485 original size:19 final size:18
Alignment explanation
Indices: 32744461--32744504 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
32744451 AATATGAATA
*
32744461 AAATTTATCTTCCTAAAT
1 AAATTTATCTACCTAAAT
32744479 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
32744498 AAATTTA
1 AAATTTA
32744505 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:32744596 original size:15 final size:15
Alignment explanation
Indices: 32744569--32744614 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
32744559 TTTTGCCCGG
32744569 GCTAAAAAGCCCAACA
1 GCTAAAAA-CCCAACA
*
32744585 TCTAAAAACCCAACA
1 GCTAAAAACCCAACA
**
32744600 GCCCAAAACCCAACA
1 GCTAAAAACCCAACA
32744615 ACCTCCAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.50, C:0.37, G:0.07, T:0.07
Consensus pattern (15 bp):
GCTAAAAACCCAACA
Found at i:32744635 original size:17 final size:17
Alignment explanation
Indices: 32744589--32744629 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
32744579 CCAACATCTA
*
32744589 AAAACCCAAC-AGC-CC
1 AAAACCCAACAACCTCC
32744604 AAAACCCAACAACCTCC
1 AAAACCCAACAACCTCC
*
32744621 AAAGCCCAA
1 AAAACCCAA
32744630 TCACCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 10 0.45
16 2 0.09
17 10 0.45
ACGTcount: A:0.49, C:0.44, G:0.05, T:0.02
Consensus pattern (17 bp):
AAAACCCAACAACCTCC
Found at i:32745130 original size:19 final size:18
Alignment explanation
Indices: 32745093--32745134 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
32745083 GGGGAGAGTG
*
32745093 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
32745111 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
32745130 TTATT
1 TTATT
32745135 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:32745721 original size:25 final size:25
Alignment explanation
Indices: 32745666--32745715 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
32745656 TGGGCGTGAC
*
32745666 ATTTTATTACTTCGAGATGAGAGAG
1 ATTTTATTACTTCAAGATGAGAGAG
32745691 ATTTTATTACTTCAAGATGAGAGAG
1 ATTTTATTACTTCAAGATGAGAGAG
32745716 TCTTTAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (25 bp):
ATTTTATTACTTCAAGATGAGAGAG
Found at i:32749375 original size:40 final size:40
Alignment explanation
Indices: 32749285--32749500 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
32749275 TATTCGAATG
*
32749285 ATATCGGGGCTAAGTCCCGAAGGCATTTGTGC---T-A-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
32749320 -TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
32749359 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
32749399 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
32749439 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
32749479 ATATCC-GGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
32749501 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
34 30 0.18
37 1 0.01
38 1 0.01
39 16 0.10
40 113 0.69
41 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:32759295 original size:40 final size:40
Alignment explanation
Indices: 32759240--32760141 Score: 1709
Period size: 40 Copynumber: 22.6 Consensus size: 40
32759230 TATTCGAATG
* *
32759240 ATATCGGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759280 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759320 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759360 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759400 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759440 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759480 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759520 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759560 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759600 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759640 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759680 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759720 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759760 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759800 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759840 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759880 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759920 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32759960 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
* *
32760000 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
32760040 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
* * *
32760080 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGTGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGC-TATTGACT
*
32760120 ATATCC-GGCTAAGTCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
32760142 TACTTGGGTT
Statistics
Matches: 850, Mismatches: 11, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
39 14 0.02
40 832 0.98
41 4 0.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.32
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
Found at i:32769711 original size:46 final size:46
Alignment explanation
Indices: 32769659--32769883 Score: 317
Period size: 46 Copynumber: 4.9 Consensus size: 46
32769649 GTGCTCTCTA
32769659 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
32769705 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
32769751 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * ** * *
32769797 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGACAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * * * *
32769843 ACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
32769884 TCACGTCAAA
Statistics
Matches: 163, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 162 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:32775551 original size:39 final size:40
Alignment explanation
Indices: 32775346--32775551 Score: 254
Period size: 40 Copynumber: 5.2 Consensus size: 40
32775336 GGACTAAGAT
** * *
32775346 CCGAAGGTTTTTGTGCGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * * ** *
32775386 CCGAAGGTATTTATGCTAGCGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
32775426 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
32775466 CTGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
32775506 CCGAAGGCATTTGAGCTAG-TAGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTC
32775545 CCGAAGG
1 CCGAAGG
32775552 TACTTGGTTT
Statistics
Matches: 144, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 17 0.12
40 127 0.88
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:32777298 original size:206 final size:206
Alignment explanation
Indices: 32776926--32777521 Score: 1095
Period size: 206 Copynumber: 2.9 Consensus size: 206
32776916 GATATGGCTA
* * * *
32776926 AAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGATCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCTAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
*
32776990 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTCGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
32777055 ACAAGTCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
32777120 TGTTTATACTG
196 TGTTTATACTG
32777131 AAGCAAGATCTAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCTAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
*
32777196 TTGGCTTTCGCGTGCTTATGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
32777261 AGAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
32777326 TGTTTATACTG
196 TGTTTATACTG
*
32777337 AAGCAAGATCTAAGATCATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCTAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
32777402 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
32777467 ACAAGTCGAAGTCTGGCATCTCCATTTTGACGGAGAGCAGATACATAGCAGATCT
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCT
32777522 CCATTCGAGA
Statistics
Matches: 378, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
205 4 0.01
206 374 0.99
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (206 bp):
AAGCAAGATCTAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
TGTTTATACTG
Found at i:32782046 original size:42 final size:42
Alignment explanation
Indices: 32781985--32782068 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
32781975 AATCCTAATT
*
32781985 GGGAAAATAGTTCATTTATTCTAATAAACTACTAAAACATAA
1 GGGAAAATAGTTCACTTATTCTAATAAACTACTAAAACATAA
* *
32782027 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAGTTCACTTATTCTAATAAACTACTAAAACATAA
32782069 AATAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (42 bp):
GGGAAAATAGTTCACTTATTCTAATAAACTACTAAAACATAA
Found at i:32782120 original size:19 final size:18
Alignment explanation
Indices: 32782096--32782139 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
32782086 AATATGAATA
*
32782096 AAATTTATCTTCCTAAAT
1 AAATTTATCTACCTAAAT
*
32782114 AAGATTTATCTACTTAAAT
1 AA-ATTTATCTACCTAAAT
32782133 AAATTTA
1 AAATTTA
32782140 AAATATATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:32782287 original size:54 final size:54
Alignment explanation
Indices: 32782190--32782338 Score: 144
Period size: 54 Copynumber: 2.8 Consensus size: 54
32782180 TAGCGAATCG
* ** * * * * *
32782190 TGAGATTCATAAAATTTCGTAAGTAAAAGGTCGTTATCGTAAATCAGCGGACCT
1 TGAGATTCGTAAAATCCCATAAGTAAAAGGTCGTTATCATAAATAAGCAGACCA
* *
32782244 TGAGATTCGTAAAATCCCATAAGTAAAAGGT-TTTCATCATAAATAAGTAGACCA
1 TGAGATTCGTAAAATCCCATAAGTAAAAGGTCGTT-ATCATAAATAAGCAGACCA
* * *
32782298 TGAGAGTCGTAAAATCCTATAAGT---AGGTCGTAATCATAAAT
1 TGAGATTCGTAAAATCCCATAAGTAAAAGGTCGTTATCATAAAT
32782339 CAGCGAACTA
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
51 13 0.16
52 1 0.01
53 2 0.03
54 63 0.80
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (54 bp):
TGAGATTCGTAAAATCCCATAAGTAAAAGGTCGTTATCATAAATAAGCAGACCA
Found at i:32782421 original size:54 final size:54
Alignment explanation
Indices: 32782334--32782469 Score: 139
Period size: 54 Copynumber: 2.5 Consensus size: 54
32782324 GTCGTAATCA
* * * * ** *
32782334 TAAATCAGCGAACTACGAGATTCATAAAGTCTCGTCAGTAAAATGTCATGATCG
1 TAAATCAACAAACTCCGAGATTCGTAAAGTCTCGAAAGTAAAAGGTCATGATCG
* **
32782388 TAAATCAACAAAGCT-CGAGATTCGTAAATTCTCGAAAGTAAAAGGTTGTGATCG
1 TAAATCAACAAA-CTCCGAGATTCGTAAAGTCTCGAAAGTAAAAGGTCATGATCG
* * *
32782442 TAAATTAGCAAACTCCAAGATTCGTAAA
1 TAAATCAACAAACTCCGAGATTCGTAAA
32782470 ATCCCGTAAG
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 2 0.03
54 64 0.94
55 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.26
Consensus pattern (54 bp):
TAAATCAACAAACTCCGAGATTCGTAAAGTCTCGAAAGTAAAAGGTCATGATCG
Found at i:32782487 original size:54 final size:54
Alignment explanation
Indices: 32782382--32782501 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 54
32782372 TAAAATGTCA
* * * * *
32782382 TGATCGTAAATCAACAAAGCTCGAGATTCGTAAATTCTCGAAAGTAAAAGGTTG
1 TGATCGTAAATTAACAAAGCTCAAGATTCGTAAAATCCCGAAAGTAAAAGGTTC
* * **
32782436 TGATCGTAAATTAGCAAA-CTCCAAGATTCGTAAAATCCCGTAAGTTGAAGGTTC
1 TGATCGTAAATTAACAAAGCT-CAAGATTCGTAAAATCCCGAAAGTAAAAGGTTC
*
32782490 TGATTGTAAATT
1 TGATCGTAAATT
32782502 CGTAGCCTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.04
54 53 0.96
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (54 bp):
TGATCGTAAATTAACAAAGCTCAAGATTCGTAAAATCCCGAAAGTAAAAGGTTC
Found at i:32785710 original size:5 final size:5
Alignment explanation
Indices: 32785700--32785724 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
32785690 AAAACTCATA
32785700 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
32785725 CAATATAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:32787057 original size:12 final size:12
Alignment explanation
Indices: 32787037--32787066 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
32787027 CACATGACCA
32787037 TGTGCTAGGTCG
1 TGTGCTAGGTCG
*
32787049 TGTGGTAGGTCG
1 TGTGCTAGGTCG
32787061 TGTGCT
1 TGTGCT
32787067 GGACCGTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.13, G:0.43, T:0.37
Consensus pattern (12 bp):
TGTGCTAGGTCG
Found at i:32789911 original size:39 final size:38
Alignment explanation
Indices: 32789808--32789917 Score: 103
Period size: 39 Copynumber: 2.8 Consensus size: 38
32789798 TTAGGTCATT
* * * *
32789808 TAACATACAAGCATATATCACCATACTCATATAATCTCA
1 TAACATTCAAGCATATATCACAATACTC-TAAAATCACA
* * * * * *
32789847 TGACGTTTAAGTATATGTCATAATACTCGTAAAATCACA
1 TAACATTCAAGCATATATCACAATACTC-TAAAATCACA
*
32789886 TAACATTCAAGCATATACCACAATACTCTAAA
1 TAACATTCAAGCATATATCACAATACTCTAAA
32789918 GCATCTTTAT
Statistics
Matches: 53, Mismatches: 18, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
38 4 0.08
39 49 0.92
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (38 bp):
TAACATTCAAGCATATATCACAATACTCTAAAATCACA
Found at i:32793270 original size:21 final size:20
Alignment explanation
Indices: 32793246--32793285 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
32793236 TATGAGCTTT
*
32793246 AATGATTGATGATAGATTATG
1 AATGATTAATGATAG-TTATG
*
32793267 AATGTTTAATGATAGTTAT
1 AATGATTAATGATAGTTAT
32793286 ATAAGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
AATGATTAATGATAGTTATG
Found at i:32795122 original size:11 final size:12
Alignment explanation
Indices: 32795097--32795130 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32795087 GGGAAAGAAA
32795097 GAAAGAAAAAGG
1 GAAAGAAAAAGG
32795109 GAAAGAAAAAGG
1 GAAAGAAAAAGG
*
32795121 AAAAGGAAAA
1 GAAA-GAAAA
32795131 TTAGGGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
GAAAGAAAAAGG
Found at i:32795964 original size:6 final size:6
Alignment explanation
Indices: 32795953--32795978 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32795943 TTCGTACCTG
32795953 ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT AC
32795979 CCTTACGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ACTGTT
Found at i:32802062 original size:26 final size:26
Alignment explanation
Indices: 32802025--32802134 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
32802015 CATGAAATTC
32802025 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
32802051 TTATCATTAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
32802077 TTATCATGGAGCATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
32802103 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
32802129 TTATCA
1 TTATCA
32802135 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:32809150 original size:40 final size:40
Alignment explanation
Indices: 32809120--32809409 Score: 474
Period size: 40 Copynumber: 7.3 Consensus size: 40
32809110 GGACTAAGAT
* * * **
32809120 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
32809160 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
32809200 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
32809240 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
32809280 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
32809320 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
32809360 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
32809399 CCGAAGGCATT
1 CCGAAGGCATT
32809410 TGAACGAGGA
Statistics
Matches: 239, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
39 33 0.14
40 206 0.86
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:32812754 original size:43 final size:42
Alignment explanation
Indices: 32812642--32812754 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 42
32812632 GAGATTTACG
* * * *
32812642 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTAAATTCG
1 TGTAAGACCACGTCTGGGACGTCGGCATCGTATCTAAATACA
* * *
32812684 TGTAAGACC-CTATCTGGGACAG-AGGCATCG-ATACTGAATGACA
1 TGTAAGACCAC-GTCTGGGAC-GTCGGCATCGTAT-CTAAAT-ACA
32812727 TGTAAGACCACGTCTGGGACGTCGGCAT
1 TGTAAGACCACGTCTGGGACGTCGGCAT
32812755 TGTACCTGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
41 2 0.04
42 30 0.54
43 23 0.41
44 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTCGGCATCGTATCTAAATACA
Found at i:32821121 original size:39 final size:39
Alignment explanation
Indices: 32820957--32821139 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
32820947 TTGAATGCTG
* * * * * * *
32820957 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
32820997 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
32821037 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
32821077 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
32821116 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
32821140 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:32821159 original size:79 final size:80
Alignment explanation
Indices: 32820993--32821174 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
32820983 GCTAAGTGAA
* * * *
32820993 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
32821057 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
32821073 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
32821137 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
32821152 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
32821175 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:32832167 original size:38 final size:38
Alignment explanation
Indices: 32832101--32832263 Score: 191
Period size: 38 Copynumber: 4.2 Consensus size: 38
32832091 TCGAAATATG
*
32832101 ATATCCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGG-TT-AAATCCCGCAAGCTTCGTGCTGGTAAT
* * * *
32832141 ATAACCAGGTTAAATCCCGTAAGCTTCGTGCAGGTAAT
1 ATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAAT
* *
32832179 ATATCCGGGTTAAATCCCGCAAGCTTCATGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAAT
* * * * *
32832217 ATATCCGGGTTAAATCCCGTAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAAT
*
32832255 ATATTCGGG
1 ATATCCGGG
32832264 CCTTTGAGCC
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
38 97 0.92
39 2 0.02
40 7 0.07
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAAT
Found at i:32832258 original size:76 final size:78
Alignment explanation
Indices: 32832101--32832264 Score: 215
Period size: 76 Copynumber: 2.1 Consensus size: 78
32832091 TCGAAATATG
* * *
32832101 ATATCCGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTAATATAACCAGGTTAAATCCCGTAAGCT
1 ATATCCGGGCTTAAAATCCCGCAAGCTTCATGCTGGTAATATAACCAGGTTAAATCCCGTAAGCC
*
32832166 TCGTGCAGGTAAT
66 TAGTGCAGGTAAT
* * * *
32832179 ATATCCGGG-TT-AAATCCCGCAAGCTTCATGCTGGTATTATATCCGGGTTAAATCCCGTAGGCC
1 ATATCCGGGCTTAAAATCCCGCAAGCTTCATGCTGGTAATATAACCAGGTTAAATCCCGTAAGCC
* *
32832242 TAGTGCTGGTATT
66 TAGTGCAGGTAAT
*
32832255 ATATTCGGGC
1 ATATCCGGGC
32832265 CTTTGAGCCT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
76 63 0.85
77 2 0.03
78 9 0.12
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (78 bp):
ATATCCGGGCTTAAAATCCCGCAAGCTTCATGCTGGTAATATAACCAGGTTAAATCCCGTAAGCC
TAGTGCAGGTAAT
Found at i:32832353 original size:45 final size:44
Alignment explanation
Indices: 32832257--32832384 Score: 163
Period size: 46 Copynumber: 2.9 Consensus size: 44
32832247 CTGGTATTAT
* *
32832257 ATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACATT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA-ACATG
32832302 ATTCGGGCCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAA-ATG
1 ATTCGGGCC-TTTGAGCCTAGCAGGCTATAATGCCGGTGAACATG
* * *
32832346 ATATCGGGCC-TCGAGCCTAGTAGGCGA-AATGCCGGTGAA
1 AT-TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAA
32832385 TGAATAAAAG
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
42 12 0.16
43 14 0.18
44 4 0.05
45 17 0.22
46 29 0.38
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (44 bp):
ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAACATG
Found at i:32837816 original size:38 final size:38
Alignment explanation
Indices: 32837759--32837921 Score: 173
Period size: 38 Copynumber: 4.2 Consensus size: 38
32837749 TCGAAATATG
* *
32837759 ATATCCGGGCTTAAAATCCCGCAGGCTTTGTGCTAGTAAT
1 ATATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTAAT
* **
32837799 ATAACCGGGTTAAATCCCATAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
32837837 ATATCTGGGTTAAATCCCGCAGGCTTCATGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * * * * *
32837875 ATATCTGGGTTAAATCCTGTAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
32837913 ATATTCGGG
1 ATATCCGGG
32837922 CCTTTGAGTC
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 95 0.90
39 2 0.02
40 8 0.08
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:32837898 original size:76 final size:76
Alignment explanation
Indices: 32837772--32837916 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 76
32837762 TCCGGGCTTA
** * *
32837772 AAATCCCGCAGGCTTTGTGCTAGTAATATAACCGGGTTAAATCCCATAGGCTTCGTGCTGGTAAT
1 AAATCCCGCAGGCTTCATGCTAGTAATATAACCGGGTTAAATCCCATAGGCCTAGTGCTGGTAAT
32837837 ATATCTGGGTT
66 ATATCTGGGTT
* * * * ** *
32837848 AAATCCCGCAGGCTTCATGCTGGTATTATATCTGGGTTAAATCCTGTAGGCCTAGTGCTGGTATT
1 AAATCCCGCAGGCTTCATGCTAGTAATATAACCGGGTTAAATCCCATAGGCCTAGTGCTGGTAAT
32837913 ATAT
66 ATAT
32837917 TCGGGCCTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 58 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (76 bp):
AAATCCCGCAGGCTTCATGCTAGTAATATAACCGGGTTAAATCCCATAGGCCTAGTGCTGGTAAT
ATATCTGGGTT
Found at i:32838012 original size:45 final size:43
Alignment explanation
Indices: 32837913--32838041 Score: 140
Period size: 45 Copynumber: 3.0 Consensus size: 43
32837903 TGCTGGTATT
* * * *
32837913 ATATTCGGGCCTTT-GAGTCTAGCAGGCTATTATGCAGTGAGACA
1 ATATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCG-GTGA-A
*
32837957 ATATTTGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
1 ATATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
*
32838000 ATGATATCGGGCC--TCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 AT-AT-TCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
32838042 TGAATAAAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
42 12 0.16
43 19 0.25
44 18 0.24
45 26 0.35
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (43 bp):
ATATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
Found at i:32839380 original size:53 final size:52
Alignment explanation
Indices: 32839276--32839434 Score: 154
Period size: 52 Copynumber: 3.2 Consensus size: 52
32839266 ATAGCCTTGT
* * **
32839276 CATGGTCTTATAC-GGATCACATATCAT-A--C-C-GATGCCATATCCCAAA
1 CATGGTCTTATACGGGAGCACATATCATAATCCACTGATGCCATAGCCCAGC
* *
32839322 TATGGTCTTATAC-GGAGGCACATTATCA-CATCCTACTGATGCCATAGCCCAGC
1 CATGGTCTTATACGGGA-GCACA-TATCATAATCC-ACTGATGCCATAGCCCAGC
* *
32839375 CATGGTCTTATACGGGAGTACATATCATAATGCACTGATGCCATAGCCCAGC
1 CATGGTCTTATACGGGAGCACATATCATAATCCACTGATGCCATAGCCCAGC
*
32839427 TATGGTCT
1 CATGGTCT
32839435 GATATGGTAA
Statistics
Matches: 93, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
46 15 0.16
47 4 0.04
48 6 0.06
50 1 0.01
52 32 0.34
53 32 0.34
54 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (52 bp):
CATGGTCTTATACGGGAGCACATATCATAATCCACTGATGCCATAGCCCAGC
Found at i:32846486 original size:132 final size:132
Alignment explanation
Indices: 32846234--32846731 Score: 474
Period size: 132 Copynumber: 3.8 Consensus size: 132
32846224 GGTGAATTCA
* * * * * * *
32846234 AAGATCTTATCTCCCTAAGTAGTAGTGAAGTAGATCGAAGATGGTGAATCATATCTTCCTGAGGT
1 AAGATCTTATCTCCCTAAGTAGCAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCTGAGGT
* * * *
32846299 AGTA-GGAAGCAGATTTAAGCCACTAGCCTTGTCTCCCTAAGCAGCAGTGGAGCAGGATGAAGGT
66 AGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAATGGAGCAGGATGAAGGT
32846363 TG
131 TG
* * * * * * *
32846365 CAGATCTTATCTCCTTGAGTAGCAGTGGAGCAGATCAAAGACGGTGAATCTTATCATACAGAGGT
1 AAGATCTTATCTCCCTAAGTAGCAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCTGAGGT
* * * *
32846430 AGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAACAATGGAGCAGGCTGAAGAT
66 AGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAATGGAGCAGGATGAAGGT
32846495 T-
131 TG
* * * * * *
32846496 ATAGATTTTATCTCCCTAAGCAGTAGTGGA-CTAGATCGAAGACTGCGAATCTTATCTTCC---C
1 A-AGATCTTATCTCCCTAAGTAGCAGTGGAGC-AGATCAAAGACGGCGAATCTTATCTTCCTGAG
** * * * *
32846557 G-AGTAGGGAAGCAGATTTAAGCCACCAATCTTATCTTCCTGAAGTAGCAAAGGAACA-GATTGA
64 GTAGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCTG-AGCAGCAATGGAGCAGGA-TGA
32846620 A-GTTG
127 AGGTTG
* * * * * * * *
32846625 AAGATCTTATCTCCTTGAATTTGCAGTGGAGTAGATCAAATATGGCGAACCTTATCTTCCTGAAG
1 AAGATCTTATCTCCCT-AAGTAGCAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCTGAGG
* * * *
32846690 TTGCAGCGAAGCAGATTAAAGCCACCAGCCTTATCTCCCTGA
65 TAGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCTGA
32846732 AGTTGTAGAG
Statistics
Matches: 295, Mismatches: 60, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
128 52 0.18
129 49 0.17
131 58 0.20
132 103 0.35
133 33 0.11
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (132 bp):
AAGATCTTATCTCCCTAAGTAGCAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCTGAGGT
AGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAATGGAGCAGGATGAAGGT
TG
Found at i:32846722 original size:261 final size:262
Alignment explanation
Indices: 32846235--32846731 Score: 617
Period size: 261 Copynumber: 1.9 Consensus size: 262
32846225 GTGAATTCAA
* * * *
32846235 AGATCTTATCTCCCTAAGTAGTAGTGAAGTAGATCGAAGATGGTGAATCATATCTTCCTGAGGTA
1 AGATCTTATCTCCCTAAGCAGTAGTGAACTAGATCGAAGATGGCGAATCATATCTTCCCGAGGTA
* * * ** *
32846300 GTAGGAAGCAGATTTAAGCCACTAGCCTTGTCTCCCTAAGCAGCAGTGGAGCAGGATGAAGGTTG
66 G-AGGAAGCAGATTTAAGCCACCAACCTTATCTCCCTAAGCAGCAAAGGAACAGGATGAAGGTTG
* * * *
32846365 CAGATCTTATCTCCTTGAGTAGCAGTGGAGCAGATCAAAGACGGTGAATCTTATCATACAGAGGT
130 AAGATCTTATCTCCTTGAGTAGCAGTGGAGCAGATCAAAGACGGCGAACCTTATCATACAGAAGT
* * * *
32846430 AGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAACAATGGAGCAGGCTGAAGAT
195 AGCAGCGAAGCAGATTAAAGCCACCAGCCTTATCTCCCTGAGCAACAATGGAGCAGGCTGAAGAT
32846495 TAT
260 TAT
* * *
32846498 AGATTTTATCTCCCTAAGCAGTAGTGGACTAGATCGAAGACT-GCGAATCTTATCTTCCCGA-GT
1 AGATCTTATCTCCCTAAGCAGTAGTGAACTAGATCGAAGA-TGGCGAATCATATCTTCCCGAGGT
* * *
32846561 AG-GGAAGCAGATTTAAGCCACCAATCTTATCTTCCTGAAGTAGCAAAGGAACA-GATTGAA-GT
65 AGAGGAAGCAGATTTAAGCCACCAACCTTATCTCCCT-AAGCAGCAAAGGAACAGGA-TGAAGGT
* * * * * * * *
32846623 TGAAGATCTTATCTCCTTGAATTTGCAGTGGAGTAGATCAAATATGGCGAACCTTATCTTCCTGA
128 TGAAGATCTTATCTCCTTG-AGTAGCAGTGGAGCAGATCAAAGACGGCGAACCTTATCATACAGA
*
32846688 AGTTGCAGCGAAGCAGATTAAAGCCACCAGCCTTATCTCCCTGA
192 AGTAGCAGCGAAGCAGATTAAAGCCACCAGCCTTATCTCCCTGA
32846732 AGTTGTAGAG
Statistics
Matches: 197, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
260 51 0.26
261 89 0.45
262 4 0.02
263 52 0.26
264 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (262 bp):
AGATCTTATCTCCCTAAGCAGTAGTGAACTAGATCGAAGATGGCGAATCATATCTTCCCGAGGTA
GAGGAAGCAGATTTAAGCCACCAACCTTATCTCCCTAAGCAGCAAAGGAACAGGATGAAGGTTGA
AGATCTTATCTCCTTGAGTAGCAGTGGAGCAGATCAAAGACGGCGAACCTTATCATACAGAAGTA
GCAGCGAAGCAGATTAAAGCCACCAGCCTTATCTCCCTGAGCAACAATGGAGCAGGCTGAAGATT
AT
Found at i:32846745 original size:89 final size:89
Alignment explanation
Indices: 32846630--32846918 Score: 287
Period size: 89 Copynumber: 3.2 Consensus size: 89
32846620 AGTTGAAGAT
* * * * * *
32846630 CTTATCTCCTTGAATTTGCAGTGGAGTAGATCAAATATGGCGAACCTTATCTTCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGAGGAGTAGATCAAATATGGCAAATCTTATCTTCCTGAAGTTACA
*
32846695 GCGAAGCAGATTAAAGCCACCAGC
66 GCGAAGCAGATTGAAGCCACCAGC
* * *** * *
32846719 CTTATCTCCCTGAAGTTGTAGAGGAGTAGA-CTAAAGACAACAAATCTCATCTTCCTGAAGTAAC
1 CTTATCTCCCTGAAGTTGCAGAGGAGTAGATC-AAATATGGCAAATCTTATCTTCCTGAAGTTAC
* * **
32846783 AGTGGAGCAGATTGAAGTTGA--AGAC
65 AGCGAAGCAGATTGAAG-CCACCAG-C
* * * * * * *
32846808 CTTATCTCCTTGAAGTTGCAAATGGAGTAGCTAAAATATGGAAAATCTTATATTCCTGAAGTTTC
1 CTTATCTCCCTGAAGTTGCAGA-GGAGTAGATCAAATATGGCAAATCTTATCTTCCTGAAGTTAC
*
32846873 AGCGAAGCAGATTGAAGCCACCAGT
65 AGCGAAGCAGATTGAAGCCACCAGC
32846898 CTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAG
32846919 TAGAGCAAAC
Statistics
Matches: 154, Mismatches: 39, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
88 3 0.02
89 84 0.55
90 65 0.42
91 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTGCAGAGGAGTAGATCAAATATGGCAAATCTTATCTTCCTGAAGTTACA
GCGAAGCAGATTGAAGCCACCAGC
Found at i:32846893 original size:179 final size:178
Alignment explanation
Indices: 32846583--32846915 Score: 504
Period size: 179 Copynumber: 1.9 Consensus size: 178
32846573 TTAAGCCACC
* * * *
32846583 AATCTTATCTTCCTGAAGTAGCAAAGGAACAGATTGAAGTTGAAGATCTTATCTCCTTGAATTTG
1 AATCTCATCTTCCTGAAGTAACAAAGGAACAGATTGAAGTTGAAGACCTTATCTCCTTGAAGTTG
* * ** *
32846648 CAGTGGAGTAGATCAAATATGGCGAACCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTAAAGCC
66 CAATGGAGTAGATAAAATATGGAAAACCTTATATTCCTGAAGTTGCAGCGAAGCAGATTAAAGCC
32846713 ACCAGCCTTATCTCCCTGAAGTTGTAGAGGAGTAGACTAAAGACAACA
131 ACCAGCCTTATCTCCCTGAAGTTGTAGAGGAGTAGACTAAAGACAACA
** *
32846761 AATCTCATCTTCCTGAAGTAACAGTGGAGCAGATTGAAGTTGAAGACCTTATCTCCTTGAAGTTG
1 AATCTCATCTTCCTGAAGTAACAAAGGAACAGATTGAAGTTGAAGACCTTATCTCCTTGAAGTTG
* * * *
32846826 CAAATGGAGTAGCTAAAATATGGAAAATCTTATATTCCTGAAGTTTCAGCGAAGCAGATTGAAGC
66 C-AATGGAGTAGATAAAATATGGAAAACCTTATATTCCTGAAGTTGCAGCGAAGCAGATTAAAGC
*
32846891 CACCAGTCTTATCTCCCTGAAGTTG
130 CACCAGCCTTATCTCCCTGAAGTTG
32846916 CAGTAGAGCA
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
178 59 0.43
179 78 0.57
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (178 bp):
AATCTCATCTTCCTGAAGTAACAAAGGAACAGATTGAAGTTGAAGACCTTATCTCCTTGAAGTTG
CAATGGAGTAGATAAAATATGGAAAACCTTATATTCCTGAAGTTGCAGCGAAGCAGATTAAAGCC
ACCAGCCTTATCTCCCTGAAGTTGTAGAGGAGTAGACTAAAGACAACA
Found at i:32848767 original size:50 final size:49
Alignment explanation
Indices: 32848656--32848885 Score: 203
Period size: 50 Copynumber: 4.7 Consensus size: 49
32848646 GGCTATTTGG
* * * * **
32848656 TACACATAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGA
* * *
32848705 TACACGTAGTAGCCTGCATTTAGTACTATACACGTGACCTAACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGA
* ** * *
32848755 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA-GTTGTCAA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAACCAT-CCGA
* * * * * ** * *
32848805 GTACGCATAGTAG-TTGCACTTAGTACTACACATGCGACCAATTATCTGG
1 -TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGA
32848854 TACACGTAGTAGCCTGCACTTAGTACTACACA
1 TACACGTAGTAGCCTGCACTTAGTACTACACA
32848886 GGTAACCTCA
Statistics
Matches: 143, Mismatches: 32, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
48 10 0.07
49 55 0.38
50 67 0.47
51 11 0.08
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGA
Found at i:32849169 original size:27 final size:27
Alignment explanation
Indices: 32849139--32849192 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
32849129 TCATACAACC
* *
32849139 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
32849166 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
32849193 TCACAAGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:32850788 original size:97 final size:96
Alignment explanation
Indices: 32850512--32850790 Score: 326
Period size: 97 Copynumber: 2.9 Consensus size: 96
32850502 TGAAGCCACC
* * * *
32850512 AGCCTTATCTCCCT-AAAGTTGCAGCAGAGTAGACTGAAGATAGCAAATCTCATTTCCCTGAGGT
1 AGCCTTATCTCCCTGAAA-TTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGT
** *
32850576 TGTAGTGAAGTAGCTTGAAGCTAAAAGTTGCG
65 TACAGTGGAGTAGCTTGAAGCTAAAAGTTGCG
* * * ** * ** *
32850608 AGCCCTATCTCTCTGAAGTTAAAGTAGGAGCAGACTAAAGATAGCGGATCTTATTTCCCTAAAGT
1 AGCCTTATCTCCCTGAAATTGCAGTA-GAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGT
* *
32850673 TACAGTGGGGCAGCTTGAAGCTAAAAGTTGCG
65 TACAGTGGAGTAGCTTGAAGCTAAAAGTTGCG
* *
32850705 AGTCTTATCTCCCTGAAATTGCAGTATGAGCAGACTGAAGATAGCAAATCTTAGTTCCCTGAAGT
1 AGCCTTATCTCCCTGAAATTGCAGTA-GAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGT
* *
32850770 TACAGTGGAGTGGATTGAAGC
65 TACAGTGGAGTAGCTTGAAGC
32850791 AACAAGATGC
Statistics
Matches: 147, Mismatches: 34, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
96 17 0.12
97 130 0.88
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (96 bp):
AGCCTTATCTCCCTGAAATTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTT
ACAGTGGAGTAGCTTGAAGCTAAAAGTTGCG
Found at i:32857421 original size:15 final size:15
Alignment explanation
Indices: 32857397--32857426 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32857387 CCAACATGCC
*
32857397 CATGTGGCCCACACG
1 CATGTAGCCCACACG
32857412 CATGTAGCCCACACG
1 CATGTAGCCCACACG
32857427 GCCCAAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.13
Consensus pattern (15 bp):
CATGTAGCCCACACG
Found at i:32857485 original size:18 final size:17
Alignment explanation
Indices: 32857462--32857501 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
32857452 CTAGAATCCT
32857462 ACACGCCCATGTGAGCCC
1 ACACGCCCATGTG-GCCC
* *
32857480 ACACGCTCGTGTGGCCC
1 ACACGCCCATGTGGCCC
32857497 ACACG
1 ACACG
32857502 GCTTAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.20, C:0.42, G:0.25, T:0.12
Consensus pattern (17 bp):
ACACGCCCATGTGGCCC
Found at i:32860259 original size:56 final size:56
Alignment explanation
Indices: 32860198--32860308 Score: 143
Period size: 56 Copynumber: 2.0 Consensus size: 56
32860188 TTTTAAAATT
* * * *
32860198 TTATAACTTTTATTACTCAG-GGTTTGTTTAGGGTTACACACAAAATTAATGAAAAA
1 TTATAACCTCTATTACT-AGCGGTTTGCTTAAGGTTACACACAAAATTAATGAAAAA
* * *
32860254 TTATAACCTCTGTTGCTTGCGGTTTGCTTAAGGTTACACACAAAATTAATGAAAA
1 TTATAACCTCTATTACTAGCGGTTTGCTTAAGGTTACACACAAAATTAATGAAAA
32860309 TAATTATAGC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 1 0.02
56 46 0.98
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (56 bp):
TTATAACCTCTATTACTAGCGGTTTGCTTAAGGTTACACACAAAATTAATGAAAAA
Found at i:32867486 original size:14 final size:13
Alignment explanation
Indices: 32867463--32867496 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
32867453 AAGTGCTCCA
32867463 ATTT-TTTTATTT
1 ATTTATTTTATTT
32867475 ATTCTATTTTATTT
1 ATT-TATTTTATTT
32867489 ATTTATTT
1 ATTTATTT
32867497 ATAAATTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 6 0.30
14 11 0.55
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTATTTTATTT
Found at i:32868251 original size:18 final size:18
Alignment explanation
Indices: 32868223--32868265 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
32868213 AATACCTAAT
* *
32868223 CAGTAATCAGTAACGGTAG
1 CAGT-ATCAGTAACAGTAA
32868242 CAGTATCAGTAACAGTAA
1 CAGTATCAGTAACAGTAA
32868260 CAGTAT
1 CAGTAT
32868266 TCAACACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (18 bp):
CAGTATCAGTAACAGTAA
Found at i:32868312 original size:45 final size:45
Alignment explanation
Indices: 32868248--32868349 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 45
32868238 GTAGCAGTAT
* * *
32868248 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACGGTAACAATATTCAACACACAAAGTGTC-GAATCGGTAA
*
32868293 CAGTAACGGTAACAATATTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAACGGTAACAATATTCAACACACAAAGTGTCGAATCGGTAA
*
32868338 CAGTAATGGTAA
1 CAGTAACGGTAA
32868350 TAGTAACAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 50 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (45 bp):
CAGTAACGGTAACAATATTCAACACACAAAGTGTCGAATCGGTAA
Found at i:32868868 original size:5 final size:5
Alignment explanation
Indices: 32868858--32869028 Score: 342
Period size: 5 Copynumber: 34.2 Consensus size: 5
32868848 CCGATACTTC
32868858 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
32868908 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
32868958 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
32869008 AATAT AATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT A
32869029 CTTAATTATT
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 166 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:32875126 original size:21 final size:21
Alignment explanation
Indices: 32875102--32875144 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
32875092 TTTAACGGGA
*
32875102 TAGCTGACGTGGCCAATTAAC
1 TAGCTAACGTGGCCAATTAAC
* *
32875123 TAGCTAATGTGGCCAGTTAAC
1 TAGCTAACGTGGCCAATTAAC
32875144 T
1 T
32875145 TGCCACGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (21 bp):
TAGCTAACGTGGCCAATTAAC
Found at i:32876864 original size:16 final size:16
Alignment explanation
Indices: 32876839--32876869 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32876829 CACCACTTGG
*
32876839 ATTGTTTGCCATTAAA
1 ATTGTCTGCCATTAAA
32876855 ATTGTCTGCCATTAA
1 ATTGTCTGCCATTAA
32876870 TCATAATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTGTCTGCCATTAAA
Found at i:32876997 original size:3 final size:3
Alignment explanation
Indices: 32876991--32877073 Score: 79
Period size: 3 Copynumber: 29.3 Consensus size: 3
32876981 TCTCTTATTA
* *
32876991 TTC TTC TCC TT- TTC TTC TT- TTC TTC TTC TTT TTC TTC TTC TTC -TC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
32877036 TGT- TTC TTC -TC TTA TTC TTC TTT TTC -TC TTC TTC TTC T
1 T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
32877074 ACTGCCCAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
2 11 0.17
3 53 0.82
4 1 0.02
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:32877003 original size:22 final size:22
Alignment explanation
Indices: 32876978--32877029 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
32876968 GCTCCTTCCA
32876978 TTTTC-TCTTATTATTCTTCTCC
1 TTTTCTTCTT-TTATTCTTCTCC
*
32877000 TTTTCTTCTTTTCTTCTTCT--
1 TTTTCTTCTTTTATTCTTCTCC
32877020 TTTTCTTCTT
1 TTTTCTTCTT
32877030 CTTCTCTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.36
22 14 0.50
23 4 0.14
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTCTTCTTTTATTCTTCTCC
Found at i:32877042 original size:37 final size:36
Alignment explanation
Indices: 32876991--32877070 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 36
32876981 TCTCTTATTA
* *
32876991 TTCTTCTCCTTTTCTTCTTTTCTTCTTCTTTTTCTTC
1 TTCTTCTCCTTTTCTTCTCTTATTCTTCTTTTTC-TC
32877028 TTCTTCT-CTGTTTCTTCTCTTATTCTTCTTTTTCTC
1 TTCTTCTCCT-TTTCTTCTCTTATTCTTCTTTTTCTC
32877064 TTCTTCT
1 TTCTTCT
32877071 TCTACTGCCC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 11 0.28
37 29 0.73
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.69
Consensus pattern (36 bp):
TTCTTCTCCTTTTCTTCTCTTATTCTTCTTTTTCTC
Found at i:32877062 original size:17 final size:17
Alignment explanation
Indices: 32876992--32877073 Score: 85
Period size: 17 Copynumber: 4.7 Consensus size: 17
32876982 CTCTTATTAT
* *
32876992 TCTTCTCCTT-TTCTTC
1 TCTTCTTCTTCTTTTTC
*
32877008 TTTTCTTCTTCTTTTTC
1 TCTTCTTCTTCTTTTTC
*
32877025 TTCTTCTTCTCTGTTTCTTC
1 -TCTTCTTCT-TCTTT-TTC
*
32877045 TCTTATTCTTCTTTTTC
1 TCTTCTTCTTCTTTTTC
32877062 TCTTCTTCTTCT
1 TCTTCTTCTTCT
32877074 ACTGCCCAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
16 8 0.15
17 19 0.35
18 12 0.22
19 12 0.22
20 3 0.06
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.68
Consensus pattern (17 bp):
TCTTCTTCTTCTTTTTC
Found at i:32878156 original size:36 final size:37
Alignment explanation
Indices: 32878110--32878179 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
32878100 AATATAATAA
* *
32878110 TAAATGATATTTAAAT-ATTTACTATAATAATATTTG
1 TAAATAATATTTAAATAATTTAATATAATAATATTTG
*
32878146 TAAATAATATTTAAATAATTTAATATAATGATAT
1 TAAATAATATTTAAATAATTTAATATAATAATAT
32878180 ATCTAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 15 0.50
37 15 0.50
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (37 bp):
TAAATAATATTTAAATAATTTAATATAATAATATTTG
Found at i:32878187 original size:37 final size:36
Alignment explanation
Indices: 32878110--32878187 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
32878100 AATATAATAA
* * * *
32878110 TAAATGATATTTAAATATTTACTATAATAATATTTG
1 TAAATAATATTTAAATATTTAATATAATAATATATC
*
32878146 TAAATAATATTTAAATAATTTAATATAATGATATATC
1 TAAATAATATTTAAAT-ATTTAATATAATAATATATC
32878183 TAAAT
1 TAAAT
32878188 TTAAAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 15 0.42
37 21 0.58
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (36 bp):
TAAATAATATTTAAATATTTAATATAATAATATATC
Found at i:32885040 original size:14 final size:13
Alignment explanation
Indices: 32885015--32885041 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32885005 AATACTTAAA
32885015 ATTAACTTTTTTT
1 ATTAACTTTTTTT
32885028 ATTAACTTTTTTT
1 ATTAACTTTTTTT
32885041 A
1 A
32885042 CAGCATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTAACTTTTTTT
Found at i:32896134 original size:25 final size:26
Alignment explanation
Indices: 32896088--32896147 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
32896078 TTGGTTTTTA
**
32896088 TTTATAATTTTTAAAT-TTAAAATCATT
1 TTTATAATTTTT-AATCCAAAAATCA-T
*
32896115 TTTATAATTTTT-ATCCAAAAATGAT
1 TTTATAATTTTTAATCCAAAAATCAT
32896140 TTTATAAT
1 TTTATAAT
32896148 ACTTTTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 11 0.38
26 6 0.21
27 12 0.41
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTATAATTTTTAATCCAAAAATCAT
Found at i:32898098 original size:21 final size:21
Alignment explanation
Indices: 32898074--32898115 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
32898064 TTTAAAAAAA
*
32898074 TTTTAAAA-AATTTTAATATTT
1 TTTTAAAAGAATTATAA-ATTT
32898095 TTTTAAAAGAATTATAAATTT
1 TTTTAAAAGAATTATAAATTT
32898116 CTAAAACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTTAAAAGAATTATAAATTT
Found at i:32898142 original size:21 final size:21
Alignment explanation
Indices: 32898105--32898162 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
32898095 TTTTAAAAGA
*
32898105 ATTATAAATTTCTAAAACATT
1 ATTATAAATTTATAAAACATT
32898126 ATTA-AAATTTATAAAA-A-T
1 ATTATAAATTTATAAAACATT
*
32898144 ATTAAATAAATTTAAAAAA
1 ATT--ATAAATTTATAAAA
32898163 AAATTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 12 0.38
21 15 0.47
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTATAAATTTATAAAACATT
Found at i:32898146 original size:18 final size:20
Alignment explanation
Indices: 32898105--32898149 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
32898095 TTTTAAAAGA
*
32898105 ATTATAAATTTCTAAAACATT
1 ATTA-AAATTTATAAAACATT
32898126 ATTAAAATTTATAAAA-A-T
1 ATTAAAATTTATAAAACATT
32898144 ATTAAA
1 ATTAAA
32898150 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 1 0.04
20 11 0.48
21 4 0.17
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTAAAATTTATAAAACATT
Found at i:32898163 original size:21 final size:21
Alignment explanation
Indices: 32898130--32898170 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
32898120 AACATTATTA
* *
32898130 AAATTTATAAAAATATTAAAT
1 AAATTTAAAAAAAAATTAAAT
32898151 AAATTTAAAAAAAAATTAAA
1 AAATTTAAAAAAAAATTAAA
32898171 AATCAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATTTAAAAAAAAATTAAAT
Found at i:32898276 original size:19 final size:19
Alignment explanation
Indices: 32898252--32898293 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32898242 TATTAAAATT
32898252 TAAAATAATATTTATTTTA
1 TAAAATAATATTTATTTTA
* * *
32898271 TAAAATATTTTTTATTTTT
1 TAAAATAATATTTATTTTA
32898290 TAAA
1 TAAA
32898294 TATGCTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAAAATAATATTTATTTTA
Found at i:32898530 original size:28 final size:28
Alignment explanation
Indices: 32898474--32898543 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 28
32898464 TATTATGGGC
32898474 TTAATTTTTAAATCGTTTTTATTATTTTA
1 TTAATTTTTAAATC-TTTTTATTATTTTA
32898503 TTAACTTTTTAAAT-TTTTTA-TATATTTA
1 TTAA-TTTTTAAATCTTTTTATTAT-TTTA
*
32898531 ATAATATTTTAAA
1 TTAAT-TTTTAAA
32898544 AGTTTATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
27 4 0.11
28 20 0.54
29 4 0.11
30 9 0.24
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (28 bp):
TTAATTTTTAAATCTTTTTATTATTTTA
Found at i:32908748 original size:55 final size:55
Alignment explanation
Indices: 32908675--32908779 Score: 174
Period size: 55 Copynumber: 1.9 Consensus size: 55
32908665 AACATTGAGC
*
32908675 ATGCATGTACATAGTCATGCTCACTAGTTTCATTATACACATATCATAATAGGGT
1 ATGCATGTACATAATCATGCTCACTAGTTTCATTATACACATATCATAATAGGGT
* * *
32908730 ATGCATGTATATAATCATGCTTACTAGTTTCATTATGCACATATCATAAT
1 ATGCATGTACATAATCATGCTCACTAGTTTCATTATACACATATCATAAT
32908780 TGAGCATGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.37
Consensus pattern (55 bp):
ATGCATGTACATAATCATGCTCACTAGTTTCATTATACACATATCATAATAGGGT
Found at i:32912708 original size:35 final size:35
Alignment explanation
Indices: 32912662--32912733 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
32912652 TTATTAAACG
32912662 TCAGTCATCAATTAATCAAATCCACAAAAACACAT
1 TCAGTCATCAATTAATCAAATCCACAAAAACACAT
*
32912697 TCAGTCATCAATTTATCAAATCCACAAAAACACAT
1 TCAGTCATCAATTAATCAAATCCACAAAAACACAT
32912732 TC
1 TC
32912734 GTTTCTCTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.46, C:0.26, G:0.03, T:0.25
Consensus pattern (35 bp):
TCAGTCATCAATTAATCAAATCCACAAAAACACAT
Found at i:32918884 original size:58 final size:58
Alignment explanation
Indices: 32918781--32918916 Score: 179
Period size: 58 Copynumber: 2.4 Consensus size: 58
32918771 TTTAATTCAT
* *
32918781 ATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
* * * *
32918839 ATAATAATTATGTTAA-AATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAGAATATGATTAAATTATATATTA-TTTTATTAAATTATATTTA
32918897 ATAATAATCT-TATTAA-AATA
1 ATAATAAT-TATATTAAGAATA
32918917 AGCAAAACAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
57 18 0.26
58 50 0.72
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (58 bp):
ATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:32919106 original size:16 final size:16
Alignment explanation
Indices: 32919085--32919137 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
32919075 AATTACTGAC
*
32919085 TACAGCTCTATTCCAT
1 TACAGCTCTATTCAAT
*
32919101 TACAGCTTTATTCAAT
1 TACAGCTCTATTCAAT
*
32919117 TACAGCTCTATTCTAT
1 TACAGCTCTATTCAAT
32919133 TACAG
1 TACAG
32919138 TGAACTAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.40
Consensus pattern (16 bp):
TACAGCTCTATTCAAT
Found at i:32928813 original size:12 final size:12
Alignment explanation
Indices: 32928798--32928824 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32928788 ACATAATGTG
32928798 AAAAATAAAATA
1 AAAAATAAAATA
32928810 AAAAATAAAATA
1 AAAAATAAAATA
32928822 AAA
1 AAA
32928825 TAAAGAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:32933100 original size:5 final size:5
Alignment explanation
Indices: 32933092--32933131 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
32933082 ATAAAATAAA
32933092 GAAAT GAAAT -AAA- GAAAT -AAAT GAAAT GAAA- GAAAT GAAA
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAA
32933132 AAGAAAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 14 0.45
5 17 0.55
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (5 bp):
GAAAT
Found at i:32933103 original size:13 final size:13
Alignment explanation
Indices: 32933085--32933127 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
32933075 TTTAATAATA
32933085 AAATAAAGAAATG
1 AAATAAAGAAATG
32933098 AAATAAAGAAAT-
1 AAATAAAGAAATG
32933110 AAATGAAATGAAA-G
1 AAAT-AAA-GAAATG
32933124 AAAT
1 AAAT
32933128 GAAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.15
13 15 0.56
14 8 0.30
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (13 bp):
AAATAAAGAAATG
Found at i:32933126 original size:9 final size:10
Alignment explanation
Indices: 32933092--32933131 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
32933082 ATAAAATAAA
32933092 GAAATGAAAT
1 GAAATGAAAT
32933102 -AAA-GAAAT
1 GAAATGAAAT
32933110 -AAATGAAAT
1 GAAATGAAAT
32933119 GAAA-GAAAT
1 GAAATGAAAT
32933128 GAAA
1 GAAA
32933132 AAGAAAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.29
9 17 0.61
10 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (10 bp):
GAAATGAAAT
Found at i:32934513 original size:5 final size:5
Alignment explanation
Indices: 32934498--32934545 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
32934488 AGTGGAAAAG
* * *
32934498 TGAATT TGAAT TGAATT TGAAT TGAAT TGAAT GGAAT GGAAT GGAAT T
1 TGAA-T TGAAT TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT T
32934546 ATGATTAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
5 30 0.77
6 9 0.23
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (5 bp):
TGAAT
Found at i:32934514 original size:11 final size:11
Alignment explanation
Indices: 32934498--32934534 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
32934488 AGTGGAAAAG
32934498 TGAATTTGAAT
1 TGAATTTGAAT
32934509 TGAATTTGAAT
1 TGAATTTGAAT
32934520 TGAA-TTGAAT
1 TGAATTTGAAT
*
32934530 GGAAT
1 TGAAT
32934535 GGAATGGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (11 bp):
TGAATTTGAAT
Found at i:32935018 original size:45 final size:45
Alignment explanation
Indices: 32934954--32935328 Score: 597
Period size: 45 Copynumber: 8.3 Consensus size: 45
32934944 CTGTTAACGC
* * *
32934954 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
*
32934999 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCAAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
* *
32935044 TATTGTTACCGTTACCGATTTGGCACTGTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
*
32935089 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCAAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
* *
32935134 TATTGTTACCGTTACCGATTTGGCACTGTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
*
32935179 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCAAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
* *
32935224 TATTGTTACCGTTACCGATTTGGCACTGTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
* * * *
32935269 TACTGTTACCGTTACCGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
*
32935314 TACTGTTACTGTTAC
1 TACTGTTACCGTTAC
32935329 TATTCCGGAT
Statistics
Matches: 304, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 304 1.00
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
Found at i:32935633 original size:72 final size:72
Alignment explanation
Indices: 32935495--32935698 Score: 202
Period size: 72 Copynumber: 2.8 Consensus size: 72
32935485 TAAAGGTATA
* * * * * *
32935495 AAATAACTGATTATTACTGAATAATTGA-CTGTTA-TCAGATAATTGACTGTTACTGGATATTAG
1 AAATAACTGAATATTACTGAATAATTGATC-ATTACTGA-ATAATTGATTGTTACTGAATAATAG
*
32935558 ACTGTTACT
64 ACTGCTACT
* *
32935567 AAATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAAT-GA
1 AAATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGATTGTTACTGAAT-AATAGA
32935631 CTGCTACT
65 CTGCTACT
* * * * *
32935639 GAATAACTTAATAGTTACCGAAT-ATCTGAT-TTTACTGAATAATTGATTGTTACTGGATAA
1 AAATAACTGAATA-TTACTGAATAAT-TGATCATTACTGAATAATTGATTGTTACTGAATAA
32935699 CCGATCAATT
Statistics
Matches: 111, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
71 2 0.02
72 92 0.83
73 17 0.15
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (72 bp):
AAATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGATTGTTACTGAATAATAGAC
TGCTACT
Found at i:32935678 original size:17 final size:18
Alignment explanation
Indices: 32935496--32935778 Score: 144
Period size: 18 Copynumber: 15.3 Consensus size: 18
32935486 AAAGGTATAA
* *
32935496 AATAACTGATTATTACTG
1 AATAATTGATTGTTACTG
* *
32935514 AATAATTGACTGTTA-TC
1 AATAATTGATTGTTACTG
*
32935531 AGATAATTGACTGTTACTG
1 A-ATAATTGATTGTTACTG
* * *
32935550 GAT-ATTAGACTGTTACTA
1 AATAATT-GATTGTTACTG
* * *
32935568 AATAACTGAATATTACTG
1 AATAATTGATTGTTACTG
**
32935586 AATAATTGATCATTACTG
1 AATAATTGATTGTTACTG
* *
32935604 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
* *
32935622 AATGAA-TGACTGCTACTG
1 AAT-AATTGATTGTTACTG
* * *
32935640 AATAACTTAATAGTTACCG
1 AATAA-TTGATTGTTACTG
32935659 AAT-ATCTGATT-TTACTG
1 AATAAT-TGATTGTTACTG
32935676 AATAATTGATTGTTACTGG
1 AATAATTGATTGTTACT-G
* * *
32935695 ATAACCGATCAATTAATCGATACTG
1 ---A---AT-AATTGATTGTTACTG
* * * *
32935720 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
*
32935738 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
* *
32935756 AATAACTGACTGTTACTG
1 AATAATTGATTGTTACTG
32935774 AATAA
1 AATAA
32935779 ATAATTATTC
Statistics
Matches: 199, Mismatches: 48, Indels: 36
0.70 0.17 0.13
Matches are distributed among these distances:
17 21 0.11
18 144 0.72
19 18 0.09
22 2 0.01
25 3 0.02
26 11 0.06
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:32940899 original size:19 final size:21
Alignment explanation
Indices: 32940843--32940904 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
32940833 ATTGGGTGGA
32940843 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
32940864 TCAGCTCTTAAGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
32940885 TCAGCT-TT-CGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
32940904 T
1 T
32940905 GGCATATTCG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.28
20 2 0.05
21 26 0.67
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:32942159 original size:21 final size:21
Alignment explanation
Indices: 32942107--32942153 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
32942097 TGCAGGGCAC
*
32942107 ACACGCCCGTGTGATCAAGGG
1 ACACGCCCATGTGATCAAGGG
* *
32942128 ACATGCCCATGTGGTCAAGGG
1 ACACGCCCATGTGATCAAGGG
32942149 ACACG
1 ACACG
32942154 TGCATGAGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.28, G:0.32, T:0.15
Consensus pattern (21 bp):
ACACGCCCATGTGATCAAGGG
Found at i:32945779 original size:26 final size:26
Alignment explanation
Indices: 32945726--32945787 Score: 92
Period size: 25 Copynumber: 2.4 Consensus size: 26
32945716 CTTTAATTTA
32945726 TTATTTTATTTCTGTTTGATTTTTTTC
1 TTATTTT-TTTCTGTTTGATTTTTTTC
32945753 TTATTTTTTT-TGTTTGGATTTTTTTC
1 TTATTTTTTTCTGTTT-GATTTTTTTC
32945779 -TATTTTTTT
1 TTATTTTTTT
32945788 GATTTTTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 14 0.41
26 13 0.38
27 7 0.21
ACGTcount: A:0.10, C:0.05, G:0.08, T:0.77
Consensus pattern (26 bp):
TTATTTTTTTCTGTTTGATTTTTTTC
Found at i:32946809 original size:5 final size:5
Alignment explanation
Indices: 32946799--32946847 Score: 80
Period size: 5 Copynumber: 9.6 Consensus size: 5
32946789 ATATACTCAT
*
32946799 AATTC AATTC AATTC AATTC AATTC AATTC AATAC AATTC AATATC AAT
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AAT-TC AAT
32946848 ACTCACCTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 36 0.88
6 5 0.12
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTC
Found at i:32947493 original size:5 final size:6
Alignment explanation
Indices: 32947476--32947510 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
32947466 CCCTAATTTC
32947476 TCTTTT TCTTTT TCTTTT TCTTTCT CTCTTTT TCT
1 TCTTTT TCTTTT TCTTTT TCTTT-T -TCTTTT TCT
32947511 CCCCTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TCTTTT
Found at i:32947493 original size:12 final size:14
Alignment explanation
Indices: 32947474--32947510 Score: 60
Period size: 12 Copynumber: 2.8 Consensus size: 14
32947464 AACCCTAATT
32947474 TCTCTTTTTCTTT-
1 TCTCTTTTTCTTTC
32947487 T-TCTTTTTCTTTC
1 TCTCTTTTTCTTTC
32947500 TCTCTTTTTCT
1 TCTCTTTTTCT
32947511 CCCCTGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.50
13 2 0.09
14 9 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TCTCTTTTTCTTTC
Found at i:32947638 original size:18 final size:19
Alignment explanation
Indices: 32947615--32947650 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
32947605 TAATATATAG
32947615 TACTTAAATATTA-AGTAT
1 TACTTAAATATTATAGTAT
*
32947633 TACTTAATTATTATAGTA
1 TACTTAAATATTATAGTA
32947651 CATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (19 bp):
TACTTAAATATTATAGTAT
Found at i:32948160 original size:21 final size:21
Alignment explanation
Indices: 32948120--32948160 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32948110 CCCCTACAGT
* *
32948120 TTAAATTTTTCAACTCTTTTC
1 TTAAAATTTTCAAATCTTTTC
*
32948141 TTAAAATTTTCAAATGTTTT
1 TTAAAATTTTCAAATCTTTT
32948161 TTATTTAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.56
Consensus pattern (21 bp):
TTAAAATTTTCAAATCTTTTC
Found at i:32957028 original size:13 final size:13
Alignment explanation
Indices: 32957012--32957053 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
32957002 AGATTTTTAT
*
32957012 TAAATATTATCAT
1 TAAATATTATCAC
32957025 TAAATA--ATC-C
1 TAAATATTATCAC
32957035 TAAATATTATCAC
1 TAAATATTATCAC
32957048 TAAATA
1 TAAATA
32957054 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:32957042 original size:23 final size:23
Alignment explanation
Indices: 32957012--32957055 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
32957002 AGATTTTTAT
*
32957012 TAAATATTATCATTAAATAATCC
1 TAAATATTATCACTAAATAATCC
32957035 TAAATATTATCACTAAATAAT
1 TAAATATTATCACTAAATAAT
32957056 TCAAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATCC
Found at i:32957062 original size:23 final size:23
Alignment explanation
Indices: 32957013--32957062 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
32957003 GATTTTTATT
* *
32957013 AAATATTATCATTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
32957036 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
32957059 AAAT
1 AAAT
32957063 TTAAAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:32958043 original size:115 final size:115
Alignment explanation
Indices: 32957859--32958315 Score: 692
Period size: 115 Copynumber: 4.0 Consensus size: 115
32957849 CTATAATTGA
* * * * * * **
32957859 ATTAACTGGACACCAATTAAGTTGAAAATGACAAAAACAACTTTATTTAATTTCAATATATATGG
1 ATTAACTAGACACCAATTCAGTTGGAAATAACAAAAACAATTTTATTCAATTTCAATATATATAA
32957924 AGAGAGAAGGTATAAATATTATTTAAAGTAAAATTTTAAAATTTTTAGTT
66 AGAGAGAAGGTATAAATATTATTTAAAGTAAAATTTTAAAATTTTTAGTT
*
32957974 ATTAACTAGACATCAATTCAGTTGGAAATAACAAAAACAATTTTATTCAATTTCAATATATATAA
1 ATTAACTAGACACCAATTCAGTTGGAAATAACAAAAACAATTTTATTCAATTTCAATATATATAA
32958039 AGAGAGAAGGTATAAATATTATTTAAAGTAAAATTTTAAAATTTTTAGTT
66 AGAGAGAAGGTATAAATATTATTTAAAGTAAAATTTTAAAATTTTTAGTT
*
32958089 ATTAACTAGACATCAATTCAGTTGGAAATAACAAAAACAATTTTATTCAATTTCAATATATATAA
1 ATTAACTAGACACCAATTCAGTTGGAAATAACAAAAACAATTTTATTCAATTTCAATATATATAA
*
32958154 AGAGAGAAGGTATAAATATTATTTAAAGTAAAATTTTAATATTTTTAGTT
66 AGAGAGAAGGTATAAATATTATTTAAAGTAAAATTTTAAAATTTTTAGTT
* * * *
32958204 ATTAACTGGACACCAATTCAATTGGAAGTGACAAAAACAATTTTATTCAATTTC-----A-ATAA
1 ATTAACTAGACACCAATTCAGTTGGAAATAACAAAAACAATTTTATTCAATTTCAATATATATAA
* * * * *
32958263 AGAGAGAAGGTATAAATGTTACTTAAAGCAAAATTTTAATAGTTTTAGTT
66 AGAGAGAAGGTATAAATATTATTTAAAGTAAAATTTTAAAATTTTTAGTT
32958313 ATT
1 ATT
32958316 GTATTTAAAA
Statistics
Matches: 323, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
109 53 0.16
110 1 0.00
115 269 0.83
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (115 bp):
ATTAACTAGACACCAATTCAGTTGGAAATAACAAAAACAATTTTATTCAATTTCAATATATATAA
AGAGAGAAGGTATAAATATTATTTAAAGTAAAATTTTAAAATTTTTAGTT
Found at i:32958628 original size:13 final size:13
Alignment explanation
Indices: 32958591--32958620 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
32958581 TATATCATGT
32958591 TTTTAATTTAATA
1 TTTTAATTTAATA
32958604 TTTTAATTTAATA
1 TTTTAATTTAATA
32958617 TTTT
1 TTTT
32958621 TTGTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAATTTAATA
Found at i:32961943 original size:190 final size:190
Alignment explanation
Indices: 32961620--32961999 Score: 760
Period size: 190 Copynumber: 2.0 Consensus size: 190
32961610 ACTTAATCCA
32961620 ACCCAATACATGTTTTTCTATTTCTCAAAATAAATATTATTTATTAAATTAATTTTTCAATTAAA
1 ACCCAATACATGTTTTTCTATTTCTCAAAATAAATATTATTTATTAAATTAATTTTTCAATTAAA
32961685 TAATTTTTTCAACTCAATTCTACTTTTGTTAAAGTCATGTCAACTTTATCGTAAAAAAATCTATG
66 TAATTTTTTCAACTCAATTCTACTTTTGTTAAAGTCATGTCAACTTTATCGTAAAAAAATCTATG
32961750 AGAAATATATTTAATTTCCATATTCAATAGATTCATGATAACCAATTAATTTCATTTCAT
131 AGAAATATATTTAATTTCCATATTCAATAGATTCATGATAACCAATTAATTTCATTTCAT
32961810 ACCCAATACATGTTTTTCTATTTCTCAAAATAAATATTATTTATTAAATTAATTTTTCAATTAAA
1 ACCCAATACATGTTTTTCTATTTCTCAAAATAAATATTATTTATTAAATTAATTTTTCAATTAAA
32961875 TAATTTTTTCAACTCAATTCTACTTTTGTTAAAGTCATGTCAACTTTATCGTAAAAAAATCTATG
66 TAATTTTTTCAACTCAATTCTACTTTTGTTAAAGTCATGTCAACTTTATCGTAAAAAAATCTATG
32961940 AGAAATATATTTAATTTCCATATTCAATAGATTCATGATAACCAATTAATTTCATTTCAT
131 AGAAATATATTTAATTTCCATATTCAATAGATTCATGATAACCAATTAATTTCATTTCAT
32962000 TTTTCAAATT
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
190 190 1.00
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.44
Consensus pattern (190 bp):
ACCCAATACATGTTTTTCTATTTCTCAAAATAAATATTATTTATTAAATTAATTTTTCAATTAAA
TAATTTTTTCAACTCAATTCTACTTTTGTTAAAGTCATGTCAACTTTATCGTAAAAAAATCTATG
AGAAATATATTTAATTTCCATATTCAATAGATTCATGATAACCAATTAATTTCATTTCAT
Found at i:32961956 original size:92 final size:92
Alignment explanation
Indices: 32961668--32961956 Score: 227
Period size: 92 Copynumber: 3.1 Consensus size: 92
32961658 ATTTATTAAA
32961668 TTAATTTTTCAATTAAATAATTTTTTCAACTCAATTCTACTTTTGTTAAAGTCATGTCAACTTTA
1 TTAATTTTTCAATTAAATAATTTTTTCAACTCAATTCTACTTTTGTTAAAGTCATGTCAACTTTA
32961733 TCGTAAAAAAATCTATGAGAAATATAT
66 TCGTAAAAAAATCTATGAGAAATATAT
* * ** * * * **
32961760 TTAA-TTTCCATATTCAATAGATTCATGAT-AAC-CAATTAATTTCATTTCATACCCAA-TACAT
1 TTAATTTTTCA-ATTAAATA-ATT--TTTTCAACTCAATT--CTACTTTTGTTA---AAGT-CAT
*** * *** *
32961821 GTTTTTCTATT-TC-TCAAAATAAA--TATTATTTAT-TAAA
56 G-TCAACT-TTATCGT-AAAA-AAATCTATGAGAAATAT-AT
32961858 TTAATTTTTCAATTAAATAATTTTTTCAACTCAATTCTACTTTTGTTAAAGTCATGTCAACTTTA
1 TTAATTTTTCAATTAAATAATTTTTTCAACTCAATTCTACTTTTGTTAAAGTCATGTCAACTTTA
32961923 TCGTAAAAAAATCTATGAGAAATATAT
66 TCGTAAAAAAATCTATGAGAAATATAT
32961950 TTAATTT
1 TTAATTT
32961957 CCATATTCAA
Statistics
Matches: 139, Mismatches: 34, Indels: 48
0.63 0.15 0.22
Matches are distributed among these distances:
90 5 0.04
91 14 0.10
92 32 0.23
93 10 0.07
94 3 0.02
95 18 0.13
96 3 0.02
97 10 0.07
98 25 0.18
99 14 0.10
100 5 0.04
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (92 bp):
TTAATTTTTCAATTAAATAATTTTTTCAACTCAATTCTACTTTTGTTAAAGTCATGTCAACTTTA
TCGTAAAAAAATCTATGAGAAATATAT
Found at i:32965926 original size:16 final size:16
Alignment explanation
Indices: 32965905--32965935 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32965895 CTATGCATGC
*
32965905 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
32965921 AAAATACAAAAGACA
1 AAAATACAAAAGACA
32965936 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:32969541 original size:24 final size:24
Alignment explanation
Indices: 32969496--32969552 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
32969486 ATTTCTAGTT
*
32969496 ATATATAAAAATTTAATAAATAAAA
1 ATATAT-AAAATTAAATAAATAAAA
*
32969521 ATATATAAAATTAAAATAATATAAAT
1 ATATATAAAATT-AAATAA-ATAAAA
32969547 ATATAT
1 ATATAT
32969553 TCTAGTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 6 0.21
25 11 0.39
26 11 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
ATATATAAAATTAAATAAATAAAA
Found at i:32969546 original size:15 final size:14
Alignment explanation
Indices: 32969495--32969547 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
32969485 AATTTCTAGT
* *
32969495 TATATATAAAAATT
1 TATAAATAAAAATA
32969509 TAATAAATAAAAATA
1 T-ATAAATAAAAATA
*
32969524 TATAAAATTAAAATAA
1 TAT-AAATAAAAAT-A
32969540 TATAAATA
1 TATAAATA
32969548 TATATTCTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 3 0.09
15 25 0.78
16 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TATAAATAAAAATA
Found at i:32971814 original size:39 final size:39
Alignment explanation
Indices: 32971760--32971838 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
32971750 TGGGACTTGA
*
32971760 GATTTTCTGATTCTGGTGCTCTTTATGATGTTGGATTAG
1 GATTTTCTGATTCTGGTGCTCTTTATGATCTTGGATTAG
32971799 GATTTTCTGATTCTGGTGCTCTTTATGATCTTGGATTAG
1 GATTTTCTGATTCTGGTGCTCTTTATGATCTTGGATTAG
32971838 G
1 G
32971839 CAGATGTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.15, C:0.11, G:0.25, T:0.48
Consensus pattern (39 bp):
GATTTTCTGATTCTGGTGCTCTTTATGATCTTGGATTAG
Found at i:32973263 original size:1 final size:1
Alignment explanation
Indices: 32973257--32973313 Score: 87
Period size: 1 Copynumber: 57.0 Consensus size: 1
32973247 TGTTCTAACC
* * *
32973257 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTTTGTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
32973314 ATTTCATATC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.00, G:0.05, T:0.95
Consensus pattern (1 bp):
T
Found at i:32974329 original size:27 final size:27
Alignment explanation
Indices: 32974291--32974346 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
32974281 GTTCAAAAGA
32974291 TAGATACATTCTTTTGCTCTGTATGTC
1 TAGATACATTCTTTTGCTCTGTATGTC
32974318 TAGATACATTCTTTTGCTCTGTATGTC
1 TAGATACATTCTTTTGCTCTGTATGTC
32974345 TA
1 TA
32974347 TTTTTCTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (27 bp):
TAGATACATTCTTTTGCTCTGTATGTC
Found at i:32975973 original size:21 final size:21
Alignment explanation
Indices: 32975949--32975991 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
32975939 TACCATCTTC
32975949 TCCTTAAAAAATAGGAAAGCA
1 TCCTTAAAAAATAGGAAAGCA
32975970 TCCTTAAAAAATAGGAAAGCA
1 TCCTTAAAAAATAGGAAAGCA
32975991 T
1 T
32975992 TAATATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (21 bp):
TCCTTAAAAAATAGGAAAGCA
Found at i:32980476 original size:108 final size:108
Alignment explanation
Indices: 32980287--32980502 Score: 342
Period size: 108 Copynumber: 2.0 Consensus size: 108
32980277 TATTGGTGTT
*
32980287 ATGTCAGGTTTGGAGTTCTAAACTGGTCATAGGCTGCTAATGGTCCTTGACTGCTGATAGTCTTG
1 ATGTCAGGTTTGGAGTTCTAAACTAGTCATAGGCTGCTAATGGTCCTTGACTGCTGATAGTCTTG
*
32980352 AAATCTCTTACGAGGTGATCTTTGTGGAAGGTTGCTTTGGCCA
66 AAATCTCTTACAAGGTGATCTTTGTGGAAGGTTGCTTTGGCCA
* * * * * ** *
32980395 ATGTCAGGTTTGGAGTTCTAAACTAGTCCTTGGTTGTTGATGGTCCTTGGTTGCTTATAGTCTTG
1 ATGTCAGGTTTGGAGTTCTAAACTAGTCATAGGCTGCTAATGGTCCTTGACTGCTGATAGTCTTG
32980460 AAATCTCTTACAAGGTGATCTTTGTGGAAGGTTGCTTTGGCCA
66 AAATCTCTTACAAGGTGATCTTTGTGGAAGGTTGCTTTGGCCA
32980503 GATGCTAATA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 98 1.00
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (108 bp):
ATGTCAGGTTTGGAGTTCTAAACTAGTCATAGGCTGCTAATGGTCCTTGACTGCTGATAGTCTTG
AAATCTCTTACAAGGTGATCTTTGTGGAAGGTTGCTTTGGCCA
Found at i:32982185 original size:94 final size:94
Alignment explanation
Indices: 32982023--32982216 Score: 318
Period size: 94 Copynumber: 2.1 Consensus size: 94
32982013 AGGGCTAAAA
*
32982023 GGGTGTTGGCAAGATGTAATCGTAGTGCTTTTGAAGGCTCGATCCATCTTCATCATTCTTGAAAG
1 GGGTGTTGGCAAGATGTAATCGTAGTGCTTTTGAAGGCTCAATCCATCTTCATCATTCTTGAAAG
32982088 TATTTATAGGAAAAGATCATGTGTAATAT
66 TATTTATAGGAAAAGATCATGTGTAATAT
* * * * * *
32982117 GGGTGTTGGCAAGATGTAATCTTCGTGTTTTTGAAGGGTTAATCCATCTTCATCATTCTTGAAGG
1 GGGTGTTGGCAAGATGTAATCGTAGTGCTTTTGAAGGCTCAATCCATCTTCATCATTCTTGAAAG
32982182 TATTTATAGGAAAAGATCATGTGTAATAT
66 TATTTATAGGAAAAGATCATGTGTAATAT
32982211 -GGTGTT
1 GGGTGTT
32982217 AACATGTTGG
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
93 6 0.06
94 87 0.94
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.37
Consensus pattern (94 bp):
GGGTGTTGGCAAGATGTAATCGTAGTGCTTTTGAAGGCTCAATCCATCTTCATCATTCTTGAAAG
TATTTATAGGAAAAGATCATGTGTAATAT
Found at i:32986460 original size:10 final size:10
Alignment explanation
Indices: 32986441--32986489 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
32986431 AATTTTAGCT
32986441 TTTATCTTTA
1 TTTATCTTTA
*
32986451 TTTATATTTA
1 TTTATCTTTA
*
32986461 ATTATCTTTA
1 TTTATCTTTA
32986471 TTTAT-TTGTA
1 TTTATCTT-TA
32986481 TTTATCTTT
1 TTTATCTTT
32986490 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:32986467 original size:20 final size:20
Alignment explanation
Indices: 32986442--32986489 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
32986432 ATTTTAGCTT
32986442 TTATCTTTATTTATATT-TAA
1 TTATCTTTATTTAT-TTGTAA
*
32986462 TTATCTTTATTTATTTGTAT
1 TTATCTTTATTTATTTGTAA
32986482 TTATCTTT
1 TTATCTTT
32986490 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATCTTTATTTATTTGTAA
Found at i:32992870 original size:8 final size:8
Alignment explanation
Indices: 32992852--32992902 Score: 77
Period size: 8 Copynumber: 6.5 Consensus size: 8
32992842 ACTCAATTTT
*
32992852 TATTTTTA
1 TATTATTA
*
32992860 TTTTATTA
1 TATTATTA
32992868 T-TTATTA
1 TATTATTA
32992875 TATTATTA
1 TATTATTA
32992883 TATTATTA
1 TATTATTA
32992891 TATTATTA
1 TATTATTA
32992899 TATT
1 TATT
32992903 TTGTTTGGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
7 7 0.17
8 33 0.82
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTATTA
Found at i:32992875 original size:3 final size:3
Alignment explanation
Indices: 32992851--32992899 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
32992841 AACTCAATTT
*
32992851 TTA TTT TTA TT- TTA TTA TTTA TTA -TA TTA TTA -TA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
32992893 TTA TTA T
1 TTA TTA T
32992900 ATTTTGTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 8 0.21
3 28 0.72
4 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:32994250 original size:99 final size:101
Alignment explanation
Indices: 32994080--32994265 Score: 250
Period size: 99 Copynumber: 1.9 Consensus size: 101
32994070 GGAATATGTG
* * ** * *
32994080 GGGCTGAGTAACTGGGGTGGGGTGCTTGGCTGTGATCTCTCTTCGCGTCAAAAGGTTCAATATGT
1 GGGCCGAGTAACCGGGGTAAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAATATAT
*
32994145 TCTTAAG-AAAAAT-ATAATAAATTAGGAGTATATT
66 TATTAAGCAAAAATAATAATAAATTAGGAGTATATT
* * * *
32994179 GGGCCGAGTAACCGGGGTAAGGTGCTTGGTTGTCATCTCTCTTCGTGTCAAAATGTTCAATGTAT
1 GGGCCGAGTAACCGGGGTAAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAATATAT
*
32994244 TATTAAGCAATAATAATAATAA
66 TATTAAGCAAAAATAATAATAA
32994266 TAATAATAAG
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 61 0.84
100 5 0.07
101 7 0.10
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.32
Consensus pattern (101 bp):
GGGCCGAGTAACCGGGGTAAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAATATAT
TATTAAGCAAAAATAATAATAAATTAGGAGTATATT
Found at i:32994888 original size:14 final size:13
Alignment explanation
Indices: 32994869--32994906 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
32994859 ATTTAAATTC
32994869 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
32994883 TAATTATTAAGGA
1 TAATTATTTAGGA
32994896 TAATTATTTAG
1 TAATTATTTAG
32994907 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:32994936 original size:10 final size:10
Alignment explanation
Indices: 32994921--32994991 Score: 65
Period size: 10 Copynumber: 6.9 Consensus size: 10
32994911 AATTTTAGCT
32994921 TTTATCTTTA
1 TTTATCTTTA
*
32994931 TTTATC-CTA
1 TTTATCTTTA
32994940 GCTTTTATCTTTA
1 ---TTTATCTTTA
32994953 TTTATCTTTA
1 TTTATCTTTA
*
32994963 ATTATCTTTA
1 TTTATCTTTA
*
32994973 ATTAT-TTGTA
1 TTTATCTT-TA
32994983 TTTATCTTT
1 TTTATCTTT
32994992 TAGAATTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
9 4 0.08
10 37 0.73
11 2 0.04
12 6 0.12
13 2 0.04
ACGTcount: A:0.21, C:0.11, G:0.03, T:0.65
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:32994944 original size:22 final size:22
Alignment explanation
Indices: 32994916--32994958 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
32994906 GATTTAATTT
32994916 TAGCTTTTATCTTTATTTATCC
1 TAGCTTTTATCTTTATTTATCC
32994938 TAGCTTTTATCTTTATTTATC
1 TAGCTTTTATCTTTATTTATC
32994959 TTTAATTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.16, G:0.05, T:0.60
Consensus pattern (22 bp):
TAGCTTTTATCTTTATTTATCC
Found at i:32998524 original size:34 final size:34
Alignment explanation
Indices: 32998458--32998525 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
32998448 ACATATCTGA
***
32998458 TACTGAAACTGAAATGGGCTATGGCTTGAACTGC
1 TACTGAAACTGAAATGGGCTATGGCCCAAACTGC
*
32998492 TACTGAAACTGAACTGGGCT-TAGGCCCAAACTGC
1 TACTGAAACTGAAATGGGCTAT-GGCCCAAACTGC
32998526 ATTTGACTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 1 0.03
34 28 0.97
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (34 bp):
TACTGAAACTGAAATGGGCTATGGCCCAAACTGC
Found at i:33004479 original size:28 final size:27
Alignment explanation
Indices: 33004448--33004507 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
33004438 TAAAAGGTAA
*
33004448 AATCATTATA-TTGTTTATGTAGTTAAAT
1 AATC-TTATACTTGTCTAT-TAGTTAAAT
*
33004476 AATCTTGTACTTTGTCTATTAGTTAAAT
1 AATCTTATAC-TTGTCTATTAGTTAAAT
33004504 AATC
1 AATC
33004508 GATTTATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.14
28 17 0.61
29 7 0.25
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.48
Consensus pattern (27 bp):
AATCTTATACTTGTCTATTAGTTAAAT
Found at i:33005317 original size:28 final size:25
Alignment explanation
Indices: 33005265--33005323 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 25
33005255 TTAGTCCATA
**
33005265 TTTAAATTTTAAAAAAAGGTCATTT
1 TTTAAATTTTAAAAAAAGACCATTT
33005290 TTTAAATATTATAAAAAAAGACCAATTT
1 TTTAAAT-TT-TAAAAAAAGACC-ATTT
33005318 TTTAAA
1 TTTAAA
33005324 AAAATTTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 7 0.24
26 2 0.07
27 10 0.34
28 10 0.34
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (25 bp):
TTTAAATTTTAAAAAAAGACCATTT
Found at i:33006321 original size:15 final size:15
Alignment explanation
Indices: 33006291--33006319 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
33006281 ACTATTAGTA
33006291 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
33006306 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
33006320 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:33006356 original size:21 final size:20
Alignment explanation
Indices: 33006332--33006380 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
33006322 CCATACTCAT
* *
33006332 TTTATATTTTATAATTTTTTA
1 TTTATAGTTTA-AAATTTTTA
33006353 TTTATAGAGTTTAAAATTTTTA
1 TTTAT--AGTTTAAAATTTTTA
33006375 TTTATA
1 TTTATA
33006381 ATGTAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 1 0.04
21 5 0.21
22 13 0.54
23 5 0.21
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTATAGTTTAAAATTTTTA
Found at i:33009191 original size:106 final size:104
Alignment explanation
Indices: 33009011--33009202 Score: 235
Period size: 106 Copynumber: 1.8 Consensus size: 104
33009001 ACTACATGTT
* * * *
33009011 TTAACATTTCATGCAACTATAATATGGAAAATAATGAATAACAACATAAATTACATAATATACAT
1 TTAACATTTCATGCAAATATAATATAGAAAATAACGAATAACAACATAAATTAC--AATATACAA
* *
33009076 TAACCTTTCATGTAGATATAAATAACATAAATATACATGCA
64 TAACCTTTCATGCAAATATAAATAACATAAATATACATGCA
*
33009117 TTAATATTTCATGCAAA-ATATATCATAGAAAATAACGAATATAACAACATAAATTAC-ATATAC
1 TTAACATTTCATGCAAATATA-AT-ATAGAAAATAACG-A-ATAACAACATAAATTACAATATAC
**
33009180 AATAATGTTTCATGCAAATATAA
62 AATAACCTTTCATGCAAATATAA
33009203 CTTAAATCAA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
105 3 0.04
106 41 0.56
107 11 0.15
108 1 0.01
109 17 0.23
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (104 bp):
TTAACATTTCATGCAAATATAATATAGAAAATAACGAATAACAACATAAATTACAATATACAATA
ACCTTTCATGCAAATATAAATAACATAAATATACATGCA
Found at i:33009318 original size:16 final size:17
Alignment explanation
Indices: 33009288--33009324 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
33009278 ATTAACATAC
*
33009288 TAAAACAATACAAAAAA
1 TAAAACAATAAAAAAAA
33009305 TAAAA-AATAAAAAAAA
1 TAAAACAATAAAAAAAA
33009321 TAAA
1 TAAA
33009325 TAAACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (17 bp):
TAAAACAATAAAAAAAA
Found at i:33009564 original size:19 final size:19
Alignment explanation
Indices: 33009537--33009578 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33009527 AATGTAAGGA
* *
33009537 ATAATATATAGTAAAATAT
1 ATAACATATAATAAAATAT
*
33009556 ATAACATATAATAAAATTT
1 ATAACATATAATAAAATAT
33009575 ATAA
1 ATAA
33009579 ACAAAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAACATATAATAAAATAT
Done.