Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 66 of 185
Found at i:20735113 original size:376 final size:375
Alignment explanation
Indices: 20734335--20735476 Score: 1616
Period size: 376 Copynumber: 3.0 Consensus size: 375
20734325 GCCAAACATA
*
20734335 AACTACTATAGAAAAATAGCGTCGACGTGGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCATC
1 AACTACTATAGAAAAA-AGCGTCCACGT-GGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCATC
* * * * *
20734399 CTGCTTGAAGTGTTTTTTACACTATTTGTTCAGAATTTTCTTCTCAAAATTATTTTTCAGGAACT
63 CTGTTTGAAGCGTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATTATTTTTCAGGAACT
* *
20734464 ACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTCTCAGTAATTTTGCTGACAGTGCATCCTGCT
128 ACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* * * * *
20734529 TAAAGCGTTTTTGACACTATTTGTTCAGTACCGTCTTCTCAAAATTATTTTTTCAGGAACTATTG
193 TGAAGCGTTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGGAACTACTG
* * * *
20734594 TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATGATTTTGCTGATAGTGCATCCTGCTTGAG
258 TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAA
* * * *
20734659 GTATTTTTGACACTATTT-ATTCAAAACCGTCTTCTCAAAATTACTTTTTCATG
323 GTGTTTTTGACACTATTTGATT-AGAACCGTCTTCTCAAAATTATTTTTTCAAG
* *
20734712 AACTACTGTAGAAAAAAACGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCT-ACTAGTGCATCC
1 AACTACTATAGAAAAAAGCGTCCACGTGG-AGCTTTTTTCAGTAATTTTGCTGAC-AGTGCATCC
* *
20734776 TGTTTGAAGCATTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATTATTTTTCAAGAACTA
64 TGTTTGAAGCGTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATTATTTTTCAGGAACTA
* * * *
20734841 CTGTAGAAAAAGAGCATCCAGGTGGGAGCTTTTTTCAGTAATTTTACTGACATTGCATCCTGCTT
129 CTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTT
* * *
20734906 GAAGCGTTTTTGACACTATTTGTTCAGAAACTTCTTCTTAAAATTATTTTTT-ACGAACTACTAT
194 GAAGCGTTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGGAACTACTGT
* *
20734970 AGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCTGCTTGAAG
259 AGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAG
* *
20735035 CGTTTTTGACACTATTTGATTAGAATCGTCTTCTCAAAATTATTTTTTCAAG
324 TGTTTTTGACACTATTTGATTAGAACCGTCTTCTCAAAATTATTTTTTCAAG
* * * *
20735087 AACTACTATAGAAAAAGAGTGTCCACGTAGGAGCTTTTTTTAGTCATTTTGCTGACAATGCATCC
1 AACTACTATAGAAAAA-AGCGTCCACGT-GGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * * * * *
20735152 TATTTTAAGCGTTTTTGACACTATTTGTTCATAAACATATTCTCAAAATTATTTTTTAGGAACTA
64 TGTTTGAAGCGTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATTATTTTTCAGGAACTA
* * * **
20735217 CTGTAGAAAAAGAGCGTCCACCTGGGAG-TTTTTTTAGTAATGTTGCTGACAGTGCATTTTGCTT
129 CTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTT
*
20735281 GAAGCGTTTTTTACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGGAACTACTGT
194 GAAGCGTTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGGAACTACTGT
* *
20735346 AGAAATA-AGCGTCCACGTGGGAGC-TTTTTCAGTCATTTTGCTGACAGTGCATCCTGCTTGAAG
259 AGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAG
* * * *
20735409 TGTTTTT-ACACTAATTGTTTAGAACCGTATTCTCAAAATTATTTTTTCAGG
324 TGTTTTTGACACTATTTGATTAGAACCGTCTTCTCAAAATTATTTTTTCAAG
* *
20735460 AACTACTGTAAAAAAAA
1 AACTACTATAGAAAAAA
20735477 ACAAAATCCT
Statistics
Matches: 682, Mismatches: 75, Indels: 21
0.88 0.10 0.03
Matches are distributed among these distances:
372 1 0.00
373 53 0.08
374 43 0.06
375 225 0.33
376 340 0.50
377 20 0.03
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (375 bp):
AACTACTATAGAAAAAAGCGTCCACGTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTG
TTTGAAGCGTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATTATTTTTCAGGAACTACT
GTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGA
AGCGTTTTTGACACTATTTGTTCAGAAACTTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAG
AAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGTG
TTTTTGACACTATTTGATTAGAACCGTCTTCTCAAAATTATTTTTTCAAG
Found at i:20735585 original size:34 final size:33
Alignment explanation
Indices: 20735534--20735645 Score: 136
Period size: 34 Copynumber: 3.4 Consensus size: 33
20735524 GCAGAATAAT
20735534 ATTTTTTAAAAA-ACTAAACCCTAATTTAATTA
1 ATTTTTTAAAAACACTAAACCCTAATTTAATTA
* * *
20735566 ATTTTCTTAAAAACTCTAAACTCTAATTTAATTT
1 ATTTT-TTAAAAACACTAAACCCTAATTTAATTA
* * *
20735600 ATTTATTTAAAACCCCTAAACCTTAATTTAATTA
1 ATTT-TTTAAAAACACTAAACCCTAATTTAATTA
*
20735634 ATTTTTAAAAAA
1 ATTTTTTAAAAA
20735646 GAACACTAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
32 5 0.07
33 13 0.19
34 48 0.72
35 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (33 bp):
ATTTTTTAAAAACACTAAACCCTAATTTAATTA
Found at i:20736873 original size:53 final size:52
Alignment explanation
Indices: 20736809--20736964 Score: 152
Period size: 52 Copynumber: 2.9 Consensus size: 52
20736799 CCATGGTGTT
* * * *
20736809 GAAGGACCATATTGTGTAAGATCGTAATTGATGGGTTATGACATCATATGGATA
1 GAAGG-CCATATCGTGTAAGACCGTAACTGATGGGTTATG-CATCATATGGAAA
* * * * *
20736863 GAAGGCCATATCGTGTAGGACCATTACTGGTGGGTTATGGATCATATGGAAA
1 GAAGGCCATATCGTGTAAGACCGTAACTGATGGGTTATGCATCATATGGAAA
** **
20736915 GAAGATCATATCGTGTAAGACCGTAACT-AGTGTATTATGGCATCATATGG
1 GAAGGCCATATCGTGTAAGACCGTAACTGA-TGGGTTAT-GCATCATATGG
20736965 GGAAGTTTAA
Statistics
Matches: 82, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
52 40 0.49
53 37 0.45
54 5 0.06
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (52 bp):
GAAGGCCATATCGTGTAAGACCGTAACTGATGGGTTATGCATCATATGGAAA
Found at i:20737269 original size:29 final size:29
Alignment explanation
Indices: 20737237--20737340 Score: 122
Period size: 29 Copynumber: 3.7 Consensus size: 29
20737227 GGAATGGTAA
20737237 GCCTTTGTGGCAAATCTCTACAAGGAAAT
1 GCCTTTGTGGCAAATCTCTACAAGGAAAT
* * *
20737266 GCCTTCGTGGCAAATCTCTGCAAGAAAAT
1 GCCTTTGTGGCAAATCTCTACAAGGAAAT
* * *
20737295 GCCTTTGTGGAAAATCTTTATAAGG-AAT
1 GCCTTTGTGGCAAATCTCTACAAGGAAAT
* *
20737323 GACTTTATGGC-AATCTCT
1 GCCTTTGTGGCAAATCTCT
20737341 GTCAAAGGAA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
27 6 0.10
28 11 0.18
29 45 0.73
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (29 bp):
GCCTTTGTGGCAAATCTCTACAAGGAAAT
Found at i:20737360 original size:29 final size:27
Alignment explanation
Indices: 20737328--20737382 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
20737318 GGAATGACTT
*
20737328 TATGGCAATCTCTGTCAAAGGAAAGCCTC
1 TATGGCAATCTCCGT-AAAGG-AAGCCTC
* *
20737357 TATGGTAGTCTCCGTAAAGGAAGCCT
1 TATGGCAATCTCCGTAAAGGAAGCCT
20737383 TCGTGGCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.26
28 5 0.22
29 12 0.52
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (27 bp):
TATGGCAATCTCCGTAAAGGAAGCCTC
Found at i:20745163 original size:18 final size:18
Alignment explanation
Indices: 20745140--20745175 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
20745130 GCTTGCTTAG
*
20745140 AAAACTTGCCATGTTTAA
1 AAAACTTACCATGTTTAA
20745158 AAAACTTACCATGTTTAA
1 AAAACTTACCATGTTTAA
20745176 GTTAGCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (18 bp):
AAAACTTACCATGTTTAA
Found at i:20745823 original size:14 final size:14
Alignment explanation
Indices: 20745787--20745815 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20745777 ATATTGTATA
20745787 TTCATTATTATTTT
1 TTCATTATTATTTT
20745801 TTCATTATTATTTT
1 TTCATTATTATTTT
20745815 T
1 T
20745816 CTCTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (14 bp):
TTCATTATTATTTT
Found at i:20747371 original size:14 final size:14
Alignment explanation
Indices: 20747352--20747378 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20747342 TTCAATAAAA
20747352 TATAAATTCAGTAC
1 TATAAATTCAGTAC
20747366 TATAAATTCAGTA
1 TATAAATTCAGTA
20747379 ATTTTTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (14 bp):
TATAAATTCAGTAC
Found at i:20791573 original size:52 final size:53
Alignment explanation
Indices: 20791489--20791589 Score: 168
Period size: 52 Copynumber: 1.9 Consensus size: 53
20791479 CCTATGATGA
*
20791489 TTCTAGAATGGAAATGGGAACAAGTTACGAAGGATTTTGTATTGAGATTGCCT
1 TTCTAGAATGGAAATGGGAACAAGTTACGAAGGATTTTGTATCGAGATTGCCT
* *
20791542 TTCT-GAATGGAGATGGGAACAAGTTATGAAGGATTTTGTATCGAGATT
1 TTCTAGAATGGAAATGGGAACAAGTTACGAAGGATTTTGTATCGAGATT
20791590 ACCTCTATCT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 41 0.91
53 4 0.09
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.33
Consensus pattern (53 bp):
TTCTAGAATGGAAATGGGAACAAGTTACGAAGGATTTTGTATCGAGATTGCCT
Found at i:20804292 original size:50 final size:50
Alignment explanation
Indices: 20804217--20804354 Score: 204
Period size: 50 Copynumber: 2.8 Consensus size: 50
20804207 GAGAATGTGA
*
20804217 TCCCATGTAAGACCATGTCTGGGACATGGAATTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
* * *
20804267 TCCCATGTAAGACCATGTCTAGGACATGGCATAGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
* * * *
20804317 TCTCATGTAAAACCATGTTTGGGACATGGCGTTGGCAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
20804355 TGAAATGAGC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
Found at i:20807573 original size:14 final size:14
Alignment explanation
Indices: 20807554--20807581 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20807544 CTACTCGTAT
20807554 AAATATTCTTTTTG
1 AAATATTCTTTTTG
20807568 AAATATTCTTTTTG
1 AAATATTCTTTTTG
20807582 TTTTGTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
AAATATTCTTTTTG
Found at i:20809613 original size:50 final size:49
Alignment explanation
Indices: 20809505--20809673 Score: 142
Period size: 56 Copynumber: 3.3 Consensus size: 49
20809495 ATTTGGGTAA
* *
20809505 AGAGATCCCATGTAAGACCATGTCT-AGGACATGTCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGA-GACATGGC-TTGGCA-CA--GAG---ATG
20809561 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACAGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGC-TTGGCACAGAGATG
** * * * * * *
20809611 AGAGGTCCCCCGTAAGACCATATCTGGGATATGGCATGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCTTGGCACAGAGATG
**
20809660 AGAACTCCCATGTA
1 AGAGGTCCCATGTA
20809674 TTGGCAGTAC
Statistics
Matches: 97, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
49 21 0.22
50 33 0.34
53 3 0.03
55 2 0.02
56 37 0.38
57 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCTTGGCACAGAGATG
Found at i:20825698 original size:27 final size:27
Alignment explanation
Indices: 20825664--20825841 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20825654 TTTATTGTAC
20825664 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20825691 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20825717 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20825745 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20825773 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20825800 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20825827 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20825842 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20825778 original size:82 final size:81
Alignment explanation
Indices: 20825665--20825820 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20825655 TTATTGTACA
* *
20825665 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20825729 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20825746 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20825811 TGCGAGTTGA
65 TGCGAATTGA
20825821 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20825832 original size:82 final size:81
Alignment explanation
Indices: 20825661--20825841 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
20825651 GTTTTTATTG
* *
20825661 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20825726 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20825742 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20825806 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20825824 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20825842 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20833884 original size:27 final size:27
Alignment explanation
Indices: 20833853--20834030 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20833843 TAAATTGTAC
20833853 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20833880 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20833906 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20833934 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20833962 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20833989 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20834016 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20834031 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20833967 original size:82 final size:81
Alignment explanation
Indices: 20833854--20834009 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20833844 AAATTGTACA
* *
20833854 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20833918 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20833935 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20834000 TGCGAGTTGA
65 TGCGAATTGA
20834010 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20834021 original size:82 final size:81
Alignment explanation
Indices: 20833850--20834030 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
20833840 GATTAAATTG
* *
20833850 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20833915 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20833931 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20833995 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20834013 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20834031 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20839811 original size:45 final size:45
Alignment explanation
Indices: 20839741--20840048 Score: 270
Period size: 45 Copynumber: 6.8 Consensus size: 45
20839731 TATACACCTA
* * * *
20839741 AAATGTGTAAGACTAGAGTTGAAAGATGTTATGACATCATGATAT
1 AAATGAGTAAGACCATAGTTGAAAGATGCTATGACATCATGATAT
* * **
20839786 AAATAAGTAAGACCATAGTTGAAAGAT-CTTATGGCATCACCATA-
1 AAATGAGTAAGACCATAGTTGAAAGATGC-TATGACATCATGATAT
* * * *
20839830 AAGATTAGTAAGACCATA-TATTAAAGATGCTATGGCATCATGCTAT
1 AA-ATGAGTAAGACCATAGT-TGAAAGATGCTATGACATCATGATAT
*
20839876 AAATGAGTTAA-ACCATAGTTGAAAGATGCCAT-AGCATCATGATAT
1 AAATGAG-TAAGACCATAGTTGAAAGATGCTATGA-CATCATGATAT
* *
20839921 AAATGAGTAAGCCCATAGCTGAAAGATGCTATCG-CATCATGATAT
1 AAATGAGTAAGACCATAGTTGAAAGATGCTAT-GACATCATGATAT
* * * * * *
20839966 AAATGTGTAAGACCTTGGCTGAAAGATGCTATAACATCATGGTA-
1 AAATGAGTAAGACCATAGTTGAAAGATGCTATGACATCATGATAT
* * * * *
20840010 ACCATTACTAAGACCATAGTTGAAAGACGCTATGCCATC
1 A-AATGAGTAAGACCATAGTTGAAAGATGCTATGACATC
20840049 CTAGTAGTCT
Statistics
Matches: 213, Mismatches: 37, Indels: 26
0.77 0.13 0.09
Matches are distributed among these distances:
44 7 0.03
45 199 0.93
46 7 0.03
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGTTGAAAGATGCTATGACATCATGATAT
Found at i:20839991 original size:135 final size:135
Alignment explanation
Indices: 20839757--20840006 Score: 301
Period size: 135 Copynumber: 1.9 Consensus size: 135
20839747 GTAAGACTAG
** * *
20839757 AGTTGAAAGATGTTATGACATCATGATATAAATAAGTAAGACCATAGTTGAAAGATCTTATGGCA
1 AGTTGAAAGATGCCATGACATCATGATATAAATAAGTAAGACCATAGCTGAAAGATCTTATCGCA
* * **
20839822 TCACCATAAAGATTAGTAAGACCATATATTAAAGATGCTATGGCATCATGCTATAAATGAGTTAA
66 TCACCATAAAGATTAGTAAGACCATAGATGAAAGATGCTATAACATCATGCTATAAATGAGTTAA
20839887 ACCAT
131 ACCAT
* *
20839892 AGTTGAAAGATGCCAT-AGCATCATGATATAAATGAGTAAGCCCATAGCTGAAAGATGC-TATCG
1 AGTTGAAAGATGCCATGA-CATCATGATATAAATAAGTAAGACCATAGCTGAAAGAT-CTTATCG
** * * *
20839955 CATCATGATATAA-ATGT-GTAAGACCTTGGCTGAAAGATGCTATAACATCATG
64 CATCACCATA-AAGAT-TAGTAAGACCATAGATGAAAGATGCTATAACATCATG
20840007 GTAACCATTA
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
134 1 0.01
135 91 0.95
136 4 0.04
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (135 bp):
AGTTGAAAGATGCCATGACATCATGATATAAATAAGTAAGACCATAGCTGAAAGATCTTATCGCA
TCACCATAAAGATTAGTAAGACCATAGATGAAAGATGCTATAACATCATGCTATAAATGAGTTAA
ACCAT
Found at i:20840190 original size:27 final size:27
Alignment explanation
Indices: 20840135--20840193 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
20840125 CAATCTGATG
*
20840135 GGACATTAAACACAGGATAGTCTGACA
1 GGACATTAAACACAGGATAGCCTGACA
* *
20840162 GGACATTAAATACTGGATAGCCT-ATCA
1 GGACATTAAACACAGGATAGCCTGA-CA
20840189 GGACA
1 GGACA
20840194 GTAATCATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (27 bp):
GGACATTAAACACAGGATAGCCTGACA
Found at i:20842331 original size:20 final size:20
Alignment explanation
Indices: 20842306--20842346 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20842296 AAGAATGTAA
20842306 AAATAACTACGTCTGCATCT
1 AAATAACTACGTCTGCATCT
20842326 AAATAACTACGTCTGCATCT
1 AAATAACTACGTCTGCATCT
20842346 A
1 A
20842347 GGAAACAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATAACTACGTCTGCATCT
Found at i:20856430 original size:76 final size:76
Alignment explanation
Indices: 20856304--20857067 Score: 1492
Period size: 76 Copynumber: 10.1 Consensus size: 76
20856294 AATTAACCTA
* *
20856304 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACATAAATTAGTGAAAT
1 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
20856369 GAATGGCCATG
66 GAATGGCCATG
20856380 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
1 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
20856445 GAATGGCCATG
66 GAATGGCCATG
20856456 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
1 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
20856521 GAATGGCCATG
66 GAATGGCCATG
20856532 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
1 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
20856597 GAATGGCCATG
66 GAATGGCCATG
20856608 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
1 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
20856673 GAATGGCCATG
66 GAATGGCCATG
20856684 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
1 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
20856749 GAATGGCCATG
66 GAATGGCCATG
20856760 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
1 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
20856825 GAATGGCCATG
66 GAATGGCCATG
20856836 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
1 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
20856901 GAATGGCCATG
66 GAATGGCCATG
20856912 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
1 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
20856977 GAATGGCCATG
66 GAATGGCCATG
* *
20856988 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACATAAATTAGTGAAAT
1 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
20857053 GAATGGCCATG
66 GAATGGCCATG
20857064 ATTA
1 ATTA
20857068 ACACATGCCA
Statistics
Matches: 684, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 684 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.30
Consensus pattern (76 bp):
ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACAGAAATGAGTGAAAT
GAATGGCCATG
Found at i:20857527 original size:39 final size:39
Alignment explanation
Indices: 20857473--20857551 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
20857463 AAGATAAAAG
20857473 TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
1 TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
20857512 TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
1 TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
20857551 T
1 T
20857552 GAATCGTCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.59
Consensus pattern (39 bp):
TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
Found at i:20864052 original size:16 final size:16
Alignment explanation
Indices: 20864031--20864066 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
20864021 TAAAACATCC
20864031 TTATGTTCCACAATAA
1 TTATGTTCCACAATAA
20864047 TTATGTTCCACAATAA
1 TTATGTTCCACAATAA
20864063 TTAT
1 TTAT
20864067 TAACTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (16 bp):
TTATGTTCCACAATAA
Found at i:20868485 original size:50 final size:50
Alignment explanation
Indices: 20868426--20868543 Score: 164
Period size: 50 Copynumber: 2.3 Consensus size: 50
20868416 ATTTAAATTC
* *
20868426 TAATTTGGAAACAAATTAAAATCGAATAAAATCTTGTTAAACGGAGGGAA
1 TAATTTGGAAACAAATTAAAATCGAATAAAATCTTATTAAACAGAGGGAA
** *
20868476 TAATTTGGAAACAAAACAAAATCGAATAAAATCTTATTAAACAGCGGGAA
1 TAATTTGGAAACAAATTAAAATCGAATAAAATCTTATTAAACAGAGGGAA
* *
20868526 TAAATCTCGAAACAAATT
1 T-AATTTGGAAACAAATT
20868544 TTATTTAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 46 0.79
51 12 0.21
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (50 bp):
TAATTTGGAAACAAATTAAAATCGAATAAAATCTTATTAAACAGAGGGAA
Found at i:20868569 original size:84 final size:84
Alignment explanation
Indices: 20868476--20869065 Score: 778
Period size: 84 Copynumber: 7.0 Consensus size: 84
20868466 ACGGAGGGAA
* * *
20868476 TAATTTGGAAACAAAACAAAATCGAATAAAATCTTATTAAACAGCGGGAATAAATCTCGAAACAA
1 TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAACAA
20868541 ATTTTATTTAATTTAATTC
66 ATTTTATTTAATTTAATTC
* * ** * *
20868560 TAATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGATGAGAATAAATCCCGAAACAA
1 TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAACAA
20868625 ATTTTATTTAATTTAATTC
66 ATTTTATTTAATTTAATTC
* * *
20868644 TAATTTGGAAACAAAATAAAATAGAATAAAATCTTGTTAATCGGCAGGAATAAATC-CTGAAACA
1 TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCTC-GAAACA
*
20868708 GA-TTTATTTAATTTAATTC
65 AATTTTATTTAATTTAATTC
* **
20868727 TAATTTTGAAACAAAATAAAATAAAATAAAATCTTGTTAAACGGCGGGAATAAATC-CAGAAACA
1 TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCTC-GAAACA
20868791 AATTTTATTTAATTTAATTC
65 AATTTTATTTAATTTAATTC
* * * * *
20868811 TAATTTGGAAACAAAATAAAATTGAATAAAATATTGTTAAACTGCGAGAATAAATCCCGAAACAA
1 TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAACAA
20868876 ATTTTATTTAATTTAATTC
66 ATTTTATTTAATTTAATTC
* *
20868895 TAAATTT-GAAATAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCTCAAAACA
1 T-AATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAACA
20868959 AATTTTATTTAATTTTAATTTC
65 AATTTTATTTAA-TTTAA-TTC
* * * * * *
20868981 TCATTTTGGCAACAAAATCAAAAT-GTGATAAAATC-CGTTGAACGGCGGGATTAAATCTCGAAA
1 T-AATTTGGAAACAAAAT-AAAATCG-AATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAA
* *
20869044 TAGATTTTATTTAACTTTAATT
63 CAAATTTTATTTAA-TTTAATT
20869066 TCTTGTTTGA
Statistics
Matches: 450, Mismatches: 47, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
83 78 0.17
84 288 0.64
85 11 0.02
86 10 0.02
87 50 0.11
88 13 0.03
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (84 bp):
TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAACAA
ATTTTATTTAATTTAATTC
Found at i:20868622 original size:135 final size:135
Alignment explanation
Indices: 20868364--20868625 Score: 379
Period size: 135 Copynumber: 1.9 Consensus size: 135
20868354 AATTAATATA
* *
20868364 GAATAAAATCTTCTTAAACGACGGGAATAAATCCTGAAACATATTTTATTTAATTTAAATTCTAA
1 GAATAAAATCTTATTAAACGACGGGAATAAATCCTGAAACAAATTTTATTTAATTTAAATTCTAA
* * * * ***
20868429 TTTGGAAACAAATTAAAATCGAATAAAATCTTGTTAAACGGAGGGAATAATTTGGAAACAAAACA
66 TTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGGAGAGAATAATCCCGAAACAAAACA
20868494 AAATC
131 AAATC
20868499 GAATAAAATCTTATTAAAC-AGCGGGAATAAAT-CTCGAAACAAATTTTATTTAATTT-AATTCT
1 GAATAAAATCTTATTAAACGA-CGGGAATAAATCCT-GAAACAAATTTTATTTAATTTAAATTCT
20868561 AATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAAC-GATGAGAATAAATCCCGAAACAA
64 AATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGGA-GAGAAT-AATCCCGAAACAA
20868625 A
127 A
20868626 TTTTATTTAA
Statistics
Matches: 114, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
133 2 0.02
134 52 0.46
135 60 0.53
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.29
Consensus pattern (135 bp):
GAATAAAATCTTATTAAACGACGGGAATAAATCCTGAAACAAATTTTATTTAATTTAAATTCTAA
TTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGGAGAGAATAATCCCGAAACAAAACA
AAATC
Found at i:20868748 original size:167 final size:167
Alignment explanation
Indices: 20868476--20869065 Score: 799
Period size: 167 Copynumber: 3.5 Consensus size: 167
20868466 ACGGAGGGAA
* * *
20868476 TAATTTGGAAACAAAACAAAATCGAATAAAATCTTATTAAACAGCGGGAATAAATCTCGAAACAA
1 TAATTTGGAAACAAAATAAAAT-GAATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAACAA
* * **
20868541 ATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGATG
65 ATTTTATTTAATTTAATTCTAATTTTGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCG
*
20868606 AGAATAAATCCCGAAACAAATTTTATTTAATTTAATTC
130 GGAATAAATCCCGAAACAAATTTTATTTAATTTAATTC
* *
20868644 TAATTTGGAAACAAAATAAAATAGAATAAAATCTTGTTAATCGGCAGGAATAAATC-CTGAAACA
1 TAATTTGGAAACAAAATAAAAT-GAATAAAATCTTGTTAAACGGCGGGAATAAATCTC-GAAACA
* *
20868708 GA-TTTATTTAATTTAATTCTAATTTTGAAACAAAATAAAATAAAATAAAATCTTGTTAAACGGC
64 AATTTTATTTAATTTAATTCTAATTTTGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGC
*
20868772 GGGAATAAATCCAGAAACAAATTTTATTTAATTTAATTC
129 GGGAATAAATCCCGAAACAAATTTTATTTAATTTAATTC
* * * *
20868811 TAATTTGGAAACAAAATAAAATTGAATAAAATATTGTTAAACTGCGAGAATAAATCCCGAAACAA
1 TAATTTGGAAACAAAATAAAA-TGAATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAACAA
* * *
20868876 ATTTTATTTAATTTAATTCTAAATTTGAAATAAAATAAAATCGAATAAAATCTTGTTAAACGGCG
65 ATTTTATTTAATTTAATTCTAATTTTGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCG
* *
20868941 GGAATAAATCTCAAAACAAATTTTATTTAATTTTAATTTC
130 GGAATAAATCCCGAAACAAATTTTATTTAA-TTTAA-TTC
* * * * * * *
20868981 TCATTTTGGCAACAAAATCAAAATGTGATAAAATC-CGTTGAACGGCGGGATTAAATCTCGAAAT
1 T-AATTTGGAAACAAAAT-AAAATG-AATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAAC
*
20869045 AGATTTTATTTAACTTTAATT
63 AAATTTTATTTAA-TTTAATT
20869066 TCTTGTTTGA
Statistics
Matches: 373, Mismatches: 39, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
167 151 0.40
168 145 0.39
169 5 0.01
170 4 0.01
171 50 0.13
172 18 0.05
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (167 bp):
TAATTTGGAAACAAAATAAAATGAATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAACAAA
TTTTATTTAATTTAATTCTAATTTTGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGG
GAATAAATCCCGAAACAAATTTTATTTAATTTAATTC
Found at i:20868926 original size:251 final size:254
Alignment explanation
Indices: 20868476--20869065 Score: 818
Period size: 251 Copynumber: 2.3 Consensus size: 254
20868466 ACGGAGGGAA
* * ** * *
20868476 TAATTTGGAAACAAAACAAAATCGAATAAAATCTTATTAAACAGCGGGAATAAATCTCGAAACAA
1 TAATTTTGAAACAAAATAAAATAAAATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAACAA
* *
20868541 ATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGATG
66 ATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATCAAATAAAATATTATTAAACGACG
20868606 AGAATAAATCCCGAAACAAATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATAGAAT
131 AGAATAAATCCCGAAACAAATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATAGAAT
* * *
20868671 AAAATCTTGTTAATCGGCAGGAATAAATC-CTGAAACAGA-TTTATTTAA-TTTAA-TTC
196 AAAATCTTGTTAAACGGCAGGAATAAATCTC-AAAACAAATTTTATTTAATTTTAATTTC
20868727 TAATTTTGAAACAAAATAAAATAAAATAAAATCTTGTTAAACGGCGGGAATAAATC-CAGAAACA
1 TAATTTTGAAACAAAATAAAATAAAATAAAATCTTGTTAAACGGCGGGAATAAATCTC-GAAACA
** *
20868791 AATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATTGAATAAAATATTGTTAAACTG-
65 AATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATCAAATAAAATATTATTAAAC-GA
* *
20868855 CGAGAATAAATCCCGAAACAAATTTTATTTAATTTAATTCTAAATTT-GAAATAAAATAAAATCG
129 CGAGAATAAATCCCGAAACAAATTTTATTTAATTTAATTCT-AATTTGGAAACAAAATAAAATAG
*
20868919 AATAAAATCTTGTTAAACGGCGGGAATAAATCTCAAAACAAATTTTATTTAATTTTAATTTC
193 AATAAAATCTTGTTAAACGGCAGGAATAAATCTCAAAACAAATTTTATTTAATTTTAATTTC
* * *** * * * *
20868981 TCATTTTGGCAACAAAATCAAAATGTGATAAAATC-CGTTGAACGGCGGGATTAAATCTCGAAAT
1 TAATTTT-GAAACAAAAT-AAAATAAAATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAAC
*
20869045 AGATTTTATTTAACTTTAATT
64 AAATTTTATTTAA-TTTAATT
20869066 TCTTGTTTGA
Statistics
Matches: 301, Mismatches: 27, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
250 1 0.00
251 205 0.68
252 16 0.05
253 5 0.02
254 9 0.03
255 44 0.15
256 21 0.07
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (254 bp):
TAATTTTGAAACAAAATAAAATAAAATAAAATCTTGTTAAACGGCGGGAATAAATCTCGAAACAA
ATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATCAAATAAAATATTATTAAACGACG
AGAATAAATCCCGAAACAAATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATAGAAT
AAAATCTTGTTAAACGGCAGGAATAAATCTCAAAACAAATTTTATTTAATTTTAATTTC
Found at i:20869129 original size:141 final size:142
Alignment explanation
Indices: 20868941--20869196 Score: 374
Period size: 142 Copynumber: 1.8 Consensus size: 142
20868931 TTAAACGGCG
* * *
20868941 GGAATAAATCTCAAAACAAATTTTATTTAATTTTAATTTCTCATTTTGGCAACAAAATCAAAA-T
1 GGAATAAATCCCAAAACAAATTTTATTTAATTTTAATTACTCATTTTGGAAACAAAATCAAAATT
* * * * *
20869005 GTG-ATAAAATCCGTTGAACGGCGGGATTAAATCTCGAAATAGATTTTATTTAACTTTAATTTCT
66 G-GAATAAAATCCGTTGAACGACAGGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCT
20869069 TGTTTGAATGGCA
130 TGTTTGAATGGCA
* *
20869082 GGAATAAATCCCAAAACAAATTTTAATTTAATTTTAA-TACTCGTTTTGGAAATAAAATCAAAAT
1 GGAATAAATCCCAAAACAAATTTT-ATTTAATTTTAATTACTCATTTTGGAAACAAAATCAAAAT
*
20869146 TGGAATAAAATCCGTTGAACGACATGAATAAATCCCGAAACAGATTTTATT
65 TGGAATAAAATCCGTTGAACGACAGGAATAAATCCCGAAACAGATTTTATT
20869197 CGATTTTAAT
Statistics
Matches: 101, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
141 46 0.46
142 55 0.54
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (142 bp):
GGAATAAATCCCAAAACAAATTTTATTTAATTTTAATTACTCATTTTGGAAACAAAATCAAAATT
GGAATAAAATCCGTTGAACGACAGGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCTT
GTTTGAATGGCA
Found at i:20873174 original size:17 final size:17
Alignment explanation
Indices: 20873149--20873188 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
20873139 ACATTAAATA
20873149 ATAAATAAAAAACATAT
1 ATAAATAAAAAACATAT
* *
20873166 ATAATTAAAAAATATAT
1 ATAAATAAAAAACATAT
*
20873183 TTAAAT
1 ATAAAT
20873189 GAATTGATGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAATAAAAAACATAT
Found at i:20879058 original size:30 final size:30
Alignment explanation
Indices: 20879013--20879077 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
20879003 ACTGCAAGGG
* *
20879013 TCACACGGCCGTATGACCAGGCTGTGTGGC
1 TCACACGGCCGTATGACCAAGCCGTGTGGC
* *
20879043 TCACTCGGTCGTATGACCAAGCCGTGTGGC
1 TCACACGGCCGTATGACCAAGCCGTGTGGC
20879073 TCACA
1 TCACA
20879078 TGGCTGAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.31, G:0.29, T:0.22
Consensus pattern (30 bp):
TCACACGGCCGTATGACCAAGCCGTGTGGC
Found at i:20880711 original size:7 final size:7
Alignment explanation
Indices: 20880699--20880730 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
20880689 AGATAGCATT
20880699 GATACGA
1 GATACGA
20880706 GATACGA
1 GATACGA
20880713 GATACGA
1 GATACGA
20880720 GATACGA
1 GATACGA
20880727 GATA
1 GATA
20880731 GTAGTGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (7 bp):
GATACGA
Found at i:20886379 original size:26 final size:26
Alignment explanation
Indices: 20886336--20886392 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
20886326 AAGTGTTTTA
20886336 AAACTGATACATGCTATGATATTCTG
1 AAACTGATACATGCTATGATATTCTG
* * *
20886362 AAACTTATATATGTTATGATATTCTG
1 AAACTGATACATGCTATGATATTCTG
20886388 AAACT
1 AAACT
20886393 ACTGTAGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (26 bp):
AAACTGATACATGCTATGATATTCTG
Found at i:20893297 original size:40 final size:40
Alignment explanation
Indices: 20893252--20893406 Score: 240
Period size: 40 Copynumber: 3.9 Consensus size: 40
20893242 AACACACTAG
* *
20893252 ACAGAAGCTTATAAGAGTTGATCCAACTGAAACACGTCAA
1 ACAGAAGCTCATAAGAGTTGATCCAACTGAAACACGCCAA
*
20893292 ACAGAAGCTCATAAGAGTTGATCCAACTGAAACTCGCCAA
1 ACAGAAGCTCATAAGAGTTGATCCAACTGAAACACGCCAA
* *
20893332 ACAAAAGCTCATAAGAGCT-AGTCCAACTGAAACACGCCAA
1 ACAGAAGCTCATAAGAGTTGA-TCCAACTGAAACACGCCAA
*
20893372 ACAGAAGCTCATAAGAGTTGATCCAACCGAAACAC
1 ACAGAAGCTCATAAGAGTTGATCCAACTGAAACAC
20893407 ACCAGACAAA
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.43, C:0.25, G:0.17, T:0.16
Consensus pattern (40 bp):
ACAGAAGCTCATAAGAGTTGATCCAACTGAAACACGCCAA
Found at i:20893416 original size:80 final size:80
Alignment explanation
Indices: 20893236--20893416 Score: 258
Period size: 80 Copynumber: 2.3 Consensus size: 80
20893226 ATCATTAGAT
* * * * *
20893236 CAACCG-AACACACTAGACAGAAGCTTATAAGAGTTGATCCAACTGAAACACGTCAAACAGAAGC
1 CAACCGAAACACACCAGACAAAAGCTCATAAGAGTAGATCCAACTGAAACACGCCAAACAGAAGC
20893300 TCATAAGAGTTGATC
66 TCATAAGAGTTGATC
* * * *
20893315 CAACTGAAACTCGCCAAACAAAAGCTCATAAGAGCTAG-TCCAACTGAAACACGCCAAACAGAAG
1 CAACCGAAACACACCAGACAAAAGCTCATAAGAG-TAGATCCAACTGAAACACGCCAAACAGAAG
20893379 CTCATAAGAGTTGATC
65 CTCATAAGAGTTGATC
20893395 CAACCGAAACACACCAGACAAA
1 CAACCGAAACACACCAGACAAA
20893417 GAGTATAACA
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 5 0.06
80 80 0.92
81 2 0.02
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (80 bp):
CAACCGAAACACACCAGACAAAAGCTCATAAGAGTAGATCCAACTGAAACACGCCAAACAGAAGC
TCATAAGAGTTGATC
Found at i:20894377 original size:42 final size:42
Alignment explanation
Indices: 20894318--20894401 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
20894308 CAATCCCTTG
20894318 AAGAAGAAAACCATTATGTTTTCTTATATTTAAACCTTTTAT
1 AAGAAGAAAACCATTATGTTTTCTTATATTTAAACCTTTTAT
**
20894360 AAGAAGAAAACTGTTATGTTTTCTTATATTTAAACCTTTTAT
1 AAGAAGAAAACCATTATGTTTTCTTATATTTAAACCTTTTAT
20894402 TCTTTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (42 bp):
AAGAAGAAAACCATTATGTTTTCTTATATTTAAACCTTTTAT
Found at i:20894405 original size:21 final size:19
Alignment explanation
Indices: 20894380--20894432 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
20894370 CTGTTATGTT
20894380 TTCTTATATTTAAACCTTTTA
1 TTCTTATATTTAAA--TTTTA
* *
20894401 TTCTTTTATTTTAATTTTA
1 TTCTTATATTTAAATTTTA
20894420 TTACTTAT-TTTAA
1 TT-CTTATATTTAA
20894433 TTATTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 11 0.41
20 4 0.15
21 12 0.44
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.64
Consensus pattern (19 bp):
TTCTTATATTTAAATTTTA
Found at i:20894768 original size:30 final size:30
Alignment explanation
Indices: 20894734--20894830 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
20894724 AGCTCACTCC
20894734 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
20894764 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
20894794 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
20894824 TAGCTCA
1 TAGCTCA
20894831 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:20903471 original size:21 final size:21
Alignment explanation
Indices: 20903447--20903489 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
20903437 TAATAGCAAA
* *
20903447 ATTTTACCATTAAATAAAATT
1 ATTTTAACAATAAATAAAATT
20903468 ATTTTAACAATAAATAAAATT
1 ATTTTAACAATAAATAAAATT
20903489 A
1 A
20903490 AATCGATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTTAACAATAAATAAAATT
Found at i:20906359 original size:22 final size:21
Alignment explanation
Indices: 20906329--20906370 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20906319 ACACAAAAAC
*
20906329 AGGCTTTTAGCGACGCTTTTTT
1 AGGCCTTTAG-GACGCTTTTTT
*
20906351 AGGCCTTTAGGGCGCTTTTT
1 AGGCCTTTAGGACGCTTTTT
20906371 AGCTAGCGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.43
Consensus pattern (21 bp):
AGGCCTTTAGGACGCTTTTTT
Found at i:20906480 original size:43 final size:43
Alignment explanation
Indices: 20906413--20906660 Score: 387
Period size: 43 Copynumber: 5.8 Consensus size: 43
20906403 GCGTCGCTAA
20906413 CTTTAGCGGCG--TTTCTCCATCAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTC-CCA-CAAACGCCGCTAAAGACCAAGAC
* *
20906456 CTTCAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGCCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
20906499 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGCCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
20906542 CTTTAGCGGCGCTTTTCCCACAAACGTCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
20906585 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA--ATAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCA-AGAC
*
20906627 CTTTAGCGGCGCTTTTCACACAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
20906661 AAATATCTTT
Statistics
Matches: 193, Mismatches: 9, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
41 1 0.01
42 36 0.19
43 149 0.77
44 3 0.02
45 4 0.02
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:20906693 original size:14 final size:16
Alignment explanation
Indices: 20906676--20906707 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
20906666 TCTTTTAAAA
20906676 AAATAAT-TTT-TTTC
1 AAATAATATTTATTTC
20906690 AAATAATATTTATTTC
1 AAATAATATTTATTTC
20906706 AA
1 AA
20906708 TGAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATAATATTTATTTC
Found at i:20906998 original size:43 final size:43
Alignment explanation
Indices: 20906932--20907022 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
20906922 ATATATGCAA
* * * *
20906932 GGTAATAAAATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
*
20906975 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
20907018 -GTAAT
1 GGTAAT
20907023 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:20908118 original size:2 final size:2
Alignment explanation
Indices: 20908111--20908135 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20908101 ATGATCAACT
20908111 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
20908136 TGAAAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:20918836 original size:14 final size:14
Alignment explanation
Indices: 20918812--20918851 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
20918802 ACATATCTTG
20918812 CCATA-GGTCTTAA
1 CCATATGGTCTTAA
20918825 CCATATGGTCTTAA
1 CCATATGGTCTTAA
* *
20918839 CGACATGGTCTTA
1 CCATATGGTCTTA
20918852 CACACATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (14 bp):
CCATATGGTCTTAA
Found at i:20920434 original size:49 final size:50
Alignment explanation
Indices: 20920370--20920593 Score: 168
Period size: 49 Copynumber: 4.4 Consensus size: 50
20920360 GCTATGTCCT
* * *
20920370 AGACATAGTCTTACATGGGATGTT-TCTTATA-CTGCCAATGTCATATCCC
1 AGACATGGTCTTACATGGGA-GTTCTCATATAGCTGCCAATGCCATATCCC
* * * *
20920419 AGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCC
1 AGACATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATATCCC
* ** * * * * * *
20920469 AGACATGGTCTTAC-GGGGACCTCTCGTCTTGATGCCAACGCCAT-GCCC
1 AGACATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATATCCC
** * *
20920517 AAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCC
1 -AGACATGGTCTTACATGGGAGTTCTCAT-A--T--A-GCTGCCAATGCCATATCCC
20920574 AGACATGGTCTTACATGGGA
1 AGACATGGTCTTACATGGGA
20920594 TCTCTTTACC
Statistics
Matches: 140, Mismatches: 24, Indels: 15
0.78 0.13 0.08
Matches are distributed among these distances:
48 6 0.04
49 59 0.42
50 38 0.27
53 1 0.01
56 33 0.24
57 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
AGACATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATATCCC
Found at i:20924799 original size:7 final size:7
Alignment explanation
Indices: 20924787--20924827 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
20924777 TAGTAAACAA
20924787 TAATATT
1 TAATATT
20924794 TAATATT
1 TAATATT
20924801 TAATATT
1 TAATATT
20924808 TAATATT
1 TAATATT
20924815 TAATATT
1 TAATATT
20924822 TAATAT
1 TAATAT
20924828 AGTATGTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAATATT
Found at i:20926110 original size:29 final size:31
Alignment explanation
Indices: 20926046--20926119 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 31
20926036 ACTACCAAAA
*
20926046 TAGTCACTTTTGTTTGGCACAAGTTACATTT
1 TAGTCACTTATGTTTGGCACAAGTTACATTT
*
20926077 TAGTCACTTATGTTT-G-A-AATGTTACGTTT
1 TAGTCACTTATGTTTGGCACAA-GTTACATTT
20926106 TAGTCACTTATGTT
1 TAGTCACTTATGTT
20926120 ATCACGTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
30 1 0.03
31 14 0.35
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (31 bp):
TAGTCACTTATGTTTGGCACAAGTTACATTT
Found at i:20926141 original size:31 final size:29
Alignment explanation
Indices: 20926071--20926144 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
20926061 GGCACAAGTT
* *
20926071 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
20926100 ACGTTTTAGTCACTTATGTTATCACGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
20926131 ACATTTTAGTCACT
1 ACATTTTAGTCACT
20926145 GAGCCGTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:20931249 original size:37 final size:37
Alignment explanation
Indices: 20931199--20931277 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20931189 GAGCTTTGAA
* * *
20931199 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
20931236 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
20931273 GTCTT
1 GTCTT
20931278 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:20931570 original size:49 final size:47
Alignment explanation
Indices: 20931394--20931575 Score: 247
Period size: 47 Copynumber: 3.8 Consensus size: 47
20931384 CCCTTCGGGA
* * * * * **
20931394 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
20931441 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
20931488 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
20931535 CTTATCACATATATATACACTTTCACATTCATCACATCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGC
20931576 NNNNNNNNNN
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
47 89 0.75
49 29 0.25
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:20940575 original size:46 final size:46
Alignment explanation
Indices: 20940508--20940601 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
20940498 GAACATATGT
20940508 TAGGTGAGAGTTCAGTTTAGTTGATTCATGCAGCTACACTAGGACC
1 TAGGTGAGAGTTCAGTTTAGTTGATTCATGCAGCTACACTAGGACC
20940554 TAGGTGAGAGTTCAGTTTAGTTGATTCATGCAGCTACACTAGGACC
1 TAGGTGAGAGTTCAGTTTAGTTGATTCATGCAGCTACACTAGGACC
20940600 TA
1 TA
20940602 TCCTAGGGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (46 bp):
TAGGTGAGAGTTCAGTTTAGTTGATTCATGCAGCTACACTAGGACC
Found at i:20940920 original size:6 final size:6
Alignment explanation
Indices: 20940909--20940942 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
20940899 GAACATGTCC
20940909 TAATTT TAATTT TAATTT TAATTT TAATTT TAAT
1 TAATTT TAATTT TAATTT TAATTT TAATTT TAAT
20940943 AACTACAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TAATTT
Found at i:20941423 original size:21 final size:20
Alignment explanation
Indices: 20941352--20941423 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
20941342 GAAATATTAT
20941352 AAAATTATTAAAGATTAC-A
1 AAAATTATTAAAGATTACTA
* *
20941371 AAAATAATTTATAAAATTTA-TAA
1 AAAATTA-TTA-AAGA-TTACT-A
*
20941394 AAAAATATTAAAGAGTTACTA
1 AAAATTATTAAAGA-TTACTA
20941415 AAAATTATT
1 AAAATTATT
20941424 TAAATATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
19 6 0.15
20 3 0.08
21 18 0.45
22 7 0.17
23 6 0.15
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAATTATTAAAGATTACTA
Found at i:20941426 original size:22 final size:21
Alignment explanation
Indices: 20941359--20941432 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
20941349 TATAAAATTA
20941359 TTAAAGATTAC-AAAAATAAT
1 TTAAAGATTACTAAAAATAAT
*
20941379 TTATAAAATTTA-TAAAAA-AAT
1 TTA-AAGA-TTACTAAAAATAAT
*
20941400 ATTAAAGAGTTACTAAAAATTAT
1 -TTAAAGA-TTACTAAAAATAAT
*
20941423 TTAAATATTA
1 TTAAAGATTA
20941433 TAGAACTTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
20 3 0.07
21 15 0.35
22 23 0.53
23 2 0.05
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (21 bp):
TTAAAGATTACTAAAAATAAT
Found at i:20941434 original size:42 final size:39
Alignment explanation
Indices: 20941338--20941434 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 39
20941328 AAAAAGAGAA
* *
20941338 TATTGAAATATTAT-AAAATTATTAAAGATTACAAAAAT
1 TATTTAAATATTATAAAAAATATTAAAGATTACAAAAAT
* *
20941376 AATTTATAAAATTTATAAAAAAATATTAAAGAGTTACTAAAAAT
1 TATTTA-AATA-TTAT-AAAAAATATTAAAGA-TTAC-AAAAAT
20941420 TATTTAAATATTATA
1 TATTTAAATATTATA
20941435 GAACTTCTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
38 4 0.09
39 3 0.06
40 4 0.09
41 1 0.02
42 17 0.36
43 7 0.15
44 11 0.23
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (39 bp):
TATTTAAATATTATAAAAAATATTAAAGATTACAAAAAT
Found at i:20941466 original size:19 final size:18
Alignment explanation
Indices: 20941442--20941481 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
20941432 ATAGAACTTC
*
20941442 TAGAAAATCATATAAAATA
1 TAGAAAATCAT-TAAAAAA
*
20941461 TAGAAAATTATTAAAAAA
1 TAGAAAATCATTAAAAAA
20941479 TAG
1 TAG
20941482 TTATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (18 bp):
TAGAAAATCATTAAAAAA
Found at i:20941491 original size:22 final size:19
Alignment explanation
Indices: 20941464--20941508 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 19
20941454 TAAAATATAG
20941464 AAAATTATTAAAAAATAGTTAT
1 AAAATTA-TAAAAAA-A-TTAT
*
20941486 AAAATTATAGAAAAATTAT
1 AAAATTATAAAAAAATTAT
20941505 AAAA
1 AAAA
20941509 ATGAGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 1 0.05
21 6 0.27
22 7 0.32
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAATTATAAAAAAATTAT
Found at i:20941504 original size:19 final size:18
Alignment explanation
Indices: 20941482--20941534 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
20941472 TAAAAAATAG
20941482 TTATAAAATTATAGAAAAA
1 TTATAAAATTAT-GAAAAA
*
20941501 TTATAAAA--ATGAGAAA
1 TTATAAAATTATGAAAAA
20941517 TTATAGAAATTATGAAAA
1 TTATA-AAATTATGAAAA
20941535 TTCTACAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 10 0.34
17 5 0.17
19 14 0.48
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (18 bp):
TTATAAAATTATGAAAAA
Found at i:20946015 original size:12 final size:13
Alignment explanation
Indices: 20945998--20946026 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
20945988 GTTTTGATTC
20945998 TTTAATTCTTT-A
1 TTTAATTCTTTAA
20946010 TTTAATTCTTTAA
1 TTTAATTCTTTAA
20946023 TTTA
1 TTTA
20946027 GTGGAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTAATTCTTTAA
Found at i:20958058 original size:20 final size:22
Alignment explanation
Indices: 20958035--20958075 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20958025 AATTAAGGAA
20958035 ATATA-TCAAAAA-TTTAAAAG
1 ATATATTCAAAAATTTTAAAAG
*
20958055 ATATATTTAAAAATTTTAAAA
1 ATATATTCAAAAATTTTAAAA
20958076 AATAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
ATATATTCAAAAATTTTAAAAG
Found at i:20958754 original size:21 final size:21
Alignment explanation
Indices: 20958730--20958786 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
20958720 CTTGAATGTC
20958730 AAGTCTTGAAACTTGACCTAT
1 AAGTCTTGAAACTTGACCTAT
* *
20958751 AAGT-TTTAATACTTAACCTAT
1 AAGTCTTGAA-ACTTGACCTAT
*
20958772 AAGTCTTGAGACTTG
1 AAGTCTTGAAACTTG
20958787 GCTTGTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 4 0.14
21 22 0.76
22 3 0.10
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (21 bp):
AAGTCTTGAAACTTGACCTAT
Found at i:20961335 original size:44 final size:44
Alignment explanation
Indices: 20961270--20961443 Score: 190
Period size: 44 Copynumber: 3.9 Consensus size: 44
20961260 TGAGTTCAGA
* *
20961270 AAATGAGAAATACCATGGTTGAAAGATA-TCATGGCATTATACCG
1 AAATGAGAAAGACCATAGTTGAAAGATACT-ATGGCATTATACCG
*
20961314 AAATGAGAAAGACCATAGTTGAAAGATACTATGGCATTAAACCG
1 AAATGAGAAAGACCATAGTTGAAAGATACTATGGCATTATACCG
* * * * * * *
20961358 AAATGGGTAAGACCTTAGTTAAAAGATACTACGACACTATACCGG
1 AAATGAGAAAGACCATAGTTGAAAGATACTATGGCATTATACC-G
*
20961403 AAAATGA-ACAAGACCATAGTTGAAAAGATACTATGACATTA
1 -AAATGAGA-AAGACCATAGTTG-AAAGATACTATGGCATTA
20961444 AATATGATTG
Statistics
Matches: 108, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
44 74 0.69
45 2 0.02
46 16 0.15
47 16 0.15
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.22
Consensus pattern (44 bp):
AAATGAGAAAGACCATAGTTGAAAGATACTATGGCATTATACCG
Found at i:20965316 original size:17 final size:17
Alignment explanation
Indices: 20965294--20965356 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
20965284 ATTTAATCAC
20965294 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
** * *
20965311 TACATAAGTCTTTGAATTAC
1 TACATAA---TTAAAAATAT
*
20965331 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
20965348 TACATAATT
1 TACATAATT
20965357 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 21 0.62
20 13 0.38
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:20965534 original size:38 final size:39
Alignment explanation
Indices: 20965490--20965567 Score: 122
Period size: 38 Copynumber: 2.0 Consensus size: 39
20965480 ACTTAAGAGT
* *
20965490 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTGAGTTTTATTGGGTTGGGTAATTGGG
*
20965528 TAGACTTTAGTTTGAGTTTTGTTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTGAGTTTTATTGGGTTGGGTAATTGGG
20965567 T
1 T
20965568 TGGGTTGGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 25 0.69
39 11 0.31
ACGTcount: A:0.17, C:0.03, G:0.31, T:0.50
Consensus pattern (39 bp):
TAGACTTTAGTTTGAGTTTTATTGGGTTGGGTAATTGGG
Found at i:20975272 original size:25 final size:25
Alignment explanation
Indices: 20975244--20975307 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
20975234 ATAGTGCTAA
* *
20975244 ACATAACATTCTTTAAACATAACAT
1 ACATAACATACATTAAACATAACAT
20975269 ACATAACATACATTAAACATAACAT
1 ACATAACATACATTAAACATAACAT
*
20975294 ACATAATATACATT
1 ACATAACATACATT
20975308 CATAAATAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.30
Consensus pattern (25 bp):
ACATAACATACATTAAACATAACAT
Found at i:20975274 original size:9 final size:9
Alignment explanation
Indices: 20975260--20975306 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
20975250 CATTCTTTAA
20975260 ACATAACAT
1 ACATAACAT
20975269 ACATAACAT
1 ACATAACAT
*
20975278 ACATTA-A-
1 ACATAACAT
20975285 ACATAACAT
1 ACATAACAT
*
20975294 ACATAATAT
1 ACATAACAT
20975303 ACAT
1 ACAT
20975307 TCATAAATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
7 5 0.15
8 2 0.06
9 26 0.79
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (9 bp):
ACATAACAT
Found at i:20975482 original size:15 final size:15
Alignment explanation
Indices: 20975462--20975568 Score: 74
Period size: 15 Copynumber: 6.8 Consensus size: 15
20975452 CATAACTATT
20975462 ACATACATAACAACA
1 ACATACATAACAACA
*
20975477 ATATACCATGTAAC-A-A
1 ACATA-CA--TAACAACA
*
20975493 ACATACATAACAATA
1 ACATACATAACAACA
*
20975508 ATATACATAACATACA
1 ACATACATAACA-ACA
*
20975524 TACATAACAATAATAACA
1 -ACAT-AC-ATAACAACA
**
20975542 ACATACATAACAGTA
1 ACATACATAACAACA
*
20975557 ATATACATAACA
1 ACATACATAACA
20975569 TACTTTGGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
13 4 0.05
14 1 0.01
15 35 0.48
16 11 0.15
17 8 0.11
18 9 0.12
19 5 0.07
ACGTcount: A:0.57, C:0.20, G:0.02, T:0.21
Consensus pattern (15 bp):
ACATACATAACAACA
Found at i:20975500 original size:31 final size:28
Alignment explanation
Indices: 20975462--20975568 Score: 111
Period size: 31 Copynumber: 4.0 Consensus size: 28
20975452 CATAACTATT
*
20975462 ACATACATAACAACAATATACCATGTAACAA
1 ACATACATAACAATAATATA-CA--TAACAA
*
20975493 ACATACATAACAATAATATACATAACAT
1 ACATACATAACAATAATATACATAACAA
20975521 ACATACATAAC----A-ATA-ATAAC-A
1 ACATACATAACAATAATATACATAACAA
*
20975542 ACATACATAACAGTAATATACATAACA
1 ACATACATAACAATAATATACATAACA
20975569 TACTTTGGTA
Statistics
Matches: 66, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
21 11 0.17
22 5 0.08
23 3 0.05
24 1 0.02
25 1 0.02
26 3 0.05
27 5 0.08
28 16 0.24
30 2 0.03
31 19 0.29
ACGTcount: A:0.57, C:0.20, G:0.02, T:0.21
Consensus pattern (28 bp):
ACATACATAACAATAATATACATAACAA
Found at i:20975502 original size:79 final size:78
Alignment explanation
Indices: 20975335--20975504 Score: 195
Period size: 79 Copynumber: 2.2 Consensus size: 78
20975325 TACGTAATAT
* * * *
20975335 ACATACATAACAGACATGTTTATAATAGTAATATACCACATAACAGTCACATACATAATAGTAAA
1 ACATACATAACAGACATATTCATAACAGTAATATACCACATAACAGTCACATACATAACAG-AAA
*
20975400 ATACTACAGAACAT
65 ATACTACAGAACAA
* *
20975414 ACA-AGCATAACAGACATATTCATAACAGTAATATACCACATAACTA-TTACATACATAACA-AC
1 ACATA-CATAACAGACATATTCATAACAGTAATATACCACATAAC-AGTCACATACATAACAGAA
20975476 AATA-TACCATGTAACAA
64 AATACTA-CA-G-AACAA
20975493 ACATACATAACA
1 ACATACATAACA
20975505 ATAATATACA
Statistics
Matches: 78, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
76 2 0.03
77 7 0.09
78 2 0.03
79 65 0.83
80 2 0.03
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.24
Consensus pattern (78 bp):
ACATACATAACAGACATATTCATAACAGTAATATACCACATAACAGTCACATACATAACAGAAAA
TACTACAGAACAA
Found at i:20975547 original size:21 final size:22
Alignment explanation
Indices: 20975492--20975571 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 22
20975482 CCATGTAACA
*
20975492 AACATACATAACAATAA-TATACAT
1 AACATACAT-AC-ATAACAATA-AT
20975516 AACATACATACATAACAATAAT
1 AACATACATACATAACAATAAT
*
20975538 AACA-ACATACATAACAGTAAT
1 AACATACATACATAACAATAAT
20975559 ATACATAACATAC
1 A-ACAT-ACATAC
20975572 TTTGGTAAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
21 17 0.34
22 13 0.26
23 5 0.10
24 15 0.30
ACGTcount: A:0.57, C:0.19, G:0.01, T:0.23
Consensus pattern (22 bp):
AACATACATACATAACAATAAT
Found at i:20975713 original size:31 final size:29
Alignment explanation
Indices: 20975666--20975734 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 29
20975656 ACGAATGCCA
20975666 ACAAAAAAAAAATTGAAGTAAGATATAAT
1 ACAAAAAAAAAATTGAAGTAAGATATAAT
* **
20975695 ACGAATAAAAAAATTTGAAGTCTGATATAAT
1 AC-AA-AAAAAAAATTGAAGTAAGATATAAT
20975726 ACAAAAAAA
1 ACAAAAAAA
20975735 TACAAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.20
30 4 0.11
31 24 0.69
ACGTcount: A:0.62, C:0.06, G:0.10, T:0.22
Consensus pattern (29 bp):
ACAAAAAAAAAATTGAAGTAAGATATAAT
Found at i:20975859 original size:55 final size:58
Alignment explanation
Indices: 20975760--20975868 Score: 136
Period size: 55 Copynumber: 1.9 Consensus size: 58
20975750 ATATCAAACC
* *
20975760 AGAAAAATTTGTTTTCCCAAACCCTAAACAAAAAAAACTAAATGTTCC-AAAAAGAAT
1 AGAAAAATTTGTTTTCCCAAACCATAAACAAAAAAAACCAAATGTTCCTAAAAAGAAT
* * *
20975817 AGAAAAA-TTG-TTTCCCTAAACCATATAC-CAAAAAACCGAATGTTCCTAAAAA
1 AGAAAAATTTGTTTTCCC-AAACCATAAACAAAAAAAACCAAATGTTCCTAAAAA
20975869 ATTGTCAGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
55 21 0.47
56 17 0.38
57 7 0.16
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.23
Consensus pattern (58 bp):
AGAAAAATTTGTTTTCCCAAACCATAAACAAAAAAAACCAAATGTTCCTAAAAAGAAT
Found at i:20985254 original size:40 final size:40
Alignment explanation
Indices: 20985158--20985342 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
20985148 TTGAATGCTG
* *
20985158 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
*
20985197 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20985237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20985277 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20985318 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20985343 AACGAGGAGC
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
39 19 0.14
40 103 0.78
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20985360 original size:80 final size:79
Alignment explanation
Indices: 20985158--20985375 Score: 216
Period size: 80 Copynumber: 2.7 Consensus size: 79
20985148 TTGAATGCTG
* *
20985158 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
*
20985218 ATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAATTACTAAA
* ** * *
20985237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
20985302 GTGCGAATTACTATAA
65 GTGCGAATTACTA-AA
* * *
20985318 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
20985376 TACGTGATTT
Statistics
Matches: 117, Mismatches: 14, Indels: 16
0.80 0.10 0.11
Matches are distributed among these distances:
79 38 0.32
80 72 0.62
81 7 0.06
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:20986238 original size:46 final size:46
Alignment explanation
Indices: 20986171--20986262 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
20986161 TATTTTCATA
** *
20986171 GGAAAGTAACGAAATGATCATATGGACAGTATGTTAAGAGATATTC
1 GGAAAGTAACGAAACAATCATACGGACAGTATGTTAAGAGATATTC
*
20986217 GGAAAGTAACGAAACAATCATACGGGCAGTATGTTAAGAGATATTC
1 GGAAAGTAACGAAACAATCATACGGACAGTATGTTAAGAGATATTC
20986263 AGGTGCTCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (46 bp):
GGAAAGTAACGAAACAATCATACGGACAGTATGTTAAGAGATATTC
Found at i:20992851 original size:50 final size:51
Alignment explanation
Indices: 20992792--20992892 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 51
20992782 TGAAGAAGAG
20992792 CCGATGCGTATCCTAGCTCGTGAAGTGAAGGAGTTGCGAAAC-AAAAGGGT
1 CCGATGCGTATCCTAGCTCGTGAAGTGAAGGAGTTGCGAAACAAAAAGGGT
20992842 CCGATGCGTATCCTAGCTCGTGAAGTGAAGGAGTTGCGAAACAAAAAGGGT
1 CCGATGCGTATCCTAGCTCGTGAAGTGAAGGAGTTGCGAAACAAAAAGGGT
20992893 TCCGTTAGTG
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 42 0.84
51 8 0.16
ACGTcount: A:0.31, C:0.18, G:0.32, T:0.20
Consensus pattern (51 bp):
CCGATGCGTATCCTAGCTCGTGAAGTGAAGGAGTTGCGAAACAAAAAGGGT
Found at i:20993772 original size:14 final size:14
Alignment explanation
Indices: 20993753--20993779 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20993743 CCGAAACTAG
20993753 AAAGAAAAAAAAAC
1 AAAGAAAAAAAAAC
20993767 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
20993780 TGCTCATCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.04, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAC
Found at i:20995894 original size:40 final size:40
Alignment explanation
Indices: 20994857--20995880 Score: 1871
Period size: 40 Copynumber: 25.6 Consensus size: 40
20994847 TTGAATGCTG
* * *
20994857 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
20994896 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20994936 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20994975 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995015 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995055 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995095 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995135 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995175 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995215 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995255 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995295 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995335 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995375 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995415 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995455 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995495 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995535 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995575 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995615 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995655 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995695 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995735 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
20995775 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20995815 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
20995856 -CCGGGATATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
20995881 AACGAGGAGC
Statistics
Matches: 966, Mismatches: 12, Indels: 13
0.97 0.01 0.01
Matches are distributed among these distances:
39 53 0.05
40 903 0.93
41 10 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20997689 original size:174 final size:174
Alignment explanation
Indices: 20997399--20997740 Score: 612
Period size: 174 Copynumber: 2.0 Consensus size: 174
20997389 CACAAACCGG
* *
20997399 TGGTCAATCCGAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATCCTCAAGTTTA
1 TGGTCAATCCGAGCGGATAATTCAGATACTCGAGGATATGTTGAGATGTAGCATCCTCAAGTTTA
20997464 CTGCTTCATGGGAACGGTATTTACCTTTGATTGAATTCGCTTACAACAATAGTTTTCAATCAAGT
66 CTGCTTCATGGGAACGGTATTTACCTTTGATTGAATTCGCTTACAACAATAGTTTTCAATCAAGT
*
20997529 ATTAAGATGGCACCTTACGAGGCTTTGTATGGTCGTAAGATTGA
131 ATTAAGATGGCACCTTACGAGGCTTTGTACGGTCGTAAGATTGA
* **
20997573 TGGTCAATCCGAGCGGATAGTTCAGATACTCGAGGATATGTTGAGATGTAGCATCCTTGAGTTTA
1 TGGTCAATCCGAGCGGATAATTCAGATACTCGAGGATATGTTGAGATGTAGCATCCTCAAGTTTA
* *
20997638 GTGGTTCATGGGAACGGTATTTACCTTTGATTGAATTCGCTTACAACAATAGTTTTCAATCAAGT
66 CTGCTTCATGGGAACGGTATTTACCTTTGATTGAATTCGCTTACAACAATAGTTTTCAATCAAGT
20997703 ATTAAGATGGCACCTTACGAGGCTTTGTACGGTCGTAA
131 ATTAAGATGGCACCTTACGAGGCTTTGTACGGTCGTAA
20997741 ATGCCGTACA
Statistics
Matches: 160, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 160 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (174 bp):
TGGTCAATCCGAGCGGATAATTCAGATACTCGAGGATATGTTGAGATGTAGCATCCTCAAGTTTA
CTGCTTCATGGGAACGGTATTTACCTTTGATTGAATTCGCTTACAACAATAGTTTTCAATCAAGT
ATTAAGATGGCACCTTACGAGGCTTTGTACGGTCGTAAGATTGA
Found at i:20997884 original size:107 final size:107
Alignment explanation
Indices: 20997687--20997885 Score: 344
Period size: 107 Copynumber: 1.9 Consensus size: 107
20997677 CTTACAACAA
*
20997687 TAGTTTTCAATCAAGTATTAAGATGGCACCTTACGAGGCTTTGTACGGTCGTAAATGCCGTACAC
1 TAGTTTTCAATCAAGCATTAAGATGGCACCTTACGAGGCTTTGTACGGTCGTAAATGCCGTACAC
*
20997752 CATTGTTTTGGACCGAGCTCGGTGAAAGCAAAATTTTCGGCG
66 CATTGTTTTGGACCGAGCTCAGTGAAAGCAAAATTTTCGGCG
* *
20997794 TAGTTTTCAGTCAAGCATTAAGATGGCACCTTACGAGGCTTTGTATGGTCGTAAATGCCGTACAC
1 TAGTTTTCAATCAAGCATTAAGATGGCACCTTACGAGGCTTTGTACGGTCGTAAATGCCGTACAC
* *
20997859 CGTTGTTTTGGACCGAGCTTAGTGAAA
66 CATTGTTTTGGACCGAGCTCAGTGAAA
20997886 ATAAAATCTT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 86 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (107 bp):
TAGTTTTCAATCAAGCATTAAGATGGCACCTTACGAGGCTTTGTACGGTCGTAAATGCCGTACAC
CATTGTTTTGGACCGAGCTCAGTGAAAGCAAAATTTTCGGCG
Found at i:21002073 original size:66 final size:66
Alignment explanation
Indices: 21001967--21002129 Score: 204
Period size: 66 Copynumber: 2.5 Consensus size: 66
21001957 CAAATTACAA
* * * *
21001967 AACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCT
1 AACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAGC-
21002031 A-C
64 AGC
* *
21002033 AACTTAAAGCAGATGCAGCAGCGAGAGAAGTTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAG
1 AACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAG
*
21002098 T
66 C
* * *
21002099 AGCTTAAAGCAGATACGGCAGCGAGAGAAGC
1 AACTTAAAGCAGATGCAGCAGCGAGAGAAGC
21002130 AGAAGCTGCA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 79 0.94
67 4 0.05
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.15
Consensus pattern (66 bp):
AACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAG
C
Found at i:21002129 original size:21 final size:21
Alignment explanation
Indices: 21002105--21002149 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
21002095 CAGTAGCTTA
21002105 AAGCAGATA-CGGCAGCGAGAG
1 AAGCAGA-AGCGGCAGCGAGAG
* *
21002126 AAGCAGAAGCTGCAGCGAGGG
1 AAGCAGAAGCGGCAGCGAGAG
21002147 AAG
1 AAG
21002150 TAGAGCAGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.38, C:0.18, G:0.40, T:0.04
Consensus pattern (21 bp):
AAGCAGAAGCGGCAGCGAGAG
Found at i:21002338 original size:10 final size:10
Alignment explanation
Indices: 21002325--21002356 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
21002315 AATTTTATTT
21002325 TATTTATTGA
1 TATTTATTGA
21002335 TATTTATTGA
1 TATTTATTGA
21002345 TATTTATT-A
1 TATTTATTGA
21002354 TAT
1 TAT
21002357 ATTACAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (10 bp):
TATTTATTGA
Found at i:21002339 original size:20 final size:20
Alignment explanation
Indices: 21002316--21002356 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
21002306 AATAATACGA
*
21002316 ATTTTATT-TTATTTATTGAT
1 ATTTTATTGATATTTATT-AT
21002336 A-TTTATTGATATTTATTAT
1 ATTTTATTGATATTTATTAT
21002355 AT
1 AT
21002357 ATTACAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTTTATTGATATTTATTAT
Found at i:21002512 original size:42 final size:42
Alignment explanation
Indices: 21002461--21002601 Score: 156
Period size: 43 Copynumber: 3.3 Consensus size: 42
21002451 TCTACCAAAA
* * * *
21002461 TTAGTGGCGTTTTTAAAAAAACGCCGCTAAAGGTAATGGTCT
1 TTAGCGGCGTTTTGAAAAAAACGCCGCTAAAGATAAGGGTCT
** * *
21002503 TTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGTCT
1 TTAGCGGCGTTT-TGAAAAAAACGCCGCTAAAGATAAGGGTCT
* * * *
21002546 TCAGCGGCATTTTGGAGAAAAACGCCGCTAAAGATTAGGGTCT
1 TTAGCGGCGTTTT-GAAAAAAACGCCGCTAAAGATAAGGGTCT
21002589 TTAGCGGCGTTTT
1 TTAGCGGCGTTTT
21002602 ATGCAGAAGT
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 12 0.15
43 69 0.85
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (42 bp):
TTAGCGGCGTTTTGAAAAAAACGCCGCTAAAGATAAGGGTCT
Found at i:21002531 original size:43 final size:43
Alignment explanation
Indices: 21002477--21002601 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
21002467 GCGTTTTTAA
* * *
21002477 AAAAACGCCGCTAAAGGTAATGGTCTTTAGCGGCGTTTGTGG-T
1 AAAAACGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTT-TGGAG
* * * *
21002520 AAAAGCGCCGCTAAAGATCAGGGTCTTCAGCGGCATTTTGGAG
1 AAAAACGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTTGGAG
*
21002563 AAAAACGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTT
1 AAAAACGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTT
21002602 ATGCAGAAGT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
42 3 0.04
43 67 0.96
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTTGGAG
Found at i:21002724 original size:43 final size:43
Alignment explanation
Indices: 21002673--21002815 Score: 216
Period size: 43 Copynumber: 3.3 Consensus size: 43
21002663 AGGTCGTTGT
21002673 CTTTAGCGGCGTTTGTTTGGTAAGCGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGTTTGTTTGGTAAGCGCCGCTAAAGACCATGAC
** * *
21002716 CTCCAGCGGCGTTTGTTTTGG-AAGCGCTGCTAAAGACCATAAC
1 CTTTAGCGGCGTTTG-TTTGGTAAGCGCCGCTAAAGACCATGAC
* *
21002759 CTTTAGCGGCGTTTGTGTGGTAAGCACCGCTAAAGACCATGAC
1 CTTTAGCGGCGTTTGTTTGGTAAGCGCCGCTAAAGACCATGAC
21002802 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
21002816 TTAGAAATAA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
42 4 0.05
43 79 0.90
44 5 0.06
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTTTGGTAAGCGCCGCTAAAGACCATGAC
Found at i:21002727 original size:86 final size:86
Alignment explanation
Indices: 21002637--21002815 Score: 223
Period size: 86 Copynumber: 2.1 Consensus size: 86
21002627 GGTAATTAAG
** * *** * *
21002637 GGCGTTTGTAAGGGAAGCGCCACTAAAGGTCGTTGTCTTTAGCGGCGTTTGTTTGGTAAGCGCCG
1 GGCGTTTGTAAGGGAAGCGCCACTAAAGACCATAACCTTTAGCGGCGTTTGTGTGGTAAGCACCG
21002702 CTAAAGACCATGACCTCCAGC
66 CTAAAGACCATGACCTCCAGC
*** **
21002723 GGCGTTTGTTTTGGAAGCGCTGCTAAAGACCATAACCTTTAGCGGCGTTTGTGTGGTAAGCACCG
1 GGCGTTTGTAAGGGAAGCGCCACTAAAGACCATAACCTTTAGCGGCGTTTGTGTGGTAAGCACCG
**
21002788 CTAAAGACCATGACCTTTAGC
66 CTAAAGACCATGACCTCCAGC
21002809 GGCGTTT
1 GGCGTTT
21002816 TTAGAAATAA
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (86 bp):
GGCGTTTGTAAGGGAAGCGCCACTAAAGACCATAACCTTTAGCGGCGTTTGTGTGGTAAGCACCG
CTAAAGACCATGACCTCCAGC
Found at i:21002978 original size:3 final size:3
Alignment explanation
Indices: 21002970--21003098 Score: 201
Period size: 3 Copynumber: 44.0 Consensus size: 3
21002960 TAGTGAGGAT
* * *
21002970 AAG AAG AAG AAG AAA AAG -AG AAG AAA AAG AAG AAG AAA AAG -AG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
21003016 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
21003064 AAG AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
21003099 CCAATTTCCT
Statistics
Matches: 115, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
2 6 0.05
3 109 0.95
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21003125 original size:19 final size:19
Alignment explanation
Indices: 21003101--21003138 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21003091 AGAAGAAGCC
21003101 AATTTCCTGATATGAAAGG
1 AATTTCCTGATATGAAAGG
21003120 AATTTCCTGATATGAAAGG
1 AATTTCCTGATATGAAAGG
21003139 CCATTCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
AATTTCCTGATATGAAAGG
Found at i:21003916 original size:20 final size:19
Alignment explanation
Indices: 21003890--21003940 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
21003880 TTGGAGCAGG
*
21003890 AATATCGATACCTTAGGAA
1 AATATCGATACCTTAAGAA
21003909 ATATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
21003929 AAGTATCGATAC
1 AA-TATCGATAC
21003941 TGGATCGATA
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:21004895 original size:24 final size:24
Alignment explanation
Indices: 21004871--21004917 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
21004861 CTTCTTCTCC
21004871 TATTCCTTCTCCTTCTCCTCTTCCT
1 TATT-CTTCTCCTTCTCCTCTTCCT
* *
21004896 TATTCTTCTTCTTCTTCTCTTC
1 TATTCTTCTCCTTCTCCTCTTC
21004918 TTCTACTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.04, C:0.38, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTCTTCTCCTTCTCCTCTTCCT
Found at i:21004903 original size:18 final size:18
Alignment explanation
Indices: 21004862--21004904 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
21004852 ATTCTTAGTC
*
21004862 TTCTTCTCCTATTCCTTC
1 TTCTTCTCCTATTCCTTA
* *
21004880 TCCTTCTCCTCTTCCTTA
1 TTCTTCTCCTATTCCTTA
21004898 TTCTTCT
1 TTCTTCT
21004905 TCTTCTTCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.40, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCTTCTCCTATTCCTTA
Found at i:21005098 original size:29 final size:30
Alignment explanation
Indices: 21005038--21005115 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
21005028 AATATTAGTG
* *
21005038 GGTGATTGATTTGTCACTTTTCATAACGTTA
1 GGTGATTGATTTGTTA-TTTTCATAAAGTTA
*
21005069 -GTGATTGATTTGTTATTTT-TTGAAAGTTA
1 GGTGATTGATTTGTTATTTTCAT-AAAGTTA
* *
21005098 GGTAATTGTTTTGTTATT
1 GGTGATTGATTTGTTATT
21005116 GTGATCAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 10 0.25
30 29 0.73
ACGTcount: A:0.22, C:0.05, G:0.21, T:0.53
Consensus pattern (30 bp):
GGTGATTGATTTGTTATTTTCATAAAGTTA
Found at i:21005207 original size:5 final size:5
Alignment explanation
Indices: 21005170--21005206 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
21005160 TATTTTTCTT
*
21005170 TATTA TATTA TATTA TATTA TATTA TTATTA TTTTA T
1 TATTA TATTA TATTA TATTA TATTA -TATTA TATTA T
21005207 TGCTTTTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TATTA
Found at i:21009682 original size:107 final size:107
Alignment explanation
Indices: 21009560--21009773 Score: 410
Period size: 107 Copynumber: 2.0 Consensus size: 107
21009550 TTTATTTATC
21009560 CAGATTTATTATGAATATGTATTTTTATTAATTTTTAAATAATATTTTAGAATTTTTAAAAACAT
1 CAGATTTATTATGAATATGTATTTTTATTAATTTTTAAATAATATTTTAGAATTTTTAAAAACAT
* *
21009625 TATTGATATGGCTTTCCACATTGACATTTTTATTAATGTAGA
66 TATTGATATGGCTTGCCACATTGACATTTTTATCAATGTAGA
21009667 CAGATTTATTATGAATATGTATTTTTATTAATTTTTAAATAATATTTTAGAATTTTTAAAAACAT
1 CAGATTTATTATGAATATGTATTTTTATTAATTTTTAAATAATATTTTAGAATTTTTAAAAACAT
21009732 TATTGATATGGCTTGCCACATTGACATTTTTATCAATGTAGA
66 TATTGATATGGCTTGCCACATTGACATTTTTATCAATGTAGA
21009774 TGACACGTGT
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 105 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.48
Consensus pattern (107 bp):
CAGATTTATTATGAATATGTATTTTTATTAATTTTTAAATAATATTTTAGAATTTTTAAAAACAT
TATTGATATGGCTTGCCACATTGACATTTTTATCAATGTAGA
Found at i:21012945 original size:18 final size:20
Alignment explanation
Indices: 21012914--21012953 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
21012904 CATTACTGTG
*
21012914 AAAAAATTGTACAAAA-AGT
1 AAAAAATAGTACAAAATAGT
21012933 AAAAAATAG-ACAAAATAGT
1 AAAAAATAGTACAAAATAGT
21012952 AA
1 AA
21012954 TTTTGCCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (20 bp):
AAAAAATAGTACAAAATAGT
Found at i:21016362 original size:40 final size:39
Alignment explanation
Indices: 21016264--21016526 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
21016254 TCCTCGTTCA
* * * *
21016264 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
21016303 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
21016342 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
21016382 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
21016422 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
21016462 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
21016503 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21016527 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:21016486 original size:120 final size:119
Alignment explanation
Indices: 21016264--21016526 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
21016254 TCCTCGTTCA
* * *
21016264 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
21016329 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
21016382 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
21016447 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
21016503 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
21016527 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:21016535 original size:41 final size:41
Alignment explanation
Indices: 21016458--21016535 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
21016448 TTTGTATCTC
* * *
21016458 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
21016499 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
21016536 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:21024313 original size:40 final size:39
Alignment explanation
Indices: 21024215--21024477 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
21024205 TCCTCGTTCA
* * * *
21024215 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
21024254 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
21024293 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
21024333 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
21024373 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
21024413 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
21024454 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21024478 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:21024437 original size:120 final size:119
Alignment explanation
Indices: 21024215--21024477 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
21024205 TCCTCGTTCA
* * *
21024215 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
21024280 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
21024333 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
21024398 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
21024454 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
21024478 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:21024486 original size:41 final size:41
Alignment explanation
Indices: 21024409--21024486 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
21024399 TTTGTATCTC
* * *
21024409 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
21024450 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
21024487 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:21036687 original size:6 final size:6
Alignment explanation
Indices: 21036676--21036727 Score: 77
Period size: 6 Copynumber: 8.7 Consensus size: 6
21036666 AGGTTTCTTA
* * *
21036676 AAATGG AAATGG AAATGG AAATGG AAATGG AAATAG AAATAG AAATAG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
21036724 AAAT
1 AAAT
21036728 TAGAAATGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.58, C:0.00, G:0.25, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:21036699 original size:18 final size:18
Alignment explanation
Indices: 21036676--21036735 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
21036666 AGGTTTCTTA
*
21036676 AAATGGAAATGGAAATGG
1 AAATGGAAATGGAAATAG
21036694 AAATGGAAATGGAAATAG
1 AAATGGAAATGGAAATAG
* *
21036712 AAATAGAAATAGAAATTAG
1 AAATGGAAATGGAAA-TAG
21036731 AAATG
1 AAATG
21036736 ATACATTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
18 30 0.81
19 7 0.19
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.18
Consensus pattern (18 bp):
AAATGGAAATGGAAATAG
Found at i:21036733 original size:7 final size:6
Alignment explanation
Indices: 21036676--21036734 Score: 64
Period size: 6 Copynumber: 9.7 Consensus size: 6
21036666 AGGTTTCTTA
* * * * *
21036676 AAATGG AAATGG AAATGG AAATGG AAATGG AAATAG AAATAG AAATAG
1 AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG
21036724 AAATTAG AAAT
1 AAA-TAG AAAT
21036735 GATACATTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
6 45 0.88
7 6 0.12
ACGTcount: A:0.58, C:0.00, G:0.24, T:0.19
Consensus pattern (6 bp):
AAATAG
Found at i:21044620 original size:6 final size:6
Alignment explanation
Indices: 21044609--21044650 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
21044599 AGGTTTCTCA
*
21044609 AAATGG AAATGG AAATGG AAATGA AAATGG AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
21044651 ATATATTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.55, C:0.00, G:0.29, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:21045069 original size:37 final size:37
Alignment explanation
Indices: 21045019--21045093 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
21045009 AAGGGGCAAC
* *
21045019 AACCCTAGGAGGAATACTAAGGGGTGTCGTCCACTGT
1 AACCCTAGCAGGAATACTAAGGGATGTCGTCCACTGT
21045056 AACCCTAGCAGGAATACTAAGGGATGTCGTCCACTGT
1 AACCCTAGCAGGAATACTAAGGGATGTCGTCCACTGT
21045093 A
1 A
21045094 CTCATACTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (37 bp):
AACCCTAGCAGGAATACTAAGGGATGTCGTCCACTGT
Found at i:21050098 original size:2 final size:2
Alignment explanation
Indices: 21050091--21050120 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21050081 TACATTAGTA
*
21050091 AG AG AG AG AG AG AG AG AC AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21050121 TTACGAGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21050817 original size:41 final size:41
Alignment explanation
Indices: 21050762--21050839 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
21050752 TTCATTTTCA
21050762 GTGGTGCCAGAAATAATGGTTTCGGGACCATGATTTCTTTG
1 GTGGTGCCAGAAATAATGGTTTCGGGACCATGATTTCTTTG
* *
21050803 GTGGTGTCAGAAATAATGGTTTTGGGACCATGATTTC
1 GTGGTGCCAGAAATAATGGTTTCGGGACCATGATTTC
21050840 GATAAGTGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (41 bp):
GTGGTGCCAGAAATAATGGTTTCGGGACCATGATTTCTTTG
Found at i:21060966 original size:18 final size:18
Alignment explanation
Indices: 21060926--21060966 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
21060916 GACTAAGATT
21060926 GCATCTTCATCAAAACCA
1 GCATCTTCATCAAAACCA
* *
21060944 ACATCTTCATCAAAACTA
1 GCATCTTCATCAAAACCA
21060962 GCATC
1 GCATC
21060967 ATGCTTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.32, G:0.05, T:0.24
Consensus pattern (18 bp):
GCATCTTCATCAAAACCA
Found at i:21066011 original size:20 final size:20
Alignment explanation
Indices: 21065988--21066053 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
21065978 GTGCAACTAG
*
21065988 GGGCACTGAAGTGCAAACAT
1 GGGCACTGAAGTGCAAACAA
* * **
21066008 GGGCACCGATGTGCATTCAA
1 GGGCACTGAAGTGCAAACAA
* * *
21066028 GGGTACTGAAGTACAAACAG
1 GGGCACTGAAGTGCAAACAA
21066048 GGGCAC
1 GGGCAC
21066054 GTAACTGCAA
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.21, G:0.32, T:0.15
Consensus pattern (20 bp):
GGGCACTGAAGTGCAAACAA
Found at i:21066072 original size:40 final size:39
Alignment explanation
Indices: 21066028--21066149 Score: 145
Period size: 40 Copynumber: 3.0 Consensus size: 39
21066018 GTGCATTCAA
* *
21066028 GGGTACTGAAGTACAAACAGGGGCACGTAACTGCAATAAG
1 GGGTA-TGAAGTACAAATAGGGGCACGTAAGTGCAATAAG
* * * *
21066068 GGGTATTGAAGTACAATTAGGGGCACGCAAGTACAATCAG
1 GGGTA-TGAAGTACAAATAGGGGCACGTAAGTGCAATAAG
*
21066108 GGGTATCGAAGTACAAATAGGAGCACGTAAGTGCAATCAAG
1 GGGTAT-GAAGTACAAATAGGGGCACGTAAGTGCAAT-AAG
21066149 G
1 G
21066150 TATAATTTAC
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 64 0.94
41 3 0.04
ACGTcount: A:0.37, C:0.16, G:0.30, T:0.17
Consensus pattern (39 bp):
GGGTATGAAGTACAAATAGGGGCACGTAAGTGCAATAAG
Found at i:21066084 original size:20 final size:20
Alignment explanation
Indices: 21066061--21066123 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
21066051 CACGTAACTG
*
21066061 CAATAAGGGGTATTGAAGTA
1 CAATAAGGGGTATCGAAGTA
* *
21066081 CAATTAGGGGCA-CGCAAGTA
1 CAATAAGGGGTATCG-AAGTA
*
21066101 CAATCAGGGGTATCGAAGTA
1 CAATAAGGGGTATCGAAGTA
21066121 CAA
1 CAA
21066124 ATAGGAGCAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.92
21 2 0.06
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.19
Consensus pattern (20 bp):
CAATAAGGGGTATCGAAGTA
Found at i:21066139 original size:20 final size:19
Alignment explanation
Indices: 21066035--21066139 Score: 61
Period size: 20 Copynumber: 5.3 Consensus size: 19
21066025 CAAGGGTACT
*
21066035 GAAGTACAAACAGGGGCAC
1 GAAGTACAAATAGGGGCAC
* * * *
21066054 GTAACTGC-AATAAGGGGTATT
1 G-AAGTACAAAT-AGGGGCA-C
*
21066075 GAAGTACAATTAGGGGCAC
1 GAAGTACAAATAGGGGCAC
*
21066094 GCAAGTAC-AATCAGGGGTATC
1 G-AAGTACAAAT-AGGGGCA-C
*
21066115 GAAGTACAAATAGGAGCAC
1 GAAGTACAAATAGGGGCAC
21066134 GTAAGT
1 G-AAGT
21066140 GCAATCAAGG
Statistics
Matches: 63, Mismatches: 14, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
19 8 0.13
20 47 0.75
21 8 0.13
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.17
Consensus pattern (19 bp):
GAAGTACAAATAGGGGCAC
Found at i:21069065 original size:39 final size:39
Alignment explanation
Indices: 21069025--21069162 Score: 224
Period size: 39 Copynumber: 3.5 Consensus size: 39
21069015 ATGCACTTTT
* *
21069025 AAGCATATATCACATTACAT-ATATAATCACATAACATTT
1 AAGCATATATCACAATAC-TCATATAATCACATAACATTC
21069064 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
21069103 AAGCATATATCACAATACTCATTTAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
21069142 AAGCATCTATCACAATACTCA
1 AAGCATATATCACAATACTCA
21069163 AAAACATGTT
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 1 0.01
39 93 0.99
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:21075606 original size:15 final size:15
Alignment explanation
Indices: 21075586--21075614 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21075576 TGTGTACCCA
21075586 GTTTGAACAAAGATG
1 GTTTGAACAAAGATG
21075601 GTTTGAACAAAGAT
1 GTTTGAACAAAGAT
21075615 ATCTGATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (15 bp):
GTTTGAACAAAGATG
Done.