Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 67 of 332
Found at i:20365763 original size:43 final size:43
Alignment explanation
Indices: 20365673--20365837 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 43
20365663 TTTTGATATG
* * * *
20365673 TGATTTA-GTGTAAGACCACGTCTGGGACGTTGGCATCAATTTG
1 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATC-GTATA
* *
20365716 TGATTTACGTGTAAAACCATGTCTGGGACATTGGCATCGTATA
1 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGTATA
* * * *
20365759 TGATTT-CGTGTAAGACC-CTGTCTGAGACAGTGGCTTCGATATT
1 TGATTTACGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATA
* **
20365802 TGA-TTACATGTAAGACCACGTCAAGGACATTGGCAT
1 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCAT
20365838 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.28
43 43 0.43
44 28 0.28
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGTATA
Found at i:20365806 original size:86 final size:85
Alignment explanation
Indices: 20365673--20365837 Score: 192
Period size: 86 Copynumber: 1.9 Consensus size: 85
20365663 TTTTGATATG
* * *
20365673 TGATTTAGTGTAAGACCACGTCTGGGACGTTGGCATCAATTTGTGATTTACGTGTAAAACCATGT
1 TGATTTAGTGTAAGACCACGTCTGAGACGTTGGCATCAATTTGTGA-TTACATGTAAAACCACGT
**
20365738 CTGGGACATTGGCATCGTATA
65 CAAGGACATTGGCATCGTATA
* * * *
20365759 TGATTTCGTGTAAGACC-CTGTCTGAGACAG-TGGCTTCGATATT-TGATTACATGTAAGACCAC
1 TGATTTAGTGTAAGACCAC-GTCTGAGAC-GTTGGCATCAAT-TTGTGATTACATGTAAAACCAC
20365821 GTCAAGGACATTGGCAT
63 GTCAAGGACATTGGCAT
20365838 TGTACGAGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
85 29 0.43
86 35 0.52
87 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (85 bp):
TGATTTAGTGTAAGACCACGTCTGAGACGTTGGCATCAATTTGTGATTACATGTAAAACCACGTC
AAGGACATTGGCATCGTATA
Found at i:20374776 original size:5 final size:5
Alignment explanation
Indices: 20374768--20374798 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
20374758 GATATTATGT
20374768 TATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA T
20374799 GATATTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:20374777 original size:13 final size:13
Alignment explanation
Indices: 20374759--20374807 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
20374749 TAAGTAAAAG
*
20374759 ATATTATGTTATT
1 ATATTATATTATT
20374772 ATATTATATTATATT
1 ATATTATA-T-TATT
*
20374787 ATATTATATTATG
1 ATATTATATTATT
20374800 ATATTATA
1 ATATTATA
20374808 AACATAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 18 0.56
14 2 0.06
15 12 0.38
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (13 bp):
ATATTATATTATT
Found at i:20374910 original size:13 final size:13
Alignment explanation
Indices: 20374892--20374924 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
20374882 AAAACTCGAG
20374892 AAAGAAAG-AAGAA
1 AAAGAAAGAAAG-A
20374905 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
20374918 AAAGAAA
1 AAAGAAA
20374925 AAGGGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:20375663 original size:19 final size:19
Alignment explanation
Indices: 20375641--20375700 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
20375631 TATATATATA
20375641 TTGAATATATATTGATTAT
1 TTGAATATATATTGATTAT
20375660 TTGAAT-TGA-ATTGA--AT
1 TTGAATAT-ATATTGATTAT
20375676 TAT-AAGTATAT-TTGATTAT
1 T-TGAA-TATATATTGATTAT
20375695 TTGAAT
1 TTGAAT
20375701 TGAAATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 17
0.66 0.00 0.34
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 9 0.27
19 12 0.36
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (19 bp):
TTGAATATATATTGATTAT
Found at i:20378577 original size:92 final size:92
Alignment explanation
Indices: 20378413--20378629 Score: 317
Period size: 92 Copynumber: 2.4 Consensus size: 92
20378403 GACATGATGT
* *
20378413 CATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTATCATATTGCCATGGTATCTTTCAACCAT
1 CATAGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATATTGCCATGGTATCTTTCAACCAT
**
20378478 AATCTTATTCATTTCTTGTCATGTTGC
66 AATCTTATTCATTTCTCATCATGTTGC
* * * * *
20378505 CATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCAT
1 CATAGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATATTGCCATGGTATCTTTCAACCAT
** *
20378570 GGTCTTATTCATTTCTCATCATTTTGC
66 AATCTTATTCATTTCTCATCATGTTGC
*
20378597 CATAGTATCTTTCAACTATGGTCTTACACATTT
1 CATAGTATCTTTCAACTATGGTCTTACTCATTT
20378630 GAATCGCGAT
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 109 1.00
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.45
Consensus pattern (92 bp):
CATAGTATCTTTCAACTATGGTCTTACTCATTTCCTATCATATTGCCATGGTATCTTTCAACCAT
AATCTTATTCATTTCTCATCATGTTGC
Found at i:20378629 original size:46 final size:47
Alignment explanation
Indices: 20378420--20378622 Score: 288
Period size: 46 Copynumber: 4.4 Consensus size: 47
20378410 TGTCATAGTG
* * *
20378420 TCTTTCAACTATGGTCTTACTCATTT-TCTATCATATTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCTCTATCATGTTGCCATGGTA
** *
20378466 TCTTTCAACCATAATCTTATTCATTTCT-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCTCTATCATGTTGCCATGGTA
*
20378512 TCTTTCAACCATGGTCTTATTCATTTC-CTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCTCTATCATGTTGCCATGGTA
* *
20378558 TCTTTCAACCATGGTCTTATTCATTTCTC-ATCATTTTGCCATAGTA
1 TCTTTCAACCATGGTCTTATTCATTTCTCTATCATGTTGCCATGGTA
*
20378604 TCTTTCAACTATGGTCTTA
1 TCTTTCAACCATGGTCTTA
20378623 CACATTTGAA
Statistics
Matches: 142, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
46 140 0.99
47 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (47 bp):
TCTTTCAACCATGGTCTTATTCATTTCTCTATCATGTTGCCATGGTA
Found at i:20378661 original size:45 final size:45
Alignment explanation
Indices: 20378594--20378719 Score: 180
Period size: 45 Copynumber: 2.8 Consensus size: 45
20378584 CTCATCATTT
** * *
20378594 TGCCATAGTATCTTTCAACTATGGTCTTACACATTTGAATCGCGA
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
* * * *
20378639 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCGTCTGAGTCGTGA
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
20378684 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTT
1 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTT
20378720 CTGGTATGAT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (45 bp):
TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTGAATCGCGA
Found at i:20378730 original size:45 final size:45
Alignment explanation
Indices: 20378405--20378735 Score: 270
Period size: 46 Copynumber: 7.3 Consensus size: 45
20378395 TTATCTTCGA
* * *
20378405 CATGATGTCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTAT
1 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCA-TTTCTGT
* * ** *
20378451 CAT-ATTGCCATGGTATCTTTCAACCATAATCTTATTCATTTCTTGT
1 CATGA-TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTC-TGT
* * * *
20378497 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTT-CTGT
* * * * *
20378543 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCTCAT
1 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCT-GT
** * ***
20378589 CATTTTGCCATAGTATCTTTCAACTATGGTCTTACACATTTGAAT
1 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCTGT
** ** * * * **
20378634 CGCGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGTCTGAGT
1 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCTGT
* ** *
20378679 CGTGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTCTGGT
1 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCT-GT
20378725 -ATGATGCCATA
1 CATGATGCCATA
20378736 TTCCAACTAA
Statistics
Matches: 243, Mismatches: 36, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
45 91 0.37
46 151 0.62
47 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (45 bp):
CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCTGT
Found at i:20385567 original size:16 final size:18
Alignment explanation
Indices: 20385538--20385570 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
20385528 ATCCTTTAAG
20385538 TATTATAAAGATGTAAAC
1 TATTATAAAGATGTAAAC
20385556 TATTA-AAA-ATGTAAA
1 TATTATAAAGATGTAAA
20385571 ATTGCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (18 bp):
TATTATAAAGATGTAAAC
Found at i:20387168 original size:18 final size:18
Alignment explanation
Indices: 20387145--20387200 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
20387135 AATATATAAC
*
20387145 AATTATTTTAAAAATTAA
1 AATTATTTAAAAAATTAA
*
20387163 AATTATTTAAAAAATTATTT
1 AATTATTTAAAAAATTA--A
*
20387183 AATTATTAAAAAAATTAA
1 AATTATTTAAAAAATTAA
20387201 GTTGGAGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 16 0.50
20 16 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTATTTAAAAAATTAA
Found at i:20388409 original size:14 final size:14
Alignment explanation
Indices: 20388390--20388420 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20388380 TTAATTGATT
20388390 TTTAATTAATTAAA
1 TTTAATTAATTAAA
*
20388404 TTTAATTAATTGAA
1 TTTAATTAATTAAA
20388418 TTT
1 TTT
20388421 TCTAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:20389279 original size:3 final size:3
Alignment explanation
Indices: 20389271--20389304 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
20389261 TTAAACTAAT
20389271 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG A
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG A
20389305 AGAGAGGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:20390829 original size:6 final size:6
Alignment explanation
Indices: 20390820--20390848 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
20390810 GGTATGGGTT
20390820 GGGCTA GGGCTA GGGCTA GGGCTA GGGCT
1 GGGCTA GGGCTA GGGCTA GGGCTA GGGCT
20390849 TAGACCAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.17, G:0.52, T:0.17
Consensus pattern (6 bp):
GGGCTA
Found at i:20393169 original size:15 final size:15
Alignment explanation
Indices: 20393145--20393174 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20393135 AAAAATTAGA
20393145 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
20393160 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
20393175 ATTTAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:20393474 original size:126 final size:126
Alignment explanation
Indices: 20393243--20393543 Score: 464
Period size: 126 Copynumber: 2.4 Consensus size: 126
20393233 ATTTGTTAAT
* * *
20393243 CTAAAA-AAGCTTCTACGTGAACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAA
1 CTAAAAGAAGCTCCTACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAA
* * * *
20393307 GACGTGTTTGCGTAAATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTA
66 GACATGTCTGCATAAATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAATA
** *
20393368 CTGGAAGAAGCTCCTACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAA
1 CTAAAAGAAGCTCCTACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAA
20393433 GACATGTCTGCATAAATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAATA
66 GACATGTCTGCATAAATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAATA
* *
20393494 CTAAAAGAAGCTCCCACGTGGACGCTCTTTTGCTACAGTGGTTTCT-AAAA
1 CTAAAAGAAGCTCCTACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAA
20393544 TAACTTGGGC
Statistics
Matches: 159, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
125 10 0.06
126 149 0.94
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (126 bp):
CTAAAAGAAGCTCCTACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAA
GACATGTCTGCATAAATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAATA
Found at i:20396723 original size:116 final size:116
Alignment explanation
Indices: 20396548--20397046 Score: 899
Period size: 116 Copynumber: 4.3 Consensus size: 116
20396538 TTTATATTTT
* * *
20396548 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * * * *
20396613 AAAATATAAAAATAAATTATAATTACTTTATTTAAAACAACATTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
20396664 ATCACATGAAATAATATAAAAATATTCAAAATGTTACCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
20396729 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
20396780 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
20396845 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
20396896 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
20396961 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
20397012 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
20397047 TGTACAAATA
Statistics
Matches: 370, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 370 1.00
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:20397550 original size:30 final size:30
Alignment explanation
Indices: 20397509--20397574 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
20397499 GTTGAACTGT
* *
20397509 TGGGCCCGGTGACTGTGTAGGTC-CTGTTGC
1 TGGGCCCGGTGACTGTGT-GGGCGCTGTTGA
* *
20397539 TGGGCCGGGTGATTGTGTGGGCGCTGTTGA
1 TGGGCCCGGTGACTGTGTGGGCGCTGTTGA
20397569 TGGGCC
1 TGGGCC
20397575 TGCGTCGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.06, C:0.20, G:0.45, T:0.29
Consensus pattern (30 bp):
TGGGCCCGGTGACTGTGTGGGCGCTGTTGA
Found at i:20399211 original size:15 final size:15
Alignment explanation
Indices: 20399191--20399221 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20399181 TTTTTATTTT
*
20399191 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
20399206 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
20399221 A
1 A
20399222 GCTTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:20402925 original size:20 final size:20
Alignment explanation
Indices: 20402867--20402928 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
20402857 TTATGCCACA
20402867 TCAGTATTCTTATCTTGAATT
1 TCAGTATT-TTATCTTGAATT
* * *
20402888 TTAGGATTTTATCCTGAATT
1 TCAGTATTTTATCTTGAATT
20402908 TCAGTATTTTAAT-TTGAATT
1 TCAGTATTTT-ATCTTGAATT
20402928 T
1 T
20402929 GATTTTTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 26 0.76
21 8 0.24
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.53
Consensus pattern (20 bp):
TCAGTATTTTATCTTGAATT
Found at i:20407536 original size:35 final size:35
Alignment explanation
Indices: 20407490--20407559 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
20407480 ATAAAAAGAA
*
20407490 TGATTACAATGCTTCATCAGATTCTCTATTTATAG
1 TGATTACAATGCTTCATCAGATTCACTATTTATAG
20407525 TGATTACAATGCTTCATCAGATTCACTATTTATAG
1 TGATTACAATGCTTCATCAGATTCACTATTTATAG
20407560 GCATAAGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (35 bp):
TGATTACAATGCTTCATCAGATTCACTATTTATAG
Found at i:20428234 original size:16 final size:16
Alignment explanation
Indices: 20428210--20428240 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20428200 TAAGTAAATA
*
20428210 AAATGAAATAAAGAAT
1 AAATAAAATAAAGAAT
20428226 AAATAAAATAAAGAA
1 AAATAAAATAAAGAA
20428241 ACAAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:20428322 original size:14 final size:13
Alignment explanation
Indices: 20428278--20428315 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
20428268 AGAATCAAAC
*
20428278 GAAATAGAAAGAAA
1 GAAAGAGAAA-AAA
20428292 GAAAGAGAAAAAA
1 GAAAGAGAAAAAA
20428305 GAAA-AGAAAAA
1 GAAAGAGAAAAA
20428316 GGAGAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 7 0.30
13 7 0.30
14 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (13 bp):
GAAAGAGAAAAAA
Found at i:20429663 original size:13 final size:13
Alignment explanation
Indices: 20429642--20429673 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
20429632 TTTGGTTTGA
*
20429642 ATTTATATGTATG
1 ATTTGTATGTATG
20429655 ATTTGTATGTATG
1 ATTTGTATGTATG
20429668 ATTTGT
1 ATTTGT
20429674 TAATTATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (13 bp):
ATTTGTATGTATG
Found at i:20430192 original size:20 final size:20
Alignment explanation
Indices: 20430163--20430209 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
20430153 AGGTTAGTCC
* *
20430163 CACGGCCATGTCTCAGGCCA
1 CACGGGCATGTCCCAGGCCA
20430183 CACGGGCATGTCCCAGGCCA
1 CACGGGCATGTCCCAGGCCA
20430203 CACGGGC
1 CACGGGC
20430210 GTGTGCCCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.19, C:0.40, G:0.30, T:0.11
Consensus pattern (20 bp):
CACGGGCATGTCCCAGGCCA
Found at i:20436412 original size:19 final size:19
Alignment explanation
Indices: 20436367--20436411 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
20436357 CAGTATAAAA
20436367 ATATGTTTAATATTATTAAT
1 ATAT-TTTAATATTATTAAT
20436387 ATATTTTAAT-TTATT-AT
1 ATATTTTAATATTATTAAT
20436404 ATAATTTT
1 AT-ATTTT
20436412 TTTTCTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 6 0.25
20 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATATTTTAATATTATTAAT
Found at i:20439691 original size:25 final size:23
Alignment explanation
Indices: 20439639--20439693 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
20439629 TATAAATATT
20439639 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
20439662 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
20439687 AATAGTG
1 AATAGTG
20439694 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:20439803 original size:76 final size:72
Alignment explanation
Indices: 20439723--20439894 Score: 164
Period size: 76 Copynumber: 2.2 Consensus size: 72
20439713 TAAGATATAT
* * * * *
20439723 ATAATATATAATATATACATATGTATAAAATAGATATAAAAAAATATGTACATAATATAGTGTAA
1 ATAATATATAATATATACATAAG-ATAAAAT-G-TAGAAAAAAA-ATATAAATAATATAGTATAA
20439788 AAAATACATAC
62 AAAATACATAC
* *
20439799 ATAATATAATTAAAATATATACATAAGATAACATGTAGAAAAAAAATATAAATAATATAGTATTA
1 ATAATAT-A-T--AATATATACATAAGATAAAATGTAGAAAAAAAATATAAATAATATAGTATAA
* *
20439864 AAGATATATAC
62 AAAATACATAC
20439875 ATAAAATAGTATAATATATA
1 AT--AATA-TATAATATATA
20439895 TACGTAATAT
Statistics
Matches: 80, Mismatches: 9, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
75 8 0.10
76 34 0.43
77 11 0.14
78 7 0.09
79 7 0.09
80 13 0.16
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (72 bp):
ATAATATATAATATATACATAAGATAAAATGTAGAAAAAAAATATAAATAATATAGTATAAAAAA
TACATAC
Found at i:20439872 original size:25 final size:24
Alignment explanation
Indices: 20439844--20439973 Score: 106
Period size: 23 Copynumber: 5.5 Consensus size: 24
20439834 TAGAAAAAAA
*
20439844 ATATAAATAATATAGTATTAAAGAT
1 ATATACATAATATAGTATT-AAGAT
* *
20439869 ATATACATAAAATAGTA-TAATAT
1 ATATACATAATATAGTATTAAGAT
* * *
20439892 ATATACGTAATATAGAATTTAGA-
1 ATATACATAATATAGTATTAAGAT
* * *
20439915 ATATACCTAATATATTA-AAAGAAT
1 ATATACATAATATAGTATTAAG-AT
* * *
20439939 ACATACATAATATAATATTAAGAA
1 ATATACATAATATAGTATTAAGAT
20439963 ATATA-ATAATA
1 ATATACATAATA
20439974 ACAAAAAAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
22 2 0.02
23 39 0.48
24 23 0.28
25 18 0.22
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (24 bp):
ATATACATAATATAGTATTAAGAT
Found at i:20439878 original size:29 final size:28
Alignment explanation
Indices: 20439774--20439879 Score: 77
Period size: 25 Copynumber: 4.0 Consensus size: 28
20439764 AAATATGTAC
* *
20439774 ATAATATAGT-GTAAAA-A-ATACATAC
1 ATAATATAGTATTAAAATATATACATAA
20439799 ATAATATA--ATTAAAATATATACATAA
1 ATAATATAGTATTAAAATATATACATAA
* * * *
20439825 GATAACAT-GTA-GAAAA-A-AAATATAA
1 -ATAATATAGTATTAAAATATATACATAA
20439850 ATAATATAGTATTAAAGATATATACATAA
1 ATAATATAGTATTAAA-ATATATACATAA
20439879 A
1 A
20439880 ATAGTATAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 18
0.68 0.11 0.20
Matches are distributed among these distances:
24 11 0.18
25 18 0.30
26 11 0.18
27 11 0.18
28 2 0.03
29 7 0.12
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (28 bp):
ATAATATAGTATTAAAATATATACATAA
Found at i:20439893 original size:23 final size:25
Alignment explanation
Indices: 20439766--20439973 Score: 105
Period size: 23 Copynumber: 8.6 Consensus size: 25
20439756 ATATAAAAAA
* * * *
20439766 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
20439791 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
20439813 ATATATACATAAGATAACATGTAGAAAAA
1 ATATATACAT-A-AT-ATA-GTATTAAAG
* *
20439842 AAATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
20439867 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
20439890 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
20439914 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
20439936 AATACATACATAATATAATATT-AAG
1 -ATATATACATAATATAGTATTAAAG
*
20439961 AAATATA-ATAATA
1 ATATATACATAATA
20439974 ACAAAAAAAA
Statistics
Matches: 138, Mismatches: 32, Indels: 28
0.70 0.16 0.14
Matches are distributed among these distances:
21 1 0.01
22 11 0.08
23 43 0.31
24 23 0.17
25 42 0.30
26 3 0.02
27 2 0.01
28 5 0.04
29 8 0.06
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:20440267 original size:16 final size:16
Alignment explanation
Indices: 20440229--20440267 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20440219 CTCCAAAAAA
*
20440229 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
20440245 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
20440261 AATAACT
1 AAAAACT
20440268 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:20440453 original size:18 final size:18
Alignment explanation
Indices: 20440430--20440483 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
20440420 ACAAGTGGTG
20440430 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
20440448 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
20440460 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
20440478 GTGGAG
1 GTGGAG
20440484 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:20440462 original size:30 final size:30
Alignment explanation
Indices: 20440426--20440493 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
20440416 AGGTACAAGT
20440426 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
20440456 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
20440486 GGTGGTGG
1 GGTGGTGG
20440494 CAAAGGCTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.16, C:0.06, G:0.53, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:20440761 original size:17 final size:17
Alignment explanation
Indices: 20440741--20440801 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
20440731 ATTTCAAGGC
20440741 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * ***
20440758 TTATTTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
20440777 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
20440795 TTATGTA
1 TTATGTA
20440802 GTAATTCAGA
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 4 0.13
20 8 0.26
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.52
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:20440781 original size:37 final size:37
Alignment explanation
Indices: 20440715--20440841 Score: 168
Period size: 37 Copynumber: 3.4 Consensus size: 37
20440705 AAGACTTACA
* *
20440715 TTTTAATTATGT-GTTAATTTC-AAGGCTTATGTAATGT
1 TTTTAATTATGTAG-TGA-TTCAAAGACTTATGTAATGT
*
20440752 TTTTAATTATTTAGTGATTCAAAGACTTATGTAATGT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATGT
* * *
20440789 TTTTAATTATGTAGTAATTCAGAGACTTATGTAATAT
1 TTTTAATTATGTAGTGATTCAAAGACTTATGTAATGT
20440826 TTTTAATTATGTAGTG
1 TTTTAATTATGTAGTG
20440842 TAGTGATTCA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
36 3 0.04
37 76 0.95
38 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.50
Consensus pattern (37 bp):
TTTTAATTATGTAGTGATTCAAAGACTTATGTAATGT
Found at i:20440835 original size:17 final size:17
Alignment explanation
Indices: 20440778--20440838 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
20440768 ATTCAAAGAC
*
20440778 TTATGTAATGTTTTTAA
1 TTATGTAATATTTTTAA
* ***
20440795 TTATGTAGTAATTCAGAGA
1 TTATGTAAT-ATTTTTA-A
20440814 CTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
20440832 TTATGTA
1 TTATGTA
20440839 GTGTAGTGAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:20440863 original size:9 final size:9
Alignment explanation
Indices: 20440851--20440908 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
20440841 GTAGTGATTC
*
20440851 AATTCGGTC
1 AATTCGGTT
20440860 AATTCGGTT
1 AATTCGGTT
*
20440869 AATTCTGTT
1 AATTCGGTT
20440878 AATTCGGTT
1 AATTCGGTT
* *
20440887 AATCCGGGT
1 AATTCGGTT
20440896 AATTCGGTT
1 AATTCGGTT
20440905 AATT
1 AATT
20440909 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:20444948 original size:20 final size:20
Alignment explanation
Indices: 20444894--20444948 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
20444884 TATACAATTT
* *
20444894 TTTTATTAGAATTATATTAA
1 TTTTATTAAAAATATATTAA
*
20444914 TATTTTTTAAAAAATATATTAA
1 T-TTTATT-AAAAATATATTAA
20444936 TTTTATTAAAAAT
1 TTTTATTAAAAAT
20444949 TAATCTATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 7 0.24
21 10 0.34
22 12 0.41
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTTATTAAAAATATATTAA
Found at i:20449001 original size:46 final size:46
Alignment explanation
Indices: 20448948--20449114 Score: 255
Period size: 46 Copynumber: 3.6 Consensus size: 46
20448938 TGCTATAGTG
* *
20448948 TCTTTCAAATATGGTCTTACTCACTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAAACATGGTCTTACACA-TTTCATGTCATGTTGCCATGGTA
* *
20448994 TCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAAACATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
* *
20449040 TCTTTCAATCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAAACATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
*
20449086 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAAACATGGTCTTACACATTTCAT
20449115 TTTAGATAGC
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
45 4 0.04
46 108 0.96
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (46 bp):
TCTTTCAAACATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
Found at i:20451887 original size:37 final size:36
Alignment explanation
Indices: 20451825--20451900 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
20451815 GGTAATCACT
*
20451825 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
20451862 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
20451898 TTA
1 TTA
20451901 TTTTTGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:20452328 original size:19 final size:19
Alignment explanation
Indices: 20452304--20452355 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
20452294 AAAATATCAT
*
20452304 ATTAATTTTACTTAACTTG
1 ATTAATTTAACTTAACTTG
* *
20452323 ATTAATTTAATTTAATTTG
1 ATTAATTTAACTTAACTTG
20452342 ATTAATTTAA-TTAA
1 ATTAATTTAACTTAA
20452356 TTTTTCAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (19 bp):
ATTAATTTAACTTAACTTG
Found at i:20452346 original size:9 final size:9
Alignment explanation
Indices: 20452304--20452358 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
20452294 AAAATATCAT
20452304 ATTAATTTTA
1 ATTAA-TTTA
* * *
20452314 CTTAACTTG
1 ATTAATTTA
20452323 ATTAATTTA
1 ATTAATTTA
*
20452332 ATTTAATTTG
1 A-TTAATTTA
20452342 ATTAATTTA
1 ATTAATTTA
20452351 ATTAATTT
1 ATTAATTT
20452359 TTCAAGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
9 24 0.67
10 12 0.33
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (9 bp):
ATTAATTTA
Found at i:20461431 original size:43 final size:43
Alignment explanation
Indices: 20461326--20461431 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 43
20461316 CACCATTTTT
* * * *
20461326 TGGACAAACTACCAGTAATTGGAGTCAAGTTGCCAAAAATATG
1 TGGACAAACCACCAGTAATTGCAGTCAAGCTACCAAAAATATG
* * * * *
20461369 TGGACAAGCCACCAATAATTGCATTCAAGCTACTAGAAATATG
1 TGGACAAACCACCAGTAATTGCAGTCAAGCTACCAAAAATATG
*
20461412 TGGACAAACCACTAGTAATT
1 TGGACAAACCACCAGTAATT
20461432 ACAAATAAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (43 bp):
TGGACAAACCACCAGTAATTGCAGTCAAGCTACCAAAAATATG
Found at i:20461480 original size:40 final size:40
Alignment explanation
Indices: 20461406--20461522 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 40
20461396 AGCTACTAGA
* * * * *
20461406 AATA-TGTGGACAAACCACTAGTAATTACAAATAAATTGAT
1 AATATTGTGGACAAGCCACCAGT-ATTGCAAATAAACTGAC
* *
20461446 AATATTGTGGACAAGCCACCAGTATTGCATATAAACTGCC
1 AATATTGTGGACAAGCCACCAGTATTGCAAATAAACTGAC
* *
20461486 AATATTGTGGATAAGCCACCAGTATTGCAGATAAACT
1 AATATTGTGGACAAGCCACCAGTATTGCAAATAAACT
20461523 ATCAGTACTT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 51 0.76
41 16 0.24
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.26
Consensus pattern (40 bp):
AATATTGTGGACAAGCCACCAGTATTGCAAATAAACTGAC
Found at i:20461511 original size:20 final size:20
Alignment explanation
Indices: 20461448--20461512 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
20461438 AAATTGATAA
*
20461448 TATTGTGGACAAGCCACCAG
1 TATTGTGGATAAGCCACCAG
*** * ** *
20461468 TATTGCATATAAACTGCCAA
1 TATTGTGGATAAGCCACCAG
20461488 TATTGTGGATAAGCCACCAG
1 TATTGTGGATAAGCCACCAG
20461508 TATTG
1 TATTG
20461513 CAGATAAACT
Statistics
Matches: 30, Mismatches: 15, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (20 bp):
TATTGTGGATAAGCCACCAG
Found at i:20461518 original size:20 final size:20
Alignment explanation
Indices: 20461458--20461519 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
20461448 TATTGTGGAC
*
20461458 AAGCCACCAGTATTGCATAT
1 AAGCCACCAGTATTGCAGAT
* ** * **
20461478 AAACTGCCAATATTGTGGAT
1 AAGCCACCAGTATTGCAGAT
20461498 AAGCCACCAGTATTGCAGAT
1 AAGCCACCAGTATTGCAGAT
20461518 AA
1 AA
20461520 ACTATCAGTA
Statistics
Matches: 29, Mismatches: 13, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (20 bp):
AAGCCACCAGTATTGCAGAT
Found at i:20464253 original size:33 final size:33
Alignment explanation
Indices: 20464216--20464338 Score: 92
Period size: 33 Copynumber: 3.8 Consensus size: 33
20464206 TACCCAAATG
* * *
20464216 GTACAACTTGAAAAGGGTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGGAAGGTACACTTTGTGT
* ** *
20464249 GTA-CACTT-AGAAATGTTAGGTATACTTTGTGT
1 GTACCACTTGA-AAAGGGAAGGTACACTTTGTGT
* * *
20464281 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACCACT-TGAAAAGGGAAGGTACACTTTGTGT
* *
20464314 GTACCACTTGGAAA-GGAATGTACAC
1 GTACCACTTGAAAAGGGAAGGTACAC
20464339 CTCAAGTGTA
Statistics
Matches: 71, Mismatches: 14, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
31 1 0.01
32 33 0.46
33 35 0.49
34 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (33 bp):
GTACCACTTGAAAAGGGAAGGTACACTTTGTGT
Found at i:20464276 original size:32 final size:32
Alignment explanation
Indices: 20464240--20464331 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 32
20464230 GGGTATGTAC
* **
20464240 ACTTTGTGTGTACACTTAGAAATGTTAGGTAT
1 ACTTTGTGTGTACACTTAGAAAGGAAAGGTAT
* *
20464272 ACTTTGTGTATAC-CATATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACACTTA-G-AAAGGAAAGGTAT
*
20464305 ACTTTGTGTGTACCACTTGGAAAGGAA
1 ACTTTGTGTGTA-CACTTAGAAAGGAA
20464332 TGTACACCTC
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
31 3 0.06
32 13 0.27
33 28 0.58
34 2 0.04
35 2 0.04
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (32 bp):
ACTTTGTGTGTACACTTAGAAAGGAAAGGTAT
Found at i:20465980 original size:21 final size:21
Alignment explanation
Indices: 20465954--20466036 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 21
20465944 TGATCAGTAT
20465954 ACGACACATAAAGTGCCTAAA
1 ACGACACATAAAGTGCCTAAA
** * * *
20465975 ACGACACAGGAGGTGCCTGAT
1 ACGACACATAAAGTGCCTAAA
* ** *
20465996 ATGACACACGAGGTGCCTGAAA
1 ACGACACATAAAGTGCCT-AAA
*
20466018 TACGACACATAAAATGCCT
1 -ACGACACATAAAGTGCCT
20466037 GATCAGTAAA
Statistics
Matches: 46, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
21 32 0.70
22 1 0.02
23 13 0.28
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.16
Consensus pattern (21 bp):
ACGACACATAAAGTGCCTAAA
Found at i:20466434 original size:15 final size:15
Alignment explanation
Indices: 20466409--20466466 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
20466399 TCATATATAT
20466409 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
20466425 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
20466440 AATAATTTCAATCAA
1 TATAAATTCAATCAA
20466455 TATAAATTCAAT
1 TATAAATTCAAT
20466467 AAATTCATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:20467574 original size:5 final size:5
Alignment explanation
Indices: 20467564--20467617 Score: 81
Period size: 5 Copynumber: 10.6 Consensus size: 5
20467554 TTACTTATTT
* *
20467564 ATATA ATATA ATATA ATATA ATATA CTATA ATATA ATAATA ATATC ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA
20467615 ATA
1 ATA
20467618 ACAATTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 39 0.89
6 5 0.11
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:20467749 original size:21 final size:22
Alignment explanation
Indices: 20467710--20467760 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
20467700 CATACAATTG
*
20467710 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
20467732 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
20467752 ATAAAATAA
1 TTAAAATAA
20467761 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:20467950 original size:19 final size:22
Alignment explanation
Indices: 20467926--20467972 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
20467916 ATCATTTTCA
20467926 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
20467945 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
20467966 CTAATTA
1 CTAATTA
20467973 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:20474047 original size:42 final size:42
Alignment explanation
Indices: 20473994--20474144 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
20473984 ACTAAGACTA
* *
20473994 CGTGTAAGACCATATTTGGGATATGGTATCAATAG-GAGACTTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAAT-GTGAGA-TTT
*
20474037 -GTGTAAGACCATATCTGGGATATGGCATCTATGTGAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATGTGAGATTT
* * * ** **
20474078 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGGCATCAATGTGAGATTT
*
20474121 CATGTAAGACCATATCTGGGATAT
1 CGTGTAAGACCATATCTGGGATAT
20474145 AACATTGGTA
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
41 4 0.04
42 54 0.59
43 34 0.37
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCAATGTGAGATTT
Found at i:20478166 original size:34 final size:34
Alignment explanation
Indices: 20478128--20478197 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
20478118 TCAATAATTG
* *
20478128 TAAATTAAGCCTTCCTAATTATCTCATTGAAACA
1 TAAATTAAGCCTTCCTAATTACCTAATTGAAACA
20478162 TAAATTAAGCCTTCCTAATTACCTAATTGAAACA
1 TAAATTAAGCCTTCCTAATTACCTAATTGAAACA
20478196 TA
1 TA
20478198 TCATGATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (34 bp):
TAAATTAAGCCTTCCTAATTACCTAATTGAAACA
Found at i:20485324 original size:21 final size:21
Alignment explanation
Indices: 20485300--20485347 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
20485290 TTGGGGAGAC
20485300 TACTCAACCC-ACCAACCACTA
1 TACTCAACCCGACCAACCA-TA
* *
20485321 TACTCCACCCGTACCAGCCATA
1 TACTCAACCCG-ACCAACCATA
20485343 TACTC
1 TACTC
20485348 CATGTGGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 9 0.39
22 7 0.30
23 7 0.30
ACGTcount: A:0.31, C:0.46, G:0.04, T:0.19
Consensus pattern (21 bp):
TACTCAACCCGACCAACCATA
Found at i:20487111 original size:26 final size:26
Alignment explanation
Indices: 20487080--20487187 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
20487070 TGAAATGCCC
20487080 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
20487106 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
20487132 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
20487158 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
20487184 ATCA
1 ATCA
20487188 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 2 0.03
26 72 0.97
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:20488466 original size:23 final size:23
Alignment explanation
Indices: 20488435--20488542 Score: 103
Period size: 23 Copynumber: 4.7 Consensus size: 23
20488425 AAATAAACTG
*
20488435 TGAAAATTCTCTGCAATGAACAA
1 TGAAGATTCTCTGCAATGAACAA
* *
20488458 TGAAGATTC-CTTGCAATGAATAG
1 TGAAGATTCTC-TGCAATGAACAA
*
20488481 TGAATATTCTCTGCAATGAACAA
1 TGAAGATTCTCTGCAATGAACAA
* * *
20488504 T-AAGGATTCTCCGTAATGAACAT
1 TGAA-GATTCTCTGCAATGAACAA
* *
20488527 TAAAGATTCTTTGCAA
1 TGAAGATTCTCTGCAA
20488543 AAAAAAAATA
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
22 3 0.04
23 62 0.91
24 3 0.04
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (23 bp):
TGAAGATTCTCTGCAATGAACAA
Found at i:20493791 original size:49 final size:49
Alignment explanation
Indices: 20493577--20493929 Score: 555
Period size: 47 Copynumber: 7.4 Consensus size: 49
20493567 TATCACAGTT
* * * *
20493577 ATACACTTCCAC-TTCCATCCCATTGACCATTCGGCCTTAT--CATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATAC
*
20493624 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
20493671 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
20493718 A-ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
*
20493766 ATACACTTTCACATTCATCAAATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
*
20493815 ATACACTTTCACATTCATCACATTCGCCATTCGGCCTTATCAC--ATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
*
20493862 ATACACTTTCACATTCATCACATTGGCCACTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
20493911 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
20493930 GTAACAAAAT
Statistics
Matches: 285, Mismatches: 11, Indels: 18
0.91 0.04 0.06
Matches are distributed among these distances:
45 1 0.00
46 38 0.13
47 125 0.44
48 10 0.04
49 111 0.39
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.33
Consensus pattern (49 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
Found at i:20499646 original size:18 final size:18
Alignment explanation
Indices: 20499623--20499697 Score: 105
Period size: 18 Copynumber: 4.2 Consensus size: 18
20499613 CCCAACTACT
20499623 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
***
20499641 GTATACGTGAATAGTGTT
1 GTATACGTGAATAGTACC
* *
20499659 GTATACGTTAATAGTATC
1 GTATACGTGAATAGTACC
20499677 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
20499695 GTA
1 GTA
20499698 AACGGTCGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:20499672 original size:36 final size:36
Alignment explanation
Indices: 20499622--20499691 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
20499612 TCCCAACTAC
20499622 TGTATACGTGAATAGTACCGTATACGTGAATAGTGT
1 TGTATACGTGAATAGTACCGTATACGTGAATAGTGT
* *
20499658 TGTATACGTTAATAGTATCGTATACGTGAATAGT
1 TGTATACGTGAATAGTACCGTATACGTGAATAGT
20499692 ACCGTAAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (36 bp):
TGTATACGTGAATAGTACCGTATACGTGAATAGTGT
Found at i:20523372 original size:17 final size:19
Alignment explanation
Indices: 20523350--20523384 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
20523340 GGCAAATTTG
20523350 AACAAGAA-GAG-AGAAGC
1 AACAAGAATGAGTAGAAGC
20523367 AACAAGAATGAGTAGAAG
1 AACAAGAATGAGTAGAAG
20523385 AAAGAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.57, C:0.09, G:0.29, T:0.06
Consensus pattern (19 bp):
AACAAGAATGAGTAGAAGC
Found at i:20526067 original size:22 final size:23
Alignment explanation
Indices: 20526042--20526097 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
20526032 TCGCACTTTA
*
20526042 GTGCCTACTGGTTT-GCACTACG
1 GTGCCTACTGGTTTAACACTACG
* *
20526064 GTGCCCACT-GTTTAACACTTCG
1 GTGCCTACTGGTTTAACACTACG
20526086 GTGCCTACTGGT
1 GTGCCTACTGGT
20526098 GTGGTGTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 4 0.14
22 22 0.79
23 2 0.07
ACGTcount: A:0.14, C:0.29, G:0.25, T:0.32
Consensus pattern (23 bp):
GTGCCTACTGGTTTAACACTACG
Found at i:20533762 original size:28 final size:28
Alignment explanation
Indices: 20533698--20533822 Score: 225
Period size: 28 Copynumber: 4.5 Consensus size: 28
20533688 TATTAAGTCT
* *
20533698 GCACACTCAGTGCTATATAATCAA-CTC
1 GCACACTTAGTGCTACATAATCAAGCTC
20533725 GCACACTTAGTGCTACATAATCAAGCTC
1 GCACACTTAGTGCTACATAATCAAGCTC
20533753 GCACACTTAGTGCTACATAATCAAGCTC
1 GCACACTTAGTGCTACATAATCAAGCTC
20533781 GCACACTTAGTGCTACATAATCAAGCTC
1 GCACACTTAGTGCTACATAATCAAGCTC
20533809 GCACACTTAGTGCT
1 GCACACTTAGTGCT
20533823 GTACAATTTA
Statistics
Matches: 95, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 22 0.23
28 73 0.77
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
GCACACTTAGTGCTACATAATCAAGCTC
Found at i:20537615 original size:39 final size:41
Alignment explanation
Indices: 20537561--20537639 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 41
20537551 CATTATAGAT
* * *
20537561 TCAGATACAATTTAGG-CCTTAGCCCAT-TCAGTTACAGTA
1 TCAGATACAAATTAGGACCATAGCCCATCTCAGATACAGTA
*
20537600 TCAGATATAAATTAGGACCATAGCCCATCTCAGATACAGT
1 TCAGATACAAATTAGGACCATAGCCCATCTCAGATACAGT
20537640 TTGCATACAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 14 0.41
40 10 0.29
41 10 0.29
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (41 bp):
TCAGATACAAATTAGGACCATAGCCCATCTCAGATACAGTA
Found at i:20541343 original size:15 final size:15
Alignment explanation
Indices: 20541323--20541356 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20541313 TTTGGTTTTG
20541323 ATTGTTTA-ATATCTA
1 ATTGTTTATATAT-TA
20541338 ATTGTTTATATATTA
1 ATTGTTTATATATTA
20541353 ATTG
1 ATTG
20541357 AGTTTACTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (15 bp):
ATTGTTTATATATTA
Found at i:20541569 original size:45 final size:45
Alignment explanation
Indices: 20541428--20541587 Score: 207
Period size: 45 Copynumber: 3.6 Consensus size: 45
20541418 TAGTAACGAA
* *
20541428 TAAGACCGTGACTGAAAGACGTTAT-AGCATCACGATTCTATCAAG
1 TAAGACCATAACTGAAAGACGTTATGA-CATCACGATTCTATCAAG
* * * *
20541473 TAAGA-GATGACTGAAAGACGTTATGACATCACAATTCTATCGAG
1 TAAGACCATAACTGAAAGACGTTATGACATCACGATTCTATCAAG
*
20541517 TATGACCATAACTGAAAGACGTTATGACATCACGATTCTATCAAG
1 TAAGACCATAACTGAAAGACGTTATGACATCACGATTCTATCAAG
* * *
20541562 TAAGACCACAATTAAAAGACGTTATG
1 TAAGACCATAACTGAAAGACGTTATG
20541588 GAATAACGAA
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
44 37 0.37
45 63 0.63
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (45 bp):
TAAGACCATAACTGAAAGACGTTATGACATCACGATTCTATCAAG
Found at i:20541632 original size:45 final size:44
Alignment explanation
Indices: 20541583--20541714 Score: 115
Period size: 46 Copynumber: 2.9 Consensus size: 44
20541573 TTAAAAGACG
20541583 TTATGGAATA-ACGAATCAAACGAATAAGACCATGGTTGAAAAACA
1 TTATGGAATACACGAA--AAACGAATAAGACCATGGTTGAAAAACA
* * ** *
20541628 TTATGGTAACACGACGGAAAATTAATAAGACCATGGTTGAAAGACA
1 TTATGG-AATAC-ACGAAAAACGAATAAGACCATGGTTGAAAAACA
* * **
20541674 CTATGGAAT-CAAGACAAGAATAAATAAGACCATGGTTGAAA
1 TTATGGAATACACGA-AA-AACGAATAAGACCATGGTTGAAA
20541715 GAAAACATAG
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.03
44 3 0.04
45 30 0.42
46 33 0.46
48 4 0.06
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (44 bp):
TTATGGAATACACGAAAAACGAATAAGACCATGGTTGAAAAACA
Found at i:20541715 original size:45 final size:45
Alignment explanation
Indices: 20541605--20541716 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 45
20541595 GAATCAAACG
* * * *
20541605 AATAAGACCATGGTTGAAAAACATTATGGTAACACGACGGAAAATT
1 AATAAGACCATGGTTGAAAGACACTATGGTAACAAGAC-GAAAATA
20541651 AATAAGACCATGGTTGAAAGACACTATGG-AATCAAGAC-AAGAATA
1 AATAAGACCATGGTTGAAAGACACTATGGTAA-CAAGACGAA-AATA
20541696 AATAAGACCATGGTTGAAAGA
1 AATAAGACCATGGTTGAAAGA
20541717 AAACATAGTA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
44 2 0.03
45 26 0.43
46 32 0.53
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (45 bp):
AATAAGACCATGGTTGAAAGACACTATGGTAACAAGACGAAAATA
Found at i:20544316 original size:15 final size:16
Alignment explanation
Indices: 20544293--20544330 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20544283 AAAAATAACG
20544293 ATGAAAATTT-ATTAA
1 ATGAAAATTTAATTAA
*
20544308 ATGACAATTTAATTAA
1 ATGAAAATTTAATTAA
*
20544324 ACGAAAA
1 ATGAAAA
20544331 AGAAAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (16 bp):
ATGAAAATTTAATTAA
Found at i:20547275 original size:13 final size:13
Alignment explanation
Indices: 20547257--20547282 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20547247 CTCAGCTGAA
20547257 TAACATTCTTAAC
1 TAACATTCTTAAC
20547270 TAACATTCTTAAC
1 TAACATTCTTAAC
20547283 AACTTTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
TAACATTCTTAAC
Found at i:20547807 original size:31 final size:31
Alignment explanation
Indices: 20547769--20547868 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 31
20547759 TATCAGAACT
* * *
20547769 AGAATCAGAGTCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAAAATCAGAATCAGGTAAC
* * *
20547800 AGAATCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAAAATCAGAATCAGGTAAC
* * * * *
20547831 AGAATCAAAATCAGAATCAGTATCAAGTAAT
1 AGAATCAGAATCAAAATCAGAATCAGGTAAC
20547862 AGAATCA
1 AGAATCA
20547869 AAAATCAGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAAAATCAGAATCAGGTAAC
Found at i:20547810 original size:6 final size:6
Alignment explanation
Indices: 20547760--20547879 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
20547750 AAGAAACATT
* * * *
20547760 ATCAGA A-CTAGA ATCAGA GTCAAA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
20547809 ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA ATCAGT ATCAAGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATC-AG-A
*
20547860 AT-AGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
20547880 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
5 8 0.09
6 61 0.71
7 12 0.14
8 5 0.06
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:20547869 original size:31 final size:31
Alignment explanation
Indices: 20547800--20547879 Score: 133
Period size: 31 Copynumber: 2.5 Consensus size: 31
20547790 ATTAGGTGAC
* *
20547800 AGAATCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAAAATCAGAATCAGTATCAAGTAAT
20547831 AGAATCAAAATCAGAATCAGTATCAAGTAAT
1 AGAATCAAAATCAGAATCAGTATCAAGTAAT
20547862 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
20547880 GTGAATGCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 35 0.76
32 11 0.24
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.21
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAAGTAAT
Found at i:20548058 original size:27 final size:26
Alignment explanation
Indices: 20548016--20548117 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
20548006 GCTCAGTTAT
* * *
20548016 CAGATATTGTGACAGAGTCACTAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
20548043 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
20548069 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
20548097 CAAATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
20548118 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.79
28 7 0.11
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:20548304 original size:22 final size:22
Alignment explanation
Indices: 20548276--20548340 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
20548266 GCAAATACGT
*
20548276 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
20548298 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
20548320 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
20548341 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:20548853 original size:27 final size:27
Alignment explanation
Indices: 20548767--20549123 Score: 346
Period size: 27 Copynumber: 13.3 Consensus size: 27
20548757 GGGGTAAAAT
* * * *
20548767 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
20548793 GGTAATTCCACCCTACAGGGGGTATTTT
1 GGTAATTCTACCCTACA-GGGGTATTTC
* * *
20548821 AGTAATTCTACCCTATAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
20548848 GATAATTCTACCCTACAGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
20548875 AATAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
20548901 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
20548928 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
20548955 GATAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
20548982 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
20549009 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* ** *
20549036 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* ** *
20549063 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* *
20549090 GGTAATTCTATCCTACAGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
20549117 AGTAATT
1 GGTAATT
20549124 TCACAATCGA
Statistics
Matches: 288, Mismatches: 38, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
26 40 0.14
27 225 0.78
28 23 0.08
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:20549283 original size:80 final size:81
Alignment explanation
Indices: 20549128--20549324 Score: 281
Period size: 80 Copynumber: 2.4 Consensus size: 81
20549118 GTAATTTCAC
* * * * * *
20549128 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGGGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGATAATTTTGTAAATCGAGGGT
*
20549192 AAAACGATAATTTTGTA
65 AAAACGATAATTTTATA
*
20549209 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTT-TAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
20549273 AAACGATAATTTTATA
66 AAACGATAATTTTATA
* *
20549289 AATCAAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
20549325 CATTTCAGTA
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 61 0.58
81 43 0.41
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
AAACGATAATTTTATA
Found at i:20549309 original size:27 final size:27
Alignment explanation
Indices: 20549128--20549324 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
20549118 GTAATTTCAC
*
20549128 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
20549155 AA-CTGGGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTATA
* *
20549182 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
20549209 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
20549236 AATCGAGGGTAAAACGATAATTTT-TA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
20549262 AATCGAGGGTGAAACGATAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * * *
20549289 AATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
20549316 AATCGAGGG
1 AATCGAGGG
20549325 CATTTCAGTA
Statistics
Matches: 147, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 26 0.18
27 120 0.82
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:20549337 original size:80 final size:80
Alignment explanation
Indices: 20549171--20549344 Score: 251
Period size: 80 Copynumber: 2.2 Consensus size: 80
20549161 GGGTAAAATG
* * *
20549171 GTAATTTTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTTTATAAATCAAGGGTAAAATGGTAATTCTACA
*
20549236 AATCGAGGGTAAAAC
66 AATCGAGGGCAAAAC
*
20549251 GATAATTTT-TAAATCGAGGGTGAAACGATAATTTTATAAATCAAGGGTAAAATGGTAATTCTAC
1 G-TAATTTTGTAAATCGAGGGTAAAACGATAATTTTATAAATCAAGGGTAAAATGGTAATTCTAC
***
20549315 AAATCGAGGGCATTTC
65 AAATCGAGGGCAAAAC
20549331 AGTAATTTTGTAAA
1 -GTAATTTTGTAAA
20549345 CCAGTGGTAT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
80 71 0.86
81 12 0.14
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (80 bp):
GTAATTTTGTAAATCGAGGGTAAAACGATAATTTTATAAATCAAGGGTAAAATGGTAATTCTACA
AATCGAGGGCAAAAC
Found at i:20549363 original size:27 final size:25
Alignment explanation
Indices: 20549305--20549583 Score: 189
Period size: 27 Copynumber: 10.3 Consensus size: 25
20549295 GGGTAAAATG
* * * *
20549305 GTAATTCTACAAATCGAGGGCATTTCA
1 GTAATTTTACAAA-CCAGGGTATTT-T
**
20549332 GTAATTTTGTAAACCAGTGGTATTTCT
1 GTAATTTTACAAACCAG-GGTATTT-T
* * *
20549359 ATAATTTTTAGAAAGTCAAGGGTATTTCT
1 GTAA-TTTTACAAA-CCA-GGGTATTT-T
** **
20549388 GTAATTTTGTAAGTCAGGGGTATTTT
1 GTAATTTTACAAACCA-GGGTATTTT
** *
20549414 GGTAATTTTACAAATTGAGGGTATTTCG
1 -GTAATTTTACAAA-CCAGGGTATTT-T
*
20549442 GTAATTTCACAAACCAGTGGTATTTT
1 GTAATTTTACAAACCAG-GGTATTTT
20549468 GATAATTTTACAAACCAAGGGTATTTTT
1 G-TAATTTTACAAACC-AGGGTA-TTTT
20549496 GTAATTTTACAAACCAGGGGTATTTT
1 GTAATTTTACAAACCA-GGGTATTTT
* *
20549522 GGTAATTTTATAAACAAAGGGTATTTT
1 -GTAATTTTACAAAC-CAGGGTATTTT
20549549 AGTAATTTTACAAACCAGGGGTATTTT
1 -GTAATTTTACAAACCA-GGGTATTTT
20549576 GGTAATTT
1 -GTAATTT
20549584 GGTAAACTAA
Statistics
Matches: 206, Mismatches: 31, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
26 13 0.06
27 155 0.75
28 23 0.11
29 14 0.07
30 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (25 bp):
GTAATTTTACAAACCAGGGTATTTT
Found at i:20549364 original size:54 final size:54
Alignment explanation
Indices: 20549306--20549583 Score: 283
Period size: 54 Copynumber: 5.1 Consensus size: 54
20549296 GGTAAAATGG
* * * * ** *
20549306 TAATTCTACAAATCGAGGGCATTTCAGTAATTTTGTAAACCAGTGGTATTTCT-A
1 TAATTTTACAAATCAAGGGTATTTCTGTAATTTTACAAACCAGGGGTATTT-TGA
* ** ** *
20549360 TAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAGTCAGGGGTATTTTGG
1 TAA-TTTTACAAA-TCAAGGGTATTTCTGTAATTTTACAAACCAGGGGTATTTTGA
** * * *
20549416 TAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGA
1 TAATTTTACAAATCAAGGGTATTTCTGTAATTTTACAAACCAGGGGTATTTTGA
* * *
20549470 TAATTTTACAAACCAAGGGTATTTTTGTAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTCTGTAATTTTACAAACCAGGGGTATTTTGA
* *
20549524 TAATTTTATAAA-CAAAGGGTATTT-TAGTAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATC-AAGGGTATTTCT-GTAATTTTACAAACCAGGGGTATTTTGA
20549578 TAATTT
1 TAATTT
20549584 GGTAAACTAA
Statistics
Matches: 190, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.01
54 136 0.72
55 16 0.08
56 36 0.19
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
TAATTTTACAAATCAAGGGTATTTCTGTAATTTTACAAACCAGGGGTATTTTGA
Found at i:20549590 original size:27 final size:27
Alignment explanation
Indices: 20549402--20549583 Score: 240
Period size: 27 Copynumber: 6.7 Consensus size: 27
20549392 TTTTGTAAGT
20549402 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAGGGGTATTTTGGTAATTTTACAAAC
** * *
20549428 TTGAGGGTATTTCGGTAATTTCACAAAC
1 CAG-GGGTATTTTGGTAATTTTACAAAC
* *
20549456 CAGTGGTATTTTGATAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* *
20549483 CAAGGGTATTTTTGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
20549510 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
20549537 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
20549564 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
20549584 GGTAAACTAA
Statistics
Matches: 130, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 128 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:20551084 original size:50 final size:48
Alignment explanation
Indices: 20551023--20551225 Score: 176
Period size: 50 Copynumber: 4.1 Consensus size: 48
20551013 TTGGTCGATT
* * *
20551023 ATATA-AAATCAAATATAATATCACATATGTGCATATGTATATGGTCGA
1 ATATACAAATCAAATATAACATCACATATGTACATAT-TATATGGCCGA
* * * * *
20551071 ATATGCAAGATCAAATTTAACATTAAATATGTACTTACTTATATGGCCGA
1 ATATACAA-ATCAAATATAACATCACATATGTACATA-TTATATGGCCGA
* * * *
20551121 ATATACAAATTCAAATATAATATCACATTTGTGCATACCTT-CATGGCCGA
1 ATATACAAA-TCAAATATAACATCACATATGTACATA--TTATATGGCCGA
* * * *
20551171 ATATTCAAAATCCAATATAACATCACATATGTACATACCTATGTGGCCGA
1 ATATAC-AAATCAAATATAACATCACATATGTACATA-TTATATGGCCGA
20551221 ATATA
1 ATATA
20551226 TGCAAGGTCA
Statistics
Matches: 122, Mismatches: 26, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
48 4 0.03
49 5 0.04
50 106 0.87
51 7 0.06
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (48 bp):
ATATACAAATCAAATATAACATCACATATGTACATATTATATGGCCGA
Found at i:20551140 original size:100 final size:98
Alignment explanation
Indices: 20551023--20551225 Score: 255
Period size: 100 Copynumber: 2.1 Consensus size: 98
20551013 TTGGTCGATT
** * *
20551023 ATATAAAATCAAATATAATATCACATATGTGCATATGTAT-ATGGTCGAATATGCAAGATCAAAT
1 ATATAAAATCAAATATAATATCACATATGTGCATACCT-TCATGGCCGAATATGCAAAATCAAAT
* * * *
20551087 TTAACATTAAATATGTACTTACTTATATGGCCGA
65 ATAACATCAAATATGTACATACCTATATGGCCGA
* * *
20551121 ATATACAAATTCAAATATAATATCACATTTGTGCATACCTTCATGGCCGAATATTCAAAATCCAA
1 ATATA-AAA-TCAAATATAATATCACATATGTGCATACCTTCATGGCCGAATATGCAAAATCAAA
* *
20551186 TATAACATCACATATGTACATACCTATGTGGCCGA
64 TATAACATCAAATATGTACATACCTATATGGCCGA
20551221 ATATA
1 ATATA
20551226 TGCAAGGTCA
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
98 5 0.06
99 4 0.04
100 80 0.90
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (98 bp):
ATATAAAATCAAATATAATATCACATATGTGCATACCTTCATGGCCGAATATGCAAAATCAAATA
TAACATCAAATATGTACATACCTATATGGCCGA
Found at i:20558208 original size:47 final size:47
Alignment explanation
Indices: 20558096--20558517 Score: 633
Period size: 47 Copynumber: 9.1 Consensus size: 47
20558086 GAAATGATAG
*
20558096 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
20558145 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
20558192 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20558239 TAA----T-A--GCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20558279 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20558326 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20558373 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20558420 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
20558467 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20558514 TAAG
1 TAAG
20558518 TCCCGAAGGG
Statistics
Matches: 346, Mismatches: 20, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
40 37 0.11
42 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
47 270 0.78
49 35 0.10
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:20558295 original size:134 final size:137
Alignment explanation
Indices: 20558102--20558466 Score: 592
Period size: 134 Copynumber: 2.6 Consensus size: 137
20558092 ATAGTAAGGC
*
20558102 CTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
1 CTAA-GGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGA
*
20558167 TGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
63 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
* *
20558232 TGTGTGATAA
128 TATGTAATAA
*
20558242 -T-A-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 CTAAGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20558304 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
20558369 GTAATAA
131 GTAATAA
20558376 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ---CTAA-GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
20558441 ATGAATGTGAAAGTGTATATATGTGA
62 ATGAATGTGAAAGTGTATATATGTGA
20558467 CGGGGCCGAG
Statistics
Matches: 211, Mismatches: 7, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
134 103 0.49
136 23 0.11
138 2 0.01
139 2 0.01
141 81 0.38
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (137 bp):
CTAAGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
GTAATAA
Found at i:20558715 original size:37 final size:38
Alignment explanation
Indices: 20558636--20558715 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
20558626 CCGAGCTCTA
* *
20558636 AAGACCCGATGACTACGTGTGAGAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGAGAATTTATGTCCGGGT
*
20558674 AAGACCCGATAACTTCGTGTG-GAGA-TTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGAGA-ATTTATGTCCGGGT
20558711 AAGAC
1 AAGAC
20558716 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 18 0.47
38 20 0.53
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (38 bp):
AAGACCCGATAACTACGTGTGAGAATTTATGTCCGGGT
Found at i:20568738 original size:13 final size:13
Alignment explanation
Indices: 20568720--20568744 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20568710 CCGAAACTAG
20568720 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
20568733 AAAGAAAAAAAA
1 AAAGAAAAAAAA
20568745 ATGCTCATCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:20570028 original size:27 final size:27
Alignment explanation
Indices: 20569997--20570174 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20569987 TAAATTGTAC
20569997 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20570024 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20570050 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20570078 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20570106 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20570133 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20570160 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20570175 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:20570111 original size:82 final size:81
Alignment explanation
Indices: 20569998--20570153 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20569988 AAATTGTACA
* *
20569998 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20570062 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20570079 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20570144 TGCGAGTTGA
65 TGCGAATTGA
20570154 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:20570165 original size:82 final size:81
Alignment explanation
Indices: 20569994--20570174 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
20569984 GATTAAATTG
* *
20569994 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20570059 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20570075 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20570139 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20570157 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20570175 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:20578156 original size:27 final size:27
Alignment explanation
Indices: 20578125--20578302 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20578115 TAAATTGTAC
20578125 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20578152 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20578178 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20578206 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20578234 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20578261 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20578288 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20578303 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:20578239 original size:82 final size:81
Alignment explanation
Indices: 20578126--20578281 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20578116 AAATTGTACA
* *
20578126 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20578190 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20578207 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20578272 TGCGAGTTGA
65 TGCGAATTGA
20578282 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:20578293 original size:82 final size:81
Alignment explanation
Indices: 20578122--20578302 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
20578112 GATTAAATTG
* *
20578122 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20578187 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20578203 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20578267 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20578285 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20578303 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:20589131 original size:19 final size:19
Alignment explanation
Indices: 20589103--20589139 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
20589093 TTAATCATAT
20589103 ATTTTATTTTTCATTTTTA
1 ATTTTATTTTTCATTTTTA
*
20589122 ATTTTTTTTTTCATTTTT
1 ATTTTATTTTTCATTTTT
20589140 TAAAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (19 bp):
ATTTTATTTTTCATTTTTA
Found at i:20594034 original size:22 final size:22
Alignment explanation
Indices: 20593997--20594059 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
20593987 TACTTGACAC
20593997 AGGGGC-ACACGCCCGTGTGGA
1 AGGGGCAACACGCCCGTGTGGA
*
20594018 AGGGGCAACGCGCCCGTGTGGA
1 AGGGGCAACACGCCCGTGTGGA
20594040 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
20594060 ATCAATTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 6 0.15
22 33 0.85
ACGTcount: A:0.19, C:0.29, G:0.43, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGA
Found at i:20597585 original size:8 final size:8
Alignment explanation
Indices: 20597572--20597601 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
20597562 GCTAACAAAC
20597572 AACCAATT
1 AACCAATT
20597580 AACCAATT
1 AACCAATT
20597588 AACCAATT
1 AACCAATT
*
20597596 ATCCAA
1 AACCAA
20597602 CAATTTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (8 bp):
AACCAATT
Found at i:20597859 original size:11 final size:11
Alignment explanation
Indices: 20597829--20597869 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
20597819 CTAAAATTGA
*
20597829 AAAGAAAAAGG
1 AAAGGAAAAGG
20597840 AAAGG-AAAGG
1 AAAGGAAAAGG
20597850 AAAGGAAAAGAG
1 AAAGGAAAAG-G
20597862 AAA-GAAAA
1 AAAGGAAAA
20597870 CCTATGCCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 10 0.37
11 13 0.48
12 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
AAAGGAAAAGG
Found at i:20605999 original size:43 final size:43
Alignment explanation
Indices: 20605937--20606021 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
20605927 CTAATTTTTC
* *
20605937 GTTTGTTTTCTTCTGGCAGGTTCTTTTGGTTTATGACTAGAGT
1 GTTTGTTCTCTTCTAGCAGGTTCTTTTGGTTTATGACTAGAGT
20605980 GTTTGTTCTCTTCTAGCAGGTTCTTTTGGTTTATGACTAGAG
1 GTTTGTTCTCTTCTAGCAGGTTCTTTTGGTTTATGACTAGAG
20606022 GAAACTCGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.13, C:0.13, G:0.25, T:0.49
Consensus pattern (43 bp):
GTTTGTTCTCTTCTAGCAGGTTCTTTTGGTTTATGACTAGAGT
Found at i:20606019 original size:24 final size:24
Alignment explanation
Indices: 20605952--20606019 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
20605942 TTTTCTTCTG
20605952 GCAGGTTCTTTTGGTTTATGACTA
1 GCAGGTTCTTTTGGTTTATGACTA
* * *
20605976 G-A-G-T-GTTT-GTTCTCT-TCTA
1 GCAGGTTCTTTTGGTT-TATGACTA
20605995 GCAGGTTCTTTTGGTTTATGACTA
1 GCAGGTTCTTTTGGTTTATGACTA
20606019 G
1 G
20606020 AGGAAACTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 14
0.61 0.12 0.27
Matches are distributed among these distances:
19 7 0.23
20 6 0.19
21 2 0.06
22 2 0.06
23 6 0.19
24 8 0.26
ACGTcount: A:0.15, C:0.13, G:0.25, T:0.47
Consensus pattern (24 bp):
GCAGGTTCTTTTGGTTTATGACTA
Found at i:20606826 original size:12 final size:12
Alignment explanation
Indices: 20606809--20606836 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
20606799 CACACATGCT
20606809 CGTGTGCTAGGC
1 CGTGTGCTAGGC
20606821 CGTGTGCTAGGC
1 CGTGTGCTAGGC
20606833 CGTG
1 CGTG
20606837 CCAAAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.25, G:0.43, T:0.25
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:20607896 original size:28 final size:28
Alignment explanation
Indices: 20607864--20607937 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
20607854 TTACTCAATG
* *
20607864 CCTCGCACACTAAGTGCCATACTTGATA
1 CCTCGCACACTAAGTGCCACACTCGATA
20607892 CCTCGCACACTAAGTGCCACACTCGATA
1 CCTCGCACACTAAGTGCCACACTCGATA
*
20607920 TCTCGCACACTAAGTGCC
1 CCTCGCACACTAAGTGCC
20607938 GCACATAGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (28 bp):
CCTCGCACACTAAGTGCCACACTCGATA
Found at i:20608010 original size:40 final size:40
Alignment explanation
Indices: 20607966--20608069 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
20607956 CTAAACTCAT
* * ** *
20607966 ACACTAAGTGCCTTCTATAGTTGAAGCTATGTCGA-GTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTC-ATATCGC
* *
20608006 ACACTAAGTGCCATATATAGCCGAAGCTATTTCATATCGG
1 ACACTAAGTGCCATATATAGCCGAAGCTATGTCATATCGC
* *
20608046 ACACTAAGTGCCATAAATAACCGA
1 ACACTAAGTGCCATATATAGCCGA
20608070 TTTGTCATCG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.02
40 53 0.98
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATGTCATATCGC
Found at i:20611494 original size:25 final size:25
Alignment explanation
Indices: 20611439--20611534 Score: 113
Period size: 25 Copynumber: 3.8 Consensus size: 25
20611429 GAGCTGTAAA
* * *
20611439 CGGTAAGCTCCTTCGAGCTGAATAAT
1 CGGTAAGCTCATGCGAGCTGAGT-AT
* *
20611465 -AGTAAGCTCATGCGAGCTGAGTTT
1 CGGTAAGCTCATGCGAGCTGAGTAT
*
20611489 CGGTAAGCTTATGCGAGCTGAGTAT
1 CGGTAAGCTCATGCGAGCTGAGTAT
*
20611514 CGGTAAGCTCATACGAGCTGA
1 CGGTAAGCTCATGCGAGCTGA
20611535 AATCAGTAAC
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
24 1 0.02
25 58 0.98
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (25 bp):
CGGTAAGCTCATGCGAGCTGAGTAT
Found at i:20614939 original size:99 final size:99
Alignment explanation
Indices: 20614823--20615016 Score: 361
Period size: 99 Copynumber: 2.0 Consensus size: 99
20614813 GCCTTCAGCC
* *
20614823 GATACTATGTGTGCCAAAAAACCAACTTCTCGGAGTCAAAACTCACATTTGTTAAATTTAGCAAA
1 GATACTATGTGTGCCAAAAAACCAACTTCTCAGAGTCAAAACTCACATTTGCTAAATTTAGCAAA
*
20614888 TAGTTTTTTATCTCGTAGAGTTTGCAGAATTACT
66 TAGTTGTTTATCTCGTAGAGTTTGCAGAATTACT
20614922 GATACTATGTGTGCCAAAAAACCAACTTCTCAGAGTCAAAACTCACATTTGCTAAATTTAGCAAA
1 GATACTATGTGTGCCAAAAAACCAACTTCTCAGAGTCAAAACTCACATTTGCTAAATTTAGCAAA
20614987 TAGTTGTTTATCTCGTAGAGTTTGCAGAAT
66 TAGTTGTTTATCTCGTAGAGTTTGCAGAAT
20615017 AATTCTCAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (99 bp):
GATACTATGTGTGCCAAAAAACCAACTTCTCAGAGTCAAAACTCACATTTGCTAAATTTAGCAAA
TAGTTGTTTATCTCGTAGAGTTTGCAGAATTACT
Found at i:20615403 original size:33 final size:33
Alignment explanation
Indices: 20615361--20615431 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
20615351 TTATTGAGCA
*
20615361 AACTCAACCTCTCTGACTGGTGGTAATCCAAGT
1 AACTCAACCTCTCTGACTGGAGGTAATCCAAGT
*
20615394 AACTCAACCTCTCTGACTGGAGGTAATCCAGGT
1 AACTCAACCTCTCTGACTGGAGGTAATCCAAGT
20615427 AACTC
1 AACTC
20615432 CTCTGGAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (33 bp):
AACTCAACCTCTCTGACTGGAGGTAATCCAAGT
Found at i:20621236 original size:13 final size:13
Alignment explanation
Indices: 20621218--20621242 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20621208 GTGCAGACTT
20621218 CACACGCCCATGA
1 CACACGCCCATGA
20621231 CACACGCCCATG
1 CACACGCCCATG
20621243 TCTGAGGCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.48, G:0.16, T:0.08
Consensus pattern (13 bp):
CACACGCCCATGA
Found at i:20623354 original size:29 final size:28
Alignment explanation
Indices: 20623305--20623359 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
20623295 GCAAGATATA
20623305 CTGATTTGGCTTCGGGCCATGTATATCGG
1 CTGATTTGGCTTCGGGCCATG-ATATCGG
* * *
20623334 CTGATTTGGTTTTGGGTCATGATATC
1 CTGATTTGGCTTCGGGCCATGATATC
20623360 AGAATTTCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.15, C:0.16, G:0.29, T:0.40
Consensus pattern (28 bp):
CTGATTTGGCTTCGGGCCATGATATCGG
Found at i:20625065 original size:24 final size:26
Alignment explanation
Indices: 20625038--20625086 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
20625028 ATTTCATGCA
20625038 ATATTAAAGC-ATTTAA-ATACAATT
1 ATATTAAAGCTATTTAACATACAATT
20625062 ATATTAAAGCTTATTTAACATACAA
1 ATATTAAAGC-TATTTAACATACAA
20625087 ACTTACCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (26 bp):
ATATTAAAGCTATTTAACATACAATT
Found at i:20641937 original size:40 final size:40
Alignment explanation
Indices: 20641889--20642084 Score: 315
Period size: 40 Copynumber: 4.9 Consensus size: 40
20641879 GGACTAAGAT
*
20641889 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
20641929 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
20641969 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
20642009 CCGAAGGCATTTGTCCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
20642049 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAA
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAA
20642085 ATTCCAGAGG
Statistics
Matches: 148, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 6 0.04
40 140 0.95
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:20649854 original size:40 final size:40
Alignment explanation
Indices: 20649806--20650001 Score: 299
Period size: 40 Copynumber: 4.9 Consensus size: 40
20649796 GGACTAAGAT
*
20649806 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
20649846 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
20649886 CCGAAAGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
20649926 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
20649966 TCGAAGGCATTCGTG-TGAGTTG-CTATATCC-GGCTAA
1 CCGAAGGCATTTGTGCT-AG-TGACTATATCCGGGCTAA
20650002 ATTCTGGAGG
Statistics
Matches: 147, Mismatches: 7, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
39 7 0.05
40 138 0.94
41 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:20654112 original size:40 final size:40
Alignment explanation
Indices: 20654057--20654143 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
20654047 TGATGACATA
20654057 TCAGCTAAATATGGCACTTAGTATGCGATTT-AGTATAGCT
1 TCAGCTAAATATGGCACTTAGTATGCGATTTGAG-ATAGCT
* *
20654097 TCAGCTAAATGTGGCACTTAGTGTGCGATTTGAGATAGCT
1 TCAGCTAAATATGGCACTTAGTATGCGATTTGAGATAGCT
20654137 TCAGCTA
1 TCAGCTA
20654144 TGTACAGCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 42 0.95
41 2 0.05
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (40 bp):
TCAGCTAAATATGGCACTTAGTATGCGATTTGAGATAGCT
Found at i:20654154 original size:40 final size:39
Alignment explanation
Indices: 20654070--20654163 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 39
20654060 GCTAAATATG
* *
20654070 GCACTTAGTATGCGATTTAGTATAGCTTCAGCTAAATGTG
1 GCACTTAGTGTGCGATTTAGTATAGCTTCAGCT-AATGTA
20654110 GCACTTAGTGTGCGATTTGAG-ATAGCTTCAGCT-ATGTACA
1 GCACTTAGTGTGCGATTT-AGTATAGCTTCAGCTAATGT--A
20654150 GCACTTAGTGTGCG
1 GCACTTAGTGTGCG
20654164 GGATATCAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
38 4 0.08
40 43 0.88
41 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (39 bp):
GCACTTAGTGTGCGATTTAGTATAGCTTCAGCTAATGTA
Found at i:20656264 original size:22 final size:22
Alignment explanation
Indices: 20656238--20656279 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20656228 TTGTAACCTC
*
20656238 TTTCTCTTCTTATTTGTTTGTG
1 TTTCTCTTCTTATTAGTTTGTG
*
20656260 TTTCTCTTCTTGTTAGTTTG
1 TTTCTCTTCTTATTAGTTTG
20656280 CTCGGAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.05, C:0.14, G:0.14, T:0.67
Consensus pattern (22 bp):
TTTCTCTTCTTATTAGTTTGTG
Found at i:20657228 original size:26 final size:26
Alignment explanation
Indices: 20657192--20657242 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
20657182 CCTATTAATA
*
20657192 TTTAACCTAGCATTAACCTTTTTGCT
1 TTTAACCTAGCATTAACCATTTTGCT
20657218 TTTAACCTAGCATTAACCATTTTGC
1 TTTAACCTAGCATTAACCATTTTGC
20657243 CCTTAAGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.43
Consensus pattern (26 bp):
TTTAACCTAGCATTAACCATTTTGCT
Found at i:20657248 original size:26 final size:26
Alignment explanation
Indices: 20657193--20657248 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
20657183 CTATTAATAT
* **
20657193 TTAACCTAGCATTAACCTTTTTGCTT
1 TTAACCTAGCATTAACCATTTTGCCC
20657219 TTAACCTAGCATTAACCATTTTGCCC
1 TTAACCTAGCATTAACCATTTTGCCC
20657245 TTAA
1 TTAA
20657249 GCAAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.41
Consensus pattern (26 bp):
TTAACCTAGCATTAACCATTTTGCCC
Found at i:20657527 original size:41 final size:41
Alignment explanation
Indices: 20657482--20657569 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
20657472 ATGTTTTCTG
* *
20657482 CATGTTTAGGCCAGCATCGACCCTCTACAAAACTGAATTAA
1 CATGTTTAGGCCACCATCGACCCTCTACAAAACTCAATTAA
20657523 CATGTTTAGGCCACCATCGACCCTCTACAAAACTCAATTAA
1 CATGTTTAGGCCACCATCGACCCTCTACAAAACTCAATTAA
*
20657564 CTTGTT
1 CATGTT
20657570 AGGTTCCCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.27
Consensus pattern (41 bp):
CATGTTTAGGCCACCATCGACCCTCTACAAAACTCAATTAA
Done.