Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 161 of 325
Found at i:51621332 original size:11 final size:11
Alignment explanation
Indices: 51621316--51621340 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51621306 AAAAATTATA
51621316 AAATGAAAAAT
1 AAATGAAAAAT
51621327 AAATGAAAAAT
1 AAATGAAAAAT
51621338 AAA
1 AAA
51621341 AATTATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (11 bp):
AAATGAAAAAT
Found at i:51621541 original size:24 final size:25
Alignment explanation
Indices: 51621497--51621544 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
51621487 TAAAAAAATT
*
51621497 ATATTTGTTAAAGAATGTTAAAAAC
1 ATATTTGTTAAAGAATATTAAAAAC
51621522 ATATTTG-TAAA-AATTATTAAAAA
1 ATATTTGTTAAAGAA-TATTAAAAA
51621545 AATGATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.57
25 7 0.33
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (25 bp):
ATATTTGTTAAAGAATATTAAAAAC
Found at i:51626424 original size:28 final size:28
Alignment explanation
Indices: 51626384--51626441 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
51626374 ATATAAATTA
51626384 CAGCATTATTGTTGTATTATTATCATAC
1 CAGCATTATTGTTGTATTATTATCATAC
51626412 CAGCATTATTGTTGTATTATTATCATAC
1 CAGCATTATTGTTGTATTATTATCATAC
51626440 CA
1 CA
51626442 ACTTACATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (28 bp):
CAGCATTATTGTTGTATTATTATCATAC
Found at i:51637200 original size:40 final size:40
Alignment explanation
Indices: 51637123--51637300 Score: 272
Period size: 40 Copynumber: 4.5 Consensus size: 40
51637113 AAACCACGTA
* * * *
51637123 CCTTCGGGATTTAG-CCAGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
51637162 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51637202 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51637242 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51637282 CC-TCTGGGACTTAGCCCGG
1 CCTTC-GGGACTTAGCCCGG
51637301 TTATCATCCG
Statistics
Matches: 130, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
39 16 0.12
40 114 0.88
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:51640942 original size:25 final size:25
Alignment explanation
Indices: 51640908--51640983 Score: 152
Period size: 25 Copynumber: 3.0 Consensus size: 25
51640898 CAGCAAGGCG
51640908 TAGGGTCGACTTGGATTAGTTTGGA
1 TAGGGTCGACTTGGATTAGTTTGGA
51640933 TAGGGTCGACTTGGATTAGTTTGGA
1 TAGGGTCGACTTGGATTAGTTTGGA
51640958 TAGGGTCGACTTGGATTAGTTTGGA
1 TAGGGTCGACTTGGATTAGTTTGGA
51640983 T
1 T
51640984 CATCGGAATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.20, C:0.08, G:0.36, T:0.37
Consensus pattern (25 bp):
TAGGGTCGACTTGGATTAGTTTGGA
Found at i:51641696 original size:25 final size:25
Alignment explanation
Indices: 51641650--51641697 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
51641640 TTATAATATG
* * * *
51641650 AAAATGACTATTTTGCCTCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
51641675 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
51641698 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:51641758 original size:20 final size:19
Alignment explanation
Indices: 51641725--51641799 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
51641715 ATACGTGGGA
51641725 TATGATAT--ACATGATTG
1 TATGATATGCACATGATTG
*
51641742 ATATGATATGCACATGACATG
1 -TATGATATGCACATGA-TTG
*
51641763 TATAATATGCACATGATATG
1 TATGATATGCACATGAT-TG
51641783 TATGGA-ATGCACATGAT
1 TAT-GATATGCACATGAT
51641800 GTAATCATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
18 8 0.17
20 37 0.77
21 3 0.06
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (19 bp):
TATGATATGCACATGATTG
Found at i:51641891 original size:26 final size:26
Alignment explanation
Indices: 51641849--51641984 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
51641839 GAGGAAGTGC
51641849 AAAAGGGC-TATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
51641874 AAAAGGGCTTATGCCCCAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
51641900 AAAAGGGTTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
51641926 AAAAGGGCTTATGCCCCATTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
51641952 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
51641975 AAAAGAGGCT
1 AAAAG-GGCT
51641985 AGGCCTTAAG
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 15 0.15
26 70 0.72
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:51650720 original size:28 final size:29
Alignment explanation
Indices: 51650655--51650753 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
51650645 CATGAGATTG
* *
51650655 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
51650684 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
51650712 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
51650740 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51650754 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 42 0.66
29 14 0.22
30 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:51658732 original size:28 final size:29
Alignment explanation
Indices: 51658667--51658765 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
51658657 CATGAGATTG
* *
51658667 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
51658696 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
51658724 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
51658752 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51658766 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 42 0.66
29 14 0.22
30 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:51662653 original size:94 final size:94
Alignment explanation
Indices: 51662398--51662714 Score: 272
Period size: 94 Copynumber: 3.3 Consensus size: 94
51662388 ATGTCGATGC
* * * * * * *
51662398 CATGTCCCAGACATGGTCTTACAGTGGCTATCGTCATCGAGGCCGATGCCATGTCCCAAACTTGG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTC-TCAATGTCGATGCCATGTCCCAAACATGG
* * * *
51662463 TCTTACACTAGCTCTCGCATATCCAT-GTTGATG
64 TCTTACACTAACTCT--CATA-ACATGGTCGACG
* * * *
51662496 TCATGTCCCAAACATGGTCTTACACT-GACAC-C-TCT-ATACGTGCCGATGCCATGTCCCAGAC
1 -CATGTCCCAGACAT-GTCTTACACTAG-CTCTCGTCTCA-A--TGTCGATGCCATGTCCCAAAC
** * *
51662557 ATGGTCTTACACTGGCT-TACTTCACGA-GG-CTGACG
60 ATGGTCTTACACTAACTCT-CATAAC-ATGGTC-GACG
51662592 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAAACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAAACATGGTC
*
51662657 TTACACTAACTCTCATAACATGGTCGATG
66 TTACACTAACTCTCATAACATGGTCGACG
51662686 CATGTCCCAGACATGTCTTACACTAGCTC
1 CATGTCCCAGACATGTCTTACACTAGCTC
51662715 ACAATAACCC
Statistics
Matches: 180, Mismatches: 24, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
93 1 0.01
94 84 0.47
95 18 0.10
96 13 0.07
97 4 0.02
98 36 0.20
99 24 0.13
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAAACATGGTC
TTACACTAACTCTCATAACATGGTCGACG
Found at i:51662722 original size:47 final size:49
Alignment explanation
Indices: 51662390--51662722 Score: 201
Period size: 48 Copynumber: 6.9 Consensus size: 49
51662380 AGGGTATAAT
* * * * *
51662390 GTCGATGCCATGTCCCAGACATGGTCTTACAGTGGCT-ATCGTCATCGA-G
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCA-CAT-AACAATG
* * * * * *
51662439 GCCGATGCCATGTCCCAAACTTGGTCTTACACTAGCTCTCGCATATCCAT-
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATAACAATG
* * * * * *
51662489 GTTGATGTCATGTCCCAAACATGGTCTTACACT-G-ACACCT--CTATACG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAC-A-ATG
* * * * * *
51662536 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACTTCACGA-G
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATG
* * * **
51662585 G-CTGACG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAAT-
1 GTC-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATG
* * *
51662631 GTCGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATAAC-ATG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATG
51662679 GTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACAATAAC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAC-ATAAC
51662723 CCATACATCA
Statistics
Matches: 224, Mismatches: 41, Indels: 40
0.73 0.13 0.13
Matches are distributed among these distances:
44 1 0.00
46 41 0.18
47 49 0.22
48 58 0.26
49 33 0.15
50 37 0.17
51 4 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAATG
Found at i:51668403 original size:20 final size:20
Alignment explanation
Indices: 51668380--51668418 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
51668370 AGGGACTAAA
* *
51668380 ATGAAAATTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
51668400 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
51668419 TATGGATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:51677010 original size:42 final size:42
Alignment explanation
Indices: 51676963--51677043 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
51676953 AAAATCTTGA
51676963 GATGATATAATAATAACTTGAAAGAATATTGCTTGATGAACT
1 GATGATATAATAATAACTTGAAAGAATATTGCTTGATGAACT
51677005 GATGATATAATAATAACTTGAAAGAATATTGCTTGATGA
1 GATGATATAATAATAACTTGAAAGAATATTGCTTGATGA
51677044 GCTCATATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.33
Consensus pattern (42 bp):
GATGATATAATAATAACTTGAAAGAATATTGCTTGATGAACT
Found at i:51678266 original size:56 final size:56
Alignment explanation
Indices: 51678180--51678355 Score: 327
Period size: 56 Copynumber: 3.1 Consensus size: 56
51678170 ACAAGGGATG
51678180 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
51678236 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAT-GAAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAA-AATAAAATAAGAAGC
*
51678292 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
51678348 ATGGGCAA
1 ATGGGCAA
51678356 TAAACTAATA
Statistics
Matches: 117, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
55 4 0.03
56 110 0.94
57 3 0.03
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:51679584 original size:39 final size:40
Alignment explanation
Indices: 51679484--51679668 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
51679474 TCGAATGATG
* * *
51679484 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAACTTAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
51679523 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
51679564 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
51679603 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
51679642 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
51679669 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:51679690 original size:79 final size:79
Alignment explanation
Indices: 51679537--51679701 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
51679527 GGACTAAGAT
** **
51679537 CCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
51679602 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
51679616 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
51679679 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
51679695 CCGAAGG
1 CCGAAGG
51679702 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:51684936 original size:36 final size:36
Alignment explanation
Indices: 51684858--51684937 Score: 85
Period size: 36 Copynumber: 2.2 Consensus size: 36
51684848 AAATTTTAAA
* *
51684858 TATATATTTTTTATAATTTTTTAGTATTTTATAAATT
1 TATATTTTTTTTATAATTTTTTAGTAATTTAT-AATT
*
51684895 T-TATTTTTTTTA-ATATTTATTTATTAATTTAT-ATT
1 TATATTTTTTTTATA-ATTT-TTTAGTAATTTATAATT
51684930 TATATTTT
1 TATATTTT
51684938 CTTATTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
35 5 0.14
36 20 0.54
37 12 0.32
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (36 bp):
TATATTTTTTTTATAATTTTTTAGTAATTTATAATT
Found at i:51685953 original size:7 final size:8
Alignment explanation
Indices: 51685936--51685962 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
51685926 TCCTAATTGC
51685936 TTTCTTTT
1 TTTCTTTT
51685944 TTTCTTTT
1 TTTCTTTT
51685952 TTTCTTTT
1 TTTCTTTT
51685960 TTT
1 TTT
51685963 GATAAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTCTTTT
Found at i:51688519 original size:45 final size:45
Alignment explanation
Indices: 51688443--51688553 Score: 116
Period size: 45 Copynumber: 2.4 Consensus size: 45
51688433 TAAAAAATTC
* *
51688443 AAATATTAAAAATTTATTAAAAATTAAAAAAAGTAAAAAATAAAAAG
1 AAATA-TAAAATTTTA-TAAAAATTAAAAAAACTAAAAAATAAAAAG
* * * * * *
51688490 -ATTGTAAAATTTTATAAAAATTGAGAAAAACTATAAAATATATAG
1 AAATATAAAATTTTATAAAAATT-AAAAAAACTAAAAAATAAAAAG
51688535 AAATATAAAATTTTATAAA
1 AAATATAAAATTTTATAAA
51688554 GTCGTAAGAA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
44 8 0.15
45 26 0.50
46 18 0.35
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (45 bp):
AAATATAAAATTTTATAAAAATTAAAAAAACTAAAAAATAAAAAG
Found at i:51689013 original size:86 final size:88
Alignment explanation
Indices: 51688919--51689086 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 88
51688909 ATTTTTTATT
** * * *
51688919 TTTTTTGAAAACTTTTGAGGGTC-TTTTTGATGCATTTTGAAAGTCCAAGTACCCAATTG-A-GT
1 TTTTTTGAAAAAGTTTGAGGG-CATTTTTAATACATTTTGAAAGTCCAAGTACCCAATTGAATGC
51688981 AAAAAAAA-GTAGGGGCTTAATTAG
65 AAAAAAAATG-AGGGGCTTAATTAG
* * *
51689005 TTTTTTGAAAAAGTTTGAGGGCATTTTTAATACATTTTGAAAGTTCAAGTGCTCAATTGAATGCA
1 TTTTTTGAAAAAGTTTGAGGGCATTTTTAATACATTTTGAAAGTCCAAGTACCCAATTGAATGCA
51689070 AAAAAAATGAGGGGCTT
66 AAAAAAATGAGGGGCTT
51689087 TTTTTTTTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
85 1 0.01
86 50 0.71
87 1 0.01
88 17 0.24
89 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.36
Consensus pattern (88 bp):
TTTTTTGAAAAAGTTTGAGGGCATTTTTAATACATTTTGAAAGTCCAAGTACCCAATTGAATGCA
AAAAAAATGAGGGGCTTAATTAG
Found at i:51690240 original size:16 final size:17
Alignment explanation
Indices: 51690219--51690251 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
51690209 TTTTATTGTT
51690219 TATTATAATAAT-TTTA
1 TATTATAATAATGTTTA
*
51690235 TATTATATTAATGTTTA
1 TATTATAATAATGTTTA
51690252 GGATTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTATAATAATGTTTA
Found at i:51690360 original size:16 final size:17
Alignment explanation
Indices: 51690330--51690374 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
51690320 ATGTATGTAT
*
51690330 TTTTTAGTTTATAATAA
1 TTTTTAGATTATAATAA
51690347 TTTTTAGATT-TAAT-A
1 TTTTTAGATTATAATAA
*
51690362 -TTTAAGATTATAA
1 TTTTTAGATTATAA
51690375 AATAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 8 0.32
15 4 0.16
16 4 0.16
17 9 0.36
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (17 bp):
TTTTTAGATTATAATAA
Found at i:51692092 original size:27 final size:27
Alignment explanation
Indices: 51692064--51692260 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
51692054 ACACAGAAGC
* *
51692064 TATTCTTTCATAATTCGCCATAAAGGC
1 TATTCTTTCATAATTCGCCACAAAGGT
51692091 TATTCTTTCATAATAT-GCCACAAAGGT
1 TATTCTTTCATAAT-TCGCCACAAAGGT
* *
51692118 TATTCCTTCATAGTTCGCCACAAAGGT
1 TATTCTTTCATAATTCGCCACAAAGGT
* * *
51692145 TGTTCTTTCATAATACGCCACAAAGGC
1 TATTCTTTCATAATTCGCCACAAAGGT
* *
51692172 TATTCTTTCATAGTTCACCACAAAGGT
1 TATTCTTTCATAATTCGCCACAAAGGT
* *
51692199 TATTCTTTCGTAATACGCCACAAAGGT
1 TATTCTTTCATAATTCGCCACAAAGGT
* * * *
51692226 TTTTCTTTTA-AACTCCACCACAAAGGT
1 TATTCTTTCATAA-TTCGCCACAAAGGT
51692253 TATTCTTT
1 TATTCTTT
51692261 TGTAATACGA
Statistics
Matches: 143, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.02
27 139 0.97
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.37
Consensus pattern (27 bp):
TATTCTTTCATAATTCGCCACAAAGGT
Found at i:51692099 original size:54 final size:54
Alignment explanation
Indices: 51692026--51692287 Score: 229
Period size: 54 Copynumber: 4.9 Consensus size: 54
51692016 TTCGGAGTAT
** ** * * *
51692026 GCCACAAAGGCTACCCTTTCAGGATTTGACACAGAA-GCTATTCTTTCATAATTC
1 GCCACAAAGGCTATTCTTTCATAATATGCCACA-AAGGCTATTCTTTCATAGTTC
* * *
51692080 GCCATAAAGGCTATTCTTTCATAATATGCCACAAAGGTTATTCCTTCATAGTTC
1 GCCACAAAGGCTATTCTTTCATAATATGCCACAAAGGCTATTCTTTCATAGTTC
* * *
51692134 GCCACAAAGGTTGTTCTTTCATAATACGCCACAAAGGCTATTCTTTCATAGTTC
1 GCCACAAAGGCTATTCTTTCATAATATGCCACAAAGGCTATTCTTTCATAGTTC
* * * * * * * * * *
51692188 ACCACAAAGGTTATTCTTTCGTAATACGCCACAAAGGTTTTTCTTTTAAACTCC
1 GCCACAAAGGCTATTCTTTCATAATATGCCACAAAGGCTATTCTTTCATAGTTC
* * ** * * * *
51692242 ACCACAAAGGTTATTCTTTTGTAATACGACTCAAGGGCTATTCTTT
1 GCCACAAAGGCTATTCTTTCATAATATGCCACAAAGGCTATTCTTT
51692288 TCTAGCGTGT
Statistics
Matches: 176, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
53 2 0.01
54 174 0.99
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (54 bp):
GCCACAAAGGCTATTCTTTCATAATATGCCACAAAGGCTATTCTTTCATAGTTC
Found at i:51695115 original size:19 final size:19
Alignment explanation
Indices: 51695086--51695141 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
51695076 AGCAAAAATT
*
51695086 AAAAGCTTCAACATAAACC
1 AAAAACTTCAACATAAACC
* * *
51695105 CAAAACTTCAATAGAAACC
1 AAAAACTTCAACATAAACC
51695124 AAAAACTTCAACATAAAC
1 AAAAACTTCAACATAAAC
51695142 AAATTTTTGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.55, C:0.25, G:0.04, T:0.16
Consensus pattern (19 bp):
AAAAACTTCAACATAAACC
Found at i:51695464 original size:78 final size:76
Alignment explanation
Indices: 51695296--51695495 Score: 197
Period size: 77 Copynumber: 2.6 Consensus size: 76
51695286 CACACTGGCA
* * * * *
51695296 ACACTCATTAAATATATATACTTTTCTTCACAGGCTTTTTTTTTGACTCATCACTTGTGCCGCTT
1 ACAC-CATTAAAAATATATATTTTTCTTCACAGGTTTTTTTTTTGACACATCACTGGTGCCGCTT
*
51695361 GACACACCAACG
65 GACAAACCAACG
* * *
51695373 ACACCCGTTAAAAATATATATTTTTCTTCACAGGTTTTTTTTTCTGACACATCA-TCGGTGTCGT
1 ACA-CCATTAAAAATATATATTTTTCTTCACAGGTTTTTTTTT-TGACACATCACT-GGTGCCGC
* *
51695437 TTGACAAACCGATG
63 TTGACAAACCAACG
* **
51695451 ACACCATTAAAAA-ATTATTATTTTTTCTTCATAGCCTTTTTTTTT
1 ACACCATTAAAAATA-TA-TA-TTTTTCTTCACAGGTTTTTTTTTT
51695496 ACATTGGTTT
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
76 1 0.01
77 49 0.48
78 32 0.31
79 20 0.20
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.41
Consensus pattern (76 bp):
ACACCATTAAAAATATATATTTTTCTTCACAGGTTTTTTTTTTGACACATCACTGGTGCCGCTTG
ACAAACCAACG
Found at i:51704518 original size:33 final size:33
Alignment explanation
Indices: 51704476--51704545 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
51704466 TTTCTTCTTG
*
51704476 ACATTCCAGCTCCTGTCTAGCAACAAAACACCC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
* *
51704509 ACATTCCAGCTCCTGTCCAGCAGCAAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
51704542 ACAT
1 ACAT
51704546 CACCAAACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.39, G:0.10, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
Found at i:51711265 original size:30 final size:30
Alignment explanation
Indices: 51711229--51711327 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
51711219 TTAGCCTTTG
51711229 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
51711259 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * *
51711289 TCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
51711319 CCACCACCA
1 CCACCACCA
51711328 CTTGCACCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.25, C:0.49, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:51711506 original size:16 final size:16
Alignment explanation
Indices: 51711485--51711520 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
51711475 CAAGGAGAAG
*
51711485 AGTTATTGTAAAGGCT
1 AGTTATTGGAAAGGCT
*
51711501 AGTTATTGGAGAGGCT
1 AGTTATTGGAAAGGCT
51711517 AGTT
1 AGTT
51711521 TTTTTTTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.36
Consensus pattern (16 bp):
AGTTATTGGAAAGGCT
Found at i:51711907 original size:25 final size:25
Alignment explanation
Indices: 51711802--51712006 Score: 83
Period size: 23 Copynumber: 8.6 Consensus size: 25
51711792 CTTTTTTTGT
* *
51711802 TATTAT-TATAT-TTTTTAATATTA
1 TATTATGTATATATATTTAATACTA
** *
51711825 TATTA--TATATATATTCTTTTAATA
1 TATTATGTATATATATT-TAATACTA
* * * *
51711849 TATTAGGTATAT-T-CTAAATTCTA
1 TATTATGTATATATATTTAATACTA
* *
51711872 TATCACGTATATATA-TT-ATACTA
1 TATTATGTATATATATTTAATACTA
* *
51711895 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATATTTAATACTA
* * **
51711920 TATTATTTATAT-TTTTTTCTAC-A
1 TATTATGTATATATATTTAATACTA
* *
51711943 TGTTATCTTATATATATTTTAAT--TA
1 TATTAT-GTATATATA-TTTAATACTA
* * * *
51711968 TATTATGTATGTATTTTTTACACTA
1 TATTATGTATATATATTTAATACTA
*
51711993 TATTATGTACATAT
1 TATTATGTATATAT
51712007 TTTTTTATAT
Statistics
Matches: 133, Mismatches: 35, Indels: 26
0.69 0.18 0.13
Matches are distributed among these distances:
22 5 0.04
23 47 0.35
24 34 0.26
25 38 0.29
26 9 0.07
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
TATTATGTATATATATTTAATACTA
Found at i:51712100 original size:25 final size:24
Alignment explanation
Indices: 51712072--51712127 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
51712062 GTTATATTTT
*
51712072 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
51712097 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
51712120 CACTATTA
1 CACTATTA
51712128 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:51723197 original size:12 final size:12
Alignment explanation
Indices: 51723180--51723211 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
51723170 GGCATCTTAA
51723180 AAAAGAGAAAAG
1 AAAAGAGAAAAG
*
51723192 AAAAGAAAAAAG
1 AAAAGAGAAAAG
51723204 AAAAGAGA
1 AAAAGAGA
51723212 GAGGATCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAGAGAAAAG
Found at i:51724174 original size:88 final size:85
Alignment explanation
Indices: 51724078--51724249 Score: 254
Period size: 88 Copynumber: 2.0 Consensus size: 85
51724068 TATCTTTCAA
* * *
51724078 AAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTC-GG-CACACGCCGAGGTATTTTCAATT
51724143 TCTTTTTTCAATTTATGCTTTTC
64 T-TTTTTTCAATTTATGCTTTTC
** *
51724166 AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTTTTAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGCACACGCCGAGGTATTTTCAATTTT
*
51724231 TTTTTCAATTTCTGCTTTT
66 TTTTTCAATTTATGCTTTT
51724250 AATTTCTGTT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
85 19 0.25
86 20 0.26
87 2 0.03
88 36 0.47
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (85 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGCACACGCCGAGGTATTTTCAATTTT
TTTTTCAATTTATGCTTTTC
Found at i:51724262 original size:13 final size:13
Alignment explanation
Indices: 51724220--51724262 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
51724210 CGCCGAGGTA
51724220 TTTTTAATTT-T-
1 TTTTTAATTTCTG
51724231 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
51724245 CTTTTAATTTCTG
1 TTTTTAATTTCTG
51724258 TTTTT
1 TTTTT
51724263 CAAAAATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 13 0.48
14 4 0.15
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:51724307 original size:98 final size:97
Alignment explanation
Indices: 51724134--51724523 Score: 430
Period size: 98 Copynumber: 4.1 Consensus size: 97
51724124 CGCTGAGGTA
* *
51724134 TTTTCAATTTCTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGA
1 TTTTCAATTTCTCTTTT-AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * *
51724199 GCCTCGGGGCACGCCGAGGTATTTTTAATTTTT
65 GCCTCAGGACACGCTGAGGTATTTTCAATTTTT
* *
51724232 TTTTCAATTTCTGCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCT-CTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
51724297 GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGT
65 GCCTCAGGACACGCTGAGGTATTTTCAATTT-T-T
* ** * * *
51724332 TTTTCAATTTTTGCCTTACAAATTCTACTTTTC--AAATCAACTCATATT--GAGAGGTGAGTTG
1 TTTTCAATTTCT--CTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
51724393 AGCCTCAGGACACGCTGAGGTATTTTCAA-----
64 AGCCTCAGGACACGCTGAGGTATTTTCAATTTTT
* * *
51724422 TTTTC--GTT-T-TTTTAATTTATG-TTTCTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTCTTTTAATTTATGCTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
51724482 GCCTCAGGACACGCTGAGGTAATTTCAATTTTT
65 GCCTCAGGACACGCTGAGGTATTTTCAATTTTT
51724515 GTTTGTCAA
1 -TTT-TCAA
51724524 AACTCAACTC
Statistics
Matches: 250, Mismatches: 24, Indels: 37
0.80 0.08 0.12
Matches are distributed among these distances:
83 3 0.01
84 8 0.03
86 15 0.06
87 1 0.00
88 42 0.17
90 5 0.02
94 3 0.01
95 2 0.01
97 41 0.16
98 84 0.34
99 20 0.08
100 12 0.05
101 14 0.06
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (97 bp):
TTTTCAATTTCTCTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCAGGACACGCTGAGGTATTTTCAATTTTT
Found at i:51724641 original size:75 final size:75
Alignment explanation
Indices: 51724443--51725038 Score: 809
Period size: 75 Copynumber: 8.1 Consensus size: 75
51724433 TTAATTTATG
* * * *
51724443 TTTCTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
*
51724508 AATTTTTGTT
66 AATTTCTGTT
* * * *
51724518 TGTC--AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
51724581 AATTTCTGTT
66 AATTTCTGTT
* * *
51724591 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
*
51724656 AATTTTTGTT
66 AATTTCTGTT
* *
51724666 TGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
*
51724729 AATTTCTGTC
66 AATTTCTGTT
* * * *
51724739 TTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
51724804 AATTTCTGTT
66 AATTTCTGTT
* * *
51724814 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--ACGCTGAGGTA-ATTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
*
51724876 AATTTTTGTT
66 AATTTCTGTT
* * *
51724886 TGTC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
*
51724949 AATTTCTGTC
66 AATTTCTGTT
* * *
51724959 TTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTGTTTT
1 TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
*
51725022 CCATTTCTGTT
65 CAATTTCTGTT
*
51725033 CTTCAA
1 TTTCAA
51725039 TTTTGTGTTT
Statistics
Matches: 460, Mismatches: 51, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
70 38 0.08
72 25 0.05
73 156 0.34
74 25 0.05
75 178 0.39
76 38 0.08
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
AATTTCTGTT
Found at i:51724716 original size:148 final size:147
Alignment explanation
Indices: 51724443--51725038 Score: 799
Period size: 148 Copynumber: 4.0 Consensus size: 147
51724433 TTAATTTATG
* * *
51724443 TTTCTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
* * * * *
51724508 AATTTTTGTTTGTC-AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGA
66 AATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGA
51724572 GGTATTTTCAATTTCTGTT
129 GGTATTTTCAATTTCTGTT
* *
51724591 TTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
* * *
51724656 AATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
66 AATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGA
*
51724720 GGTATTTTCAATTTCTGTC
129 GGTATTTTCAATTTCTGTT
* * * * *
51724739 TTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
* *
51724804 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCTGAG
66 AATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAG
* *
51724869 GTA-ATTCAATTTTTGTT
130 GTATTTTCAATTTCTGTT
* * * *
51724886 TGTC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
*
51724949 AATTTCTGTCTT-TCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTG
66 AATTTCTGT-TTGTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTG
* *
51725013 AGGTGTTTTCCATTTCTGTT
128 AGGTATTTTCAATTTCTGTT
*
51725033 CTTCAA
1 TTTCAA
51725039 TTTTGTGTTT
Statistics
Matches: 407, Mismatches: 34, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
145 67 0.16
146 53 0.13
147 26 0.06
148 222 0.55
150 39 0.10
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (147 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
AATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGG
TATTTTCAATTTCTGTT
Found at i:51725239 original size:88 final size:87
Alignment explanation
Indices: 51724944--51725511 Score: 426
Period size: 88 Copynumber: 6.5 Consensus size: 87
51724934 CGTTGAGGTA
* * *
51724944 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AG
1 TTTTCAATTT-TGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCAC
* *
51725007 ACGCTGAGGTGTTTTC-CATTTCTGT
63 ACGCTGAGGTATTTTCAAATTT-TGT
* * * * *
51725032 TCTTCAATTTTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCAC
1 TTTTCAATTTTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GCAC
*
51725097 ACGCTGAGGTATTTTCAAATTCTGT
63 ACGCTGAGGTATTTTCAAATTTTGT
* * *
51725122 TTTTCAATTTTGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACAC
1 TTTTCAATTTTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACAC
* *
51725187 GCTGAGATATTTTC-AATTTTTT
65 GCTGAGGTATTTTCAAATTTTGT
51725209 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCAGATCA
1 TTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CA
* *
51725273 CACGCCGAGGTATTTTCAATTGATTTTTTTATT
62 CACGCTGAGGTATTTTCAA---A---TTTT-GT
* * *
51725306 TTTTCAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGTCAC
1 TTTTCAATTT-TG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-CAC
** * * *
51725369 ATACCGAGGTATTTTCAAAATCTG-
63 ACGCTGAGGTATTTTCAAATTTTGT
* ** *
51725393 TTTT--A---------CAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACAC-
*
51725447 TGCTGAGCTATTTTC-AATTTCTGT
65 -GCTGAGGTATTTTCAAATTT-TGT
* * *
51725471 TTTT-AATGTTTAGTTTT--AAAGAGTCAATTCATATTGCGAGA
1 TTTTCAAT-TTT-GTTTTCAAAAAAATCAACTCATATTGCGAGA
51725512 AATGAGTTAA
Statistics
Matches: 396, Mismatches: 46, Indels: 76
0.76 0.09 0.15
Matches are distributed among these distances:
74 1 0.00
75 3 0.01
76 40 0.10
77 13 0.03
78 4 0.01
79 1 0.00
85 1 0.00
86 36 0.09
87 37 0.09
88 85 0.21
89 20 0.05
90 69 0.17
91 4 0.01
92 1 0.00
93 1 0.00
95 53 0.13
96 8 0.02
97 16 0.04
98 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACG
CTGAGGTATTTTCAAATTTTGT
Found at i:51725245 original size:178 final size:179
Alignment explanation
Indices: 51724944--51725362 Score: 496
Period size: 178 Copynumber: 2.3 Consensus size: 179
51724934 CGTTGAGGTA
* * * * *
51724944 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTATGTCTTTC-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACAC
* * * *
51725009 GCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTTGTGTTTCAAAAAAATCAGCTCATATTGCGAG
65 GCTGAGATATTTTCAATTTCTGTTCTTCAATTTTGTGTTTCAAAAAAATCAACTCATATTGCGAG
* * *
51725074 TGGTGAGTTGAGC-CTTGACTCACACGCTGAGGTATTTTCAA-A-TTCT-GT
130 AGGTGAGTTGAGCTC-AGA-TCACACGCCGAGGTATTTTCAATATTTCTAGT
* *
51725122 TTTTCAATTT-TGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACA
1 TTTTCAATTTATGTCTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACA
* *
51725186 CGCTGAGATATTTTCAATTT-TTTTTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATATTGC
64 CGCTGAGATATTTTCAATTTCTGTTCTTCAATTT-TGTGTT-TCAAAAAAATCAACTCATATTGC
* *
51725249 GAGAGGTGAGTTGAGCTCAGATCACACGCCGAGGTATTTTCAATTGATTTTTTTATT
127 GAGAGGTGAGTTGAGCTCAGATCACACGCCGAGGTATTTTCAA-T-A--TTTCTAGT
* *
51725306 TTTTCAATTTATG-CTTTGC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
1 TTTTCAATTTATGTCTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
51725363 GGTCACATAC
Statistics
Matches: 207, Mismatches: 21, Indels: 21
0.83 0.08 0.08
Matches are distributed among these distances:
176 37 0.18
177 41 0.20
178 71 0.34
179 1 0.00
180 1 0.00
183 39 0.19
184 15 0.07
185 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (179 bp):
TTTTCAATTTATGTCTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACG
CTGAGATATTTTCAATTTCTGTTCTTCAATTTTGTGTTTCAAAAAAATCAACTCATATTGCGAGA
GGTGAGTTGAGCTCAGATCACACGCCGAGGTATTTTCAATATTTCTAGT
Found at i:51725348 original size:95 final size:89
Alignment explanation
Indices: 51724965--51725387 Score: 411
Period size: 90 Copynumber: 4.7 Consensus size: 89
51724955 TGTCTTTCAA
* * * * * *
51724965 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA---AGACGCTGAGGTGTTTTC-CAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTCACACGCCGAGGTATTTTCAAAT
* *
51725026 TTCTGTTCTTCAATTT-TGTGTT-TC
66 TT-TTTTTTTCAATTTATGT-TTGTC
* * * * *
51725050 AAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGTCACACGCCGAGGTATTTTCAA
* * *
51725115 ATTCTGTTTTTCAATTT-TGTTTTTCC
64 ATTTTTTTTTTCAATTTATGTTTGT-C
* * * *
51725141 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAG-GACACGCTGAGATATTTTC-AAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTCACACGCCGAGGTATTTTCAAAT
51725204 TTTTTTTTTCAATTTATGTTTGTC
66 TTTTTTTTTCAATTTATGTTTGTC
51725228 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCAGATCACACGCCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-TCACACGCCGAGGTATTTTCAA
51725292 TTGATTTTTTTATTTTTTCAATTTATGCTTTG-C
64 ---A---TTTT-TTTTTTCAATTTATG-TTTGTC
* * **
51725325 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGTCACATACCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTCACACGCCGAGGTATTTTCAAA
51725388 ATCTGTTTTA
Statistics
Matches: 290, Mismatches: 26, Indels: 36
0.82 0.07 0.10
Matches are distributed among these distances:
86 35 0.12
87 24 0.08
88 57 0.20
89 20 0.07
90 67 0.23
91 4 0.01
92 1 0.00
93 1 0.00
95 53 0.18
96 8 0.03
97 16 0.06
98 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (89 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTCACACGCCGAGGTATTTTCAAAT
TTTTTTTTTCAATTTATGTTTGTC
Found at i:51725429 original size:76 final size:77
Alignment explanation
Indices: 51725325--51725473 Score: 210
Period size: 76 Copynumber: 1.9 Consensus size: 77
51725315 TATGCTTTGC
* *
51725325 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGG-TCACATACCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
51725389 TCTGTTTTACAA
66 TCTGTTTTACAA
* * * * * **
51725401 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
51725466 TCTGTTTT
66 TCTGTTTT
51725474 TAATGTTTAG
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
76 37 0.59
77 26 0.41
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (77 bp):
AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
TCTGTTTTACAA
Found at i:51726165 original size:30 final size:30
Alignment explanation
Indices: 51726129--51726197 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
51726119 CTAGCCTTTG
51726129 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
51726159 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
51726189 CCACCACCA
1 CCACCACCA
51726198 CTTGTACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:51726706 original size:22 final size:24
Alignment explanation
Indices: 51726657--51726702 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
51726647 TTTTTTTTGT
51726657 TATTATTATATT-TTTTAATATTA
1 TATTATTATATTCTTTTAATATTA
51726680 TATTATATATATTCTTTTAATAT
1 TATTAT-TATATTCTTTTAATAT
51726703 ATTAGGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATTATATTCTTTTAATATTA
Found at i:51726760 original size:25 final size:25
Alignment explanation
Indices: 51726657--51726863 Score: 87
Period size: 23 Copynumber: 8.6 Consensus size: 25
51726647 TTTTTTTTGT
* *
51726657 TATTAT-TATAT-TTTTTAATATTA
1 TATTATGTATATATATTTAATACTA
* * *
51726680 TATTATATATAT-TCTTT--TAATA
1 TATTATGTATATATATTTAATACTA
* * * *
51726702 TATTAGGTATAT-T-CTAAATCCTA
1 TATTATGTATATATATTTAATACTA
*
51726725 TATTACGTATATATA-TT-ATACTA
1 TATTATGTATATATATTTAATACTA
* *
51726748 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATATTTAATACTA
* * **
51726773 TATTATTTATATATTTTTTTCTACATGTTA
1 TATTATGTATATA---TATT-TA-ATACTA
*
51726803 TCTTATGTATATAT-TTTAAT--TA
1 TATTATGTATATATATTTAATACTA
* * * *
51726825 TATTATGTATGTATTTTTTACACTA
1 TATTATGTATATATATTTAATACTA
*
51726850 TATTATGTACATAT
1 TATTATGTATATAT
51726864 TTTTTATTCT
Statistics
Matches: 142, Mismatches: 27, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 29 0.20
23 41 0.29
24 15 0.11
25 33 0.23
26 2 0.01
27 1 0.01
28 3 0.02
29 2 0.01
30 15 0.11
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
TATTATGTATATATATTTAATACTA
Found at i:51726825 original size:22 final size:22
Alignment explanation
Indices: 51726800--51726866 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 22
51726790 TTTCTACATG
*
51726800 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
51726822 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
51726847 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
51726867 TTATTCTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:51732793 original size:47 final size:47
Alignment explanation
Indices: 51732664--51732794 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 47
51732654 TAGCCCAGCC
*
51732664 ATGGTCTTATATGG-ATCACATATCACACTGATGCCATATCCAAGAT
1 ATGGTCTTATACGGAATCACATATCACACTGATGCCATATCCAAGAT
* * * * * * *
51732710 ATGGTCTTACACAGAAGCATATATCACACCGATGCCATATCCCATAT
1 ATGGTCTTATACGGAATCACATATCACACTGATGCCATATCCAAGAT
*
51732757 ATGGTCTTATACGGAAATCACATATCACA-TGTTGCCAT
1 ATGGTCTTATACGG-AATCACATATCACACTGATGCCAT
51732795 GGTCCACCCA
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
46 11 0.16
47 46 0.67
48 12 0.17
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (47 bp):
ATGGTCTTATACGGAATCACATATCACACTGATGCCATATCCAAGAT
Found at i:51741132 original size:41 final size:41
Alignment explanation
Indices: 51741057--51741134 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
51741047 ATAAAAATTT
* *
51741057 ATTTATTTAAGTTAAATTAATGGATTAATTAACTATAATAA
1 ATTTATTTAACTTAAATTAATGGATTAATAAACTATAATAA
*
51741098 ATTTAATTTAACTTAAA-TAATGGCTTTAA-AAACTATA
1 ATTT-ATTTAACTTAAATTAATGG-ATTAATAAACTATA
51741135 GAAATTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 17 0.53
42 15 0.47
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.42
Consensus pattern (41 bp):
ATTTATTTAACTTAAATTAATGGATTAATAAACTATAATAA
Found at i:51742410 original size:25 final size:26
Alignment explanation
Indices: 51742382--51742431 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
51742372 TTTATTCATG
51742382 TTGTTTCAA-TCTTTTTATTTTAATT
1 TTGTTTCAACTCTTTTTATTTTAATT
*
51742407 TTGTTTCAAGCTTTTTTTATTTTAA
1 TTGTTTCAA-CTCTTTTTATTTTAA
51742432 CTTCAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
27 13 0.59
ACGTcount: A:0.20, C:0.08, G:0.06, T:0.66
Consensus pattern (26 bp):
TTGTTTCAACTCTTTTTATTTTAATT
Found at i:51742965 original size:72 final size:72
Alignment explanation
Indices: 51742818--51742982 Score: 165
Period size: 71 Copynumber: 2.3 Consensus size: 72
51742808 TGTATTTACT
* * * * * *
51742818 AAAAATAATGATATTTGAAATAATTAATTAATTTTATAATTTTATAATTTTCCATACCCATAATG
1 AAAAATAATGATATTTGAAATAATTAATTAATTTTATAATATTAGAATTTACAATACCCACAATA
*
51742883 TAGGTGA
66 TAGGTAA
* ** ** * *
51742890 AAAAACAATGATATTTGAAATAA-TGGTTTTTTTTATAATATTAGAATTTACAATATCCACGATA
1 AAAAATAATGATATTTGAAATAATTAATTAATTTTATAATATTAGAATTTACAATACCCACAATA
51742954 TAGGTAAA
66 TAGGT-AA
*
51742962 AAAAATAA--AAATTTGAAATAA
1 AAAAATAATGATATTTGAAATAA
51742983 AAATATAAAT
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
70 12 0.16
71 34 0.45
72 30 0.39
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (72 bp):
AAAAATAATGATATTTGAAATAATTAATTAATTTTATAATATTAGAATTTACAATACCCACAATA
TAGGTAA
Found at i:51747208 original size:22 final size:21
Alignment explanation
Indices: 51747183--51747233 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
51747173 AGGTTAAATA
*
51747183 ATTATTTTGTTATGGTTTTATT
1 ATTATTTT-ATATGGTTTTATT
*
51747205 ATTATTATTATATGTTTTTATT
1 ATTATT-TTATATGGTTTTATT
*
51747227 TTTATTT
1 ATTATTT
51747234 GGTTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.88
23 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.71
Consensus pattern (21 bp):
ATTATTTTATATGGTTTTATT
Found at i:51747908 original size:21 final size:22
Alignment explanation
Indices: 51747879--51747919 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
51747869 GAGTTACACG
51747879 GGCTGTCCACACGGGCGTGTCA
1 GGCTGTCCACACGGGCGTGTCA
* *
51747901 GGCT-TCCACATGGGTGTGT
1 GGCTGTCCACACGGGCGTGT
51747920 AGACCCCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.12, C:0.27, G:0.37, T:0.24
Consensus pattern (22 bp):
GGCTGTCCACACGGGCGTGTCA
Found at i:51748261 original size:14 final size:14
Alignment explanation
Indices: 51748239--51748273 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
51748229 TTGGGTATCC
* *
51748239 GCATGCATACCTCT
1 GCATACATACATCT
51748253 GCATACATACATCT
1 GCATACATACATCT
51748267 GCATACA
1 GCATACA
51748274 AAGCTTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.26
Consensus pattern (14 bp):
GCATACATACATCT
Found at i:51759573 original size:30 final size:30
Alignment explanation
Indices: 51759538--51759597 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
51759528 TATTTTATTA
51759538 TTAATTTTGTTATTATTTTAAAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGTATTTG
*
51759568 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGTATTTG
51759598 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGTATTTG
Found at i:51766761 original size:161 final size:161
Alignment explanation
Indices: 51766570--51766884 Score: 522
Period size: 161 Copynumber: 2.0 Consensus size: 161
51766560 CTATCCATAT
* * * *
51766570 TTACTTTTAGAGGATATAAAATTTATTACAATGCCTCTATGATTCTGGGGTACCAAATTTGTTAT
1 TTACTTTCAGAGGATATAAAATTCATTACAATGCCTCCATGATTCTAGGGTACCAAATTTGTTAT
* *
51766635 TTCTTATTAACTTACATATAATTTACCTTAGAATTTAACAAACACAAATATGAGTTGCAATGAAA
66 TTCTTATTAACTTACATACAATTTACCTTAGAATGTAACAAACACAAATATGAGTTGCAATGAAA
*
51766700 ATTTGTGGTTTCTTATTAACTTACTGCCTTG
131 ATTTGTAGTTTCTTATTAACTTACTGCCTTG
* *
51766731 TTACTTTCAGGGGATATAAAATTCATTACAATGCCTCCATGATTTTAGGGTACCAAATTTGTTAT
1 TTACTTTCAGAGGATATAAAATTCATTACAATGCCTCCATGATTCTAGGGTACCAAATTTGTTAT
* * *
51766796 TTTTTATTAACTTACGTACAATTTACCTTAGAATGTAACAAACATAAATATGAGTTGCAATGAAA
66 TTCTTATTAACTTACATACAATTTACCTTAGAATGTAACAAACACAAATATGAGTTGCAATGAAA
51766861 ATTTGTAGTTTCTTATTAACTTAC
131 ATTTGTAGTTTCTTATTAACTTAC
51766885 GTACAATTTA
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
161 142 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (161 bp):
TTACTTTCAGAGGATATAAAATTCATTACAATGCCTCCATGATTCTAGGGTACCAAATTTGTTAT
TTCTTATTAACTTACATACAATTTACCTTAGAATGTAACAAACACAAATATGAGTTGCAATGAAA
ATTTGTAGTTTCTTATTAACTTACTGCCTTG
Found at i:51766906 original size:74 final size:74
Alignment explanation
Indices: 51766785--51766947 Score: 229
Period size: 74 Copynumber: 2.2 Consensus size: 74
51766775 TTAGGGTACC
* * * *
51766785 AAATTTGTTATTTTTTATTAACTTACGTACAATTTACCTTAGAATGTAACAAACATAAATATGAG
1 AAATTTGTTATTTCTTATTAACTTACGTACAATTTAACTTAAAATGTAACAAACACAAATATGAG
*
51766850 TTGCAATGA
66 TTACAATGA
* * *
51766859 AAATTTG-TAGTTTCTTATTAACTTACGTACAATTTAAGTTAAAATGTAACAAAGACAAATATGG
1 AAATTTGTTA-TTTCTTATTAACTTACGTACAATTTAACTTAAAATGTAACAAACACAAATATGA
51766923 GTTACAATGA
65 GTTACAATGA
*
51766933 AAATTTATTATTTCT
1 AAATTTGTTATTTCT
51766948 ATGTTGATGT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
73 2 0.03
74 74 0.95
75 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (74 bp):
AAATTTGTTATTTCTTATTAACTTACGTACAATTTAACTTAAAATGTAACAAACACAAATATGAG
TTACAATGA
Found at i:51772410 original size:2 final size:2
Alignment explanation
Indices: 51772403--51772432 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
51772393 ATAATTAACA
51772403 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51772433 TACTAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51773853 original size:19 final size:19
Alignment explanation
Indices: 51773816--51773853 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
51773806 TATACAACAC
**
51773816 AATGAATACAACACTAATA
1 AATGAATACAACAAAAATA
51773835 AATGAATACAACAAAAATA
1 AATGAATACAACAAAAATA
51773854 TCTAGAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.13, G:0.05, T:0.18
Consensus pattern (19 bp):
AATGAATACAACAAAAATA
Found at i:51781873 original size:41 final size:41
Alignment explanation
Indices: 51781828--51781909 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
51781818 GATCTGATAT
*
51781828 TTTACATTTTATTTATTGGTACTTTATTGCAATATAAAAAA
1 TTTACATTTTATTTATTGGTACTTTATTACAATATAAAAAA
51781869 TTTACATTTTATTTATTGGTACTTTATTACAATATAAAAAA
1 TTTACATTTTATTTATTGGTACTTTATTACAATATAAAAAA
51781910 AATACTTCCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (41 bp):
TTTACATTTTATTTATTGGTACTTTATTACAATATAAAAAA
Found at i:51787627 original size:26 final size:26
Alignment explanation
Indices: 51787598--51787705 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
51787588 TGGTACAAAT
51787598 TGATAATAGG-TTAGGTAAATGTTCCA
1 TGATAAT-GGATTAGGTAAATGTTCCA
*
51787624 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
51787650 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
51787676 TAATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
51787702 TGAT
1 TGAT
51787706 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 2 0.03
26 73 0.97
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:51793737 original size:26 final size:26
Alignment explanation
Indices: 51793708--51793789 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
51793698 TGGTACAAAT
*
51793708 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
51793734 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
51793760 TAATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
51793786 TGAT
1 TGAT
51793790 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:51799579 original size:55 final size:55
Alignment explanation
Indices: 51799512--51799768 Score: 252
Period size: 55 Copynumber: 4.8 Consensus size: 55
51799502 ATTAGGGTTT
*
51799512 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTCTCTAAGGC
* * * * * *
51799567 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT-CTCTAAGGC
* * *
51799622 AAAGG-T-CTCATGTAAGACCATGCCATGGCATGGC-ATTGGTGA-GT-TCATAAGGC
1 -AAGGATAC-CATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTCTC-TAAGGC
* *
51799675 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAA-GTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTCTCTAAGGC
* * *
51799724 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT
51799769 ACCCGCGTAT
Statistics
Matches: 170, Mismatches: 23, Indels: 23
0.79 0.11 0.11
Matches are distributed among these distances:
49 39 0.23
50 2 0.01
52 7 0.04
53 37 0.22
54 14 0.08
55 67 0.39
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTCTCTAAGGC
Found at i:51799697 original size:108 final size:110
Alignment explanation
Indices: 51799520--51799719 Score: 316
Period size: 108 Copynumber: 1.8 Consensus size: 110
51799510 TTAAGGATAC
*
51799520 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGAC
*
51799585 CATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCT
66 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
* * *
51799630 CATGTAAGACCATGCCATGGCATGGC-ATTGGTGA-GT-TCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTC-TAAGGCAAGGAAACCATGTAAGA
*
51799692 CCATGTCAAGACATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
51799720 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 2 0.02
108 49 0.59
109 7 0.08
110 25 0.30
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
Found at i:51806558 original size:108 final size:110
Alignment explanation
Indices: 51806362--51806559 Score: 287
Period size: 108 Copynumber: 1.8 Consensus size: 110
51806352 AAGGATACCG
* *
51806362 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGTAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGACCA
* *
51806427 TGTAATTACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTAATGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* *
51806472 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GT-TCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTC-TAAGGCAAGGAAACCATGTAAGACC
*
51806534 ATGTCAA-GACATGGCAATGGTAAGTT
65 ATGT-AATGACATGGCAATGATAAGTT
51806560 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
107 2 0.03
108 44 0.56
109 9 0.11
110 24 0.30
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGACCA
TGTAATGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:51806819 original size:16 final size:16
Alignment explanation
Indices: 51806798--51806828 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51806788 ATAAATTTGA
51806798 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
51806814 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
51806829 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:51840758 original size:6 final size:6
Alignment explanation
Indices: 51840747--51840773 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
51840737 TTAGCCTCTG
51840747 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
51840774 TAAATAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:51851382 original size:181 final size:181
Alignment explanation
Indices: 51851078--51851620 Score: 989
Period size: 181 Copynumber: 3.0 Consensus size: 181
51851068 GTATAAGGTT
*
51851078 TTGGAAAATGTTGATTCCTTCTAGTTAAACCTAGACAAAAAAAGTCACCCAAGTCCCTATTGACT
1 TTGGAAAATGTTGATTCATTCTAGTTAAACCTAGACAAAAAAAGTCACCCAAGTCCCTATTGACT
51851143 CCAGAAAGGTGAGTCATCATGGACCTAAGAAAACAAAAATCATTGTTGACTCGAAAAAACCTCAT
66 CCAGAAAGGTGAGTCATCATGGACCTAAGAAAACAAAAATCATTGTTGACTCGAAAAAACCTCAT
*
51851208 TCAAAAGAGGAACCAAGGGAAAAATCTTTGACCTAATTGTTGTTCCAAGCA
131 TCAAAAGAGGAACCAAGGGAAAAATCTTTGACCTAATTATTGTTCCAAGCA
*
51851259 TTGGAAAATGTTGATTCATTCTAGTTAAACCTAGACAAAAAAAGTCACCCAAGTCCTTATTGACT
1 TTGGAAAATGTTGATTCATTCTAGTTAAACCTAGACAAAAAAAGTCACCCAAGTCCCTATTGACT
*
51851324 CCAGAAAGGTGAGTCATCAAGGACCTAAGAAAACAAAAATCATTGTTGACTCGAAAAAACCTCAT
66 CCAGAAAGGTGAGTCATCATGGACCTAAGAAAACAAAAATCATTGTTGACTCGAAAAAACCTCAT
*
51851389 TCAAAAGAGGAACCAAGGGAAAATTCTTTGACCTAATTATTGTTCCAAGCA
131 TCAAAAGAGGAACCAAGGGAAAAATCTTTGACCTAATTATTGTTCCAAGCA
51851440 TTGGAAAATGTTGATTCATTCTAGTTAAACCTAGACAAAAAAAGTCACCCAAGTCCCTATTGACT
1 TTGGAAAATGTTGATTCATTCTAGTTAAACCTAGACAAAAAAAGTCACCCAAGTCCCTATTGACT
* *
51851505 CTA-AAGAGGTGAGTCATCATGAACCTAAGAAAACAAAAATCATTGTTGACTCGAAAAAACCTCA
66 CCAGAA-AGGTGAGTCATCATGGACCTAAGAAAACAAAAATCATTGTTGACTCGAAAAAACCTCA
* *
51851569 TTCAAAAGAGGAACCAAGGGAAAAGTCTTTAACCTAATTATTGTTCCAAGCA
130 TTCAAAAGAGGAACCAAGGGAAAAATCTTTGACCTAATTATTGTTCCAAGCA
51851621 ATCACTTCCA
Statistics
Matches: 350, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
180 2 0.01
181 348 0.99
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (181 bp):
TTGGAAAATGTTGATTCATTCTAGTTAAACCTAGACAAAAAAAGTCACCCAAGTCCCTATTGACT
CCAGAAAGGTGAGTCATCATGGACCTAAGAAAACAAAAATCATTGTTGACTCGAAAAAACCTCAT
TCAAAAGAGGAACCAAGGGAAAAATCTTTGACCTAATTATTGTTCCAAGCA
Found at i:51853350 original size:8 final size:8
Alignment explanation
Indices: 51853339--51853390 Score: 81
Period size: 8 Copynumber: 6.8 Consensus size: 8
51853329 ATATATTAAT
51853339 TTATATTA
1 TTATATTA
51853347 TTATATTA
1 TTATATTA
51853355 TTATATTA
1 TTATATTA
*
51853363 TTACATTA
1 TTATATTA
51853371 -TATA-TA
1 TTATATTA
51853377 TTATATTA
1 TTATATTA
51853385 TTATAT
1 TTATAT
51853391 ATATAAGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 2 0.05
7 7 0.17
8 31 0.77
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (8 bp):
TTATATTA
Found at i:51853424 original size:8 final size:8
Alignment explanation
Indices: 51853411--51853437 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
51853401 AACAAATGAA
51853411 AAAGAAAC
1 AAAGAAAC
51853419 AAAGAAAC
1 AAAGAAAC
51853427 AAAGAAAC
1 AAAGAAAC
51853435 AAA
1 AAA
51853438 ATAGGTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.11, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAGAAAC
Found at i:51854497 original size:58 final size:58
Alignment explanation
Indices: 51854401--51854518 Score: 164
Period size: 58 Copynumber: 2.0 Consensus size: 58
51854391 AAATTTAGTG
* * * *
51854401 ATTGGTAGCAATTCCGCATAAGTTGTGGGCTACCGTAGCTTTGTGTAAGCATTGATGT
1 ATTGGTAGCAATTCCGCATAAGTTGCGGACTACCGTAGCTCTGTGTAAGCATTGAAGT
* ** *
51854459 ATTGGTAGTAATTCCGCATAAGTTGCGGACTATTGTAGCTCTGTGTGAGCATTGAAGT
1 ATTGGTAGCAATTCCGCATAAGTTGCGGACTACCGTAGCTCTGTGTAAGCATTGAAGT
51854517 AT
1 AT
51854519 ATGATTTACC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (58 bp):
ATTGGTAGCAATTCCGCATAAGTTGCGGACTACCGTAGCTCTGTGTAAGCATTGAAGT
Found at i:51859279 original size:8 final size:8
Alignment explanation
Indices: 51859266--51859293 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
51859256 AATTATATGT
51859266 ATTTTGTG
1 ATTTTGTG
51859274 ATTTTGTG
1 ATTTTGTG
51859282 ATTTTGTG
1 ATTTTGTG
51859290 ATTT
1 ATTT
51859294 AGGGAGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.21, T:0.64
Consensus pattern (8 bp):
ATTTTGTG
Found at i:51863335 original size:16 final size:16
Alignment explanation
Indices: 51863316--51863346 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51863306 CTTCTTCACT
51863316 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
51863332 TACTTACTTACTTAA
1 TACTCACTTACTTAA
51863347 TCAAATTCAC
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:51863352 original size:20 final size:20
Alignment explanation
Indices: 51863313--51863352 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
51863303 AAACTTCTTC
* *
51863313 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
51863333 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
51863353 TCACTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:51863672 original size:53 final size:54
Alignment explanation
Indices: 51863582--51863797 Score: 249
Period size: 55 Copynumber: 4.0 Consensus size: 54
51863572 TACGTGGTAT
* * * *
51863582 CCTTTTGAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCC-TTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTTG
* * *
51863636 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTTG
* * * *
51863689 CCTTATAGTAACTTATCAATGCTATGTCTTGACATGGTCTTACATGGTACCTTTG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTTG
* *
51863744 CCTTA-GAAACCTTACCAATTGCCATGCCTTGGCATTGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
51863798 AAACCCTAAT
Statistics
Matches: 137, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
52 2 0.01
53 46 0.34
54 14 0.10
55 71 0.52
56 4 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTTG
Found at i:51863734 original size:108 final size:110
Alignment explanation
Indices: 51863590--51863790 Score: 302
Period size: 108 Copynumber: 1.8 Consensus size: 110
51863580 ATCCTTTTGA
*
51863590 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCC-TTGCCTTATG-AA-CTCACCA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTA-CCTTTGCCTTA-GAAACCTCACCA
51863652 A-TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
64 ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
51863698 AACTTATCAATGCTATGTCTTGACATGGTCTTACATGGTACCTTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTACCTTTGCCTTAGAAACCTCACCAAT
*
51863763 TGCCATGCCTTGGCATTGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
51863791 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
107 3 0.04
108 46 0.55
109 7 0.08
110 27 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTACCTTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:51865378 original size:93 final size:93
Alignment explanation
Indices: 51865266--51865437 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
51865256 GCCCATAAGC
* *
51865266 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
51865331 CTAGCTCGGATGCCTAGTTACATCTCAA
66 CGAGCTCGGATGCCTAGTTACATCTCAA
* *
51865359 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
51865424 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
51865438 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAA
Found at i:51865433 original size:46 final size:46
Alignment explanation
Indices: 51865258--51865433 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
51865248 TGTAACCCGC
* * *
51865258 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
51865304 CCATAAGTGAACTCAGACTCAACTCAACTAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
*
51865354 -C-TCAA--GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCAT-AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
51865397 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
51865434 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 4 0.04
45 1 0.01
46 62 0.57
47 26 0.24
48 1 0.01
49 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:51867563 original size:22 final size:23
Alignment explanation
Indices: 51867538--51867583 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
51867528 CAACCAAATC
51867538 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
51867560 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
51867583 A
1 A
51867584 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:51867589 original size:23 final size:23
Alignment explanation
Indices: 51867545--51867589 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
51867535 ATCAATTCAA
*
51867545 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
51867568 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
51867590 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:51871924 original size:20 final size:20
Alignment explanation
Indices: 51871899--51871944 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
51871889 CTAGCTCATA
51871899 ATCTTTAATCAAA-TCTAGCC
1 ATCTTTAAT-AAACTCTAGCC
51871919 ATCTTTAATAAACTCTAGCC
1 ATCTTTAATAAACTCTAGCC
51871939 ATCTTT
1 ATCTTT
51871945 GCCTCAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (20 bp):
ATCTTTAATAAACTCTAGCC
Found at i:51876728 original size:55 final size:54
Alignment explanation
Indices: 51876504--51876758 Score: 217
Period size: 55 Copynumber: 4.8 Consensus size: 54
51876494 ACATGGCTAC
* * * *
51876504 CTTACC-ATTTCCATGACTTGTCATGGGCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGACTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
51876553 CTTGCC-ATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGACTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * *
51876606 -TTCATCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTT-ACCAATTGCCATGACTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * *
51876661 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGGTGTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGACTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* **
51876714 CCTTACCAATTGCCATGACTTGGCATGAACTTACATGGTATCCTT
1 -CTTACCAATTGCCATGACTTGACATGGTCTTACATGGTATCCTT
51876759 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
49 36 0.22
52 6 0.04
53 39 0.23
54 12 0.07
55 70 0.42
56 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGACTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:51882534 original size:8 final size:8
Alignment explanation
Indices: 51882516--51882548 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
51882506 AAGCAAATTA
51882516 TGTGTATTT
1 TGTG-ATTT
51882525 TGTGATTT
1 TGTGATTT
51882533 TGTGATTT
1 TGTGATTT
51882541 TGTGATTT
1 TGTGATTT
51882549 AGGGAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 20 0.83
9 4 0.17
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (8 bp):
TGTGATTT
Found at i:51882958 original size:26 final size:26
Alignment explanation
Indices: 51882929--51882982 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
51882919 ATACCGACTT
51882929 AGCTTCCGCTAATTGAGATGGCACTA
1 AGCTTCCGCTAATTGAGATGGCACTA
51882955 AGCTTCCGCTAATTGAGATGGCACTA
1 AGCTTCCGCTAATTGAGATGGCACTA
51882981 AG
1 AG
51882983 TGTGCGGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (26 bp):
AGCTTCCGCTAATTGAGATGGCACTA
Found at i:51885945 original size:24 final size:24
Alignment explanation
Indices: 51885917--51885963 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
51885907 CTATTAAAAC
51885917 GTGATTGATAATTAATCATTAATG
1 GTGATTGATAATTAATCATTAATG
* *
51885941 GTGATTGTTTATTAATCATTAAT
1 GTGATTGATAATTAATCATTAAT
51885964 TTTTTATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
GTGATTGATAATTAATCATTAATG
Found at i:51886352 original size:13 final size:13
Alignment explanation
Indices: 51886334--51886360 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51886324 TATATAATCG
51886334 TGTGTATATATAT
1 TGTGTATATATAT
51886347 TGTGTATATATAT
1 TGTGTATATATAT
51886360 T
1 T
51886361 ATATGCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (13 bp):
TGTGTATATATAT
Found at i:51887160 original size:23 final size:23
Alignment explanation
Indices: 51887134--51887178 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
51887124 TATACTAAAT
**
51887134 ATATATATTTTTTATTTTTAATC
1 ATATATACATTTTATTTTTAATC
*
51887157 ATATTTACATTTTATTTTTAAT
1 ATATATACATTTTATTTTTAAT
51887179 TTTAACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATACATTTTATTTTTAATC
Found at i:51892350 original size:20 final size:21
Alignment explanation
Indices: 51892325--51892369 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
51892315 AATTCAAAAA
51892325 TTTTTATAAA-TATTTTG-AAT
1 TTTTTA-AAATTATTTTGCAAT
51892345 TTTTTAAAATTATTTTGCAAT
1 TTTTTAAAATTATTTTGCAAT
51892366 TTTT
1 TTTT
51892370 GTTGAAAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.13
20 13 0.57
21 7 0.30
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTTAAAATTATTTTGCAAT
Found at i:51894540 original size:3 final size:3
Alignment explanation
Indices: 51894532--51894569 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
51894522 TATGTTAACT
51894532 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
51894570 GGTAGGTAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:51895869 original size:134 final size:134
Alignment explanation
Indices: 51895629--51895896 Score: 527
Period size: 134 Copynumber: 2.0 Consensus size: 134
51895619 TGGAGACATT
51895629 ATTAACTAACATTAGATAAAAATACCCGATCAGCAAATAAACTCTCCTTTTTGTTTGTTTTGAAT
1 ATTAACTAACATTAGATAAAAATACCCGATCAGCAAATAAACTCTCCTTTTTGTTTGTTTTGAAT
51895694 AACGCCAATTGGAACTCCTCCTGTCAAATAGTAATACAAATAAAACTTAAATACTACAAATATGA
66 AACGCCAATTGGAACTCCTCCTGTCAAATAGTAATACAAATAAAACTTAAATACTACAAATATGA
51895759 GAGG
131 GAGG
51895763 ATTAACTAACATTAGATAAAAATACCCGATCAGCAAATAAACTCTCCTTTTTGTTTGTTTTGAAT
1 ATTAACTAACATTAGATAAAAATACCCGATCAGCAAATAAACTCTCCTTTTTGTTTGTTTTGAAT
*
51895828 AACGCCAATTGGAACTCCTCCTGTCAAATAGTAATACAAATAAAAGTTAAATACTACAAATATGA
66 AACGCCAATTGGAACTCCTCCTGTCAAATAGTAATACAAATAAAACTTAAATACTACAAATATGA
51895893 GAGG
131 GAGG
51895897 GAAAGAACCA
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 133 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.30
Consensus pattern (134 bp):
ATTAACTAACATTAGATAAAAATACCCGATCAGCAAATAAACTCTCCTTTTTGTTTGTTTTGAAT
AACGCCAATTGGAACTCCTCCTGTCAAATAGTAATACAAATAAAACTTAAATACTACAAATATGA
GAGG
Found at i:51911311 original size:25 final size:27
Alignment explanation
Indices: 51911253--51911312 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
51911243 TTTTAAAATG
51911253 TTAATGAATAATTATGTTAGTTATATCT
1 TTAATG-ATAATTATGTTAGTTATATCT
* * *
51911281 TAAATGATTATTATG-T-GTTATATGT
1 TTAATGATAATTATGTTAGTTATATCT
51911306 TTAATGA
1 TTAATGA
51911313 GATTAAATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 14 0.50
26 1 0.04
27 8 0.29
28 5 0.18
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (27 bp):
TTAATGATAATTATGTTAGTTATATCT
Found at i:51911316 original size:27 final size:29
Alignment explanation
Indices: 51911253--51911317 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 29
51911243 TTTTAAAATG
*
51911253 TTAATGA-ATAATTATGTTAGTTATATCT
1 TTAATGAGATTATTATGTTAGTTATATCT
* *
51911281 TAAAT--GATTATTATG-T-GTTATATGT
1 TTAATGAGATTATTATGTTAGTTATATCT
51911306 TTAATGAGATTA
1 TTAATGAGATTA
51911318 AATGATTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
25 12 0.40
26 1 0.03
27 13 0.43
28 4 0.13
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (29 bp):
TTAATGAGATTATTATGTTAGTTATATCT
Found at i:51919597 original size:68 final size:67
Alignment explanation
Indices: 51919525--51919674 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
51919515 CATCATGTGT
* * * *
51919525 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
51919587 ATGTAG
62 ATGTAG
** * *
51919593 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
51919658 AG
66 AG
51919660 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
51919675 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:51919630 original size:64 final size:64
Alignment explanation
Indices: 51919549--51919732 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
51919539 AGACATTATG
* *
51919549 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
51919613 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
51919678 AA
63 AA
* * * *
51919680 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
51919733 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:51922925 original size:11 final size:11
Alignment explanation
Indices: 51922909--51922934 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
51922899 GGACGAAAGA
51922909 TATTCTGCAGT
1 TATTCTGCAGT
51922920 TATTCTGCAGT
1 TATTCTGCAGT
51922931 TATT
1 TATT
51922935 ATCTTGACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (11 bp):
TATTCTGCAGT
Found at i:51939187 original size:43 final size:43
Alignment explanation
Indices: 51939126--51939212 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
51939116 AGGAAGTGAA
*
51939126 TTAGTCATCATATTTGCAGGATTTTCATAAGTACTAATTTTGC
1 TTAGTCATCATATCTGCAGGATTTTCATAAGTACTAATTTTGC
*
51939169 TTAGTCATCATATCTGCAGGATTTTCATGAGTACTAATTTTGC
1 TTAGTCATCATATCTGCAGGATTTTCATAAGTACTAATTTTGC
51939212 T
1 T
51939213 CACAACAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (43 bp):
TTAGTCATCATATCTGCAGGATTTTCATAAGTACTAATTTTGC
Found at i:51945542 original size:17 final size:17
Alignment explanation
Indices: 51945520--51945572 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
51945510 AAGGCCAATC
51945520 TGGGTGTGTGGGCTACA
1 TGGGTGTGTGGGCTACA
51945537 TGGGTGTGTGGGCTACA
1 TGGGTGTGTGGGCTACA
* * *
51945554 CGGGCGTGTAGGCCTACA
1 TGGGTGTGT-GGGCTACA
51945572 T
1 T
51945573 AGGCAAGCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 24 0.77
18 7 0.23
ACGTcount: A:0.13, C:0.17, G:0.43, T:0.26
Consensus pattern (17 bp):
TGGGTGTGTGGGCTACA
Found at i:51948373 original size:16 final size:16
Alignment explanation
Indices: 51948345--51948377 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51948335 TCTATTTTGA
51948345 AAATTGTATAAAATAT
1 AAATTGTATAAAATAT
51948361 AAATT-TATAAAAATAT
1 AAATTGTAT-AAAATAT
51948377 A
1 A
51948378 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
AAATTGTATAAAATAT
Found at i:51948374 original size:10 final size:10
Alignment explanation
Indices: 51948361--51948392 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
51948351 TATAAAATAT
*
51948361 AAATTTATAA
1 AAATATATAA
51948371 AAATATATAA
1 AAATATATAA
51948381 AAATATATAA
1 AAATATATAA
51948391 AA
1 AA
51948393 GAATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATATATAA
Found at i:51968235 original size:47 final size:47
Alignment explanation
Indices: 51968109--51968286 Score: 200
Period size: 47 Copynumber: 3.8 Consensus size: 47
51968099 ATAATTTCAC
* *
51968109 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* * * *
51968155 CCATAATGAACTCGGAACACAACTCAACAAGTTCGAATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* * * *
51968201 CCATAAGTGAACTCAGAACGCAACTCGACGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCA-CAT
* * *
51968250 TC-TCACGAACTCGGAACGCAACTCAACGAGTTCGGAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGAT
51968287 CTCAATTTCC
Statistics
Matches: 109, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
46 43 0.39
47 61 0.56
48 2 0.02
49 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
Found at i:51972044 original size:79 final size:82
Alignment explanation
Indices: 51971933--51972117 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
51971923 GCTACTCGTT
* * *
51971933 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
51971996 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
51972013 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
51972076 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
51972093 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51972118 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:51972117 original size:40 final size:40
Alignment explanation
Indices: 51971914--51972117 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
51971904 CGGAATTTAA
** *
51971914 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
51971954 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
51971994 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
51972033 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
51972073 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
51972113 CCGGA
1 CCGGA
51972118 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:51976340 original size:47 final size:47
Alignment explanation
Indices: 51976277--51976390 Score: 183
Period size: 47 Copynumber: 2.4 Consensus size: 47
51976267 CCCTTCGGGA
* *
51976277 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGC
*
51976324 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGC
* *
51976371 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
51976391 GTACATCAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGC
Found at i:51977020 original size:20 final size:20
Alignment explanation
Indices: 51976995--51977034 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
51976985 CCACGGTCTC
51976995 TTTTATAAGAAACTAGACTA
1 TTTTATAAGAAACTAGACTA
51977015 TTTTATAAGAAACTAGACTA
1 TTTTATAAGAAACTAGACTA
51977035 ACTAAGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
TTTTATAAGAAACTAGACTA
Found at i:51978800 original size:40 final size:40
Alignment explanation
Indices: 51978678--51978800 Score: 129
Period size: 40 Copynumber: 3.1 Consensus size: 40
51978668 AGCTTAAAAC
* * * * *
51978678 CCGGGTTAATACCTGAAGGCAATTGTGCTAGTGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * * * *
51978718 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
51978758 CCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
51978798 CCG
1 CCG
51978801 ACTAAATTCT
Statistics
Matches: 64, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:51986709 original size:40 final size:40
Alignment explanation
Indices: 51986651--51986860 Score: 237
Period size: 40 Copynumber: 5.3 Consensus size: 40
51986641 ATTTGAATGA
* *
51986651 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
51986691 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
51986731 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * * * *
51986771 TATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * * *
51986810 AATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
51986850 TATCC-GGCTAA
1 TATCCGGGCTAA
51986861 ATTCCGAAGA
Statistics
Matches: 138, Mismatches: 29, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
39 39 0.28
40 97 0.70
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:51986790 original size:80 final size:78
Alignment explanation
Indices: 51986654--51986869 Score: 308
Period size: 80 Copynumber: 2.7 Consensus size: 78
51986644 TGAATGATAT
* *
51986654 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGATCCGAAGGCATTTG
*
51986719 TGCGAGTTGCTATAC
65 TGCGAGTTACTA-AC
*
51986734 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGG-CTAAGATCCGAAGGCATTTG
*
51986799 TGCGAGTTACTAAT
65 TGCGAGTTACTAAC
* * * *
51986813 CCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCCGGCTAA-ATTCCGAAG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGA-TCCGAAG
51986870 AAACTTGGGT
Statistics
Matches: 124, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
77 1 0.01
78 11 0.09
79 42 0.34
80 70 0.56
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGATCCGAAGGCATTTGT
GCGAGTTACTAAC
Found at i:51995427 original size:25 final size:24
Alignment explanation
Indices: 51995389--51995441 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
51995379 ATGTTCAAGC
*
51995389 GAGCCATATTAGGAAACTCACAAA
1 GAGCCATATCAGGAAACTCACAAA
** *
51995413 GAGCCTATATCAGGATGCTCATAAA
1 GAGCC-ATATCAGGAAACTCACAAA
51995438 GAGC
1 GAGC
51995442 TGCGTTTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGGAAACTCACAAA
Found at i:51997853 original size:54 final size:54
Alignment explanation
Indices: 51997784--51997944 Score: 169
Period size: 54 Copynumber: 3.0 Consensus size: 54
51997774 TGTGAGTATC
* * *
51997784 ACATGGCCTAAGACACGGTCGTGTGGATCAAGTCAGAGAGTTACACGGTTTAGT
1 ACATGGCCTAAGACACGGCCGTGTGAAACAAGTCAGAGAGTTACACGGTTTAGT
** * * *
51997838 ACATGGCCTGTGACACGGCCGTGTGAAACAAGTTAGAGAGTTACACGGTTTGGC
1 ACATGGCCTAAGACACGGCCGTGTGAAACAAGTCAGAGAGTTACACGGTTTAGT
* * * ** ** * *
51997892 ACACGGCCTACGACATGGCTATGTGACCCAAGTCAGTGAGTTACATGGTTTAG
1 ACATGGCCTAAGACACGGCCGTGTGAAACAAGTCAGAGAGTTACACGGTTTAG
51997945 GACACGGTTT
Statistics
Matches: 87, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 87 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (54 bp):
ACATGGCCTAAGACACGGCCGTGTGAAACAAGTCAGAGAGTTACACGGTTTAGT
Found at i:52001837 original size:27 final size:28
Alignment explanation
Indices: 52001807--52001869 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
52001797 AAATTAAAAA
*
52001807 CTGTGTCCCTT-CAGGACCATGACACGC
1 CTGTGTCCCTTACACGACCATGACACGC
52001834 CTGTGTCCCTTACACGACCATGACACGC
1 CTGTGTCCCTTACACGACCATGACACGC
52001862 CTGTGTCC
1 CTGTGTCC
52001870 TAGCCTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 11 0.32
28 23 0.68
ACGTcount: A:0.17, C:0.38, G:0.21, T:0.24
Consensus pattern (28 bp):
CTGTGTCCCTTACACGACCATGACACGC
Found at i:52006116 original size:18 final size:19
Alignment explanation
Indices: 52006093--52006137 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
52006083 TCTTCTGTTA
*
52006093 AAAAAAAAGTAAAAAA-C-G
1 AAAAAAAA-CAAAAAATCTG
52006111 AAAAAAAACAAAAAATCTG
1 AAAAAAAACAAAAAATCTG
52006130 AAAAAAAA
1 AAAAAAAA
52006138 AGGGGTGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 9 0.38
19 9 0.38
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.07
Consensus pattern (19 bp):
AAAAAAAACAAAAAATCTG
Found at i:52006116 original size:19 final size:19
Alignment explanation
Indices: 52006092--52006139 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
52006082 TTCTTCTGTT
52006092 AAAAAAAAAGTAAAAAAC-G
1 AAAAAAAAAG-AAAAAACTG
*
52006111 AAAAAAAACA-AAAAATCTG
1 AAAAAAAA-AGAAAAAACTG
52006130 AAAAAAAAAG
1 AAAAAAAAAG
52006140 GGGTGGAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.28
19 17 0.68
20 1 0.04
ACGTcount: A:0.79, C:0.06, G:0.08, T:0.06
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAACTG
Found at i:52006218 original size:3 final size:3
Alignment explanation
Indices: 52006210--52006314 Score: 196
Period size: 3 Copynumber: 35.7 Consensus size: 3
52006200 TACTGCCATG
52006210 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
52006258 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
52006305 G-A GAA GAA GA
1 GAA GAA GAA GA
52006315 GGAGGGTGGC
Statistics
Matches: 100, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
2 4 0.04
3 96 0.96
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:52007123 original size:21 final size:21
Alignment explanation
Indices: 52007078--52007125 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
52007068 TTTTTACTTC
*
52007078 AATAAA-CATTAAAAATAAAT
1 AATAAATCAATAAAAATAAAT
*
52007098 TATAAATCAATAAAAATATAA-
1 AATAAATCAATAAAAATA-AAT
52007119 AATAAAT
1 AATAAAT
52007126 ACAAACATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (21 bp):
AATAAATCAATAAAAATAAAT
Found at i:52010850 original size:17 final size:15
Alignment explanation
Indices: 52010809--52010840 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
52010799 GAATTTTATG
52010809 TTAATTATATATGTA
1 TTAATTATATATGTA
52010824 TTAATTATATATGTA
1 TTAATTATATATGTA
52010839 TT
1 TT
52010841 TTAATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (15 bp):
TTAATTATATATGTA
Found at i:52010869 original size:29 final size:32
Alignment explanation
Indices: 52010803--52010869 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 32
52010793 TAAAAAGAAT
* * *
52010803 TTTATGTTAATTATATATGTATTAATTATATA
1 TTTATTTTAATTATATATGTATAAATTATAAA
*
52010835 TGTATTTTAA-TA-ATAT-TATAAATTATAAA
1 TTTATTTTAATTATATATGTATAAATTATAAA
52010864 TTTATT
1 TTTATT
52010870 ACTTTCTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 2 0.07
32 8 0.27
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (32 bp):
TTTATTTTAATTATATATGTATAAATTATAAA
Found at i:52016418 original size:43 final size:43
Alignment explanation
Indices: 52016352--52016508 Score: 153
Period size: 42 Copynumber: 3.7 Consensus size: 43
52016342 AGCAAGTACA
52016352 ATGCC-ATCGTCCCAGAC-GTGGTCTTACATGTAATTCAATATCG
1 ATGCCTAT-GTCCCAGACAG-GGTCTTACATGTAATTCAATATCG
* * *
52016395 ATGCCTCTATCCCAGACAGGGTCTTACATG-AAATCAGATA-CG
1 ATGCCTATGTCCCAGACAGGGTCTTACATGTAATTCA-ATATCG
* * *
52016437 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCTATGTCCCAGACAGGGTCTTACATGT-AAT-TCAATATCG
* * *
52016481 AAGCCTGTGTCCCAGACACGGTCTTACA
1 ATGCCTATGTCCCAGACAGGGTCTTACA
52016509 CGATATTTCA
Statistics
Matches: 94, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
42 32 0.34
43 28 0.30
44 31 0.33
45 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCTATGTCCCAGACAGGGTCTTACATGTAATTCAATATCG
Found at i:52022472 original size:28 final size:28
Alignment explanation
Indices: 52022417--52022532 Score: 164
Period size: 28 Copynumber: 4.2 Consensus size: 28
52022407 AGCATGGCTG
* * *
52022417 CCAG-AACAGATA-TTGTGACAAAGTCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* * *
52022443 CCAGATACAGATAATTGTGGCAGGGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
52022471 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
52022499 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
52022527 CCAGAA
1 CCAGAA
52022533 CGCTTCCTCC
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 4 0.05
27 7 0.09
28 69 0.86
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:52027308 original size:44 final size:43
Alignment explanation
Indices: 52027182--52027321 Score: 144
Period size: 42 Copynumber: 3.3 Consensus size: 43
52027172 GTCCCAAATG
* * *
52027182 TGGTCTTACATGT-AATTCAATATCGATGCCTCTATCCCAGACA
1 TGGTCTTACACGTAAATTCAA-ATCGATGCCTGTGTCCCAGACA
* * *
52027225 GGGTCTTACATG-AAA-TCAGATACGATGCC-GATGTCCCAGACA
1 TGGTCTTACACGTAAATTCAAAT-CGATGCCTG-TGTCCCAGACA
*
52027267 TGGTCTTACACGTAAATCTCAAATCGAAGCCTGTGTCCCAGACA
1 TGGTCTTACACGTAAAT-TCAAATCGATGCCTGTGTCCCAGACA
*
52027311 CGGTCTTACAC
1 TGGTCTTACAC
52027322 AATATTTCAG
Statistics
Matches: 81, Mismatches: 9, Indels: 13
0.79 0.09 0.13
Matches are distributed among these distances:
41 2 0.02
42 30 0.37
43 16 0.20
44 27 0.33
45 6 0.07
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
TGGTCTTACACGTAAATTCAAATCGATGCCTGTGTCCCAGACA
Found at i:52030386 original size:16 final size:16
Alignment explanation
Indices: 52030349--52030386 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
52030339 GTAGAATATC
52030349 ACATA-AGTACAACTT
1 ACATACAGTACAACTT
* *
52030364 TCTTACAGTACAACTT
1 ACATACAGTACAACTT
52030380 ACATACA
1 ACATACA
52030387 ATTAGGGTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 1
0.78 0.17 0.04
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (16 bp):
ACATACAGTACAACTT
Found at i:52030968 original size:80 final size:82
Alignment explanation
Indices: 52030835--52030999 Score: 271
Period size: 80 Copynumber: 2.0 Consensus size: 82
52030825 GAATACTATG
* *
52030835 TTTAAAAAGTACTAATAAGCTTTGCTATTTAAGAGAACATCATTACAGACTTGTA-T-TATATAT
1 TTTAAAAAGTACAAATAAGCTTTACTATTTAAGAGAACATCATTACAGACTTGTATTATATATAT
*
52030898 ATTCATTTACTTAAGAT
66 ATTCATTTACTTAAAAT
* *
52030915 TTTAAAAAGTACAAATGAGCTTTATTATTTAAGAGAACATCATTACAGACTTGTATTATATATAT
1 TTTAAAAAGTACAAATAAGCTTTACTATTTAAGAGAACATCATTACAGACTTGTATTATATATAT
52030980 ATTCATTTACTTAAAAT
66 ATTCATTTACTTAAAAT
52030997 TTT
1 TTT
52031000 TGTTGTTTGT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 51 0.65
81 1 0.01
82 26 0.33
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.41
Consensus pattern (82 bp):
TTTAAAAAGTACAAATAAGCTTTACTATTTAAGAGAACATCATTACAGACTTGTATTATATATAT
ATTCATTTACTTAAAAT
Done.