Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 180 of 185
Found at i:54701532 original size:23 final size:23
Alignment explanation
Indices: 54701502--54701547 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
54701492 ATGATTTGTT
*
54701502 TTTTAGCGGCGTTTTTTTGTAAG
1 TTTTAGCGGCGTTTTTCTGTAAG
54701525 TTTTAGCGGCGTTTTTCTGTAAG
1 TTTTAGCGGCGTTTTTCTGTAAG
54701548 CGCCGCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.13, C:0.11, G:0.26, T:0.50
Consensus pattern (23 bp):
TTTTAGCGGCGTTTTTCTGTAAG
Found at i:54702293 original size:230 final size:230
Alignment explanation
Indices: 54701889--54702397 Score: 761
Period size: 230 Copynumber: 2.2 Consensus size: 230
54701879 AAGAAAACGG
*
54701889 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTATACAAAACGCCGCAACTATGTTTTCTTTGTTA
1 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAACTATGTTTTCTTTGTTA
* * * ** *
54701954 CGGGAACGGCGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
65 CAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
*
54702019 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCATTTATATATA
130 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATA
* * **
54702084 AACGTCGCAAACTCGAAATGGTGTTACGAAAAATGA
195 AACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
*
54702120 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTCTTTGTTA
1 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAACTATGTTTTCTTTGTTA
*
54702185 CAGAAACGGCATCGTTTT-CAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
65 CAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
* * *
54702249 AAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTTATATATA
130 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATA
*
54702314 AACGCCGCAAAATCGAAATGGTGTTACGGAAAACAA
195 AACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
* *** *
54702350 CGCCGTTTACTTAGTTGGTTTTAGTGGCGCTTTT-ATTAAACGCCGCAA
1 CGCCGTTTTCTTA-TTACATTTAGTGGCG-TTTTAATAAAACGCCGCAA
54702398 ATTTGCATTA
Statistics
Matches: 252, Mismatches: 24, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
230 159 0.63
231 89 0.35
232 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (230 bp):
CGCCGTTTTCTTATTACATTTAGTGGCGTTTTAATAAAACGCCGCAACTATGTTTTCTTTGTTAC
AGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTTA
AAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATAA
ACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
Found at i:54702749 original size:19 final size:19
Alignment explanation
Indices: 54702727--54702770 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
54702717 CAGACATCTC
*
54702727 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* *
54702746 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
54702765 CCCCAA
1 CCCCAA
54702771 CGTAGTCCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.43, G:0.02, T:0.23
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:54704842 original size:39 final size:39
Alignment explanation
Indices: 54704785--54704897 Score: 124
Period size: 37 Copynumber: 2.9 Consensus size: 39
54704775 TACAATTTCT
54704785 TAACTTATATAATATTAAGATAACTTATATAATATTACA
1 TAACTTATATAATATTAAGATAACTTATATAATATTACA
* * * * *
54704824 TAACTTATATCATGTTAAGATAA--AAAATCGA-ATTACA
1 TAACTTATATAATATTAAGATAACTTATAT-AATATTACA
* * *
54704861 TAACTTATATAATATTAATATTACTTTTATAATATTA
1 TAACTTATATAATATTAAGATAACTTATATAATATTA
54704898 AGATCAAATT
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
37 28 0.49
38 2 0.04
39 27 0.47
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.42
Consensus pattern (39 bp):
TAACTTATATAATATTAAGATAACTTATATAATATTACA
Found at i:54704918 original size:57 final size:56
Alignment explanation
Indices: 54704804--54704931 Score: 168
Period size: 57 Copynumber: 2.3 Consensus size: 56
54704794 TAATATTAAG
* *
54704804 ATAACTTATATAATATTACATAACTTATATCATGTTAAGATAAAAAATCGAATTAC
1 ATAACTTATATAATATTACATAACTTATATAATATTAAGATAAAAAATCGAATTAC
* * **
54704860 ATAACTTATATAATATTA-ATATTACTTTTATAATATTAAGATCAAATTTCGAATTAC
1 ATAACTTATATAATATTACATA--ACTTATATAATATTAAGATAAAAAATCGAATTAC
*
54704917 ATAACTTATACAATA
1 ATAACTTATATAATA
54704932 ATAAGGTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
55 3 0.05
56 18 0.29
57 42 0.67
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (56 bp):
ATAACTTATATAATATTACATAACTTATATAATATTAAGATAAAAAATCGAATTAC
Found at i:54704945 original size:37 final size:37
Alignment explanation
Indices: 54704891--54705012 Score: 172
Period size: 37 Copynumber: 3.3 Consensus size: 37
54704881 TTACTTTTAT
* *
54704891 AATATTAAGATCAAATTTCGAATTACATAACTTATAC
1 AATATTAAGATAAAATTTCAAATTACATAACTTATAC
* * * *
54704928 AATAATAAGGTAAAATTTCTAATTACATAACTTACAC
1 AATATTAAGATAAAATTTCAAATTACATAACTTATAC
* *
54704965 AATATTAAGATAAAATTCCAAATTACATAACTTATAT
1 AATATTAAGATAAAATTTCAAATTACATAACTTATAC
54705002 AATATTAAGAT
1 AATATTAAGAT
54705013 TACTTTTATA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.34
Consensus pattern (37 bp):
AATATTAAGATAAAATTTCAAATTACATAACTTATAC
Found at i:54705052 original size:131 final size:131
Alignment explanation
Indices: 54704818--54705188 Score: 665
Period size: 131 Copynumber: 2.8 Consensus size: 131
54704808 CTTATATAAT
* * * * *
54704818 ATTACATAACTTATATC-ATGTTAAGATAAAAAAT-CGAATTACATAACTTATATAATATTAATA
1 ATTACATAACTTACA-CAATATTAAGAT-AAAATTCCAAATTACATAACTTATATAATATTAAGA
54704881 TTACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATACAATAATAAGGTAAAATTT
64 TTACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATACAATAATAAGGTAAAATTT
54704946 CTA
129 CTA
54704949 ATTACATAACTTACACAATATTAAGATAAAATTCCAAATTACATAACTTATATAATATTAAGATT
1 ATTACATAACTTACACAATATTAAGATAAAATTCCAAATTACATAACTTATATAATATTAAGATT
54705014 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATACAATAATAAGGTAAAATTTCT
66 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATACAATAATAAGGTAAAATTTCT
54705079 A
131 A
54705080 ATTACATAACTTACACAATATTAAGATAAAATTCCAAATTACATAACTTATATAATATTAAGATT
1 ATTACATAACTTACACAATATTAAGATAAAATTCCAAATTACATAACTTATATAATATTAAGATT
54705145 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATA
66 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATA
54705189 TAATTTTCCG
Statistics
Matches: 233, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
130 6 0.03
131 227 0.97
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (131 bp):
ATTACATAACTTACACAATATTAAGATAAAATTCCAAATTACATAACTTATATAATATTAAGATT
ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATACAATAATAAGGTAAAATTTCT
A
Found at i:54705076 original size:37 final size:37
Alignment explanation
Indices: 54705022--54705143 Score: 172
Period size: 37 Copynumber: 3.3 Consensus size: 37
54705012 TTACTTTTAT
* *
54705022 AATATTAAGATCAAATTTCGAATTACATAACTTATAC
1 AATATTAAGATAAAATTTCAAATTACATAACTTATAC
* * * *
54705059 AATAATAAGGTAAAATTTCTAATTACATAACTTACAC
1 AATATTAAGATAAAATTTCAAATTACATAACTTATAC
* *
54705096 AATATTAAGATAAAATTCCAAATTACATAACTTATAT
1 AATATTAAGATAAAATTTCAAATTACATAACTTATAC
54705133 AATATTAAGAT
1 AATATTAAGAT
54705144 TACTTTTATA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.34
Consensus pattern (37 bp):
AATATTAAGATAAAATTTCAAATTACATAACTTATAC
Found at i:54705220 original size:113 final size:113
Alignment explanation
Indices: 54705085--54705332 Score: 329
Period size: 113 Copynumber: 2.2 Consensus size: 113
54705075 TTCTAATTAC
* * * * *
54705085 ATAACTTACACAATATTAAGATAAAATTCCAAATTACATAACTTATATAATATTAAGATTACTTT
1 ATAACTTATATAATATTAAGATAAAATTCCAAATTACATAACTTATATAATATT-ACATAACTTA
* * * * **
54705150 TATAATATTAAGATCAA-ATTTCGAATTACATAACTTATATAATTTTCCG
65 TACAATATTAAGAT-AAGATTTCGAATTACATAACTCATACAATATTAAG
* *
54705199 -TAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTACATAACTTAT
1 ATAACTTATATAATATTAAGATAAAATTCCAAATTACATAACTTATATAATATTACATAACTTAT
*
54705263 ACAATATTAAGGTAAGATTTCGAATTACATAACTCATACAATATTAAG
66 ACAATATTAAGATAAGATTTCGAATTACATAACTCATACAATATTAAG
*
54705311 ATTACTTATATAATATTAAGAT
1 ATAACTTATATAATATTAAGAT
54705333 TACTTTTATA
Statistics
Matches: 117, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
111 2 0.02
112 46 0.39
113 69 0.59
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (113 bp):
ATAACTTATATAATATTAAGATAAAATTCCAAATTACATAACTTATATAATATTACATAACTTAT
ACAATATTAAGATAAGATTTCGAATTACATAACTCATACAATATTAAG
Found at i:54705226 original size:56 final size:57
Alignment explanation
Indices: 54705085--54705332 Score: 329
Period size: 56 Copynumber: 4.4 Consensus size: 57
54705075 TTCTAATTAC
* * * *
54705085 ATAACTTACACAATATTAAGATAAAATTCCAAATTACATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
* * * * **
54705142 ATTACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATTTTCCG
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
*
54705199 -TAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATT-AC
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
* * * * *
54705254 ATAACTTATACAATATTAAGGTAAGATTTCGAATTACATAACTCATACAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
*
54705311 ATTACTTATATAATATTAAGAT
1 ATAACTTATATAATATTAAGAT
54705333 TACTTTTATA
Statistics
Matches: 164, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
56 97 0.59
57 67 0.41
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (57 bp):
ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
Found at i:54705254 original size:19 final size:19
Alignment explanation
Indices: 54705117--54705271 Score: 88
Period size: 19 Copynumber: 8.2 Consensus size: 19
54705107 AAAATTCCAA
54705117 ATTACATAACTTATATAAT
1 ATTACATAACTTATATAAT
* * *
54705136 ATTAAGATTACTTTTATAAT
1 ATT-ACATAACTTATATAAT
* * **
54705156 ATTAAGATCAAATT-T-CGA-
1 ATT-ACAT-AACTTATATAAT
54705174 ATTACATAACTTATATAAT
1 ATTACATAACTTATATAAT
* * *
54705193 TTTCCGTAACTTATATAAT
1 ATTACATAACTTATATAAT
* * **
54705212 ATTAAGATAAAATT-T-CGA-
1 ATT-ACAT-AACTTATATAAT
54705230 ATTACATAACTTATATAAT
1 ATTACATAACTTATATAAT
*
54705249 ATTACATAACTTATACAAT
1 ATTACATAACTTATATAAT
54705268 ATTA
1 ATTA
54705272 AGGTAAGATT
Statistics
Matches: 100, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
16 8 0.08
17 8 0.08
18 8 0.08
19 45 0.45
20 24 0.24
21 7 0.07
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (19 bp):
ATTACATAACTTATATAAT
Found at i:54705402 original size:9 final size:9
Alignment explanation
Indices: 54705388--54705474 Score: 76
Period size: 9 Copynumber: 10.0 Consensus size: 9
54705378 TAATTTTCCG
54705388 TACATAACT
1 TACATAACT
54705397 TACATAACT
1 TACATAACT
*
54705406 CACATAA--
1 TACATAACT
*
54705413 TACACAACT
1 TACATAACT
54705422 TACATAACT
1 TACATAACT
54705431 TACATAA--
1 TACATAACT
54705438 TACATAACAT
1 TACATAAC-T
* * *
54705448 T-CCTATCA
1 TACATAACT
54705456 TATCATAACT
1 TA-CATAACT
54705466 TACATAACT
1 TACATAACT
54705475 CATTTATAGT
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
7 12 0.20
8 1 0.02
9 41 0.67
10 7 0.11
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (9 bp):
TACATAACT
Found at i:54705421 original size:25 final size:25
Alignment explanation
Indices: 54705388--54705441 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
54705378 TAATTTTCCG
*
54705388 TACATAACTTACATAACTCACATAA
1 TACACAACTTACATAACTCACATAA
*
54705413 TACACAACTTACATAACTTACATAA
1 TACACAACTTACATAACTCACATAA
54705438 TACA
1 TACA
54705442 TAACATTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (25 bp):
TACACAACTTACATAACTCACATAA
Found at i:54705441 original size:16 final size:17
Alignment explanation
Indices: 54705388--54705474 Score: 74
Period size: 16 Copynumber: 5.1 Consensus size: 17
54705378 TAATTTTCCG
54705388 TACATAACTTACATAAC
1 TACATAACTTACATAAC
*
54705405 TCACATAA--TACACAAC
1 T-ACATAACTTACATAAC
54705421 TTACATAACTTACATAA-
1 -TACATAACTTACATAAC
* *
54705438 TACATAACATT-CCTATC
1 TACATAAC-TTACATAAC
54705455 ATATCATAACTTACATAAC
1 -TA-CATAACTTACATAAC
54705474 T
1 T
54705475 CATTTATAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
16 24 0.44
17 4 0.07
18 17 0.31
19 10 0.18
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAACTTACATAAC
Found at i:54707455 original size:21 final size:21
Alignment explanation
Indices: 54707431--54707490 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
54707421 AGCAAATGCG
*
54707431 GCAGCGAGGGAAGCAGCGACT
1 GCAGCGAGGGAAGCAGAGACT
* *
54707452 GCAGCGAGGGAAGCGGAGGCT
1 GCAGCGAGGGAAGCAGAGACT
*
54707473 GCAGCGAGAGAAGCAGAG
1 GCAGCGAGGGAAGCAGAG
54707491 CAGAGCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.30, C:0.20, G:0.47, T:0.03
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGACT
Found at i:54707896 original size:42 final size:42
Alignment explanation
Indices: 54707850--54708048 Score: 276
Period size: 42 Copynumber: 4.7 Consensus size: 42
54707840 AAAAAACGCT
* * *
54707850 GCTAAAG-ACAATGCTCTTTAGTGGCGTTTCTTTCAAAGCGCC
1 GCTAAAGAAC-ATGGTCTTTAGCGGCGTTTTTTTCAAAGCGCC
* * *
54707892 GCTAAAGAACATGGTTTTTAGCGGTG-TTTTTTCTAAGCGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCAAAGCGCC
* *
54707933 GCTAAAGAACATGGTCTTTAGCGGCATTTTTTTTATAAGCGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCA-AAGCGCC
*
54707976 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCAAAGCGCC
*
54708018 GCTAAAGAACATGGTCTTTAGTGGCGTTTTT
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTT
54708049 GTTTGTAAAC
Statistics
Matches: 139, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
41 36 0.26
42 62 0.45
43 41 0.29
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (42 bp):
GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCAAAGCGCC
Found at i:54708497 original size:25 final size:25
Alignment explanation
Indices: 54708450--54708512 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
54708440 ATACCACTAT
* *
54708450 GTTTTAACTTTATCTTGAATTTTGCA
1 GTTTTAA-TTTTTATTGAATTTTGCA
* *
54708476 GTTTTAATTTTTATTGATTTTTGCC
1 GTTTTAATTTTTATTGAATTTTGCA
*
54708501 GCTTTAATTTTT
1 GTTTTAATTTTT
54708513 TTTATTGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.19, C:0.10, G:0.11, T:0.60
Consensus pattern (25 bp):
GTTTTAATTTTTATTGAATTTTGCA
Found at i:54708980 original size:23 final size:23
Alignment explanation
Indices: 54708954--54708999 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
54708944 AAATTTAACC
* *
54708954 ATATTTAT-AAAATATAATGACAA
1 ATATTAATCAAAATAAAAT-ACAA
54708977 ATATTAATCAAAATAAAATACAA
1 ATATTAATCAAAATAAAATACAA
54709000 TGATAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
ATATTAATCAAAATAAAATACAA
Found at i:54715292 original size:25 final size:25
Alignment explanation
Indices: 54715264--54715313 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
54715254 CAAAAAAAAT
*
54715264 AAAAAATAAATAAAAA-GAAAGAAAG
1 AAAAAA-AAAGAAAAAGGAAAGAAAG
*
54715289 AAAAGAAAAGAAAAAGGAAAGAAAG
1 AAAAAAAAAGAAAAAGGAAAGAAAG
54715314 GAAGGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (25 bp):
AAAAAAAAAGAAAAAGGAAAGAAAG
Found at i:54715769 original size:5 final size:5
Alignment explanation
Indices: 54715756--54715789 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
54715746 GAAATATGCA
*
54715756 ATTGA ATTGT ATTGT ATTGT ATTGT ATTGT ATTG
1 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTG
54715790 ATGAATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.56
Consensus pattern (5 bp):
ATTGT
Found at i:54718908 original size:11 final size:11
Alignment explanation
Indices: 54718892--54718916 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54718882 GCGATTATTG
54718892 TATTTATTGTA
1 TATTTATTGTA
54718903 TATTTATTGTA
1 TATTTATTGTA
54718914 TAT
1 TAT
54718917 AAAGGGACCC
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTATTGTA
Found at i:54721327 original size:40 final size:40
Alignment explanation
Indices: 54721244--54721320 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
54721234 AATTATGGAA
* * *
54721244 TACTGAATATTGTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTAAATATTGTTATGAGTACTGAATTGAACTGTGAAGT
* *
54721284 TACTAAATATTGTTATGTGTACTGCATTGAACTGTGA
1 TACTAAATATTGTTATGAGTACTGAATTGAACTGTGA
54721321 GATTACTGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (40 bp):
TACTAAATATTGTTATGAGTACTGAATTGAACTGTGAAGT
Found at i:54721595 original size:45 final size:45
Alignment explanation
Indices: 54721534--54721683 Score: 176
Period size: 45 Copynumber: 3.4 Consensus size: 45
54721524 CCGACTACTG
* *
54721534 TTACTGTTACTCTTACCGATTCGGCACATTGTGTGTCGAATAATA
1 TTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAATA
* * * * *
54721579 TTACTATTACTGTTACCGATTCGACACTTTGTGTGTCAAATACTG
1 TTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAATA
* * * * *
54721624 TTACCG-TATTGTTACAGATTCGGCACTTTGTGTGTTGAATATTA
1 TTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAATA
*
54721668 TTACGGTTACTGTTAC
1 TTACTGTTACTGTTAC
54721684 TGCTACCTTT
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 36 0.42
45 50 0.58
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (45 bp):
TTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAATA
Found at i:54724714 original size:241 final size:241
Alignment explanation
Indices: 54724291--54724773 Score: 930
Period size: 241 Copynumber: 2.0 Consensus size: 241
54724281 AAACCAACTA
*
54724291 ACTTGATCGATTTAGTGCTTGGATTAGGTCCGGGTAGAGAACAGGTAGGGGCGGTAGGCTTTTCG
1 ACTTGATCGATTTAGTGCTTGGATTAGGTCCGGGTAGAGAACAGGTAGGGGCGGTAGGCTTTTCA
54724356 CTTTAGCCGTTGTTATTCAAGGCCTTACTTTACTCGTTTAAATCTTTTTTGATCCCCTCATTCTT
66 CTTTAGCCGTTGTTATTCAAGGCCTTACTTTACTCGTTTAAATCTTTTTTGATCCCCTCATTCTT
54724421 TCTAGTTAGGGAGGCCGTAGATGAAATGATACGTTATAAGTCTAGATAATTAGAATGAAACTCTT
131 TCTAGTTAGGGAGGCCGTAGATGAAATGATACGTTATAAGTCTAGATAATTAGAATGAAACTCTT
*
54724486 TTTAGACTCAAAAATTTGAATTATCTTTGAATTTGGAATAGAAATG
196 TTTAGACTCAAAAATTTGAATTATCTTTGAATTCGGAATAGAAATG
54724532 ACTTGATCGATTTAGTGCTTGGATTAGGTCCGGGTAGAGAACAGGTAGGGGCGGTAGGCTTTTCA
1 ACTTGATCGATTTAGTGCTTGGATTAGGTCCGGGTAGAGAACAGGTAGGGGCGGTAGGCTTTTCA
* *
54724597 CTTTAGCCGTTGTTATTCAAGGCCTTACTTTACTCGTTTAAATTTTTTTTGATCCCCTTATTCTT
66 CTTTAGCCGTTGTTATTCAAGGCCTTACTTTACTCGTTTAAATCTTTTTTGATCCCCTCATTCTT
54724662 TCTAGTTAGGGAGGCCGTAGATGAAATGATACGTTATAAGTCTAGATAATTAGAATGAAACTCTT
131 TCTAGTTAGGGAGGCCGTAGATGAAATGATACGTTATAAGTCTAGATAATTAGAATGAAACTCTT
54724727 TTTAGACTCAAAAATTTGAATTATCTTTGAATTCGGAATAGAAATG
196 TTTAGACTCAAAAATTTGAATTATCTTTGAATTCGGAATAGAAATG
54724773 A
1 A
54724774 ATGGAATAAT
Statistics
Matches: 238, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 238 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (241 bp):
ACTTGATCGATTTAGTGCTTGGATTAGGTCCGGGTAGAGAACAGGTAGGGGCGGTAGGCTTTTCA
CTTTAGCCGTTGTTATTCAAGGCCTTACTTTACTCGTTTAAATCTTTTTTGATCCCCTCATTCTT
TCTAGTTAGGGAGGCCGTAGATGAAATGATACGTTATAAGTCTAGATAATTAGAATGAAACTCTT
TTTAGACTCAAAAATTTGAATTATCTTTGAATTCGGAATAGAAATG
Found at i:54731114 original size:3 final size:3
Alignment explanation
Indices: 54731102--54731133 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
54731092 TTGGGTGGAG
54731102 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
54731134 TATTCAGCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:54732292 original size:3 final size:3
Alignment explanation
Indices: 54732284--54732317 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
54732274 CATGAGTACT
54732284 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
54732318 AATAATAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:54739106 original size:24 final size:24
Alignment explanation
Indices: 54739053--54739109 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
54739043 TAAAATATAC
54739053 TAAAAATATTAAAATAAATATTTCT
1 TAAAAA-ATTAAAATAAATATTTCT
* *
54739078 CAAAAAATTAAAAATAAA-ATTTTT
1 TAAAAAATT-AAAATAAATATTTCT
54739102 TAAAAAAT
1 TAAAAAAT
54739110 ATTTATACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAAAAATTAAAATAAATATTTCT
Found at i:54741656 original size:16 final size:17
Alignment explanation
Indices: 54741630--54741678 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 17
54741620 TTAAAATGAT
54741630 AAATTTT-TAATTTA-A
1 AAATTTTATAATTTATA
54741645 AAATTTTATAATTTATA
1 AAATTTTATAATTTATA
*
54741662 AAATTTTA-AATTAATA
1 AAATTTTATAATTTATA
54741678 A
1 A
54741679 TAAAATTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
15 7 0.23
16 15 0.48
17 9 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTTTATAATTTATA
Found at i:54743334 original size:16 final size:15
Alignment explanation
Indices: 54743313--54743356 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
54743303 TGAATTTATC
54743313 GAAATAATTGATTTA
1 GAAATAATTGATTTA
54743328 GGAAATATATTTGATTTA
1 -GAAATA-A-TTGATTTA
*
54743346 AAAATAATTGA
1 GAAATAATTGA
54743357 AATGAATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 4 0.16
16 7 0.28
17 6 0.24
18 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.39
Consensus pattern (15 bp):
GAAATAATTGATTTA
Found at i:54743656 original size:14 final size:15
Alignment explanation
Indices: 54743626--54743658 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
54743616 AATAATATTA
54743626 TAATAAACCTAAATT
1 TAATAAACCTAAATT
*
54743641 TAATAAA-CTAATTT
1 TAATAAACCTAAATT
54743655 TAAT
1 TAAT
54743659 GTTATCTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATAAACCTAAATT
Found at i:54748700 original size:31 final size:31
Alignment explanation
Indices: 54748627--54748702 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
54748617 AAAATTCTTT
* * *
54748627 AACAACTCAATGACTTAAATAAAAACTTTCT
1 AACAATTCAATTACTTAAATAAAAACTTTCA
* * *
54748658 AATAGTCCAATTACTTAAATAAAAACTTTCA
1 AACAATTCAATTACTTAAATAAAAACTTTCA
54748689 AACAATTCAATTAC
1 AACAATTCAATTAC
54748703 CATTTCATAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.30
Consensus pattern (31 bp):
AACAATTCAATTACTTAAATAAAAACTTTCA
Found at i:54752389 original size:46 final size:46
Alignment explanation
Indices: 54752322--54752457 Score: 218
Period size: 46 Copynumber: 3.0 Consensus size: 46
54752312 TGCTATAACT
* *
54752322 CAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCACAACA
1 CAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAACA
* * *
54752368 CAGTATGATTTTCTTCACTGAAACACTATACCTACTTTTCACAACT
1 CAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAACA
*
54752414 CAGTATGGCTTTCTTCACTGAAACACCATACCTACTTTTCACAA
1 CAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAA
54752458 ATTTCCATGA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (46 bp):
CAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAACA
Found at i:54752409 original size:24 final size:24
Alignment explanation
Indices: 54752381--54752455 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 24
54752371 TATGATTTTC
54752381 TTCACTGAAACACTATACCTACTT
1 TTCACTGAAACACTATACCTACTT
* * **
54752405 TTCAC--AACTCAGTATGGCT--TT
1 TTCACTGAA-ACACTATACCTACTT
*
54752426 CTTCACTGAAACACCATACCTACTT
1 -TTCACTGAAACACTATACCTACTT
54752451 TTCAC
1 TTCAC
54752456 AAATTTCCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 12
0.63 0.16 0.21
Matches are distributed among these distances:
21 2 0.06
22 7 0.19
23 13 0.36
24 12 0.33
25 2 0.06
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (24 bp):
TTCACTGAAACACTATACCTACTT
Found at i:54753691 original size:17 final size:17
Alignment explanation
Indices: 54753669--54753716 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
54753659 AAATTCTTTT
54753669 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
54753686 TAAATCACAGAATTCAC
1 TAAATCACAAAATTCAC
*
54753703 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
54753717 TTCTAAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:54779533 original size:7 final size:7
Alignment explanation
Indices: 54779521--54779552 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
54779511 TTTAAGATAG
54779521 TATTCTA
1 TATTCTA
54779528 TATTCTA
1 TATTCTA
54779535 TATTCTA
1 TATTCTA
54779542 TATTCTA
1 TATTCTA
54779549 TATT
1 TATT
54779553 AAGCCACGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.59
Consensus pattern (7 bp):
TATTCTA
Found at i:54779886 original size:5 final size:5
Alignment explanation
Indices: 54779876--54779903 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
54779866 TCAACATGAA
54779876 CCCGG CCCGG CCCGG CCCGG CCCGG CCC
1 CCCGG CCCGG CCCGG CCCGG CCCGG CCC
54779904 AGAATAACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.64, G:0.36, T:0.00
Consensus pattern (5 bp):
CCCGG
Found at i:54782105 original size:114 final size:113
Alignment explanation
Indices: 54781906--54782126 Score: 259
Period size: 114 Copynumber: 1.9 Consensus size: 113
54781896 AAACTTCGAA
** * *
54781906 ACGTTCTAATTAATTTATCAAAATATCAATATAATATCAATCAAGTCATTCTATCAACCAAATCG
1 ACGTTCTAACCAATTCATCAAAATATCAATATAATATCAATCAAGTCATTCTATCAACCAAATCA
* *
54781971 ATGTAAAATATATTAAAAACACTTGTAT-TAAATTTTAAACACGCCAGC
66 ATGTAAAACATATTAAAAACACTTGCATCT-AATTTTAAACACGCCAGC
* * * **
54782019 ACGTTCTAACCAATTCATCAAAATA-CTAGATATCATATCAATCATGTCTTTCTATCAACTTAA-
1 ACGTTCTAACCAATTCATCAAAATATC-A-ATATAATATCAATCAAGTCATTCTATCAACCAAAT
** *
54782082 CTAATGTGGAACATATTAAAAACATTTGCATCTAATTTTAAACAC
64 C-AATGTAAAACATATTAAAAACACTTGCATCTAATTTTAAACAC
54782127 ACGTGCACTG
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
112 1 0.01
113 24 0.27
114 64 0.71
115 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (113 bp):
ACGTTCTAACCAATTCATCAAAATATCAATATAATATCAATCAAGTCATTCTATCAACCAAATCA
ATGTAAAACATATTAAAAACACTTGCATCTAATTTTAAACACGCCAGC
Found at i:54788183 original size:30 final size:30
Alignment explanation
Indices: 54788147--54788209 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
54788137 GCACGATAAA
*
54788147 CAACATTAGACAAATATCATAAAACCATTT
1 CAACATTAGACAAATATCATAAAACCAGTT
54788177 CAACATTAGACAAATATCATAAAACCAGTT
1 CAACATTAGACAAATATCATAAAACCAGTT
54788207 CAA
1 CAA
54788210 ACTTAATATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.24
Consensus pattern (30 bp):
CAACATTAGACAAATATCATAAAACCAGTT
Found at i:54792449 original size:31 final size:31
Alignment explanation
Indices: 54792414--54792473 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
54792404 AATTTGGTTT
*
54792414 TTGAACTATTCGAATGTTTTCATTTAAGTAA
1 TTGAACTATTCAAATGTTTTCATTTAAGTAA
* *
54792445 TTGAACTATTCAAATTTTTTTATTTAAGT
1 TTGAACTATTCAAATGTTTTCATTTAAGT
54792474 CACTAGGCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (31 bp):
TTGAACTATTCAAATGTTTTCATTTAAGTAA
Found at i:54801698 original size:12 final size:12
Alignment explanation
Indices: 54801681--54801712 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
54801671 CAGTGTCTTC
54801681 TAATTACACAAT
1 TAATTACACAAT
54801693 TAATTACACAAT
1 TAATTACACAAT
*
54801705 TAAGTACA
1 TAATTACA
54801713 TATGGTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (12 bp):
TAATTACACAAT
Found at i:54804747 original size:31 final size:31
Alignment explanation
Indices: 54804689--54804748 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
54804679 CTTTACTTTG
*
54804689 GTCAAGTTTAGTCATTGCAATTTTCAAATAT
1 GTCAAGTTTAGTCATTGCAATTCTCAAATAT
* *
54804720 GTCAATTTTAGTCATTAG-ACTTCTCAAAT
1 GTCAAGTTTAGTCATT-GCAATTCTCAAAT
54804749 TTTGAAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.42
Consensus pattern (31 bp):
GTCAAGTTTAGTCATTGCAATTCTCAAATAT
Found at i:54809761 original size:60 final size:61
Alignment explanation
Indices: 54809649--54809810 Score: 168
Period size: 60 Copynumber: 2.7 Consensus size: 61
54809639 TTTTTTAGGA
* * ** * *
54809649 CTAACTTAGACAACAAAAAAA-TTCAAGTCCTAATGTTG-GAACGTTTGCCAAGTTCAGGGC
1 CTAACTTAAACAACAAAAAAAGTTCAAGTCCTAAT-ATGAGAACAATTGCCAAGTTCAAGAC
** * * *
54809709 CTAACTTGGAC-TCAAAAAAAGTTCAAGCCCTAATATGAGAACAATTGTCAAGTTCAAGAC
1 CTAACTTAAACAACAAAAAAAGTTCAAGTCCTAATATGAGAACAATTGCCAAGTTCAAGAC
* * *
54809769 CTAATTTAAACAAAAAAAAAAGTTCAAGTCCTAATGTGAGAA
1 CTAACTTAAACAACAAAAAAAGTTCAAGTCCTAATATGAGAA
54809811 AAGTTACCAA
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
59 10 0.12
60 47 0.57
61 26 0.31
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (61 bp):
CTAACTTAAACAACAAAAAAAGTTCAAGTCCTAATATGAGAACAATTGCCAAGTTCAAGAC
Found at i:54813626 original size:5 final size:5
Alignment explanation
Indices: 54813616--54813641 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
54813606 AAATGTATAA
54813616 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
54813642 CTCATGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:54817579 original size:13 final size:14
Alignment explanation
Indices: 54817514--54817582 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 14
54817504 TTATTGCTTT
54817514 ATATAAATATAATAA
1 ATATAAAT-TAATAA
*
54817529 ATAT-AAGTAATAA
1 ATATAAATTAATAA
* **
54817542 TGTCATTAAAAGAATAA
1 -AT-A-TAAATTAATAA
54817559 ATATAAATTAATAA
1 ATATAAATTAATAA
54817573 A-ATAAATTAA
1 ATATAAATTAA
54817583 AAGCAAAATG
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
13 15 0.35
14 13 0.30
15 6 0.14
16 2 0.05
17 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (14 bp):
ATATAAATTAATAA
Found at i:54820184 original size:15 final size:16
Alignment explanation
Indices: 54820157--54820186 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
54820147 TTTGATTTTA
54820157 TCGATTAAATTTTAAC
1 TCGATTAAATTTTAAC
54820173 TCGATT-AATTTTAA
1 TCGATTAAATTTTAA
54820187 AGGAAACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (16 bp):
TCGATTAAATTTTAAC
Found at i:54833093 original size:21 final size:21
Alignment explanation
Indices: 54833067--54833118 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
54833057 TTTTTTTTAA
54833067 TTTTAAAATA-TTTTAAAATAT
1 TTTTAAAATACTTTTAAAA-AT
*
54833088 TTTTAAAATACTTTTTAAAAT
1 TTTTAAAATACTTTTAAAAAT
54833109 TTTTAAAATA
1 TTTTAAAATA
54833119 AATTTTTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 22 0.76
22 7 0.24
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTAAAATACTTTTAAAAAT
Found at i:54833104 original size:12 final size:11
Alignment explanation
Indices: 54833067--54833118 Score: 74
Period size: 10 Copynumber: 4.9 Consensus size: 11
54833057 TTTTTTTTAA
54833067 TTTTAAAATA-
1 TTTTAAAATAT
54833077 TTTTAAAATAT
1 TTTTAAAATAT
54833088 TTTTAAAATACT
1 TTTTAAAATA-T
54833100 TTTT-AAA-AT
1 TTTTAAAATAT
54833109 TTTTAAAATA
1 TTTTAAAATA
54833119 AATTTTTGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.13
10 14 0.37
11 14 0.37
12 5 0.13
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:54833124 original size:21 final size:22
Alignment explanation
Indices: 54833067--54833124 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
54833057 TTTTTTTTAA
54833067 TTTTAAAAT-ATTTTAAAATAT
1 TTTTAAAATAATTTTAAAATAT
* *
54833088 TTTTAAAATACTTTTTAAA-AT
1 TTTTAAAATAATTTTAAAATAT
54833109 TTTTAAAATAAATTTT
1 TTTTAAAAT-AATTTT
54833125 TGGTATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTAAAATAATTTTAAAATAT
Found at i:54833132 original size:22 final size:22
Alignment explanation
Indices: 54833067--54833143 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 22
54833057 TTTTTTTTAA
*
54833067 TTTTAAAAT--ATTTTAAAATAT
1 TTTTAAAATAAATTTT-TAATAT
* *
54833088 TTTTAAAAT-ACTTTTTAAAAT
1 TTTTAAAATAAATTTTTAATAT
**
54833109 TTTTAAAATAAATTTTTGGTAT
1 TTTTAAAATAAATTTTTAATAT
54833131 TTATTAAAA-AAAT
1 TT-TTAAAATAAAT
54833144 AGGCCGGGCC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 22 0.48
22 18 0.39
23 6 0.13
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (22 bp):
TTTTAAAATAAATTTTTAATAT
Found at i:54834954 original size:16 final size:16
Alignment explanation
Indices: 54834935--54834975 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
54834925 AATTTGATAC
54834935 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
54834951 AATTTTGATAACAATT
1 AATTTTAATAACAATT
*
54834967 AGTTTTAAT
1 AATTTTAAT
54834976 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:54834977 original size:22 final size:23
Alignment explanation
Indices: 54834949--54835010 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
54834939 TTAATAACAA
* * *
54834949 TTAATTTTGATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
54834971 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
54834994 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
54835011 ACTGGCCGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 15 0.43
23 14 0.40
24 6 0.17
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:54847728 original size:27 final size:27
Alignment explanation
Indices: 54847687--54847743 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
54847677 TTGAACTTGC
54847687 ATTTTTAAAACTAAAAA-AAAAACTTAA
1 ATTTTTAAAACTAAAAATAAAAAC-TAA
54847714 ATTTCTTAAAA-TAAAAATAAAAACTAA
1 ATTT-TTAAAACTAAAAATAAAAACTAA
54847741 ATT
1 ATT
54847744 CTAAATATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (27 bp):
ATTTTTAAAACTAAAAATAAAAACTAA
Found at i:54851780 original size:27 final size:27
Alignment explanation
Indices: 54851750--54851865 Score: 74
Period size: 27 Copynumber: 4.1 Consensus size: 27
54851740 ATAGGTACTT
*
54851750 AATTTGAAAAAAAAAACTCATGTTCCA
1 AATTTGAAAAAAAAAACTCATGTACCA
** * * **
54851777 AA-TTGATCATTAAAGCTAAACTCAAGTGCTT
1 AATTTGA--A--AAA-AAAAACTCATGTACCA
* **
54851808 AATTTGAAAAAAAAAACAT-AGGTACTT
1 AATTTGAAAAAAAAAAC-TCATGTACCA
54851835 AATTTGAAAAAAAAAACTCATGTACCA
1 AATTTGAAAAAAAAAACTCATGTACCA
54851862 AATT
1 AATT
54851866 GATCATTAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
26 5 0.07
27 38 0.56
28 5 0.07
30 4 0.06
31 12 0.18
32 4 0.06
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTTGAAAAAAAAAACTCATGTACCA
Found at i:54851823 original size:85 final size:85
Alignment explanation
Indices: 54851730--54851896 Score: 325
Period size: 85 Copynumber: 2.0 Consensus size: 85
54851720 GTGTTCAAGT
*
54851730 AAAAAAAAACATAGGTACTTAATTTGAAAAAAAAAACTCATGTTCCAAATTGATCATTAAAGCTA
1 AAAAAAAAACATAGGTACTTAATTTGAAAAAAAAAACTCATGTACCAAATTGATCATTAAAGCTA
54851795 AACTCAAGTGCTTAATTTGA
66 AACTCAAGTGCTTAATTTGA
54851815 AAAAAAAAACATAGGTACTTAATTTGAAAAAAAAAACTCATGTACCAAATTGATCATTAAAGCTA
1 AAAAAAAAACATAGGTACTTAATTTGAAAAAAAAAACTCATGTACCAAATTGATCATTAAAGCTA
54851880 AACTCAAGTGCTTAATT
66 AACTCAAGTGCTTAATT
54851897 GGGACAAATG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (85 bp):
AAAAAAAAACATAGGTACTTAATTTGAAAAAAAAAACTCATGTACCAAATTGATCATTAAAGCTA
AACTCAAGTGCTTAATTTGA
Found at i:54851990 original size:31 final size:32
Alignment explanation
Indices: 54851948--54852008 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
54851938 AGGTATAAAT
*
54851948 TTGAATATTGAAACC-AAATTCAAGTACTAGA
1 TTGAATATTGAAACCAAAACTCAAGTACTAGA
* *
54851979 TTGAATTTTGAAGCCAAAACTCAAGTACTA
1 TTGAATATTGAAACCAAAACTCAAGTACTA
54852009 AATAAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (32 bp):
TTGAATATTGAAACCAAAACTCAAGTACTAGA
Found at i:54863068 original size:12 final size:12
Alignment explanation
Indices: 54863051--54863077 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
54863041 GGATAAGGAT
54863051 GTTTTAATTATA
1 GTTTTAATTATA
54863063 GTTTTAATTATA
1 GTTTTAATTATA
54863075 GTT
1 GTT
54863078 GTACTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (12 bp):
GTTTTAATTATA
Found at i:54868621 original size:12 final size:12
Alignment explanation
Indices: 54868604--54868630 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
54868594 GGATAAGGAT
54868604 GTTTTAATTATA
1 GTTTTAATTATA
54868616 GTTTTAATTATA
1 GTTTTAATTATA
54868628 GTT
1 GTT
54868631 GTACTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (12 bp):
GTTTTAATTATA
Found at i:54872266 original size:3 final size:3
Alignment explanation
Indices: 54872258--54872287 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
54872248 AGGGTACAAC
54872258 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
54872288 AACTATTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:54872337 original size:129 final size:129
Alignment explanation
Indices: 54872151--54872404 Score: 438
Period size: 129 Copynumber: 2.0 Consensus size: 129
54872141 CAACAACAAC
*
54872151 AAGAAGAAAACTATTGGTGGTGAACAGATTATTGAAGGGTTAAGTGATAACAAGGTTGAAATGGA
1 AAGAAGAAAACTATTGGTAGTGAACAGATTATTGAAGGGTTAAGTGATAACAAGGTTGAAATGGA
*
54872216 AGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTACAACGAAGAAGAAGAAGAAGAAGAAG
66 AAATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTACAACGAAGAAGAAGAAGAAGAAGAAG
* * *
54872280 AAGAAGAAAACTATTGGTAGTGAACA-TTGTATTGAAGGGTTAAGTGATAGCAGGGTTGAAATGG
1 AAGAAGAAAACTATTGGTAGTGAACAGAT-TATTGAAGGGTTAAGTGATAACAAGGTTGAAATGG
*
54872344 AAAATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAACGAAGAAGAAGAAGAAGAA
65 AAAATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTACAACGAAGAAGAAGAAGAAGAA
54872405 AACTATTGGT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
128 1 0.01
129 117 0.99
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.19
Consensus pattern (129 bp):
AAGAAGAAAACTATTGGTAGTGAACAGATTATTGAAGGGTTAAGTGATAACAAGGTTGAAATGGA
AAATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTACAACGAAGAAGAAGAAGAAGAAGAAG
Found at i:54872404 original size:117 final size:117
Alignment explanation
Indices: 54872270--54872742 Score: 775
Period size: 117 Copynumber: 4.0 Consensus size: 117
54872260 AGAAGAAGAA
* ** *
54872270 GAAGAAGAAGAAGAAGAAAACTATTGGTAGTGAACATTGTATTGAAGGGTTAAGTGATAGCAGGG
1 GAAGAAGAAGAAGAAGAAAACTATTGGTGGTGAACAAAGTATTGAAGGGTTAAGTGATAGCAAGG
*
54872335 TTGAAATGGAAAATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAAC
66 TTGAAATGGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAAC
54872387 GAAGAAGAAGAAGAAGAAAACTATTGGTGGTGAACAAAGTATTGAAGGGTTAAGTGATAGCAAGG
1 GAAGAAGAAGAAGAAGAAAACTATTGGTGGTGAACAAAGTATTGAAGGGTTAAGTGATAGCAAGG
54872452 TTGAAATGGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAAC
66 TTGAAATGGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAAC
54872504 GAAGAAGAAGAAGAAGAAAACTATTGGTGGTGAACAAAGTATTGAAGGGTTAAGTGATAGCAAGG
1 GAAGAAGAAGAAGAAGAAAACTATTGGTGGTGAACAAAGTATTGAAGGGTTAAGTGATAGCAAGG
* *
54872569 TTGAAATGGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTACAAT
66 TTGAAATGGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAAC
* * * * * *
54872621 GAACAAGAAGAAGAAGAAAACTATTGGTGGTGAGCAGAGTATTGAAGTGTTTAGTAATAGCAAGG
1 GAAGAAGAAGAAGAAGAAAACTATTGGTGGTGAACAAAGTATTGAAGGGTTAAGTGATAGCAAGG
54872686 TTGAAATGGAAGATCCCCTTAAAGCCAATCCTAAACGTGGTCGGCCAAAGGGTTCAA
66 TTGAAATGGAAGATCCCCTT-AAG-----CCTAAACGTGGTCGGCCAAAGGGTTCAA
54872743 AGAATAAACA
Statistics
Matches: 336, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
117 306 0.91
118 3 0.01
123 27 0.08
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (117 bp):
GAAGAAGAAGAAGAAGAAAACTATTGGTGGTGAACAAAGTATTGAAGGGTTAAGTGATAGCAAGG
TTGAAATGGAAGATCCCCTTAAGCCTAAACGTGGTCGGCCAAAGGGTTCAAC
Found at i:54898746 original size:18 final size:18
Alignment explanation
Indices: 54898723--54898759 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
54898713 TAGTTGTGTT
*
54898723 TGAATCCAAACTCATATC
1 TGAATCCAAACCCATATC
54898741 TGAATCCAAACCCATATC
1 TGAATCCAAACCCATATC
54898759 T
1 T
54898760 CACCGATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.30, G:0.05, T:0.27
Consensus pattern (18 bp):
TGAATCCAAACCCATATC
Found at i:54898818 original size:21 final size:21
Alignment explanation
Indices: 54898771--54898821 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
54898761 ACCGATGTTT
* * *
54898771 CTAATCTCATTACTACAGTAT
1 CTAATCTCATCACTACAATAA
* *
54898792 CCAATCTCATCGCTACAATAA
1 CTAATCTCATCACTACAATAA
54898813 CTAATCTCA
1 CTAATCTCA
54898822 CCGCCACCAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.31
Consensus pattern (21 bp):
CTAATCTCATCACTACAATAA
Found at i:54899001 original size:22 final size:22
Alignment explanation
Indices: 54898973--54899016 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
54898963 TGGTCCCTTT
54898973 GTAATACCCCGAAAATTCCTAC
1 GTAATACCCCGAAAATTCCTAC
54898995 GTAATACCCCGAAAATTCCTAC
1 GTAATACCCCGAAAATTCCTAC
54899017 AATAAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.09, T:0.23
Consensus pattern (22 bp):
GTAATACCCCGAAAATTCCTAC
Found at i:54901484 original size:51 final size:51
Alignment explanation
Indices: 54901425--54901521 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
54901415 TTATATATTT
* *
54901425 TGTGTAAATATTGC-ATGATAAATTTGTTGAAT-TAGAACCAATTTGATAGCA
1 TGTGTAAATATTGCGA-GATAAATTTGTTAAATCAAG-ACCAATTTGATAGCA
* *
54901476 TGTGTAAATGTTGCGAGCTAAATTTGTTAAATCAAGACCAATTTGA
1 TGTGTAAATATTGCGAGATAAATTTGTTAAATCAAGACCAATTTGA
54901522 CAGAAAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
51 37 0.93
52 3 0.08
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (51 bp):
TGTGTAAATATTGCGAGATAAATTTGTTAAATCAAGACCAATTTGATAGCA
Found at i:54902915 original size:29 final size:30
Alignment explanation
Indices: 54902876--54902947 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
54902866 ACTTTCGAAT
* *
54902876 ATTT-AAAATTTAGTTCTTAT-ATTTTTAT
1 ATTTAAAAATTTAGTCCTTATAATTTTTAG
* * *
54902904 TTTTAAAAATTTAATCCTTTTAATTTTTAG
1 ATTTAAAAATTTAGTCCTTATAATTTTTAG
54902934 ATTTAAAAATTTAG
1 ATTTAAAAATTTAG
54902948 ATCTAATTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
28 3 0.09
29 13 0.37
30 19 0.54
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (30 bp):
ATTTAAAAATTTAGTCCTTATAATTTTTAG
Found at i:54913347 original size:25 final size:27
Alignment explanation
Indices: 54913276--54913347 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 27
54913266 TAAATAAAAA
54913276 AATAAAATAGTATATTAATAT-ATATAAGT
1 AATAAAAT--TATA-TAATATAATATAAGT
54913305 AATAAAATTATA-AA-ATAATATAA-T
1 AATAAAATTATATAATATAATATAAGT
54913329 AAT-AAATTATATAATATAA
1 AATAAAATTATATAATATAA
54913348 ATAGTTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
23 8 0.20
24 8 0.20
25 12 0.30
27 4 0.10
29 8 0.20
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (27 bp):
AATAAAATTATATAATATAATATAAGT
Found at i:54913777 original size:20 final size:19
Alignment explanation
Indices: 54913752--54913792 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
54913742 AACATAATGA
* *
54913752 TATATAATATATATTTTTAT
1 TATATAAT-TACATATTTAT
54913772 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
54913791 TA
1 TA
54913793 GTTGATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:54913827 original size:15 final size:15
Alignment explanation
Indices: 54913799--54913832 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
54913789 ATTAGTTGAT
54913799 TTTATAAATAAAAAA
1 TTTATAAATAAAAAA
*
54913814 TTTATTAATTAAAAAA
1 TTTA-TAAATAAAAAA
54913830 TTT
1 TTT
54913833 TGAAACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTATAAATAAAAAA
Found at i:54917561 original size:83 final size:83
Alignment explanation
Indices: 54917419--54917579 Score: 286
Period size: 83 Copynumber: 1.9 Consensus size: 83
54917409 GTAACAATAA
**
54917419 GTTGAAAACGAAAGGAAGAATAGAGATTTACTAATTGTTGAGACCTATTTAACACAGTTTCCTCA
1 GTTGAAAACGAAAGGAAGAATAGAGATTTACTAAACGTTGAGACCTATTTAACACAGTTTCCTCA
54917484 AAATAGTAGCACTTTGTT
66 AAATAGTAGCACTTTGTT
* *
54917502 GTTGAAAACGACAGGAAGAATAGAGATTTACTAAACGTTGAGACCTATTTAACATAGTTTCCTCA
1 GTTGAAAACGAAAGGAAGAATAGAGATTTACTAAACGTTGAGACCTATTTAACACAGTTTCCTCA
54917567 AAATAGTAGCACT
66 AAATAGTAGCACT
54917580 ATGTGTAACA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 74 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (83 bp):
GTTGAAAACGAAAGGAAGAATAGAGATTTACTAAACGTTGAGACCTATTTAACACAGTTTCCTCA
AAATAGTAGCACTTTGTT
Found at i:54921886 original size:23 final size:23
Alignment explanation
Indices: 54921859--54922021 Score: 184
Period size: 23 Copynumber: 7.1 Consensus size: 23
54921849 AACTGCCACG
54921859 CTGATATGTAGCCGAAGCTACCA
1 CTGATATGTAGCCGAAGCTACCA
* ** *
54921882 GTGATACATAGCCGTAGCTACCA
1 CTGATATGTAGCCGAAGCTACCA
* * *
54921905 CTGAAATGTAGCCAAATCTACCA
1 CTGATATGTAGCCGAAGCTACCA
* *
54921928 CTGATACGTAGCC-ATAGCTAGCA
1 CTGATATGTAGCCGA-AGCTACCA
* *
54921951 CTGAAATGTAGCCGGAGCTACCA
1 CTGATATGTAGCCGAAGCTACCA
*
54921974 CTGATATGTAGCCGTAGCTACCA
1 CTGATATGTAGCCGAAGCTACCA
* *
54921997 CTGAAATATAGCCGAAGCTACCA
1 CTGATATGTAGCCGAAGCTACCA
54922020 CT
1 CT
54922022 AATCAATAAC
Statistics
Matches: 114, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
22 1 0.01
23 113 0.99
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
CTGATATGTAGCCGAAGCTACCA
Found at i:54921917 original size:46 final size:46
Alignment explanation
Indices: 54921859--54922021 Score: 236
Period size: 46 Copynumber: 3.5 Consensus size: 46
54921849 AACTGCCACG
* * *
54921859 CTGATATGTAGCCGAAGCTACCAGTGATACATAGCCGTAGCTACCA
1 CTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCA
* * * *
54921905 CTGAAATGTAGCCAAATCTACCACTGATACGTAGCCATAGCTAGCA
1 CTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCA
* *
54921951 CTGAAATGTAGCCGGAGCTACCACTGATATGTAGCCGTAGCTACCA
1 CTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCA
*
54921997 CTGAAATATAGCCGAAGCTACCACT
1 CTGAAATGTAGCCGAAGCTACCACT
54922022 AATCAATAAC
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 102 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (46 bp):
CTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCA
Found at i:54922275 original size:18 final size:17
Alignment explanation
Indices: 54922249--54922287 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
54922239 ATTTTCCTTC
54922249 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
54922266 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
54922284 CACA
1 CACA
54922288 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:54926390 original size:30 final size:31
Alignment explanation
Indices: 54926356--54926414 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
54926346 GTAAATACTC
* * *
54926356 AAAATATGATGGGCTAA-AGTGTAAATATGA
1 AAAATATGAAGGACCAATAGTGTAAATATGA
*
54926386 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAATATGAAGGACCAATAGTGTAAATAT
54926415 TTTAAGGGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAATATGAAGGACCAATAGTGTAAATATGA
Found at i:54929558 original size:24 final size:24
Alignment explanation
Indices: 54929531--54929578 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
54929521 CATTTATATG
54929531 TTTAAAAATAATAAAA-ATATTTTA
1 TTTAAAAAT-ATAAAATATATTTTA
*
54929555 TTTAAATATATAAAATTATATTTT
1 TTTAAAAATATAAAA-TATATTTT
54929579 TGTTATCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 8 0.38
25 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTAAAAATATAAAATATATTTTA
Found at i:54929686 original size:14 final size:14
Alignment explanation
Indices: 54929667--54929697 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
54929657 GAAACTTGAA
54929667 AAGAAAGATTCTGG
1 AAGAAAGATTCTGG
54929681 AAGAAAGATTCTGG
1 AAGAAAGATTCTGG
54929695 AAG
1 AAG
54929698 TCTCGCTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.29, T:0.19
Consensus pattern (14 bp):
AAGAAAGATTCTGG
Found at i:54933572 original size:25 final size:25
Alignment explanation
Indices: 54933544--54933592 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
54933534 AGAGAAAAGT
*
54933544 TTAAAGAACATAAAATAAAAAAAAA
1 TTAAAGAACATAAAACAAAAAAAAA
** *
54933569 TTAAATTACTTAAAACAAAAAAAA
1 TTAAAGAACATAAAACAAAAAAAA
54933593 TATGGGAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (25 bp):
TTAAAGAACATAAAACAAAAAAAAA
Found at i:54936027 original size:27 final size:25
Alignment explanation
Indices: 54935996--54936048 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
54935986 AGTTTATTTT
*
54935996 TTATATA-AAAATAAATTTAAAAATA
1 TTATATATAAAATAAA-CTAAAAATA
*
54936021 TTATATATAAAATACACTAAAAATA
1 TTATATATAAAATAAACTAAAAATA
54936046 TTA
1 TTA
54936049 AAATAAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (25 bp):
TTATATATAAAATAAACTAAAAATA
Found at i:54936983 original size:21 final size:22
Alignment explanation
Indices: 54936959--54937006 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
54936949 ATTTTGTTTT
*
54936959 ATTTTAGTC-ATTTAATTA-TTA
1 ATTTT-GTCGATTTAATCATTTA
*
54936980 ATTTTTTCGATTTAATCATTTA
1 ATTTTGTCGATTTAATCATTTA
54937002 ATTTT
1 ATTTT
54937007 TGAAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 13 0.57
22 8 0.35
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (22 bp):
ATTTTGTCGATTTAATCATTTA
Found at i:54937602 original size:10 final size:10
Alignment explanation
Indices: 54937587--54937612 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
54937577 GACCCACATC
54937587 ATAAAAAATT
1 ATAAAAAATT
54937597 ATAAAAAATT
1 ATAAAAAATT
54937607 ATAAAA
1 ATAAAA
54937613 TTATTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:54938770 original size:20 final size:20
Alignment explanation
Indices: 54938745--54938785 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
54938735 GGTGGTACGT
*
54938745 ACATATT-TACAATTTGATCC
1 ACATATTGTA-AATATGATCC
54938765 ACATATTGTAAATATGATCC
1 ACATATTGTAAATATGATCC
54938785 A
1 A
54938786 TGTCGCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (20 bp):
ACATATTGTAAATATGATCC
Found at i:54939670 original size:32 final size:32
Alignment explanation
Indices: 54939623--54939699 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
54939613 GTGTAAATTG
*
54939623 ATACATG-AACTTTGATT-CGGTGCAATTATAT
1 ATACATGAAACTTTGATTGCGGTGCAA-AATAT
* * *
54939654 ATACATGAAACTTTGATTGTGGTTCAAAATGT
1 ATACATGAAACTTTGATTGCGGTGCAAAATAT
54939686 ATACATGAAACTTT
1 ATACATGAAACTTT
54939700 CATTTTAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 7 0.17
32 27 0.68
33 6 0.15
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (32 bp):
ATACATGAAACTTTGATTGCGGTGCAAAATAT
Found at i:54948049 original size:17 final size:17
Alignment explanation
Indices: 54948027--54948060 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
54948017 TATTAATATC
*
54948027 ATTTTAATAATTTGAAA
1 ATTTTAATAATTAGAAA
*
54948044 ATTTTATTAATTAGAAA
1 ATTTTAATAATTAGAAA
54948061 TAATTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTTTAATAATTAGAAA
Found at i:54950399 original size:21 final size:19
Alignment explanation
Indices: 54950357--54950401 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
54950347 ATAATTTTGG
* *
54950357 TAAATTTTACCCTTAATCT
1 TAAATTTTACCCTGAATAT
54950376 TAAATTTTAAACCCTGAATAT
1 TAAATTTT--ACCCTGAATAT
54950397 TAAAT
1 TAAAT
54950402 CCTGAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
21 14 0.64
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (19 bp):
TAAATTTTACCCTGAATAT
Found at i:54950405 original size:14 final size:14
Alignment explanation
Indices: 54950382--54950421 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
54950372 ATCTTAAATT
54950382 TTAAACCCTGAATA
1 TTAAACCCTGAATA
* *
54950396 TTAAATCCTGAATC
1 TTAAACCCTGAATA
*
54950410 TTAAACCTTGAA
1 TTAAACCCTGAA
54950422 CAAGAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (14 bp):
TTAAACCCTGAATA
Found at i:54966934 original size:15 final size:16
Alignment explanation
Indices: 54966904--54966936 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
54966894 TTGATATATA
54966904 ATATTTGAAAATTTTT
1 ATATTTGAAAATTTTT
*
54966920 ATATTT-AATATTTTT
1 ATATTTGAAAATTTTT
54966935 AT
1 AT
54966937 TAAAGTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
ATATTTGAAAATTTTT
Found at i:54972230 original size:33 final size:33
Alignment explanation
Indices: 54972163--54972231 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
54972153 GAAACACCAT
*
54972163 CACCACCCACAAATACTGAACCACATATTGAAC
1 CACCACCCACAAATACTGAACCACATATTAAAC
*
54972196 CACCACCCATAAATACTGAACCACATGA-TAAAC
1 CACCACCCACAAATACTGAACCACAT-ATTAAAC
54972229 CAC
1 CAC
54972232 ATATTGAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.43, C:0.36, G:0.06, T:0.14
Consensus pattern (33 bp):
CACCACCCACAAATACTGAACCACATATTAAAC
Found at i:54972899 original size:191 final size:191
Alignment explanation
Indices: 54972575--54972955 Score: 735
Period size: 191 Copynumber: 2.0 Consensus size: 191
54972565 GTTGCAAATG
54972575 GGTTTTTCGAGTCAAACATAAGGCTGATGGCTCAATTGAGCGATACAAAGCTCGCCTGGTTGCTA
1 GGTTTTTCGAGTCAAACATAAGGCTGATGGCTCAATTGAGCGATACAAAGCTCGCCTGGTTGCTA
54972640 AGGGATACACACAACGAGAAGGTGTTGATTATTTTGACACTTTCTCTCCGGTTGCAAAGATTACT
66 AGGGATACACACAACGAGAAGGTGTTGATTATTTTGACACTTTCTCTCCGGTTGCAAAGATTACT
*
54972705 ACTGTGCGACTTCTTCTTGCTTTAGCTGCATCTTAGAATTGGTTTCTCCAGCAGTTAGATA
131 ACTGTGCGACTTCTTCTTGCTTTAGCTGCATCTCAGAATTGGTTTCTCCAGCAGTTAGATA
* *
54972766 GGTTTTTCGAGTCAAACATAAGGCTGATGGCTCAATTGAGCGATACAAAGCTTGCTTGGTTGCTA
1 GGTTTTTCGAGTCAAACATAAGGCTGATGGCTCAATTGAGCGATACAAAGCTCGCCTGGTTGCTA
54972831 AGGGATACACACAACGAGAAGGTGTTGATTATTTTGACACTTTCTCTCCGGTTGCAAAGATTACT
66 AGGGATACACACAACGAGAAGGTGTTGATTATTTTGACACTTTCTCTCCGGTTGCAAAGATTACT
54972896 ACTGTGCGACTTCTTCTTGCTTTAGCTGCATCTCAGAATTGGTTTCTCCAGCAGTTAGAT
131 ACTGTGCGACTTCTTCTTGCTTTAGCTGCATCTCAGAATTGGTTTCTCCAGCAGTTAGAT
54972956 GTCAATAATG
Statistics
Matches: 187, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
191 187 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (191 bp):
GGTTTTTCGAGTCAAACATAAGGCTGATGGCTCAATTGAGCGATACAAAGCTCGCCTGGTTGCTA
AGGGATACACACAACGAGAAGGTGTTGATTATTTTGACACTTTCTCTCCGGTTGCAAAGATTACT
ACTGTGCGACTTCTTCTTGCTTTAGCTGCATCTCAGAATTGGTTTCTCCAGCAGTTAGATA
Found at i:54981567 original size:20 final size:19
Alignment explanation
Indices: 54981515--54981571 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
54981505 ATTACACATT
54981515 AAAA-ATATATAA-A-AAA
1 AAAATATATATAATATAAA
*
54981531 TAAATATATATAATATAGAA
1 AAAATATATATAATATA-AA
54981551 AAAATATATA-AATTATAAA
1 AAAATATATATAA-TATAAA
54981570 AA
1 AA
54981572 TTTATGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 3 0.09
17 8 0.24
18 1 0.03
19 7 0.21
20 15 0.44
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAATATATATAATATAAA
Found at i:54983230 original size:18 final size:18
Alignment explanation
Indices: 54983202--54983239 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
54983192 TTATTGTATT
*
54983202 TTCATTTTGTTATTTTTAG
1 TTCATTTTGTT-TTTTAAG
54983221 TTCA-TTTGTTTTTTAAG
1 TTCATTTTGTTTTTTAAG
54983238 TT
1 TT
54983240 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 6 0.33
19 4 0.22
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (18 bp):
TTCATTTTGTTTTTTAAG
Found at i:54992595 original size:76 final size:76
Alignment explanation
Indices: 54992505--54992653 Score: 298
Period size: 76 Copynumber: 2.0 Consensus size: 76
54992495 TTGGGCGCTA
54992505 AAATACATCTTCATTTTGCTAATTTTACTGGCTGGTTTGTAGGGATGTATATAAGATGCTGGTTT
1 AAATACATCTTCATTTTGCTAATTTTACTGGCTGGTTTGTAGGGATGTATATAAGATGCTGGTTT
54992570 CCTTCCTGGCT
66 CCTTCCTGGCT
54992581 AAATACATCTTCATTTTGCTAATTTTACTGGCTGGTTTGTAGGGATGTATATAAGATGCTGGTTT
1 AAATACATCTTCATTTTGCTAATTTTACTGGCTGGTTTGTAGGGATGTATATAAGATGCTGGTTT
54992646 CCTTCCTG
66 CCTTCCTG
54992654 TTTTTATATA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (76 bp):
AAATACATCTTCATTTTGCTAATTTTACTGGCTGGTTTGTAGGGATGTATATAAGATGCTGGTTT
CCTTCCTGGCT
Found at i:55004837 original size:20 final size:20
Alignment explanation
Indices: 55004793--55004830 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55004783 AATACAATTT
55004793 ATATTTTAATAATAAATAAA
1 ATATTTTAATAATAAATAAA
55004813 ATATTTT-ATAATTAAATA
1 ATATTTTAATAA-TAAATA
55004831 GATTATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTTTAATAATAAATAAA
Found at i:55016890 original size:20 final size:20
Alignment explanation
Indices: 55016865--55016907 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
55016855 TAATTATAGT
55016865 AATTATATATGTTA-AATAAA
1 AATTATATAT-TTATAATAAA
*
55016885 AATTATATATTTATATTAAA
1 AATTATATATTTATAATAAA
55016905 AAT
1 AAT
55016908 CACTAACCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AATTATATATTTATAATAAA
Found at i:55017062 original size:39 final size:41
Alignment explanation
Indices: 55017003--55017091 Score: 119
Period size: 39 Copynumber: 2.2 Consensus size: 41
55016993 AAAAATTATA
* * * *
55017003 TTTAATACAATAAAATATTTATTATA-TT-TGTTTGTGTTT
1 TTTAATATAATAAAACATTTATTATATTTATGGTAGTGTTT
*
55017042 TTTAATATAATTAAACATTTATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAACATTTATTATATTTATGGTAGTGTTT
55017083 TTTAATATA
1 TTTAATATA
55017092 TTTCTAATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 23 0.53
40 2 0.05
41 18 0.42
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (41 bp):
TTTAATATAATAAAACATTTATTATATTTATGGTAGTGTTT
Found at i:55018204 original size:15 final size:16
Alignment explanation
Indices: 55018180--55018222 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
55018170 TCCAACAGTA
* *
55018180 GGTTTTGGGTTTTTAG
1 GGTTTAGGGTTTTAAG
55018196 GG-TTAGGG-TTTAAG
1 GGTTTAGGGTTTTAAG
55018210 GGTTTAGGGTTTT
1 GGTTTAGGGTTTT
55018223 GAAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 7 0.30
15 11 0.48
16 5 0.22
ACGTcount: A:0.12, C:0.00, G:0.40, T:0.49
Consensus pattern (16 bp):
GGTTTAGGGTTTTAAG
Found at i:55018649 original size:125 final size:125
Alignment explanation
Indices: 55018339--55018781 Score: 688
Period size: 125 Copynumber: 3.5 Consensus size: 125
55018329 GATAAAATCA
* * *
55018339 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAGTCACGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
55018404 AGGTCCTGGAAAAATAATTTCAAGTTGACGTTTCTAAGAAAATAGTATAAAAAAAGGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTAT-AAAAAACGCTTC
* * * * *
55018465 AAGCAAGATGCTTTATTAGAAGAATTTATGAAATCCCGCCCTCGTGAACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
55018530 AGGTCCTGGAAAAATAATTTTGAGTTCACGTTTCTGAGTAAATAGTATAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTC
* * *
55018590 AAGCAGGATGCTTTATCAGAAGAATTTTTGAAATCGCGCCTTCGTGGACGCGCTTTTGCTACAAT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
*
55018655 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTC
* * *
55018715 AAGCAGGATACTTTATCAGAAGAATTTCTGAAATTGCGCCCTCGTGGACACGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
55018780 AG
66 AG
55018782 CATGTTTGGG
Statistics
Matches: 288, Mismatches: 29, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
125 187 0.65
126 101 0.35
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTC
Found at i:55021486 original size:16 final size:16
Alignment explanation
Indices: 55021465--55021498 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
55021455 GACTTAAAAG
55021465 TTAAAACTAATTGTTA
1 TTAAAACTAATTGTTA
*
55021481 TTAAAATTAATTGTTA
1 TTAAAACTAATTGTTA
55021497 TT
1 TT
55021499 GAATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TTAAAACTAATTGTTA
Found at i:55022996 original size:27 final size:27
Alignment explanation
Indices: 55022930--55023082 Score: 106
Period size: 27 Copynumber: 5.9 Consensus size: 27
55022920 AAATTAAATG
* **
55022930 TATATTTATAACAGTATATTAAAA-TT
1 TATAATTATAACAGTATATTAAAACAA
* * *
55022956 TAAAAGTTAAAACATTATATTAAAACAA
1 TATAA-TTATAACAGTATATTAAAACAA
55022984 TATAATTATAACAGTATATTAAAACAA
1 TATAATTATAACAGTATATTAAAACAA
* * * * *
55023011 TAT-ATTAAAAAAGTATATTTATAATAG
1 TATAATTATAACAGTATA-TTAAAACAA
* * *
55023038 TAT-ATTAAAACAATATATT-ATA-AA
1 TATAATTATAACAGTATATTAAAACAA
55023062 T-T--TTATAACAGTATATTAAAA
1 TATAATTATAACAGTATATTAAAA
55023083 TAGTATATTA
Statistics
Matches: 101, Mismatches: 22, Indels: 11
0.75 0.16 0.08
Matches are distributed among these distances:
22 13 0.13
23 3 0.03
24 2 0.02
25 1 0.01
26 17 0.17
27 61 0.60
28 4 0.04
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (27 bp):
TATAATTATAACAGTATATTAAAACAA
Found at i:55023007 original size:40 final size:38
Alignment explanation
Indices: 55022962--55023092 Score: 160
Period size: 40 Copynumber: 3.4 Consensus size: 38
55022952 AATTTAAAAG
*
55022962 TTAAAACATTATATTAAAACAATATAATTATAACAGTATA
1 TTAAAACAATATATTAAAA-AATAT-ATTATAACAGTATA
*
55023002 TTAAAACAATATATTAAAAAAGTATATTTATAATAGTATA
1 TTAAAACAATATATTAAAAAA-TATA-TTATAACAGTATA
*
55023042 TTAAAACAATATATT-ATAAAT-T-TTATAACAGTATA
1 TTAAAACAATATATTAAAAAATATATTATAACAGTATA
* *
55023077 TTAAAATAGTATATTA
1 TTAAAACAATATATTA
55023093 CAGTAAAAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
35 25 0.30
37 1 0.01
38 1 0.01
39 7 0.09
40 48 0.59
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (38 bp):
TTAAAACAATATATTAAAAAATATATTATAACAGTATA
Found at i:55023089 original size:13 final size:13
Alignment explanation
Indices: 55022962--55023092 Score: 117
Period size: 13 Copynumber: 10.2 Consensus size: 13
55022952 AATTTAAAAG
*
55022962 TTAAAACATTATA
1 TTAAAACAGTATA
*
55022975 TTAAAACAATATAA
1 TTAAAACAGTAT-A
*
55022989 TTATAACAGTATA
1 TTAAAACAGTATA
*
55023002 TTAAAACAATATA
1 TTAAAACAGTATA
*
55023015 TTAAAAAAGTATA
1 TTAAAACAGTATA
* *
55023028 TTTATAATAGTATA
1 -TTAAAACAGTATA
*
55023042 TTAAAACAATATA
1 TTAAAACAGTATA
*
55023055 TTATAA-A-T-T-
1 TTAAAACAGTATA
*
55023064 TTATAACAGTATA
1 TTAAAACAGTATA
*
55023077 TTAAAATAGTATA
1 TTAAAACAGTATA
55023090 TTA
1 TTA
55023093 CAGTAAAAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
9 6 0.06
10 2 0.02
11 2 0.02
12 2 0.02
13 63 0.65
14 22 0.23
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (13 bp):
TTAAAACAGTATA
Found at i:55023227 original size:15 final size:15
Alignment explanation
Indices: 55023207--55023240 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
55023197 AAACTAAAAT
*
55023207 TTAATGTGTTAGAAA
1 TTAATGTGTTACAAA
55023222 TTAATGTGTTACAAA
1 TTAATGTGTTACAAA
55023237 TTAA
1 TTAA
55023241 ATGTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (15 bp):
TTAATGTGTTACAAA
Found at i:55023315 original size:27 final size:26
Alignment explanation
Indices: 55023276--55023371 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 26
55023266 AATTTAAAAG
* *
55023276 TTAAAAAATTATATTAAAAAAATATAA
1 TTAAAACAGTATATTAAAAAAATAT-A
* *
55023303 TTATAACAGTATATTAAAACAATATA
1 TTAAAACAGTATATTAAAAAAATATA
* * * * *
55023329 TTAAAAAAATATATTTATAATAGTATA
1 TTAAAACAGTATA-TTAAAAAAATATA
55023356 TTAAAACAGTATATTA
1 TTAAAACAGTATATTA
55023372 TAAATTTTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
26 14 0.25
27 42 0.75
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (26 bp):
TTAAAACAGTATATTAAAAAAATATA
Found at i:55023321 original size:40 final size:39
Alignment explanation
Indices: 55023276--55023371 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 39
55023266 AATTTAAAAG
55023276 TTAAAAAATTATATTAAAAAAATATAATTATAACAGTATA
1 TTAAAAAA-TATATTAAAAAAATATAATTATAACAGTATA
* *
55023316 TTAAAACAATATATTAAAAAAATATATTTATAATAGTATA
1 TTAAAA-AATATATTAAAAAAATATAATTATAACAGTATA
*
55023356 TTAAAACAGTATATTA
1 TTAAAA-AATATATTA
55023372 TAAATTTTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 50 0.96
41 2 0.04
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (39 bp):
TTAAAAAATATATTAAAAAAATATAATTATAACAGTATA
Found at i:55023340 original size:11 final size:13
Alignment explanation
Indices: 55023276--55023371 Score: 86
Period size: 13 Copynumber: 7.2 Consensus size: 13
55023266 AATTTAAAAG
55023276 TTAAAA-AATTATA
1 TTAAAACAA-TATA
*
55023289 TTAAAAAAATATAA
1 TTAAAACAATAT-A
* *
55023303 TTATAACAGTATA
1 TTAAAACAATATA
55023316 TTAAAACAATATA
1 TTAAAACAATATA
*
55023329 TTAAAAAAATATA
1 TTAAAACAATATA
* * *
55023342 TTTATAATAGTATA
1 -TTAAAACAATATA
*
55023356 TTAAAACAGTATA
1 TTAAAACAATATA
55023369 TTA
1 TTA
55023372 TAAATTTTAT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
13 47 0.68
14 22 0.32
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (13 bp):
TTAAAACAATATA
Found at i:55023477 original size:314 final size:313
Alignment explanation
Indices: 55022908--55023681 Score: 1365
Period size: 314 Copynumber: 2.5 Consensus size: 313
55022898 ACATCAACAT
*
55022908 TTAATGTGTTACAAATTAAATGTATATTTATAACAGTATATTAAAATTTAAAAGTTAAAACATTA
1 TTAATGTGTTACAAATTAAATGTATATTTATAACAGTATACTAAAATTTAAAAGTTAAAACATTA
*
55022973 TATTAAAACAATATAATTATAACAGTATATTAAAACAATATATTAAAAAAGTATATTTATAATAG
66 TATTAAAACAATATAATTATAACAGTATATTAAAACAATATATTAAAAAAATATATTTATAATAG
* *
55023038 TATATTAAAACAATATATTATAAATTTTATAACAGTATATTAAAATAGTATATTACAGTAAAAAT
131 TATATTAAAACAATATATTATAAATTTTATAACAATATATTAAAACAGTATATTACAGTAAAAAT
55023103 TATTGTTTTAATAAAAAAATTAACAATATTAATTATTTAGTTAATAACATTAAAAAAATATAAGC
196 TATTGTTTTAATAAAAAAATTAACAATATTAATTATTTAGTT-ATAACATTAAAAAAATATAAGC
55023168 ACCATTTTATGTTAAAAAATAAAGTATAGAAACTAAAATTTAATGTGTTAGAAA
260 ACCATTTTATGTTAAAAAATAAAGTATAGAAACTAAAATTTAATGTGTTAGAAA
*
55023222 TTAATGTGTTACAAATTAAATGTATATTTATAACAGTATACTAAAATTTAAAAGTTAAAAAATTA
1 TTAATGTGTTACAAATTAAATGTATATTTATAACAGTATACTAAAATTTAAAAGTTAAAACATTA
*
55023287 TATTAAAAAAATATAATTATAACAGTATATTAAAACAATATATTAAAAAAATATATTTATAATAG
66 TATTAAAACAATATAATTATAACAGTATATTAAAACAATATATTAAAAAAATATATTTATAATAG
* *
55023352 TATATTAAAACAGTATATTATAAATTTTATAACAATATATTATTAAAACAGTATATTACATTAAA
131 TATATTAAAACAATATATTATAAATTTTATAAC-A-ATA-TATTAAAACAGTATATTACAGTAAA
* *
55023417 AATTATTGTTTTAATCAAAAAATTAACAATATTAATTATTTAG-T-TAACATTACAAAAATATAA
193 AATTATTGTTTTAATAAAAAAATTAACAATATTAATTATTTAGTTATAACATTAAAAAAATATAA
55023480 GCACCATTTTATGTTAAAAAATAAAGTATAGAAACTAAAATTTAATGTGTTAGAAA
258 GCACCATTTTATGTTAAAAAATAAAGTATAGAAACTAAAATTTAATGTGTTAGAAA
55023536 TTAATGTGTTACAAATTAAATGTATATTTATAACAGTATACTAAAATTTAAAAGTTAAAACATTA
1 TTAATGTGTTACAAATTAAATGTATATTTATAACAGTATACTAAAATTTAAAAGTTAAAACATTA
* * * *
55023601 TATTAAAACAATATAATTATAACAGTATATTATAACAATATATTAAAACAATATA-TTAAAAAAG
66 TATTAAAACAATATAATTATAACAGTATATTAAAACAATATATTAAAAAAATATATTTATAATAG
55023665 TATATTAAAACAATATA
131 TATATTAAAACAATATA
55023682 ACCGAACTCA
Statistics
Matches: 440, Mismatches: 17, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
313 23 0.05
314 348 0.79
315 1 0.00
316 3 0.01
317 65 0.15
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (313 bp):
TTAATGTGTTACAAATTAAATGTATATTTATAACAGTATACTAAAATTTAAAAGTTAAAACATTA
TATTAAAACAATATAATTATAACAGTATATTAAAACAATATATTAAAAAAATATATTTATAATAG
TATATTAAAACAATATATTATAAATTTTATAACAATATATTAAAACAGTATATTACAGTAAAAAT
TATTGTTTTAATAAAAAAATTAACAATATTAATTATTTAGTTATAACATTAAAAAAATATAAGCA
CCATTTTATGTTAAAAAATAAAGTATAGAAACTAAAATTTAATGTGTTAGAAA
Found at i:55023541 original size:15 final size:15
Alignment explanation
Indices: 55023521--55023554 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
55023511 AAACTAAAAT
*
55023521 TTAATGTGTTAGAAA
1 TTAATGTGTTACAAA
55023536 TTAATGTGTTACAAA
1 TTAATGTGTTACAAA
55023551 TTAA
1 TTAA
55023555 ATGTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (15 bp):
TTAATGTGTTACAAA
Found at i:55023663 original size:15 final size:13
Alignment explanation
Indices: 55023590--55023681 Score: 123
Period size: 13 Copynumber: 7.0 Consensus size: 13
55023580 AATTTAAAAG
*
55023590 TTAAAACATTATA
1 TTAAAACAATATA
55023603 TTAAAACAATATAA
1 TTAAAACAATAT-A
* *
55023617 TTATAACAGTATA
1 TTAAAACAATATA
*
55023630 TTATAACAATATA
1 TTAAAACAATATA
55023643 TTAAAACAATATA
1 TTAAAACAATATA
55023656 TTAAAA-AAGTATA
1 TTAAAACAA-TATA
55023669 TTAAAACAATATA
1 TTAAAACAATATA
55023682 ACCGAACTCA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
12 2 0.03
13 56 0.79
14 13 0.18
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.34
Consensus pattern (13 bp):
TTAAAACAATATA
Found at i:55024507 original size:5 final size:5
Alignment explanation
Indices: 55024497--55024522 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
55024487 GAGATGGAAT
55024497 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
55024523 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:55024858 original size:9 final size:9
Alignment explanation
Indices: 55024842--55024878 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
55024832 TATAGTTTGA
55024842 TATTCGAAT
1 TATTCGAAT
*
55024851 TGTTCGAAT
1 TATTCGAAT
*
55024860 TATTCGAGT
1 TATTCGAAT
55024869 TATTCGAAT
1 TATTCGAAT
55024878 T
1 T
55024879 CGAAAACTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:55027230 original size:51 final size:51
Alignment explanation
Indices: 55027169--55027266 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
55027159 AAAAAATTAA
55027169 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTAAGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTAAGAGCAAATTGAAATT
* * * *
55027220 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTAAGAGCAAATTGA
55027267 GAGCAAATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTAAGAGCAAATTGAAATT
Found at i:55027242 original size:11 final size:10
Alignment explanation
Indices: 55027230--55027294 Score: 62
Period size: 11 Copynumber: 6.1 Consensus size: 10
55027220 AAATATGGAT
55027230 TTGAGAGAAA
1 TTGAGAGAAA
55027240 TTTG-GAAGGAAA
1 -TTGAG-A-GAAA
55027252 TTGAGAGCAAA
1 TTGAGAG-AAA
55027263 TTGAGAGCAAA
1 TTGAGAG-AAA
55027274 TTGAGAGCAAA
1 TTGAGAG-AAA
55027285 TTGAGA-AAA
1 TTGAGAGAAA
55027294 T
1 T
55027295 AATTGAGAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.08
10 2 0.04
11 39 0.78
12 5 0.10
ACGTcount: A:0.46, C:0.05, G:0.28, T:0.22
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:55027255 original size:22 final size:23
Alignment explanation
Indices: 55027230--55027290 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
55027220 AAATATGGAT
*
55027230 TTGAGAG-AAATTTG-GAAGGAAA
1 TTGAGAGCAAATTTGAG-AGCAAA
55027252 TTGAGAGCAAA-TTGAGAGCAAA
1 TTGAGAGCAAATTTGAGAGCAAA
55027274 TTGAGAGCAAA-TTGAGA
1 TTGAGAGCAAATTTGAGA
55027291 AAATAATTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 32 0.89
23 4 0.11
ACGTcount: A:0.44, C:0.05, G:0.30, T:0.21
Consensus pattern (23 bp):
TTGAGAGCAAATTTGAGAGCAAA
Found at i:55033975 original size:72 final size:72
Alignment explanation
Indices: 55033858--55033998 Score: 237
Period size: 72 Copynumber: 2.0 Consensus size: 72
55033848 CTCTCTGTTG
* * **
55033858 TTCCTGGTTCTCCCATAACTGGAACCACAAGATTTTTTAGTTAGAATGGAATTTCAACTCAAAAT
1 TTCCTGATTCTCCCATAACTAGAACCACAAGATTTTTTAGTTAGAATGGAATACCAACTCAAAAT
55033923 TTTTCCA
66 TTTTCCA
*
55033930 TTCCTGATTCTTCCATAACTAGAACCACAAGATTTTTTAGTTAGAATGGAATACCAACTCAAAAT
1 TTCCTGATTCTCCCATAACTAGAACCACAAGATTTTTTAGTTAGAATGGAATACCAACTCAAAAT
55033995 TTTT
66 TTTT
55033999 TGAGATTTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (72 bp):
TTCCTGATTCTCCCATAACTAGAACCACAAGATTTTTTAGTTAGAATGGAATACCAACTCAAAAT
TTTTCCA
Found at i:55045332 original size:19 final size:19
Alignment explanation
Indices: 55045295--55045332 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
55045285 TTTAAGTATC
*
55045295 TATTTCAATTTTAATAGTA
1 TATTTCAATTTTAAAAGTA
55045314 TATTT-AATTTGTAAAAGTA
1 TATTTCAATTT-TAAAAGTA
55045333 GTGATAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (19 bp):
TATTTCAATTTTAAAAGTA
Found at i:55046284 original size:24 final size:24
Alignment explanation
Indices: 55046257--55046308 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
55046247 TTAGTAAGTC
*
55046257 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
55046281 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
55046305 AAAT
1 AAAT
55046309 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:55048256 original size:24 final size:24
Alignment explanation
Indices: 55048229--55048280 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
55048219 TTAGTAAGAC
*
55048229 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
55048253 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
55048277 AAAT
1 AAAT
55048281 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:55058740 original size:16 final size:16
Alignment explanation
Indices: 55058719--55058757 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
55058709 ATAATCTTAG
55058719 TTTTTTTAGATATGAT
1 TTTTTTTAGATATGAT
* *
55058735 TTTTTTTAGCTATTAT
1 TTTTTTTAGATATGAT
*
55058751 CTTTTTT
1 TTTTTTT
55058758 CTTAATTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.69
Consensus pattern (16 bp):
TTTTTTTAGATATGAT
Found at i:55060271 original size:4 final size:4
Alignment explanation
Indices: 55060262--55060301 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
55060252 ATTCAAGGTG
55060262 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
55060302 TTAGTATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:55060581 original size:4 final size:4
Alignment explanation
Indices: 55060574--55060603 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
55060564 TATGATATAG
55060574 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
55060604 GAAATAACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:55063870 original size:15 final size:16
Alignment explanation
Indices: 55063845--55063874 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
55063835 ATGCTCGATA
55063845 ACTTTATTTTTATTTC
1 ACTTTATTTTTATTTC
55063861 ACTTTA-TTTTATTT
1 ACTTTATTTTTATTT
55063875 TATTTTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (16 bp):
ACTTTATTTTTATTTC
Found at i:55068168 original size:13 final size:13
Alignment explanation
Indices: 55068150--55068174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55068140 GACCGCGACA
55068150 ATTTTAATTTTTT
1 ATTTTAATTTTTT
55068163 ATTTTAATTTTT
1 ATTTTAATTTTT
55068175 ACTTTCTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTAATTTTTT
Done.