Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 17 of 126
Found at i:4870630 original size:115 final size:114
Alignment explanation
Indices: 4870468--4870749 Score: 395
Period size: 115 Copynumber: 2.5 Consensus size: 114
4870458 TTATCTTATA
** * * * * * *
4870468 ACGGTGCCGTTTTGTCCTTGT-TATTAGTGGTGCAGTTGAAAATCGCCGCAAAAGGTGATATATT
1 ACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTAAAAAACGCCGCAAAA-GTGATATATT
* * *
4870532 ACCGGCGTTTTACGAAGAAACGCCAGAAATTTCCTTTAACTGTAACGAAG
65 ACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTAACTGTAACAAAG
4870582 ACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTAAAAAACGCCGCTAAAAGTGATATATT
1 ACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTAAAAAACGCCGC-AAAAGTGATATATT
* *
4870647 ACCTGCGTTTTACGAAGAAACGCCACAAATTGCCTTTAACTGTGACAAAG
65 ACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTAACTGTAACAAAG
* * *
4870697 ACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTTAAAAGCGCCACAAA
1 ACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTAAAAAACGCCGCAAA
4870750 TATTGTTTAC
Statistics
Matches: 150, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
114 21 0.14
115 125 0.83
116 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (114 bp):
ACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTAAAAAACGCCGCAAAAGTGATATATTA
CCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTAACTGTAACAAAG
Found at i:4870947 original size:376 final size:376
Alignment explanation
Indices: 4870113--4871005 Score: 1538
Period size: 378 Copynumber: 2.4 Consensus size: 376
4870103 TTGTTTTCTT
* * *
4870113 TTAGTGGCGCATTTAAAAAACGCCGCTAAAA-GTGATATATTACCTGCGTTTTACGAAGAAACGC
1 TTAGTGGCGCATTTGAAAATCGCCGC-AAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGC
* * *
4870177 CACAAATTGCCTTTAACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTT
65 CACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTT
4870242 AAAAAACGCCGCTAAAAGTGATATATTACCTGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
130 AAAAAACGCCGCTAAAAGTGATATATTACCTGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
4870307 ACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTATAAAAACGCCACAAA
195 ACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTATAAAAACGCCACAAA
4870372 TTCGCAAATCACGAGCTGAGGAAACGACGTCGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAA
260 TTCG--AATCACGAGCTGAGGAAACGACGTCGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAA
* * *
4870437 GCGCCGCAACAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGTTA
323 GCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGATA
* *
4870491 TTAGTGGTGCAGTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
1 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
*
4870556 AGAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTA
66 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTA
4870621 AAAAACGCCGCTAAAAGTGATATATTACCTGCGTTTTACGAAGAAACGCCACAAATTGCCTTTAA
131 AAAAACGCCGCTAAAAGTGATATATTACCTGCGTTTTACGAAGAAACGCCACAAATTGCCTTTAA
* *
4870686 CTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTTAAAAGCGCCACAAAT
196 CTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTATAAAAACGCCACAAAT
* * * *
4870751 ATTG-TTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAAGC
261 -TCGAATCACGAGCTGAGGAAACGACGTCGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAAGC
4870815 GCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGATA
325 GCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGATA
*
4870867 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTCACGAAGAAACGCC
1 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
* *
4870932 ACAAATTTCCTTTAACTATAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTT
66 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTA
*
4870997 AAAAGCGCC
131 AAAAACGCC
4871006 ACAAATATTG
Statistics
Matches: 488, Mismatches: 25, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
376 238 0.49
377 4 0.01
378 244 0.50
379 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (376 bp):
TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTA
AAAAACGCCGCTAAAAGTGATATATTACCTGCGTTTTACGAAGAAACGCCACAAATTGCCTTTAA
CTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTATAAAAACGCCACAAAT
TCGAATCACGAGCTGAGGAAACGACGTCGTTTCCTATTTTTATTAGTGGCGCTTTAGCTAAAGCG
CCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGATA
Found at i:4871617 original size:21 final size:21
Alignment explanation
Indices: 4871593--4871632 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4871583 TAAGCTATGT
4871593 ATCCGTAAAAAATGATTTTCC
1 ATCCGTAAAAAATGATTTTCC
*
4871614 ATCCGTAAAAATTGATTTT
1 ATCCGTAAAAAATGATTTT
4871633 GCATTTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
ATCCGTAAAAAATGATTTTCC
Found at i:4871651 original size:34 final size:34
Alignment explanation
Indices: 4871606--4871683 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
4871596 CGTAAAAAAT
* *
4871606 GATTTTCCATCCGTAAAAATTGATTTTGCATTTA
1 GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
4871640 GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
1 GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
4871674 GATTTTGCAT
1 GATTTTGCAT
4871684 GCTGGAAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (34 bp):
GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
Found at i:4873191 original size:12 final size:12
Alignment explanation
Indices: 4873174--4873199 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4873164 ATTAATTTTA
4873174 TTTACCTTAAAT
1 TTTACCTTAAAT
4873186 TTTACCTTAAAT
1 TTTACCTTAAAT
4873198 TT
1 TT
4873200 ATATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTACCTTAAAT
Found at i:4875136 original size:21 final size:21
Alignment explanation
Indices: 4875111--4875179 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
4875101 CAGCAACTTA
* *
4875111 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
* ** *
4875132 AAGCAGCGGCTACAACGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
4875153 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
4875174 AAGCAG
1 AAGCAG
4875180 CGAGAGAAGC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.35, C:0.22, G:0.42, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:4875181 original size:12 final size:12
Alignment explanation
Indices: 4875164--4875203 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
4875154 AGCAGAGGCC
4875164 GCAGCGAGAGAA
1 GCAGCGAGAGAA
4875176 GCAGCGAGAGAA
1 GCAGCGAGAGAA
* *
4875188 GCAGCAATAGAA
1 GCAGCGAGAGAA
4875200 GCAG
1 GCAG
4875204 AGGTTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.42, C:0.17, G:0.38, T:0.03
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:4875666 original size:42 final size:42
Alignment explanation
Indices: 4875616--4875928 Score: 334
Period size: 42 Copynumber: 7.4 Consensus size: 42
4875606 GCGTTTGTGA
4875616 AATAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTT
* * * *
4875658 AATAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGCTTTCTTC
1 AATAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCG-TTT-TTT
* *
4875702 CA-AAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
** * *
4875743 CCTAAGCGCCACTAAAGAACATGATCTTTAGCAGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
4875785 -ATAAGCGCCGCTAAAGAACATGATCTTTAAG-GGCGTTTCTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTT-AGCGGCGTTT-TTT
* * *
4875827 -CTAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCCTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
** *
4875868 TCTAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT
* *
4875911 ATGTAAGCGCCGCAAAAG
1 A-ATAAGCGCCGCTAAAG
4875929 TTAGTGACGT
Statistics
Matches: 235, Mismatches: 25, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
41 41 0.17
42 140 0.60
43 36 0.15
44 18 0.08
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (42 bp):
AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
Found at i:4875831 original size:83 final size:83
Alignment explanation
Indices: 4875617--4875928 Score: 341
Period size: 83 Copynumber: 3.7 Consensus size: 83
4875607 CGTTTGTGAA
* *
4875617 ATAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTTAATAAGCGCCGCTATAGAACAT
1 ATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTACTAAGCGCCGCTAAAGAACAT
* *
4875680 TA-CTTTTAG-AGGCGCTTTCTTCC
64 GATC-TTTAGCA-GCG-TTT-TT-T
* * *
4875703 A-AAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCACTAAAGAACATGA
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACTAAGCGCCGCTAAAGAACATGA
4875767 TCTTTAGCAGCGTTTTTT
66 TCTTTAGCAGCGTTTTTT
*
4875785 ATAAGCGCCGCTAAAGAACATGATCTTTAAG-GGCGTTTCTTT-CTAAGCGCCGCTAAAGAGCAT
1 ATAAGCGCCGCTAAAGAACATGATCTTT-AGCGGCGTTT-TTTACTAAGCGCCGCTAAAGAACAT
* *
4875848 GATCTTTAGCGGCCTTTTTTT
64 GATCTTTAGCAG-CGTTTTTT
* * * *
4875869 CTAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTATGTAAGCGCCGCAAAAG
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTA-CTAAGCGCCGCTAAAG
4875929 TTAGTGACGT
Statistics
Matches: 198, Mismatches: 16, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
82 1 0.01
83 66 0.33
84 49 0.25
85 64 0.32
86 18 0.09
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (83 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACTAAGCGCCGCTAAAGAACATGA
TCTTTAGCAGCGTTTTTT
Found at i:4875858 original size:125 final size:126
Alignment explanation
Indices: 4875618--4875928 Score: 414
Period size: 125 Copynumber: 2.4 Consensus size: 126
4875608 GTTTGTGAAA
* *
4875618 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTTAATAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTT-ATAAGCGCCGCTAAAGAACATG
* * *
4875681 ACTTTTAGAGGCGCTTTCTTCCAAAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
63 ACTTTAAGAGGCGCTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCCTTTTTTCC
* *
4875745 TAAGCGCCACTAAAGAACATGATCTTTAGCAGCGTTTTTTATAAGCGCCGCTAAAGAACATGATC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTATAAGCGCCGCTAAAGAACATGA-C
* * * *
4875810 TTTAAG-GGCG-TTTCTTTCTAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCCTTTTTTTC
65 TTTAAGAGGCGCTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCCTTTTTTCC
* *
4875870 TAAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTTTTATGTAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTA--TAAGCGCCGCTAAAG
4875929 TTAGTGACGT
Statistics
Matches: 163, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
125 75 0.46
126 33 0.20
127 40 0.25
128 15 0.09
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (126 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTATAAGCGCCGCTAAAGAACATGACT
TTAAGAGGCGCTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCCTTTTTTCC
Found at i:4879789 original size:43 final size:43
Alignment explanation
Indices: 4879729--4879819 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
4879719 CTTTGAGTTC
* * * *
4879729 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
*
4879771 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATATTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
4879814 ATTACC
1 ATTACC
4879820 TTGCATATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Found at i:4880083 original size:16 final size:16
Alignment explanation
Indices: 4880064--4880094 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4880054 TATTATTTGA
4880064 AAAAAATATATTTTTT
1 AAAAAATATATTTTTT
*
4880080 AAAAGATATATTTTT
1 AAAAAATATATTTTT
4880095 AGCGGCGTTT
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
AAAAAATATATTTTTT
Found at i:4880221 original size:42 final size:43
Alignment explanation
Indices: 4880092--4880296 Score: 238
Period size: 42 Copynumber: 4.8 Consensus size: 43
4880082 AAGATATATT
* * *
4880092 TTTAGCGGCGTTTGTGGGAAAAAGTGCCGCTAAAGCTCAAT-ATC
1 TTTAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAAGGTC-ATGGTC
* * *
4880136 TTTAGCAGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
4880179 TTTAGCGACGTTTGTGGG-GAAGTGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
4880221 TTTAGTGGCATTTGTAGGG--AAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGGTCATGGTC
*
4880263 TTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
4880297 TTAGCGACGC
Statistics
Matches: 140, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
41 3 0.02
42 69 0.49
43 51 0.36
44 17 0.12
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:4880399 original size:22 final size:21
Alignment explanation
Indices: 4880366--4880410 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
4880356 TTTAGTGGCG
*
4880366 CTAAAAAACGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
4880387 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
4880409 CT
1 CT
4880411 GTTTTGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:4880713 original size:33 final size:33
Alignment explanation
Indices: 4880648--4880877 Score: 174
Period size: 33 Copynumber: 7.0 Consensus size: 33
4880638 AAAATTCTCA
* * * * *
4880648 AGTTACCAAAGCTAGAATTGCCTAAAGTTCCTG
1 AGTTACCCAAGCCAAAATTGCCCAAAGCTCCTG
* * *
4880681 AGATGCCCAAGCCAGAATTGCCCAAAGCTCCTG
1 AGTTACCCAAGCCAAAATTGCCCAAAGCTCCTG
* * *
4880714 AGTTACCGAAGCCAAAATTGCCCAAAGTTCCTA
1 AGTTACCCAAGCCAAAATTGCCCAAAGCTCCTG
*** **
4880747 AGGCGCCCAAGCCAAAATTGCCCAAAGCTCCCA
1 AGTTACCCAAGCCAAAATTGCCCAAAGCTCCTG
* * * * * *
4880780 AGTTACCAAATCCTAAATTACCAAAAG-TTCTCG
1 AGTTACCCAAGCCAAAATTGCCCAAAGCTCCT-G
* * * *
4880813 AGTTACCAAAGTCAAAATTGCCTAAAGTTCCTG
1 AGTTACCCAAGCCAAAATTGCCCAAAGCTCCTG
* * * *
4880846 AGGTGCTCAAGCCAGAATTGCCCAAAGCTCCT
1 AGTTACCCAAGCCAAAATTGCCCAAAGCTCCT
4880878 AAATTGTCAA
Statistics
Matches: 152, Mismatches: 43, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
32 2 0.01
33 147 0.97
34 3 0.02
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (33 bp):
AGTTACCCAAGCCAAAATTGCCCAAAGCTCCTG
Found at i:4880743 original size:66 final size:66
Alignment explanation
Indices: 4880648--4880877 Score: 212
Period size: 66 Copynumber: 3.5 Consensus size: 66
4880638 AAAATTCTCA
* * * *
4880648 AGTTACCAAAGCTAGAATTGCCTAAAGTTCCTGAGATGCCCAAGCCAGAATTGCCCAAAGCTCCT
1 AGTTACCAAAGCCAAAATTGCCCAAAGTTCCTGAGATGCCCAAGCCAAAATTGCCCAAAGCTCCT
4880713 G
66 G
* * ** *
4880714 AGTTACCGAAGCCAAAATTGCCCAAAGTTCCTAAGGCGCCCAAGCCAAAATTGCCCAAAGCTCCC
1 AGTTACCAAAGCCAAAATTGCCCAAAGTTCCTGAGATGCCCAAGCCAAAATTGCCCAAAGCTCCT
*
4880779 A
66 G
* * * * * * * * * *
4880780 AGTTACCAAATCCTAAATTACCAAAAGTT-CTCGAGTTACCAAAGTCAAAATTGCCTAAAGTTCC
1 AGTTACCAAAGCCAAAATTGCCCAAAGTTCCT-GAGATGCCCAAGCCAAAATTGCCCAAAGCTCC
4880844 TG
65 TG
* * * *
4880846 AGGTGCTC-AAGCCAGAATTGCCCAAAGCTCCT
1 AGTTAC-CAAAGCCAAAATTGCCCAAAGTTCCT
4880878 AAATTGTCAA
Statistics
Matches: 128, Mismatches: 33, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
65 2 0.02
66 123 0.96
67 3 0.02
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (66 bp):
AGTTACCAAAGCCAAAATTGCCCAAAGTTCCTGAGATGCCCAAGCCAAAATTGCCCAAAGCTCCT
G
Found at i:4880840 original size:99 final size:99
Alignment explanation
Indices: 4880713--4880974 Score: 301
Period size: 99 Copynumber: 2.6 Consensus size: 99
4880703 CAAAGCTCCT
* * * *
4880713 GAGTTACCGAAGCCAAAATTGCCCAAAGTTCCTAAGGCGCCCAAGCCAAAATTGCCCAAAGCTCC
1 GAGTTACCAAAGCCAAAATTGCCTAAAGTTCCTAAGGTGCCCAAGCCAGAATTGCCCAAAGCTCC
* * * *
4880778 CAAGTTACCAAATCCTAAATTACCAAAAGTTCTC
66 CAAATTACCAAAACCTAAATTACCAAAAATTCCC
* * *
4880812 GAGTTACCAAAGTCAAAATTGCCTAAAGTTCCTGAGGTGCTCAAGCCAGAATTGCCCAAAGCTCC
1 GAGTTACCAAAGCCAAAATTGCCTAAAGTTCCTAAGGTGCCCAAGCCAGAATTGCCCAAAGCTCC
* ** *
4880877 TAAATTGTCAAAACCTGAATTACCAAAAATTCCC
66 CAAATTACCAAAACCTAAATTACCAAAAATTCCC
* * * * * * * *
4880911 GAGTTAACAAAACCAGAATTGTCTAAAG-TGCTCAAAGTGCCAAAACCAGAATTGCCCAAAGCTC
1 GAGTTACCAAAGCCAAAATTGCCTAAAGTTCCT-AAGGTGCCCAAGCCAGAATTGCCCAAAGCTC
4880975 TTGAGTTGCC
Statistics
Matches: 136, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
98 3 0.02
99 133 0.98
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (99 bp):
GAGTTACCAAAGCCAAAATTGCCTAAAGTTCCTAAGGTGCCCAAGCCAGAATTGCCCAAAGCTCC
CAAATTACCAAAACCTAAATTACCAAAAATTCCC
Found at i:4883769 original size:26 final size:26
Alignment explanation
Indices: 4883739--4883792 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
4883729 ATATCACCCT
4883739 AATAAAAAATTATAAAAATATTT-TAA
1 AATAAAAAATTATAAAAA-ATTTATAA
* *
4883765 AATAAAATATTTTAAAAAATTTATAA
1 AATAAAAAATTATAAAAAATTTATAA
4883791 AA
1 AA
4883793 ACAGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
AATAAAAAATTATAAAAAATTTATAA
Found at i:4883773 original size:15 final size:15
Alignment explanation
Indices: 4883753--4883781 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4883743 AAAAATTATA
4883753 AAAATATTTTAAAAT
1 AAAATATTTTAAAAT
4883768 AAAATATTTTAAAA
1 AAAATATTTTAAAA
4883782 AATTTATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATATTTTAAAAT
Found at i:4883789 original size:37 final size:37
Alignment explanation
Indices: 4883741--4883811 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 37
4883731 ATCACCCTAA
* *
4883741 TAAAAAATTATAAAAATA-TTTTAAAATAAAATATTT
1 TAAAAAATTATAAAAACAGTTTAAAAATAAAATATTT
4883777 TAAAAAATTTATAAAAACAGTTTAAAAATAAAATA
1 TAAAAAA-TTATAAAAACAGTTTAAAAATAAAATA
4883812 AAATGAAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 7 0.23
37 10 0.32
38 14 0.45
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (37 bp):
TAAAAAATTATAAAAACAGTTTAAAAATAAAATATTT
Found at i:4887016 original size:29 final size:30
Alignment explanation
Indices: 4886984--4887058 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
4886974 TTACAAGTTA
*
4886984 AAATTTCATATATAAAATAGTACA-GAATT
1 AAATTTCATATATAAAATAGTACATAAATT
* * * *
4887013 AAATTTTATGTATAATATCGTACATTAAATT
1 AAATTTCATATATAAAATAGTACA-TAAATT
*
4887044 AAAGTTCATATATAA
1 AAATTTCATATATAA
4887059 TTTTGATATT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
29 20 0.56
31 16 0.44
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (30 bp):
AAATTTCATATATAAAATAGTACATAAATT
Found at i:4887058 original size:31 final size:29
Alignment explanation
Indices: 4886988--4887059 Score: 72
Period size: 31 Copynumber: 2.4 Consensus size: 29
4886978 AAGTTAAAAT
* * *
4886988 TTCATATATAAAATAGTACAGAATTAAAT
1 TTCATATATAATATAGTACAAAATTAAAG
* * *
4887017 TTTATGTATAATATCGTACATTAAATTAAAG
1 TTCATATATAATATAGTACA--AAATTAAAG
4887048 TTCATATATAAT
1 TTCATATATAAT
4887060 TTTGATATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
29 16 0.48
31 17 0.52
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (29 bp):
TTCATATATAATATAGTACAAAATTAAAG
Found at i:4889360 original size:65 final size:65
Alignment explanation
Indices: 4889256--4889382 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 65
4889246 TTTCAAATAT
*
4889256 TAATCTAGTTGTGCTATAATAGTAATATTAAAAGTAAACTACT-TCCAAGGTTGCTATATTATTA
1 TAATCTAGTTGTGCTATAATAGTAATATTAAAAGTAAACTA-TATCCAAGGTCGCTATATTATTA
4889320 G
65 G
*
4889321 TAATCTAGTTGTGTTATAATAGTAATATT-AAAGATAAACTATATCCAAGGTCGCTATATTAT
1 TAATCTAGTTGTGCTATAATAGTAATATTAAAAG-TAAACTATATCCAAGGTCGCTATATTAT
4889383 ATAAGTAAGT
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
64 5 0.09
65 53 0.91
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (65 bp):
TAATCTAGTTGTGCTATAATAGTAATATTAAAAGTAAACTATATCCAAGGTCGCTATATTATTAG
Found at i:4894812 original size:23 final size:24
Alignment explanation
Indices: 4894768--4894825 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 24
4894758 CCGGCCCATT
*
4894768 TTTTAATAAATATTAAAAAAAATA
1 TTTTAATAAATATAAAAAAAAATA
*
4894792 TTTTAAAAATAAAAAATAAAAAAAAATA
1 TTTT---AAT-AAATATAAAAAAAAATA
4894820 TTTTAA
1 TTTTAA
4894826 AAGTCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 4 0.14
25 2 0.07
27 3 0.11
28 19 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (24 bp):
TTTTAATAAATATAAAAAAAAATA
Found at i:4894812 original size:24 final size:24
Alignment explanation
Indices: 4894768--4894813 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
4894758 CCGGCCCATT
**
4894768 TTTTAATAAATATTAAAAAAAATA
1 TTTTAATAAATAAAAAAAAAAATA
4894792 TTTTAA-AAATAAAAAATAAAAA
1 TTTTAATAAATAAAAAA-AAAAA
4894814 AAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTTAATAAATAAAAAAAAAAATA
Found at i:4897363 original size:17 final size:19
Alignment explanation
Indices: 4897330--4897364 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
4897320 ATTATTTGGA
4897330 TATTGTATAACTCTTGTTT
1 TATTGTATAACTCTTGTTT
4897349 TATTGT-TAA-TCTTGTT
1 TATTGTATAACTCTTGTT
4897365 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (19 bp):
TATTGTATAACTCTTGTTT
Found at i:4902919 original size:23 final size:23
Alignment explanation
Indices: 4902891--4902936 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
4902881 TAGATTTTTC
4902891 TTAAATATTATCACTAAATAATT
1 TTAAATATTATCACTAAATAATT
*
4902914 TTAAATATTATTACTAAATAATT
1 TTAAATATTATCACTAAATAATT
4902937 CAAAATTTAA
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:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAAATATTATCACTAAATAATT
Found at i:4902942 original size:23 final size:23
Alignment explanation
Indices: 4902893--4902942 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
4902883 GATTTTTCTT
**
4902893 AAATATTATCACTAAATAATTTT
1 AAATATTATCACTAAATAATTCA
*
4902916 AAATATTATTACTAAATAATTCA
1 AAATATTATCACTAAATAATTCA
4902939 AAAT
1 AAAT
4902943 TTAAAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATTATCACTAAATAATTCA
Found at i:4915694 original size:78 final size:78
Alignment explanation
Indices: 4915600--4915757 Score: 300
Period size: 78 Copynumber: 2.0 Consensus size: 78
4915590 TGATCGTTCG
4915600 ATCCAATCGAATTGAGTGAAAAAATTTTGAGTTAATCGAGTTGACGAGTTCAGTTTTATCATCCT
1 ATCCAATCGAATTGAGTGAAAAAATTTTGAGTTAATCGAGTTGACGAGTTCAGTTTTATCATCCT
4915665 AACTTGAAATCAT
66 AACTTGAAATCAT
4915678 ATCCAATCG-ATGTGAGTGAAAAAATTTTGAGTTAATCGAGTTGACGAGTTCAGTTTTATCATCC
1 ATCCAATCGAAT-TGAGTGAAAAAATTTTGAGTTAATCGAGTTGACGAGTTCAGTTTTATCATCC
4915742 TAACTTGAAATCAT
65 TAACTTGAAATCAT
4915756 AT
1 AT
4915758 ATATTTGAAT
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
77 2 0.03
78 77 0.97
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (78 bp):
ATCCAATCGAATTGAGTGAAAAAATTTTGAGTTAATCGAGTTGACGAGTTCAGTTTTATCATCCT
AACTTGAAATCAT
Found at i:4920118 original size:83 final size:83
Alignment explanation
Indices: 4919987--4920267 Score: 483
Period size: 83 Copynumber: 3.4 Consensus size: 83
4919977 AATTTTTGTG
*
4919987 GGGGGCAGAAATTAAATTTTAATTTTTAATAGCTTATTTTTTTATAAATTTTAAAATATTAAATC
1 GGGGGCAAAAATTAAATTTTAATTTTTAATAGCTTATTTTTTTATAAATTTTAAAATATTAAATC
4920052 AAATTTTTATAATTTTTA
66 AAATTTTTATAATTTTTA
4920070 GGGGGCAAAAATTAAATTTTAATTTTTAATAGCTTATTTTTTTATAAATTTTAAAATATTAAATC
1 GGGGGCAAAAATTAAATTTTAATTTTTAATAGCTTATTTTTTTATAAATTTTAAAATATTAAATC
4920135 AAATTTTTATAATTTTTA
66 AAATTTTTATAATTTTTA
*
4920153 GGGGGCAAAAATTAAATTTTAATTTTTAATAGCTTATTTTTTTATAAATTTTAAAATATTGAATC
1 GGGGGCAAAAATTAAATTTTAATTTTTAATAGCTTATTTTTTTATAAATTTTAAAATATTAAATC
4920218 AAATTTTTATAATTTTTA
66 AAATTTTTATAATTTTTA
* * *
4920236 AGGGGCCAAACTGT-AATTTTAACTTTATTAAT
1 GGGGGCAAAAAT-TAAATTTTAA-TTT-TTAAT
4920268 TTAAAATTTT
Statistics
Matches: 190, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
83 181 0.95
84 4 0.02
85 5 0.03
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (83 bp):
GGGGGCAAAAATTAAATTTTAATTTTTAATAGCTTATTTTTTTATAAATTTTAAAATATTAAATC
AAATTTTTATAATTTTTA
Found at i:4923960 original size:24 final size:24
Alignment explanation
Indices: 4923927--4923985 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
4923917 TCTGTGGTTA
4923927 AATGACTGATTTGTTTGTG-TTTGG
1 AATGACTGATTTGTTTGTGATTT-G
*
4923951 TATGACTGATTTGTTTGTGATTTG
1 AATGACTGATTTGTTTGTGATTTG
4923975 AATGACTGATT
1 AATGACTGATT
4923986 CTGAGCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 29 0.91
25 3 0.09
ACGTcount: A:0.20, C:0.05, G:0.25, T:0.49
Consensus pattern (24 bp):
AATGACTGATTTGTTTGTGATTTG
Found at i:4924096 original size:27 final size:27
Alignment explanation
Indices: 4924053--4924112 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
4924043 GGAAGCATTA
* *
4924053 TACTGGTGGCTCTGCCACA-ATCACTGT
1 TACTGGTGGCTCGGCCACATAT-ACTAT
4924080 TACTGGTGGCGT-GGCCACATATACTAT
1 TACTGGTGGC-TCGGCCACATATACTAT
4924107 TACTGG
1 TACTGG
4924113 CAGCTTTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (27 bp):
TACTGGTGGCTCGGCCACATATACTAT
Found at i:4924153 original size:26 final size:26
Alignment explanation
Indices: 4924100--4924153 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
4924090 GTGGCCACAT
* *
4924100 ATACTATTACTGGCAGCTTTGTTGCG
1 ATACTATTACTGGCAGCTTTGCTACG
**
4924126 ATACTATTGTTGGCAGCTTTGCTACG
1 ATACTATTACTGGCAGCTTTGCTACG
4924152 AT
1 AT
4924154 GCTACTGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTACG
Found at i:4924201 original size:32 final size:32
Alignment explanation
Indices: 4924156--4924370 Score: 186
Period size: 32 Copynumber: 6.7 Consensus size: 32
4924146 GCTACGATGC
* *
4924156 TACTGATGACTTTGTACCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
*
4924188 TACTGACGGCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * * *
4924220 TACTGATAGCTTTGTGCTGATCATATTACCTT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * ** *
4924252 TACAGAT-GATTCTGTGCCGATCATTTTACTGT
1 TACTGATGGCTT-TGTGCCGATCATAGTACCGT
* * **
4924284 TACTGATGGCTGTGTGCCAATCATA-TCATTGT
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCGT
* * *
4924316 TACTGATGG-TTGTATGCCGATCATA-TCACTGC
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACCGT
*
4924348 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCGATCA
4924371 CATTATCGTA
Statistics
Matches: 151, Mismatches: 27, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
31 5 0.03
32 142 0.94
33 4 0.03
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACCGT
Found at i:4924364 original size:96 final size:97
Alignment explanation
Indices: 4924153--4924370 Score: 212
Period size: 96 Copynumber: 2.3 Consensus size: 97
4924143 TTTGCTACGA
* * * *
4924153 TGCTACTGATGACTTTGTACCGATCATAGTACCGTTACTGACGGCTTTGTGCCGATCATAGTACC
1 TGCTACTGATGGCTTTGTGCCGATCATAGTACCGTTACTGACGGCTGTGTGCCAATCATAGTACC
* * *
4924218 GTTACTGATAGCTTTGTGCTGATCATATTACC
66 GTTACTGATAGCTTTATGCCGATCATATCACC
* * * ** * *
4924250 T-TTACAGAT-GATTCTGTGCCGATCATTTTACTGTTACTGATGGCTGTGTGCCAATCATA-TCA
1 TGCTACTGATGGCTT-TGTGCCGATCATAGTACCGTTACTGACGGCTGTGTGCCAATCATAGT-A
** *
4924312 TTGTTACTGAT-GGTTGTATGCCGATCATATCA-C
64 CCGTTACTGATAGCTT-TATGCCGATCATATCACC
*
4924345 TGCTACTGATGGCTTTGTGCCAATCA
1 TGCTACTGATGGCTTTGTGCCGATCA
4924371 CATTATCGTA
Statistics
Matches: 95, Mismatches: 21, Indels: 11
0.75 0.17 0.09
Matches are distributed among these distances:
95 8 0.08
96 83 0.87
97 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (97 bp):
TGCTACTGATGGCTTTGTGCCGATCATAGTACCGTTACTGACGGCTGTGTGCCAATCATAGTACC
GTTACTGATAGCTTTATGCCGATCATATCACC
Found at i:4933825 original size:5 final size:5
Alignment explanation
Indices: 4933810--4933838 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
4933800 AAAATAAATG
4933810 GGAAA -GAAA GGAAA GGAAA GGAAA GGAAA
1 GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA
4933839 AAATGAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
GGAAA
Found at i:4935229 original size:23 final size:22
Alignment explanation
Indices: 4935186--4935243 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
4935176 AAAGGGTATC
* *
4935186 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
4935207 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
4935230 TACATATCATATCT
1 TACAAATCATATCT
4935244 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:4935246 original size:19 final size:19
Alignment explanation
Indices: 4935199--4935277 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 19
4935189 AAATTAAATC
*
4935199 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
4935219 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
4935241 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
4935262 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
4935278 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 14 0.28
21 18 0.36
22 7 0.14
23 11 0.22
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:4935259 original size:21 final size:21
Alignment explanation
Indices: 4935233--4935276 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
4935223 CTAAGATTAC
4935233 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
4935254 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
4935275 AT
1 AT
4935277 CNNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:4941474 original size:98 final size:98
Alignment explanation
Indices: 4941305--4941695 Score: 755
Period size: 98 Copynumber: 4.0 Consensus size: 98
4941295 TACAATAAAA
4941305 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
4941370 CTCTAGAATCCCAAACTCGGAATATTTCCTTTT
66 CTCTAGAATCCCAAACTCGGAATATTTCCTTTT
4941403 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
4941468 CTCTAGAATCCCAAACTCGGAATATTTCCTTTT
66 CTCTAGAATCCCAAACTCGGAATATTTCCTTTT
4941501 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
4941566 CTCTAGAATCCCAAACTCGGAATATTTCCTTTT
66 CTCTAGAATCCCAAACTCGGAATATTTCCTTTT
*
4941599 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
* *
4941664 CTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CTCTAGAATCCCAAACTCGGAATATTTCCTTT
4941696 ATTATTTTAA
Statistics
Matches: 290, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 290 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (98 bp):
CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
CTCTAGAATCCCAAACTCGGAATATTTCCTTTT
Found at i:4941991 original size:9 final size:9
Alignment explanation
Indices: 4941977--4942001 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4941967 TGCAAATGCT
4941977 ATAATAACA
1 ATAATAACA
4941986 ATAATAACA
1 ATAATAACA
4941995 ATAATAA
1 ATAATAA
4942002 ATACATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:4943058 original size:19 final size:19
Alignment explanation
Indices: 4943026--4943080 Score: 87
Period size: 19 Copynumber: 3.0 Consensus size: 19
4943016 GATTACAAAA
4943026 ACATATC-T-TCTAAGATT
1 ACATATCATATCTAAGATT
4943043 ACATATCATATCTAAGATT
1 ACATATCATATCTAAGATT
*
4943062 GCATATCATATCTAAGATT
1 ACATATCATATCTAAGATT
4943081 GCGTATCCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 7 0.20
18 1 0.03
19 27 0.77
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (19 bp):
ACATATCATATCTAAGATT
Found at i:4943081 original size:19 final size:19
Alignment explanation
Indices: 4943034--4943087 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
4943024 AAACATATCT
*
4943034 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
4943053 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
4943072 TCTAAGATTGCGTATC
1 TCTAAGATTGCATATC
4943088 CTCAGAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4948829 original size:3 final size:3
Alignment explanation
Indices: 4948821--4948875 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
4948811 TGTTTATTTA
* *
4948821 TAT TAT TAT TACT GTAT TAT TAT TAG T-T TAA TAT TAT TA- TAT TAT
1 TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4948866 ATAT TAT TAT
1 -TAT TAT TAT
4948876 ACTTACTTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 3 0.07
3 33 0.77
4 5 0.12
5 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:4948840 original size:14 final size:14
Alignment explanation
Indices: 4948821--4948859 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4948811 TGTTTATTTA
4948821 TATTATTATTACTG
1 TATTATTATTACTG
* *
4948835 TATTATTATTAGTT
1 TATTATTATTACTG
*
4948849 TAATATTATTA
1 TATTATTATTA
4948860 TATTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (14 bp):
TATTATTATTACTG
Found at i:4948843 original size:22 final size:22
Alignment explanation
Indices: 4948793--4948875 Score: 71
Period size: 22 Copynumber: 3.7 Consensus size: 22
4948783 TTTTAGTTTT
* *
4948793 TTATTATATTGTTAATACTGT-
1 TTATTATATTATTATTACTGTA
4948814 TTATTTATATTATTATTACTGTA
1 TTA-TTATATTATTATTACTGTA
* * *
4948837 TTATTATTAGTTTAATATTATTATA
1 TTATTA-TA--TTATTATTACTGTA
4948862 TTA-TATATTATTAT
1 TTATTATATTATTAT
4948876 ACTTACTTAC
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
21 9 0.18
22 19 0.37
23 7 0.14
24 2 0.04
25 14 0.27
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (22 bp):
TTATTATATTATTATTACTGTA
Found at i:4956523 original size:30 final size:30
Alignment explanation
Indices: 4956488--4956547 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
4956478 TTGGGTAATG
* **
4956488 AAAAAAGGAATTTGTTAATAGTTAGGTGAC
1 AAAAAAGAAATTTACTAATAGTTAGGTGAC
*
4956518 AAAAAAGAAATTTACTAATAGTTGGGTGAC
1 AAAAAAGAAATTTACTAATAGTTAGGTGAC
4956548 TATTTGTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.28
Consensus pattern (30 bp):
AAAAAAGAAATTTACTAATAGTTAGGTGAC
Found at i:4958641 original size:17 final size:17
Alignment explanation
Indices: 4958619--4958652 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4958609 AATTGGGTTA
*
4958619 ATTTTTTGCAAATATAG
1 ATTTTTTACAAATATAG
*
4958636 ATTTTTTATAAATATAG
1 ATTTTTTACAAATATAG
4958653 GTGGGTTTGG
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:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (17 bp):
ATTTTTTACAAATATAG
Found at i:4962119 original size:21 final size:24
Alignment explanation
Indices: 4962077--4962120 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
4962067 TTCATCAAAT
*
4962077 AAAACAAAATGAGAATTATGTTAA
1 AAAACAAAATGAGAAGTATGTTAA
4962101 AAAACAAAA-GA-AAGT-TGTTA
1 AAAACAAAATGAGAAGTATGTTA
4962121 TGCATGCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 2 0.11
24 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.23
Consensus pattern (24 bp):
AAAACAAAATGAGAAGTATGTTAA
Found at i:4965009 original size:5 final size:5
Alignment explanation
Indices: 4964999--4965042 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
4964989 GATGATGTTT
4964999 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA -TATA T
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA T
4965043 ACATAAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 2 0.06
4 6 0.17
5 22 0.63
6 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:4965024 original size:19 final size:19
Alignment explanation
Indices: 4965000--4965042 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
4964990 ATGATGTTTT
4965000 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
4965019 TATATTATATTATATTATA
1 TATATTATATTATATTATA
4965038 TATAT
1 TATAT
4965043 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:4965071 original size:14 final size:14
Alignment explanation
Indices: 4965047--4965092 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
4965037 ATATATACAT
*
4965047 AAAACAAAAGAAAG
1 AAAAGAAAAGAAAG
*
4965061 AATAGAAAAGAAAG
1 AAAAGAAAAGAAAG
4965075 AAAAGAAACAGAATAG
1 AAAAGAAA-AGAA-AG
4965091 AA
1 AA
4965093 GAGACGAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 19 0.70
15 4 0.15
16 4 0.15
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.04
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Found at i:4965112 original size:25 final size:25
Alignment explanation
Indices: 4965055--4965112 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
4965045 ATAAAACAAA
4965055 AGAAAGAATAGAAAAGAAAGAAAAG
1 AGAAAGAATAGAAAAGAAAGAAAAG
* *
4965080 A-AACAGAATAGAAGAG-ACGAAACAG
1 AGAA-AGAATAGAAAAGAAAGAAA-AG
4965105 AGAAAGAA
1 AGAAAGAA
4965113 ACAGAGAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 7 0.25
25 19 0.68
26 2 0.07
ACGTcount: A:0.67, C:0.05, G:0.24, T:0.03
Consensus pattern (25 bp):
AGAAAGAATAGAAAAGAAAGAAAAG
Found at i:4965702 original size:29 final size:29
Alignment explanation
Indices: 4965651--4965710 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
4965641 CAAGCCTTGG
*
4965651 GGCAAAAATGTAATTATGTAAAAGTTTAGA
1 GGCAAAAATGTAATTATGAAAAAG-TTAGA
* *
4965681 GGCAAAATTGTAATTTTGAAAAAGTTAGA
1 GGCAAAAATGTAATTATGAAAAAGTTAGA
4965710 G
1 G
4965711 TCGAGGGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.45, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
GGCAAAAATGTAATTATGAAAAAGTTAGA
Found at i:4965936 original size:13 final size:13
Alignment explanation
Indices: 4965918--4965949 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4965908 TTTCCAGCAA
4965918 TTATGAATTTATT
1 TTATGAATTTATT
4965931 TTATGAATTTATT
1 TTATGAATTTATT
*
4965944 TGATGA
1 TTATGA
4965950 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:4966156 original size:50 final size:50
Alignment explanation
Indices: 4966044--4966285 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
4966034 ATTTGGGTAA
* * *
4966044 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA--C-TGAGA-C--G
*
4966100 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACTGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGAGACG
* * * *
4966150 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGAGACG
* * * *
4966200 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCAC-CATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGA-GACG
**
4966250 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
4966286 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 89 0.54
51 29 0.18
52 1 0.01
53 4 0.02
54 1 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGAGACG
Found at i:4966233 original size:100 final size:103
Alignment explanation
Indices: 4966044--4966293 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
4966034 ATTTGGGTAA
4966044 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
4966109 CTGTAAGACCATGTCTGGGACATGGCATGGGCACTGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCAC-CATCACG
* * *
4966150 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
4966212 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
4966250 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
4966294 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:4978295 original size:21 final size:21
Alignment explanation
Indices: 4978269--4978346 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
4978259 GAAACTTCCA
4978269 TGAATGTCGCGACATTGGAAT
1 TGAATGTCGCGACATTGGAAT
** * *
4978290 TGAATGTCATGACA-T-CACT
1 TGAATGTCGCGACATTGGAAT
* * *
4978309 TGAATGTTGCAACATTGGATT
1 TGAATGTCGCGACATTGGAAT
*
4978330 TGAATGTCGAGACATTG
1 TGAATGTCGCGACATTG
4978347 TTTCTGCGTG
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
19 12 0.29
20 2 0.05
21 28 0.67
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (21 bp):
TGAATGTCGCGACATTGGAAT
Found at i:4983052 original size:40 final size:40
Alignment explanation
Indices: 4983007--4983086 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
4982997 AATTCCTCCC
4983007 TTAGACAAAATAAACTTATCTGCCTCAAAAACAAGTTTGA
1 TTAGACAAAATAAACTTATCTGCCTCAAAAACAAGTTTGA
*
4983047 TTAGACAAAATAAACTTATTTGCCTCAAAAACAAGTTTGA
1 TTAGACAAAATAAACTTATCTGCCTCAAAAACAAGTTTGA
4983087 AACCAAACTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (40 bp):
TTAGACAAAATAAACTTATCTGCCTCAAAAACAAGTTTGA
Found at i:4991908 original size:9 final size:9
Alignment explanation
Indices: 4991894--4991920 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4991884 GATGTTTAAG
4991894 ATTTATCAA
1 ATTTATCAA
4991903 ATTTATCAA
1 ATTTATCAA
4991912 ATTTATCAA
1 ATTTATCAA
4991921 GAATTTCGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTATCAA
Found at i:5002790 original size:23 final size:22
Alignment explanation
Indices: 5002747--5002792 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
5002737 AACTAAAACA
*
5002747 ACTAAAACTAGAAAAGCTAAAG
1 ACTAAAACTAGAAAAACTAAAG
* *
5002769 ACTAAACCTTAGAAAAATTAAAG
1 ACTAAAAC-TAGAAAAACTAAAG
5002792 A
1 A
5002793 AGACTAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.59, C:0.13, G:0.11, T:0.17
Consensus pattern (22 bp):
ACTAAAACTAGAAAAACTAAAG
Found at i:5010660 original size:31 final size:31
Alignment explanation
Indices: 5010625--5010686 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
5010615 TAAACTTGAC
*
5010625 TCAACTCAGAATTTAATCGGGATACAATGTG
1 TCAACTCAGAATTTAATCAGGATACAATGTG
*
5010656 TCAACTCAGAATTTAATCAGGATCCAATGTG
1 TCAACTCAGAATTTAATCAGGATACAATGTG
5010687 ACTACTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (31 bp):
TCAACTCAGAATTTAATCAGGATACAATGTG
Found at i:5015725 original size:18 final size:18
Alignment explanation
Indices: 5015704--5015747 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
5015694 TTTTTAAAAA
*
5015704 TATAAATTTTGAAATTTT
1 TATAAATTTTGAAAATTT
*
5015722 TATAAATATTTTAAAATTT
1 TATAAAT-TTTGAAAATTT
5015741 TA-AAATT
1 TATAAATT
5015748 ATTTTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 11 0.48
19 11 0.48
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TATAAATTTTGAAAATTT
Found at i:5015760 original size:19 final size:19
Alignment explanation
Indices: 5015704--5015759 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
5015694 TTTTTAAAAA
*
5015704 TATAAAT-TTTGAAATTTT
1 TATAAATATTTTAAATTTT
*
5015722 TATAAATATTTTAAAATTT
1 TATAAATATTTTAAATTTT
5015741 TA-AAATTATTTT-AATTTT
1 TATAAA-TATTTTAAATTTT
5015759 T
1 T
5015760 TTTATAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:5017638 original size:50 final size:50
Alignment explanation
Indices: 5017554--5017657 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 50
5017544 GAGCTTCTTG
* * *
5017554 ATTAATGGCTCTCTGGAGCTACCCAATATATGGCTCTCTTGAGCTTCCCA
1 ATTAATGGCTCTCTAGAGCTACCCAATATATGGCTCGCATGAGCTTCCCA
* * * *
5017604 ATTAATGGCTCTCTAGAGCTTCCCTGATAT-TGGCTCGCATGAGTTTCCTA
1 ATTAATGGCTCTCTAGAGCTACCC-AATATATGGCTCGCATGAGCTTCCCA
5017654 ATTA
1 ATTA
5017658 CGGTTCTCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
50 42 0.91
51 4 0.09
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (50 bp):
ATTAATGGCTCTCTAGAGCTACCCAATATATGGCTCGCATGAGCTTCCCA
Found at i:5017639 original size:25 final size:25
Alignment explanation
Indices: 5017492--5017627 Score: 114
Period size: 25 Copynumber: 5.4 Consensus size: 25
5017482 TTTATGGTAT
* *
5017492 GAGCTTCCCGA-TAATTGGTTCTCTG
1 GAGCTTCCCGATTAA-TGGCTCTCTA
* * *
5017517 GAGCTTCCTGATTAAAGGCTCTTTCA
1 GAGCTTCCCGATTAATGGCTCTCT-A
** *
5017543 TGAGCTTCTTGATTAATGGCTCTCTG
1 -GAGCTTCCCGATTAATGGCTCTCTA
* * *
5017569 GAGCTACCC-AATATATGGCTCTCTT
1 GAGCTTCCCGATTA-ATGGCTCTCTA
*
5017594 GAGCTTCCCAATTAATGGCTCTCTA
1 GAGCTTCCCGATTAATGGCTCTCTA
5017619 GAGCTTCCC
1 GAGCTTCCC
5017628 TGATATTGGC
Statistics
Matches: 89, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
24 3 0.03
25 59 0.66
26 6 0.07
27 21 0.24
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTCTA
Found at i:5017693 original size:25 final size:25
Alignment explanation
Indices: 5017665--5017713 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
5017655 TTACGGTTCT
5017665 CATGAGCTTTCC-GTTACATGGCTCA
1 CATGAGC-TTCCTGTTACATGGCTCA
*
5017690 CATGAGCTTCCTGTTATATGGCTC
1 CATGAGCTTCCTGTTACATGGCTC
5017714 GAAAGAGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (25 bp):
CATGAGCTTCCTGTTACATGGCTCA
Found at i:5017721 original size:25 final size:24
Alignment explanation
Indices: 5017668--5017722 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
5017658 CGGTTCTCAT
*
5017668 GAGCTTTCCGTTACATGGCTCACAT
1 GAGC-TTCCGTTACATGGCTCACAA
*
5017693 GAGCTTCCTGTTATATGGCTCGA-AA
1 GAGCTTCC-GTTACATGGCTC-ACAA
5017718 GAGCT
1 GAGCT
5017723 ACCCATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 4 0.15
25 21 0.81
26 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (24 bp):
GAGCTTCCGTTACATGGCTCACAA
Found at i:5017746 original size:25 final size:25
Alignment explanation
Indices: 5017677--5017746 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
5017667 TGAGCTTTCC
* *
5017677 GTTACATGGCTCACATGAGCTTCCT
1 GTTATATGGCTCACATGAGCTCCCT
*
5017702 GTTATATGGCTCGA-AAGAGCTACCCAT
1 GTTATATGGCTC-ACATGAGCT-CCC-T
5017729 -TTATAT-GCTCACATGAGC
1 GTTATATGGCTCACATGAGC
5017747 AATCCTGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 1 0.03
25 26 0.70
26 9 0.24
27 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (25 bp):
GTTATATGGCTCACATGAGCTCCCT
Found at i:5018054 original size:41 final size:41
Alignment explanation
Indices: 5017997--5018079 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
5017987 TTCTTGATAT
* *
5017997 TCATATGAAATTCATACTAACATGGTTGATGAGAATATGTG
1 TCATATAAAATCCATACTAACATGGTTGATGAGAATATGTG
5018038 TCATATAAAATCCATACTAACATGGTTGATGAGAATATGTG
1 TCATATAAAATCCATACTAACATGGTTGATGAGAATATGTG
5018079 T
1 T
5018080 TAGGGCTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (41 bp):
TCATATAAAATCCATACTAACATGGTTGATGAGAATATGTG
Found at i:5020418 original size:13 final size:13
Alignment explanation
Indices: 5020400--5020424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5020390 GTTCTTTTGC
5020400 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
5020413 AAAAAAAAGAAA
1 AAAAAAAAGAAA
5020425 GATAATTAAT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:5025265 original size:8 final size:8
Alignment explanation
Indices: 5025252--5025276 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5025242 TTTTGCCTCA
5025252 AATACATC
1 AATACATC
5025260 AATACATC
1 AATACATC
5025268 AATACATC
1 AATACATC
5025276 A
1 A
5025277 GTACGCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (8 bp):
AATACATC
Found at i:5026164 original size:10 final size:10
Alignment explanation
Indices: 5026149--5026173 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5026139 TAAAATATTT
5026149 TATATTTATA
1 TATATTTATA
5026159 TATATTTATA
1 TATATTTATA
5026169 TATAT
1 TATAT
5026174 AACATACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATTTATA
Found at i:5026491 original size:21 final size:23
Alignment explanation
Indices: 5026466--5026513 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
5026456 GCCAAAAAAT
*
5026466 ATTTTTA-TCATTTCAAT-TAAA
1 ATTTTTATTAATTTCAATATAAA
*
5026487 A-TTTTATTAATTTTAATATAAA
1 ATTTTTATTAATTTCAATATAAA
5026509 ATTTT
1 ATTTT
5026514 AATAAATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 5 0.23
23 3 0.14
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTTTATTAATTTCAATATAAA
Found at i:5040771 original size:40 final size:40
Alignment explanation
Indices: 5040716--5040795 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
5040706 TTCTGAAATT
5040716 AGAAAAATTTCTGCTCAGGTATTAAATTGGTTTAGGGAAA
1 AGAAAAATTTCTGCTCAGGTATTAAATTGGTTTAGGGAAA
* *
5040756 AGAAAAATTTCTGCTCTGGTATTAATTTGGTTTAGGGAAA
1 AGAAAAATTTCTGCTCAGGTATTAAATTGGTTTAGGGAAA
5040796 GATCTGGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (40 bp):
AGAAAAATTTCTGCTCAGGTATTAAATTGGTTTAGGGAAA
Found at i:5045803 original size:48 final size:48
Alignment explanation
Indices: 5045747--5045844 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
5045737 TTAGTAGTAG
*
5045747 AAGTTGATGATTTTTTTAATAAGAATGACTAATTTACTCTTTTAATCT
1 AAGTTGATGAATTTTTTAATAAGAATGACTAATTTACTCTTTTAATCT
5045795 AAGTTGATGAATTTTTTAATAAGAATGACTAATTTACTCTTTTAATCT
1 AAGTTGATGAATTTTTTAATAAGAATGACTAATTTACTCTTTTAATCT
5045843 AA
1 AA
5045845 TATACAAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (48 bp):
AAGTTGATGAATTTTTTAATAAGAATGACTAATTTACTCTTTTAATCT
Found at i:5045968 original size:14 final size:14
Alignment explanation
Indices: 5045949--5045976 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5045939 ATCATTAGTT
5045949 TTACTAAGTGGTAC
1 TTACTAAGTGGTAC
5045963 TTACTAAGTGGTAC
1 TTACTAAGTGGTAC
5045977 ATTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (14 bp):
TTACTAAGTGGTAC
Found at i:5053984 original size:20 final size:21
Alignment explanation
Indices: 5053942--5053985 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
5053932 GACAGAATCA
*
5053942 TAAATTGTTTTTTTGGTAGAAT
1 TAAATTATTTTTTT-GTAGAAT
*
5053964 TAAATTATTTTTTT-TATAAT
1 TAAATTATTTTTTTGTAGAAT
5053984 TA
1 TA
5053986 TCTATATCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (21 bp):
TAAATTATTTTTTTGTAGAAT
Found at i:5059205 original size:32 final size:32
Alignment explanation
Indices: 5059169--5059297 Score: 258
Period size: 32 Copynumber: 4.0 Consensus size: 32
5059159 TTTAATAGAG
5059169 ATAATATATATTTGATAAGATAGAGATAATAT
1 ATAATATATATTTGATAAGATAGAGATAATAT
5059201 ATAATATATATTTGATAAGATAGAGATAATAT
1 ATAATATATATTTGATAAGATAGAGATAATAT
5059233 ATAATATATATTTGATAAGATAGAGATAATAT
1 ATAATATATATTTGATAAGATAGAGATAATAT
5059265 ATAATATATATTTGATAAGATAGAGATAATAT
1 ATAATATATATTTGATAAGATAGAGATAATAT
5059297 A
1 A
5059298 CTTTAAGACA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 97 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.37
Consensus pattern (32 bp):
ATAATATATATTTGATAAGATAGAGATAATAT
Found at i:5060526 original size:23 final size:21
Alignment explanation
Indices: 5060500--5060563 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
5060490 CTTAAATGTT
5060500 AATGGTCAAATTTGACTCAAATA
1 AATGGTCAAATTTGACT-AAA-A
*
5060523 AAT-GTCAAATTTAACTAAAA
1 AATGGTCAAATTTGACTAAAA
* *
5060543 AATAGGGCAAAATTGAC-AAAA
1 AAT-GGTCAAATTTGACTAAAA
5060564 TTTTTTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 4 0.11
21 7 0.20
22 21 0.60
23 3 0.09
ACGTcount: A:0.52, C:0.11, G:0.12, T:0.25
Consensus pattern (21 bp):
AATGGTCAAATTTGACTAAAA
Found at i:5061782 original size:18 final size:19
Alignment explanation
Indices: 5061759--5061794 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5061749 TTATAATTTT
5061759 TTTAATAAATTT-ATTTCC
1 TTTAATAAATTTAATTTCC
*
5061777 TTTAATAATTTTAATTTC
1 TTTAATAAATTTAATTTC
5061795 AATTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTAATAAATTTAATTTCC
Found at i:5062578 original size:15 final size:16
Alignment explanation
Indices: 5062553--5062582 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5062543 TTTTAAACCC
5062553 AAAATATAAAAAAAAT
1 AAAATATAAAAAAAAT
5062569 AAAA-ATAAAAAAAA
1 AAAATATAAAAAAAA
5062583 ACCTCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATATAAAAAAAAT
Found at i:5063991 original size:167 final size:167
Alignment explanation
Indices: 5063715--5064124 Score: 633
Period size: 167 Copynumber: 2.4 Consensus size: 167
5063705 AATGGACCAA
* *
5063715 AGTTAATTAGAACGAGGAATAAAACCATGAAACAAAGCAAACACAATATACAAACATGACACAAG
1 AGTTAATTAGAACGAGGAATAAGACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
* * * *
5063780 TTTATTTTGCTAAAATAAAATGCAACAGCCAATGTTTTCGAGATGTCTTCGATGGTTCTAACAGC
66 TTTGTTTTGCTAAAACAAAATGCAACAGCCAATGTTTTCGAGATGTCTTCAAGGGTTCTAACAGC
5063845 AGCTATTGTGAACTTACAAAATTTCTCCATAAACACT
131 AGCTATTGTGAACTTACAAAATTTCTCCATAAACACT
* * *
5063882 AGTTAATTAGAACAAGGAATAAGACCATGAAACAAAGCAAACACAACATGCAAACATGATACAAG
1 AGTTAATTAGAACGAGGAATAAGACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
** * *
5063947 TTTGTTTTGCTAAAACCGAGTGCAACAGCCAATGTTTTCGAGATGTCTTCAAGGGTTTTAACAGC
66 TTTGTTTTGCTAAAACAAAATGCAACAGCCAATGTTTTCGAGATGTCTTCAAGGGTTCTAACAGC
5064012 AGCTATTGTGAACTTACAAAATTTCTCCATAAACACT
131 AGCTATTGTGAACTTACAAAATTTCTCCATAAACACT
* *
5064049 AGATAATTAGAATGAGGAA-AAGGACCATGAAACAAAGGTTGCAAACACAACATACAAACATGAC
1 AGTTAATTAGAACGAGGAATAA-GACCATGAAACAAA----GCAAACACAACATACAAACATGAC
5064113 ACAAGTTTGTTT
61 ACAAGTTTGTTT
5064125 CACTAAAATC
Statistics
Matches: 220, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
166 2 0.01
167 184 0.84
171 34 0.15
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.25
Consensus pattern (167 bp):
AGTTAATTAGAACGAGGAATAAGACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
TTTGTTTTGCTAAAACAAAATGCAACAGCCAATGTTTTCGAGATGTCTTCAAGGGTTCTAACAGC
AGCTATTGTGAACTTACAAAATTTCTCCATAAACACT
Found at i:5070845 original size:13 final size:12
Alignment explanation
Indices: 5070827--5070867 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
5070817 TCTAATCTCC
*
5070827 TTTTTATCTTTT
1 TTTTTATATTTT
5070839 ATTTTTATATTTT
1 -TTTTTATATTTT
5070852 TTTTCTATATTTT
1 TTTT-TATATTTT
5070865 TTT
1 TTT
5070868 CCCACAAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 4 0.15
13 22 0.85
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTATATTTT
Found at i:5077309 original size:22 final size:22
Alignment explanation
Indices: 5077283--5077327 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
5077273 TAGTGGCGAG
** *
5077283 ATATAATAAGTAATAAATAAAT
1 ATATAATAAACAATAAAAAAAT
*
5077305 ATATATTAAACAATAAAAAAAT
1 ATATAATAAACAATAAAAAAAT
5077327 A
1 A
5077328 GAAAAATTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
ATATAATAAACAATAAAAAAAT
Found at i:5086626 original size:191 final size:191
Alignment explanation
Indices: 5086114--5086810 Score: 861
Period size: 191 Copynumber: 3.6 Consensus size: 191
5086104 AGCACATTGC
* * * ** *
5086114 TATACCGACATAACACTCTCTAGAAAAGAATGTTTAGAACCTAGAAACCGATGTCTTTACGAGTA
1 TATACAGACGTAACACCCTCTAGAAAAGAATGTTTAGAACCCGGAAACCAATGTCTTTACGAGTA
* *** * * *
5086179 GCAG-TGTGAATTCATGACTTGTATGCTTTTATAATGACATGTTTTTGATGTCTAGAGCATCCTT
66 G-AGATGTGAATTCGTGACGCATATGCTTTTATAATGAAATGTTTTCGATGTCTAGAGCACCCTT
* * ** * *
5086243 TTGATCGAAACCATATTCATGTTCAACTGCATATTATGAACTTGAATGAATGAAGCATGTTG
130 TTGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTG
* *
5086305 CTATACAGACGTAACACCTTCTAGAAAAGAATGTTTAGAA-CCGAGAAATCAATGTCTTTACGAG
1 -TATACAGACGTAACACCCTCTAGAAAAGAATGTTTAGAACCCG-GAAACCAATGTCTTTACGAG
* *
5086369 CAGAGATGTGAA-TC-TG-CGACATATGCATTTATAATGAAATGTTTTCGATGTCTAGAGCACCC
64 TAGAGATGTGAATTCGTGACG-CATATGCTTTTATAATGAAATGTTTTCGATGTCTAGAGCA-CC
* *
5086431 CTTTTGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAATTTGAATGAATGAAACACATTG
127 CTTTTGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTG
* * * ** * * *
5086496 TATACTGGCGTAACACCCTATATTAAAGAATGTTTAGAACCCGGAAAACGATGTCTTTACGAATA
1 TATACAGACGTAACACCCTCTAGAAAAGAATGTTTAGAACCCGGAAACCAATGTCTTTACGAGTA
5086561 G-GTATGTGAATTCGTGACGCATATGCTTTTATAATGAAATGTTTTC-AGTGTCTAGAGCACCCT
66 GAG-ATGTGAATTCGTGACGCATATGCTTTTATAATGAAATGTTTTCGA-TGTCTAGAGCACCCT
* *
5086624 TTTGATTGCAGTCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAGA-ACGTTG
129 TTTGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAA-ACACGTTG
* * * * * *
5086687 TATGCCGACGTAACACCGTCTAGAAAAGAATGTTTAGAACCTGGAACCCAATGTCTTTATGAGTA
1 TATACAGACGTAACACCCTCTAGAAAAGAATGTTTAGAACCCGGAAACCAATGTCTTTACGAGTA
* * * *
5086752 GCGATGTGAATTCGTGACTCATATGCTTTTATACTGAAATGTTTTCGATGTCTAAAGCA
66 GAGATGTGAATTCGTGACGCATATGCTTTTATAATGAAATGTTTTCGATGTCTAGAGCA
5086811 ATTATGAACT
Statistics
Matches: 437, Mismatches: 55, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
189 2 0.00
190 96 0.22
191 234 0.54
192 103 0.24
193 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (191 bp):
TATACAGACGTAACACCCTCTAGAAAAGAATGTTTAGAACCCGGAAACCAATGTCTTTACGAGTA
GAGATGTGAATTCGTGACGCATATGCTTTTATAATGAAATGTTTTCGATGTCTAGAGCACCCTTT
TGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTG
Found at i:5086875 original size:155 final size:154
Alignment explanation
Indices: 5086657--5086951 Score: 409
Period size: 155 Copynumber: 1.9 Consensus size: 154
5086647 TCTGCTGCAT
* *
5086657 ATTATGAACTTGAATGAATGAAGAACGTTGTATGCCGACGTAACACCGTCTAGAAAAGAATGTTT
1 ATTATGAACTTGAATGAATGAAGAACGTTGTATACCGACGTAACACCCTCTAGAAAAGAATGTTT
* * ** *
5086722 AGAAC-CTGGAACCCAATGTCTTTATGAGTAGCGATGTGAATTCGTGACTCA-TATGCTTTTATA
66 AGAACTC-GGAAACCAATATCTTTACAAGTAGCGATGTGAATTCGTAACT-ATTATGCTTTTATA
*
5086785 CTGAAATGTTTTCGATGTCTAAAGCA
129 ATGAAATGTTTTCGATGTCTAAAGCA
* *
5086811 ATTATGAACTTGAATGAATGAAGCACATCGTT-TA-ACCGATGTAACACCCTCTAGAAAGGAATG
1 ATTATGAACTTGAATGAATGAAG-A-A-CGTTGTATACCGACGTAACACCCTCTAGAAAAGAATG
* *
5086874 TTTAGAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTAACTATTATGCTTTTAT
63 TTTAGAACTCGGAAACCAATATCTTTACAAGTAGCGATGTGAATTCGTAACTATTATGCTTTTAT
5086939 AATGAAATGTTTT
128 AATGAAATGTTTT
5086952 TTATGTATAG
Statistics
Matches: 124, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
154 24 0.19
155 92 0.74
156 4 0.03
157 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (154 bp):
ATTATGAACTTGAATGAATGAAGAACGTTGTATACCGACGTAACACCCTCTAGAAAAGAATGTTT
AGAACTCGGAAACCAATATCTTTACAAGTAGCGATGTGAATTCGTAACTATTATGCTTTTATAAT
GAAATGTTTTCGATGTCTAAAGCA
Found at i:5088438 original size:9 final size:9
Alignment explanation
Indices: 5088426--5088466 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
5088416 TTTTTTTAAT
5088426 TTTTATATA
1 TTTTATATA
5088435 TTTTATATA
1 TTTTATATA
*
5088444 TTTTAAATA
1 TTTTATATA
5088453 CTTTTA-ATA
1 -TTTTATATA
5088462 TTTTA
1 TTTTA
5088467 AAAAAACTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 5 0.17
9 20 0.67
10 5 0.17
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTATATA
Found at i:5088447 original size:18 final size:18
Alignment explanation
Indices: 5088419--5088468 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
5088409 AAAATAATTT
*
5088419 TTTTAAT-TTTTATATA-
1 TTTTAATATTTTAAATAC
5088435 TTTTATATATTTTAAATAC
1 TTTTA-ATATTTTAAATAC
5088454 TTTTAATATTTTAAA
1 TTTTAATATTTTAAA
5088469 AAAACTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 5 0.17
17 2 0.07
18 18 0.60
19 5 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTAATATTTTAAATAC
Found at i:5095312 original size:30 final size:31
Alignment explanation
Indices: 5095278--5095337 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
5095268 TAGCTCAATG
5095278 ACTTAAAT-AAAACTTTCGAATAGTTCAGCA
1 ACTTAAATGAAAACTTTCGAATAGTTCAGCA
* *
5095308 ACTTAGATGAAAACTTTTGAATAGTTCAGC
1 ACTTAAATGAAAACTTTCGAATAGTTCAGC
5095338 GATCATATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTCGAATAGTTCAGCA
Found at i:5097686 original size:30 final size:29
Alignment explanation
Indices: 5097652--5097711 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 29
5097642 TCGATTTTAA
5097652 TAAAATAAAT-TATTAAAAAATCATACAAAT
1 TAAAA-AAATATATTAAAAAATCATA-AAAT
* * *
5097682 TAAAAAGATATATTAATAAATTATAAAAT
1 TAAAAAAATATATTAAAAAATCATAAAAT
5097711 T
1 T
5097712 TGATTCAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (29 bp):
TAAAAAAATATATTAAAAAATCATAAAAT
Found at i:5114201 original size:24 final size:24
Alignment explanation
Indices: 5114174--5114223 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
5114164 CTTAAAAAAA
5114174 TTAATCTGACCGTATTAACCGTTG
1 TTAATCTGACCGTATTAACCGTTG
* *
5114198 TTAATTTGACCGTGTTAACCGTTG
1 TTAATCTGACCGTATTAACCGTTG
5114222 TT
1 TT
5114224 CACCCCTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (24 bp):
TTAATCTGACCGTATTAACCGTTG
Found at i:5115063 original size:5 final size:5
Alignment explanation
Indices: 5115053--5115855 Score: 1606
Period size: 5 Copynumber: 160.6 Consensus size: 5
5115043 AACGAAAAAC
5115053 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115103 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115153 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115203 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115253 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115303 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115353 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115403 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115453 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115503 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115553 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115603 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115653 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115703 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115753 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115803 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
5115853 AAA
1 AAA
5115856 AATTCCAATT
Statistics
Matches: 798, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 798 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:5134008 original size:29 final size:29
Alignment explanation
Indices: 5133976--5134041 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
5133966 TTTAAAAAAA
*
5133976 AATTAAA-CCTCCAAAATTTT-AGATATTTT
1 AATTAAACCCT-CAAAATTTTGA-AAATTTT
5134005 AATTAAACCCTCAAAATTTTGAAAATTTT
1 AATTAAACCCTCAAAATTTTGAAAATTTT
5134034 AATTAAAC
1 AATTAAAC
5134042 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (29 bp):
AATTAAACCCTCAAAATTTTGAAAATTTT
Found at i:5134571 original size:4 final size:4
Alignment explanation
Indices: 5134562--5134604 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
5134552 TTATCATCAA
5134562 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
5134605 CATGCAACTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:5137955 original size:30 final size:29
Alignment explanation
Indices: 5137919--5137988 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 29
5137909 TGAGAAATTC
*
5137919 TTTTTAAAAAATTG-AGTGGTCTAATTAAAA
1 TTTTTAAAAAATTGAAG-GCT-TAATTAAAA
*
5137949 TTTTTAAAAACTTGAAGGCTTAATTAAAA
1 TTTTTAAAAAATTGAAGGCTTAATTAAAA
5137978 TTTTCTAAAAA
1 TTTT-TAAAAA
5137989 CTTCAAGGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 13 0.36
30 21 0.58
31 2 0.06
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (29 bp):
TTTTTAAAAAATTGAAGGCTTAATTAAAA
Found at i:5137989 original size:30 final size:29
Alignment explanation
Indices: 5137940--5137996 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
5137930 TTGAGTGGTC
*
5137940 TAATTAAAATTTTTAAAAACTTGAAGGCT
1 TAATTAAAATTTTTAAAAACTTCAAGGCT
5137969 TAATTAAAATTTTCTAAAAACTTCAAGG
1 TAATTAAAATTTT-TAAAAACTTCAAGG
5137997 GAGAAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (29 bp):
TAATTAAAATTTTTAAAAACTTCAAGGCT
Found at i:5140863 original size:18 final size:18
Alignment explanation
Indices: 5140842--5140880 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
5140832 TCATTAAAAA
*
5140842 TTTCATCAAACGTCTTAT
1 TTTCATCAAACGTCCTAT
5140860 TTTCATCAAACGTCCTAT
1 TTTCATCAAACGTCCTAT
5140878 TTT
1 TTT
5140881 ACTGTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.05, T:0.46
Consensus pattern (18 bp):
TTTCATCAAACGTCCTAT
Found at i:5141812 original size:221 final size:219
Alignment explanation
Indices: 5141429--5141831 Score: 528
Period size: 221 Copynumber: 1.8 Consensus size: 219
5141419 ATATATCGTA
* * *
5141429 TATGGTACTTTCGTTTCTCTAGCTCGTGTGAAAGAAAAGACTTGTTTAGTCCTTAGAATCAATTT
1 TATGGTACTTTCGTTTCTCTAGCTCATGTGAAAGAAAAGAATCGTTTAGTCCTTAGAAT--ATTT
*
5141494 CATGCATCGAGGTTCTGAGAGTCAAATGCTGCTTCCATCCGCTGTCGATATGCCAGTTATTTTTG
64 CATGCATCAAGGTTCTGAGAGTCAAATGCTGCTTCCATCCGCTGTCGATATGCCAGTTATTTTTG
* * * *
5141559 TGTGAATCTTGTTGTGCCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTAA
129 TGTGAATATTATTATGCCTGATATTAGTTCTTAACAAGATATCGTGTTTGCTCCCTCATCGTTAA
5141624 ACCGAACCTTCATCATACTTATTGTG
194 ACCGAACCTTCATCATACTTATTGTG
* * *
5141650 TATGGTACTTTCGTTTCTCTAGCATCATGTGAAAGCAAAGAATCGTTTAGTCCGTTCG-GT-TTT
1 TATGGTACTTTCGTTTCTCTAGC-TCATGTGAAAGAAAAGAATCGTTTAGTCC-TTAGAATATTT
* * * * * * *
5141713 -ATGCATCAAGGTTCTGAGGGTCAAATGTTGC-TCCTATCCGTTGTTGATATTCCGGTGTTTTTT
64 CATGCATCAAGGTTCTGAGAGTCAAATGCTGCTTCC-ATCCGCTGTCGATATGCC--AGTTATTT
5141776 TGTGTGTGAATATTATTATGTCC-GATATTAGTTCTTAACAAGATATCGTGTTTGCT
126 T-TGTGTGAATATTATTATG-CCTGATATTAGTTCTTAACAAGATATCGTGTTTGCT
5141832 GTTCTGGAAA
Statistics
Matches: 157, Mismatches: 18, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
217 3 0.02
218 43 0.27
219 3 0.02
220 7 0.04
221 70 0.45
222 28 0.18
223 3 0.02
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (219 bp):
TATGGTACTTTCGTTTCTCTAGCTCATGTGAAAGAAAAGAATCGTTTAGTCCTTAGAATATTTCA
TGCATCAAGGTTCTGAGAGTCAAATGCTGCTTCCATCCGCTGTCGATATGCCAGTTATTTTTGTG
TGAATATTATTATGCCTGATATTAGTTCTTAACAAGATATCGTGTTTGCTCCCTCATCGTTAAAC
CGAACCTTCATCATACTTATTGTG
Found at i:5142726 original size:22 final size:22
Alignment explanation
Indices: 5142701--5142747 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
5142691 CTCATATGTA
5142701 TATATATACATACATATACATG
1 TATATATACATACATATACATG
* *
5142723 TATATATACATATATATGCATG
1 TATATATACATACATATACATG
5142745 TAT
1 TAT
5142748 GTTTCTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (22 bp):
TATATATACATACATATACATG
Found at i:5142727 original size:10 final size:10
Alignment explanation
Indices: 5142700--5142739 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
5142690 CCTCATATGT
5142700 ATATATATAC
1 ATATATATAC
*
5142710 ATACATATAC
1 ATATATATAC
5142720 ATGTATATATAC
1 A--TATATATAC
5142732 ATATATAT
1 ATATATAT
5142740 GCATGTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 17 0.65
12 9 0.35
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (10 bp):
ATATATATAC
Found at i:5143887 original size:32 final size:29
Alignment explanation
Indices: 5143824--5143887 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 29
5143814 AAATTTTAAT
5143824 AAAAAATTAAAATTAAATTTTAAAATCTAA
1 AAAAAATTAAAATTAAATTTTAAAA-CTAA
5143854 AAAAAATTGATAAATTAAATTCTTGAAAA-TAA
1 AAAAAATT-A-AAATTAAATT-TT-AAAACTAA
5143886 AA
1 AA
5143888 TTGTATACGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 8 0.27
31 1 0.03
32 15 0.50
33 2 0.07
34 4 0.13
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAAAATTAAAATTAAATTTTAAAACTAA
Found at i:5145044 original size:15 final size:15
Alignment explanation
Indices: 5145010--5145052 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
5145000 ATTTAGGCCT
5145010 TAAATATTAAAATTTAAA
1 TAAAT-TTAAAA--TAAA
*
5145028 TATATTTAAAATAAA
1 TAAATTTAAAATAAA
5145043 TAAATTTAAA
1 TAAATTTAAA
5145053 TTTTAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATTTAAAATAAA
Found at i:5145066 original size:15 final size:16
Alignment explanation
Indices: 5145013--5145064 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
5145003 TAGGCCTTAA
*
5145013 ATATTAAAATTTAAAT
1 ATATTTAAATTTAAAT
*
5145029 ATATTTAAA-ATAAAT
1 ATATTTAAATTTAAAT
* *
5145044 AAATTTAAATTTTAAT
1 ATATTTAAATTTAAAT
5145060 ATATT
1 ATATT
5145065 AATCTATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATTTAAATTTAAAT
Found at i:5146680 original size:31 final size:31
Alignment explanation
Indices: 5146645--5146704 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
5146635 TAACAGTTCA
*
5146645 ACTTTTTTTAAAAGGTTAAAACTCAAATTCG
1 ACTTTATTTAAAAGGTTAAAACTCAAATTCG
* **
5146676 ACTTTATTTAGAAGGTTAAAGGTCAAATT
1 ACTTTATTTAAAAGGTTAAAACTCAAATT
5146705 TAGCTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (31 bp):
ACTTTATTTAAAAGGTTAAAACTCAAATTCG
Found at i:5156961 original size:34 final size:35
Alignment explanation
Indices: 5156895--5156966 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
5156885 ATAATTTTAG
* * * *
5156895 AAATGAATAATACGAATTTATCACAATTTATATTA
1 AAATGAATAATACAAATTTATCAAAATATATATGA
5156930 AAATGAATAATA-AAATTTAT-ATAAATATATATGA
1 AAATGAATAATACAAATTTATCA-AAATATATATGA
5156964 AAA
1 AAA
5156967 CAGAATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 1 0.03
34 19 0.59
35 12 0.38
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (35 bp):
AAATGAATAATACAAATTTATCAAAATATATATGA
Found at i:5160553 original size:4 final size:4
Alignment explanation
Indices: 5160538--5160599 Score: 52
Period size: 4 Copynumber: 15.5 Consensus size: 4
5160528 TCAGTTACTT
* * * * * * *
5160538 TACA TGCA TACA TACA TACA TACA CACA TGCA TGCA TGCA TGCA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
5160586 TGCA TACA TACA TA
1 TACA TACA TACA TA
5160600 TATTTCTTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:5160559 original size:12 final size:12
Alignment explanation
Indices: 5160538--5160599 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
5160528 TCAGTTACTT
5160538 TACATGCATACA
1 TACATGCATACA
*
5160550 TACATACATACA
1 TACATGCATACA
* *
5160562 CACATGCATGCA
1 TACATGCATACA
* *
5160574 TGCATGCATGCA
1 TACATGCATACA
* *
5160586 TGCATACATACA
1 TACATGCATACA
5160598 TA
1 TA
5160600 TATTTCTTAG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (12 bp):
TACATGCATACA
Found at i:5162789 original size:209 final size:210
Alignment explanation
Indices: 5162409--5162827 Score: 743
Period size: 209 Copynumber: 2.0 Consensus size: 210
5162399 TATATTATGC
* * *
5162409 CAGTTTTTATTTTCGGGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCGGGTATT
1 CAGTGTTTATTTTCGGGTTCCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATT
* *
5162474 GTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCTGTCCGATTTTAGGCATAATGGGGTAAGAATC
66 GTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAATC
*
5162539 CATACTCCGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGA
131 CATACTCCGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGA
5162604 TGTATACCACTACTT
196 TGTATACCACTACTT
5162619 CAGTGTTTATTTT-GGGTTCCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATC
1 CAGTGTTTATTTTCGGGTTCCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTAT-
5162683 T-TGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAAT
65 TGTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAAT
*
5162747 CCATACTCTGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAG
130 CCATACTCCGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAG
*
5162812 ATGTATACTACTACTT
195 ATGTATACCACTACTT
5162828 GTATGAGATG
Statistics
Matches: 200, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
209 187 0.94
210 13 0.06
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (210 bp):
CAGTGTTTATTTTCGGGTTCCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATT
GTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAATC
CATACTCCGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGA
TGTATACCACTACTT
Found at i:5163693 original size:14 final size:15
Alignment explanation
Indices: 5163674--5163704 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
5163664 TTAACACTAA
5163674 TAAATTTATTTT-GT
1 TAAATTTATTTTAGT
5163688 TAAATTTATTTTAGT
1 TAAATTTATTTTAGT
5163703 TA
1 TA
5163705 CATTATTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TAAATTTATTTTAGT
Found at i:5168845 original size:48 final size:48
Alignment explanation
Indices: 5168791--5168889 Score: 171
Period size: 48 Copynumber: 2.1 Consensus size: 48
5168781 GAGGTACCAT
* * *
5168791 TAAAATTTGAGTTAACCATGGTGATATTTCTAATTCGATTAGTTCAAC
1 TAAAATTTGAGTTAACCATGGTGACATTTCTAATCCAATTAGTTCAAC
5168839 TAAAATTTGAGTTAACCATGGTGACATTTCTAATCCAATTAGTTCAAC
1 TAAAATTTGAGTTAACCATGGTGACATTTCTAATCCAATTAGTTCAAC
5168887 TAA
1 TAA
5168890 TCTTGCCGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.37
Consensus pattern (48 bp):
TAAAATTTGAGTTAACCATGGTGACATTTCTAATCCAATTAGTTCAAC
Found at i:5169956 original size:31 final size:31
Alignment explanation
Indices: 5169921--5170000 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
5169911 AATAACTAAG
5169921 TACTAATTTGGACCAAAAAGCCAAATTCAGC
1 TACTAATTTGGACCAAAAAGCCAAATTCAGC
* * * * *
5169952 TACTAATTTGAACCAAGAAGCCAAGTTTAGG
1 TACTAATTTGGACCAAAAAGCCAAATTCAGC
5169983 TATCTAA-TTGGACCAAAA
1 TA-CTAATTTGGACCAAAA
5170001 TAAACATTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 37 0.90
32 4 0.10
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (31 bp):
TACTAATTTGGACCAAAAAGCCAAATTCAGC
Found at i:5170098 original size:59 final size:60
Alignment explanation
Indices: 5169956--5170105 Score: 151
Period size: 59 Copynumber: 2.5 Consensus size: 60
5169946 TTCAGCTACT
* * * * * * *
5169956 AATTTGAACCAAGAAGCCAAGTTTAGGTATCTAATTGGACCAAAATAAACATTAGGTAAC
1 AATTTGAACCAAGAAACCAAGTTCAAGTACCTAATTGGACAAAAAAAAACATTAGATAAC
* * * * *
5170016 AAATTGAACCTTA-AAATCAAGTTCAAGTACCTAATTGGA-AAAAAAAAACCTTAGATATC
1 AATTTGAACC-AAGAAACCAAGTTCAAGTACCTAATTGGACAAAAAAAAACATTAGATAAC
**
5170075 AATTTGAACCCCGAAACCAAGTTCAAGTACC
1 AATTTGAACCAAGAAACCAAGTTCAAGTACC
5170106 AAAATGTATA
Statistics
Matches: 72, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
59 41 0.57
60 30 0.42
61 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (60 bp):
AATTTGAACCAAGAAACCAAGTTCAAGTACCTAATTGGACAAAAAAAAACATTAGATAAC
Found at i:5174667 original size:7 final size:7
Alignment explanation
Indices: 5174630--5174660 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
5174620 AATAAATATA
5174630 TTTATTT
1 TTTATTT
*
5174637 TTTATCT
1 TTTATTT
5174644 TTTATTT
1 TTTATTT
5174651 TTTATTT
1 TTTATTT
5174658 TTT
1 TTT
5174661 TAGTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:5174715 original size:26 final size:26
Alignment explanation
Indices: 5174671--5174734 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 26
5174661 TAGTTTTAAA
5174671 ATATTTTTAAAATACTTTTTTATTTTT
1 ATATTTTTAAAATACTTTTTTA-TTTT
*
5174698 TTATTTTTAAAATA-TTTTTTATTTT
1 ATATTTTTAAAATACTTTTTTATTTT
5174723 AT-TTTTTAAAAT
1 ATATTTTTAAAAT
5174735 TTGGTGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
24 10 0.29
25 5 0.14
26 7 0.20
27 13 0.37
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (26 bp):
ATATTTTTAAAATACTTTTTTATTTT
Found at i:5174728 original size:38 final size:38
Alignment explanation
Indices: 5174632--5174730 Score: 128
Period size: 38 Copynumber: 2.6 Consensus size: 38
5174622 TAAATATATT
5174632 TATTTTTTATCTTTTATTTTTTATTTTTTTAGTTTTAAAA
1 TATTTTTTA--TTTTATTTTTTATTTTTTTAGTTTTAAAA
*** *
5174672 TA-TTTTTAAAATACTTTTTTATTTTTTTATTTTTAAAA
1 TATTTTTTATTTTA-TTTTTTATTTTTTTAGTTTTAAAA
5174710 TATTTTTTATTTTATTTTTTA
1 TATTTTTTATTTTATTTTTTA
5174731 AAATTTGGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
37 2 0.04
38 32 0.64
39 14 0.28
40 2 0.04
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (38 bp):
TATTTTTTATTTTATTTTTTATTTTTTTAGTTTTAAAA
Found at i:5176132 original size:26 final size:26
Alignment explanation
Indices: 5176103--5176160 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
5176093 AAATATTTAT
* *
5176103 TTTTTTATTTTTTATTTTTAAAATAC
1 TTTTTTAATTTTTATTTTTAAAATAA
5176129 TTTTTTAATTTTTATTTTTAAAATAA
1 TTTTTTAATTTTTATTTTTAAAATAA
5176155 TTTTTT
1 TTTTTT
5176161 GGTGTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTTTAATTTTTATTTTTAAAATAA
Found at i:5176168 original size:26 final size:26
Alignment explanation
Indices: 5176103--5176170 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
5176093 AAATATTTAT
* * *
5176103 TTTTTTATTTTTTATTTTTAAAATAC
1 TTTTTTAATGTTTATTTTTAAAATAA
*
5176129 TTTTTTAATTTTTATTTTTAAAATAA
1 TTTTTTAATGTTTATTTTTAAAATAA
**
5176155 TTTTTTGGTGTTTATT
1 TTTTTTAATGTTTATT
5176171 AAAAAAATGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.69
Consensus pattern (26 bp):
TTTTTTAATGTTTATTTTTAAAATAA
Found at i:5181893 original size:16 final size:17
Alignment explanation
Indices: 5181863--5181898 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
5181853 TAATTTTTAT
*
5181863 AATTAAAAACTAATAAA
1 AATTAAAAACAAATAAA
5181880 AATT-AAAACAAATAAA
1 AATTAAAAACAAATAAA
5181896 AAT
1 AAT
5181899 AGAGTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
AATTAAAAACAAATAAA
Found at i:5191283 original size:34 final size:35
Alignment explanation
Indices: 5191217--5191283 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
5191207 CAAACACCAG
5191217 AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
* * *
5191252 AAAATATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAACCATTTTACAGAAAA
5191284 TATTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
Done.