Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 85 of 235
Found at i:29546300 original size:27 final size:27
Alignment explanation
Indices: 29546270--29546352 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 27
29546260 TGGCGAATTG
* *
29546270 TCCCGTGTTTACTGTCCCAATGGACTA
1 TCCCATGTTTATTGTCCCAATGGACTA
* * **
29546297 TCCCTTGTTTATTGTCTCAACAGACTA
1 TCCCATGTTTATTGTCCCAATGGACTA
* * *
29546324 TCCCATTTTTATTATCCTAATGGACTA
1 TCCCATGTTTATTGTCCCAATGGACTA
29546351 TC
1 TC
29546353 AAAAGATGCC
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.40
Consensus pattern (27 bp):
TCCCATGTTTATTGTCCCAATGGACTA
Found at i:29549617 original size:19 final size:20
Alignment explanation
Indices: 29549579--29549618 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
29549569 AGCATTACAT
*
29549579 AACTCAAGATAACATAAAAA
1 AACTCAAGATAAAATAAAAA
*
29549599 AACTCAA-ATAAAATCAAAA
1 AACTCAAGATAAAATAAAAA
29549618 A
1 A
29549619 GCATACTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.68, C:0.15, G:0.03, T:0.15
Consensus pattern (20 bp):
AACTCAAGATAAAATAAAAA
Found at i:29549617 original size:20 final size:20
Alignment explanation
Indices: 29549579--29549618 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
29549569 AGCATTACAT
*
29549579 AACTCAAGATAACATAAAAA
1 AACTCAAGATAAAATAAAAA
29549599 AACTCAA-ATAAAATCAAAAA
1 AACTCAAGATAAAAT-AAAAA
29549619 GCATACTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.68, C:0.15, G:0.03, T:0.15
Consensus pattern (20 bp):
AACTCAAGATAAAATAAAAA
Found at i:29562851 original size:15 final size:16
Alignment explanation
Indices: 29562822--29562855 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
29562812 TAAGCTAAAG
*
29562822 AAAGTAAATGTAATGC
1 AAAGTAAATGAAATGC
29562838 AAAGT-AATGAAATGC
1 AAAGTAAATGAAATGC
29562853 AAA
1 AAA
29562856 CAAAAGGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.21
Consensus pattern (16 bp):
AAAGTAAATGAAATGC
Found at i:29564569 original size:60 final size:60
Alignment explanation
Indices: 29564491--29564627 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
29564481 CAGTGTTAAC
* *
29564491 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGT-ATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCA--AGA-TATAT
* *
29564552 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCAAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCAAGATATAT
*
29564612 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
29564628 TAACATAGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 51 0.75
61 13 0.19
62 3 0.04
63 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCAAGATATAT
Found at i:29564591 original size:28 final size:27
Alignment explanation
Indices: 29564490--29564591 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
29564480 TCAGTGTTAA
* *
29564490 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
29564518 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
29564550 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
29564578 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
29564592 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:29565255 original size:8 final size:8
Alignment explanation
Indices: 29565244--29565291 Score: 69
Period size: 8 Copynumber: 6.0 Consensus size: 8
29565234 TCACAAATGC
29565244 CAGCTTTT
1 CAGCTTTT
29565252 CAGCTTTT
1 CAGCTTTT
*
29565260 CGGCTTTT
1 CAGCTTTT
*
29565268 CGGCTTTT
1 CAGCTTTT
29565276 CAGCTTTT
1 CAGCTTTT
*
29565284 CGGCTTTT
1 CAGCTTTT
29565292 GCTGATCTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.06, C:0.25, G:0.19, T:0.50
Consensus pattern (8 bp):
CAGCTTTT
Found at i:29565267 original size:16 final size:16
Alignment explanation
Indices: 29565244--29565291 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
29565234 TCACAAATGC
*
29565244 CAGCTTTTCAGCTTTT
1 CAGCTTTTCGGCTTTT
*
29565260 CGGCTTTTCGGCTTTT
1 CAGCTTTTCGGCTTTT
29565276 CAGCTTTTCGGCTTTT
1 CAGCTTTTCGGCTTTT
29565292 GCTGATCTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.06, C:0.25, G:0.19, T:0.50
Consensus pattern (16 bp):
CAGCTTTTCGGCTTTT
Found at i:29565278 original size:24 final size:24
Alignment explanation
Indices: 29565246--29565291 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
29565236 ACAAATGCCA
29565246 GCTTTTCAGCTTTTCGGCTTTTCG
1 GCTTTTCAGCTTTTCGGCTTTTCG
29565270 GCTTTTCAGCTTTTCGGCTTTT
1 GCTTTTCAGCTTTTCGGCTTTT
29565292 GCTGATCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.04, C:0.24, G:0.20, T:0.52
Consensus pattern (24 bp):
GCTTTTCAGCTTTTCGGCTTTTCG
Found at i:29575447 original size:142 final size:142
Alignment explanation
Indices: 29575277--29575562 Score: 554
Period size: 142 Copynumber: 2.0 Consensus size: 142
29575267 GTGGGCTGCT
*
29575277 ATAGTTATGAAAATTATTTGGCTTGGCTTAAAGTGCAAGGAAATTGAATAAAAATCATTTTACGA
1 ATAGTTATGAAAATTATTTGGCTTGGCTTAAAGTGCAAAGAAATTGAATAAAAATCATTTTACGA
*
29575342 GCCTAGGGGCCAATGTGTAAATAAGTGAAAGTTTAGGGGTAAAAATGCAAATTTGTAAAAGTATG
66 GCCTAGGGGCCAATGTGTAAATAAGTGAAAGGTTAGGGGTAAAAATGCAAATTTGTAAAAGTATG
29575407 ATTTTTGAGTCA
131 ATTTTTGAGTCA
29575419 ATAGTTATGAAAATTATTTGGCTTGGCTTAAAGTGCAAAGAAATTGAATAAAAATCATTTTACGA
1 ATAGTTATGAAAATTATTTGGCTTGGCTTAAAGTGCAAAGAAATTGAATAAAAATCATTTTACGA
29575484 GCCTAGGGGCCAATGTGTAAATAAGTGAAAGGTTAGGGGTAAAAATGCAAATTTGTAAAAGTATG
66 GCCTAGGGGCCAATGTGTAAATAAGTGAAAGGTTAGGGGTAAAAATGCAAATTTGTAAAAGTATG
29575549 ATTTTTGAGTCA
131 ATTTTTGAGTCA
29575561 AT
1 AT
29575563 TTGAATAATG
Statistics
Matches: 142, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 142 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.31
Consensus pattern (142 bp):
ATAGTTATGAAAATTATTTGGCTTGGCTTAAAGTGCAAAGAAATTGAATAAAAATCATTTTACGA
GCCTAGGGGCCAATGTGTAAATAAGTGAAAGGTTAGGGGTAAAAATGCAAATTTGTAAAAGTATG
ATTTTTGAGTCA
Found at i:29577488 original size:47 final size:49
Alignment explanation
Indices: 29577263--29577784 Score: 866
Period size: 49 Copynumber: 10.9 Consensus size: 49
29577253 NNNNNNNNNN
*
29577263 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
29577312 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
29577361 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
29577410 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT-
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
* * * * * * *
29577458 T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
29577504 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
29577553 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
29577602 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
29577649 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
29577696 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
29577743 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
29577785 CTATCATTTC
Statistics
Matches: 454, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 212 0.47
48 1 0.00
49 240 0.53
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
Found at i:29577599 original size:192 final size:192
Alignment explanation
Indices: 29577263--29577781 Score: 898
Period size: 192 Copynumber: 2.7 Consensus size: 192
29577253 NNNNNNNNNN
29577263 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACACTTTCACA
1 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACA
* *
29577328 TTCATCACGTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCA
64 TTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
*
29577393 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
129 TTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
* * * * * * *
29577457 TTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATT
1 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
*
29577522 CATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
66 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
29577587 AGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
131 AGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
*
29577649 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
1 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
29577714 CATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT
66 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
29577777 AGGCC
131 AGGCC
29577782 TTACTATCAT
Statistics
Matches: 305, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
190 40 0.13
192 226 0.74
194 39 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (192 bp):
TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
AGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
Found at i:29580127 original size:48 final size:48
Alignment explanation
Indices: 29580053--29580205 Score: 173
Period size: 48 Copynumber: 3.2 Consensus size: 48
29580043 TAGGGGTGTC
* * *
29580053 ACATGGCATCAGCGATGACATGTGTGCCTATGTAAGACCACGTATGGG
1 ACATGGCATCGGCGATGATATGTGTGCCTATGTAAGACCATGTATGGG
* * * *
29580101 ACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACTATGTTTGGG
1 ACATGGCATCGGCGATGATATGTGTGCCTATGTAAGACCATGTATGGG
* * ** **
29580149 ACATGGCATCGACGATGGTATGTG-GATTTATGTAAGACCATGTCGGGG
1 ACATGGCATCGGCGATGATATGTGTG-CCTATGTAAGACCATGTATGGG
29580197 ACATGGCAT
1 ACATGGCAT
29580206 TGGTACTTTA
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 87 0.99
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (48 bp):
ACATGGCATCGGCGATGATATGTGTGCCTATGTAAGACCATGTATGGG
Found at i:29584881 original size:55 final size:54
Alignment explanation
Indices: 29584794--29585048 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
29584784 ATTAGGGTTT
*
29584794 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * * *
29584849 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAACGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * * *
29584904 AAAGG-TCCCATGTAAGACTATGCCAAGGCATGGC-ATTGTTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
**
29584957 AAGGATACCATGTAAGACCATGTTAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
29585006 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
29585049 GTACCCGTGT
Statistics
Matches: 165, Mismatches: 28, Indels: 20
0.77 0.13 0.09
Matches are distributed among these distances:
49 39 0.24
52 7 0.04
53 37 0.22
54 12 0.07
55 66 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:29585000 original size:108 final size:110
Alignment explanation
Indices: 29584801--29585001 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
29584791 TTTAAGGATA
*
29584801 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
29584866 CCATGTCAAGACATGGCATTGATAAGTTACTATAACGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAACGCAAAGGTC
* * * *
29584911 CCATGTAAGACTATGCCAAGGCATGGC-ATTGTTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
29584973 ACCATGTTAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
29585002 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 6 0.07
110 26 0.32
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAACGCAAAGGTC
Found at i:29585261 original size:16 final size:16
Alignment explanation
Indices: 29585240--29585270 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29585230 ATAAATTTGA
29585240 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
29585256 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
29585271 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:29589622 original size:48 final size:48
Alignment explanation
Indices: 29589551--29589876 Score: 451
Period size: 48 Copynumber: 6.8 Consensus size: 48
29589541 CACCATATTA
* * *
29589551 ATGTGTGCCTGTGTAAGATCATGTCTGGGACATGGCATTGGGGATGAT
1 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* * * *
29589599 ATGTGTGCCTATGTAAGACCATGTCTAGGATATAGCATCGGCGATGAT
1 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* * *
29589647 ATGTGTGCCTGTGTAAAACCATGTCTAGGACATGGCATCGGGGATGAT
1 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
*
29589695 ATGTGTGCCTGTGTAAGACCATGTCTTGGACATGGCATCGGC-AGTGAT
1 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGA-TGAT
*
29589743 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGAT
1 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* * *
29589791 ATATGTGCCTGTGTAAGACCATATCTGGGACATGGCATCGACGATGAT
1 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* *
29589839 ATGTGGATTCC--TGTAAGACCATGTCGGGGACATGGCAT
1 ATGT-G-TGCCTGTGTAAGACCATGTCTGGGACATGGCAT
29589877 TGGTACTTTA
Statistics
Matches: 249, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
47 1 0.00
48 243 0.98
49 2 0.01
50 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
Found at i:29597850 original size:19 final size:19
Alignment explanation
Indices: 29597826--29597862 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
29597816 GAATATATAC
*
29597826 TTTTGAAATTTTTAAAATT
1 TTTTGAAAGTTTTAAAATT
29597845 TTTTGAAAGTTTTAAAAT
1 TTTTGAAAGTTTTAAAAT
29597863 CTAAATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTGAAAGTTTTAAAATT
Found at i:29608128 original size:14 final size:14
Alignment explanation
Indices: 29608109--29608138 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29608099 TCCTATTTCA
*
29608109 AATTAAAATTATTT
1 AATTAAAATTAATT
29608123 AATTAAAATTAATT
1 AATTAAAATTAATT
29608137 AA
1 AA
29608139 ATAATAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTAAAATTAATT
Found at i:29611659 original size:61 final size:61
Alignment explanation
Indices: 29611535--29611674 Score: 171
Period size: 61 Copynumber: 2.3 Consensus size: 61
29611525 ATCCTAAATA
* * * *
29611535 TAAAAAATTCAAAAAATTTAGCACTCAATGTTTGCAAAATTTGTCATTTTAGTTCTAATTC
1 TAAAAAATTCAAAAAATTTAGCACTCAATATTTACAAAATTTGTCAATTTAGTTCTAACTC
* *
29611596 TAAAAAATTCAATAAAA-TTGGCCCTCAATATTTACAAAATTTGTCAATTTAG-TCTTAACTC
1 TAAAAAATTCAA-AAAATTTAGCACTCAATATTTACAAAATTTGTCAATTTAGTTC-TAACTC
29611657 T-AAAAATT-AAAAATATTT
1 TAAAAAATTCAAAAA-ATTT
29611675 TTTAATAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
58 3 0.04
59 3 0.04
60 11 0.16
61 48 0.70
62 4 0.06
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (61 bp):
TAAAAAATTCAAAAAATTTAGCACTCAATATTTACAAAATTTGTCAATTTAGTTCTAACTC
Found at i:29625297 original size:27 final size:26
Alignment explanation
Indices: 29625267--29625340 Score: 62
Period size: 26 Copynumber: 2.8 Consensus size: 26
29625257 CATCTTAGAT
29625267 TTTTTTAAATATATATATAAATTAACA
1 TTTTTTAAATATATATATAAATTAA-A
* * *
29625294 -TTTTTATATATTTA-ATAAATTTTAA
1 TTTTTTAAATATATATATAAA-TTAAA
* * *
29625319 TTTTTTGATTTTATATATAAAT
1 TTTTTTAAATATATATATAAAT
29625341 ATCTATAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
25 6 0.17
26 25 0.69
27 5 0.14
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (26 bp):
TTTTTTAAATATATATATAAATTAAA
Found at i:29627216 original size:14 final size:14
Alignment explanation
Indices: 29627197--29627230 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
29627187 CTTTTTTTAT
29627197 TATTATAAAGATTA
1 TATTATAAAGATTA
*
29627211 TATTATAAATATTA
1 TATTATAAAGATTA
29627225 TATTAT
1 TATTAT
29627231 TTTTGACCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TATTATAAAGATTA
Found at i:29630508 original size:43 final size:43
Alignment explanation
Indices: 29630443--29630566 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
29630433 AGCTCAAACA
* * *
29630443 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACATAACG
* * * * * ***
29630485 ATGCCACTGTCCTAGATAGGGTCTTACACGAAATCGGTTAACG
1 ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACATAACG
*
29630528 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAT
29630567 CTCGGTAACC
Statistics
Matches: 61, Mismatches: 20, Indels: 1
0.74 0.24 0.01
Matches are distributed among these distances:
42 5 0.08
43 56 0.92
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACATAACG
Found at i:29632260 original size:28 final size:28
Alignment explanation
Indices: 29632224--29632298 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
29632214 TCAAATATGG
*
29632224 CACTCAGTGTACGAAATATTGAGAATGA
1 CACTTAGTGTACGAAATATTGAGAATGA
* *
29632252 CACTTAGTGTGCGAGATATTGAGAATGA
1 CACTTAGTGTACGAAATATTGAGAATGA
* *
29632280 AACTTAGTGTCCGAAATAT
1 CACTTAGTGTACGAAATAT
29632299 CGAATGATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (28 bp):
CACTTAGTGTACGAAATATTGAGAATGA
Found at i:29632689 original size:28 final size:28
Alignment explanation
Indices: 29632653--29632727 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
29632643 TCAAATATGG
*
29632653 CACTCAGTGTACGAAATATTGAGAATGA
1 CACTTAGTGTACGAAATATTGAGAATGA
* *
29632681 CACTTAGTGTGCGAGATATTGAGAATGA
1 CACTTAGTGTACGAAATATTGAGAATGA
* *
29632709 AACTTAGTGTCCGAAATAT
1 CACTTAGTGTACGAAATAT
29632728 CGAATGATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (28 bp):
CACTTAGTGTACGAAATATTGAGAATGA
Found at i:29632850 original size:429 final size:429
Alignment explanation
Indices: 29632051--29632910 Score: 1720
Period size: 429 Copynumber: 2.0 Consensus size: 429
29632041 CAAAATGCCC
29632051 ATGAACTTTGGTATCTCTACAATTTAGGCAGGTAAGTTCGTATGCAATAAGCATTGTTAAATTTA
1 ATGAACTTTGGTATCTCTACAATTTAGGCAGGTAAGTTCGTATGCAATAAGCATTGTTAAATTTA
29632116 TGCTTCTAATGCTTTAATATCGTATAAGTTGTATATACGTGAATATTTTAATGTTTGATGACATA
66 TGCTTCTAATGCTTTAATATCGTATAAGTTGTATATACGTGAATATTTTAATGTTTGATGACATA
29632181 TCGACTAAATGTGGCACTTAGTGTGCGGGGCAATCAAATATGGCACTCAGTGTACGAAATATTGA
131 TCGACTAAATGTGGCACTTAGTGTGCGGGGCAATCAAATATGGCACTCAGTGTACGAAATATTGA
29632246 GAATGACACTTAGTGTGCGAGATATTGAGAATGAAACTTAGTGTCCGAAATATCGAATGATTCAA
196 GAATGACACTTAGTGTGCGAGATATTGAGAATGAAACTTAGTGTCCGAAATATCGAATGATTCAA
29632311 AGGGAAATTATAAATTGTGATTGAATGATTAAATCGAGCAAAATGAACAGGTATACATGCTATAT
261 AGGGAAATTATAAATTGTGATTGAATGATTAAATCGAGCAAAATGAACAGGTATACATGCTATAT
29632376 TATATGAATTATTTATGAAACAATTTCATAATGGTGATATTCGGGCTTAGAGCCTAGCAAGCCTT
326 TATATGAATTATTTATGAAACAATTTCATAATGGTGATATTCGGGCTTAGAGCCTAGCAAGCCTT
29632441 GTGCTGGTGAATTAAATCGGGCTTATGCCTAGCAGGCTT
391 GTGCTGGTGAATTAAATCGGGCTTATGCCTAGCAGGCTT
29632480 ATGAACTTTGGTATCTCTACAATTTAGGCAGGTAAGTTCGTATGCAATAAGCATTGTTAAATTTA
1 ATGAACTTTGGTATCTCTACAATTTAGGCAGGTAAGTTCGTATGCAATAAGCATTGTTAAATTTA
29632545 TGCTTCTAATGCTTTAATATCGTATAAGTTGTATATACGTGAATATTTTAATGTTTGATGACATA
66 TGCTTCTAATGCTTTAATATCGTATAAGTTGTATATACGTGAATATTTTAATGTTTGATGACATA
29632610 TCGACTAAATGTGGCACTTAGTGTGCGGGGCAATCAAATATGGCACTCAGTGTACGAAATATTGA
131 TCGACTAAATGTGGCACTTAGTGTGCGGGGCAATCAAATATGGCACTCAGTGTACGAAATATTGA
29632675 GAATGACACTTAGTGTGCGAGATATTGAGAATGAAACTTAGTGTCCGAAATATCGAATGATTCAA
196 GAATGACACTTAGTGTGCGAGATATTGAGAATGAAACTTAGTGTCCGAAATATCGAATGATTCAA
29632740 AGGGAAATTATAAATTGTGATTGAATGATTAAATCGAGCAAAATGAACAGGTATACATGCTATAT
261 AGGGAAATTATAAATTGTGATTGAATGATTAAATCGAGCAAAATGAACAGGTATACATGCTATAT
29632805 TATATGAATTATTTATGAAACAATTTCATAATGGTGATATTCGGGCTTAGAGCCTAGCAAGCCTT
326 TATATGAATTATTTATGAAACAATTTCATAATGGTGATATTCGGGCTTAGAGCCTAGCAAGCCTT
29632870 GTGCTGGTGAATTAAATCGGGCTTATGCCTAGCAGGCTT
391 GTGCTGGTGAATTAAATCGGGCTTATGCCTAGCAGGCTT
29632909 AT
1 AT
29632911 TGTCGGTGTA
Statistics
Matches: 431, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
429 431 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (429 bp):
ATGAACTTTGGTATCTCTACAATTTAGGCAGGTAAGTTCGTATGCAATAAGCATTGTTAAATTTA
TGCTTCTAATGCTTTAATATCGTATAAGTTGTATATACGTGAATATTTTAATGTTTGATGACATA
TCGACTAAATGTGGCACTTAGTGTGCGGGGCAATCAAATATGGCACTCAGTGTACGAAATATTGA
GAATGACACTTAGTGTGCGAGATATTGAGAATGAAACTTAGTGTCCGAAATATCGAATGATTCAA
AGGGAAATTATAAATTGTGATTGAATGATTAAATCGAGCAAAATGAACAGGTATACATGCTATAT
TATATGAATTATTTATGAAACAATTTCATAATGGTGATATTCGGGCTTAGAGCCTAGCAAGCCTT
GTGCTGGTGAATTAAATCGGGCTTATGCCTAGCAGGCTT
Found at i:29633168 original size:21 final size:22
Alignment explanation
Indices: 29633137--29633177 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
29633127 GAATGCATTG
*
29633137 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
29633159 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
29633178 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:29635151 original size:29 final size:29
Alignment explanation
Indices: 29635087--29635152 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
29635077 TTATCATTTA
* *
29635087 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
29635116 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
29635144 TTTACTCAA
1 TTT-CTCAA
29635153 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:29640646 original size:15 final size:15
Alignment explanation
Indices: 29640626--29640690 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
29640616 GTATCTTGGG
*
29640626 TTTCTTTGTTCTGGA
1 TTTCTTTATTCTGGA
*
29640641 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
29640656 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
29640671 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
29640685 TTTCTT
1 TTTCTT
29640691 GTTATCTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
14 10 0.24
15 30 0.71
16 2 0.05
ACGTcount: A:0.08, C:0.15, G:0.15, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:29640658 original size:30 final size:30
Alignment explanation
Indices: 29640622--29640690 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
29640612 TATCGTATCT
*
29640622 TGGGTTTCTTTGT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTTATCT-TGGATTTCTTTATTC
*
29640652 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCTTGGATTTCTTTATTC
*
29640682 -GGTTTTCTT
1 TGGGTTTCTT
29640691 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.21
30 26 0.76
31 1 0.03
ACGTcount: A:0.07, C:0.14, G:0.19, T:0.59
Consensus pattern (30 bp):
TGGGTTTCTTTATCTTGGATTTCTTTATTC
Found at i:29646957 original size:16 final size:17
Alignment explanation
Indices: 29646931--29646962 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29646921 AAATAAGAAA
29646931 TAATAATTATAATAATT
1 TAATAATTATAATAATT
29646948 TAATAA-TATAATAAT
1 TAATAATTATAATAAT
29646963 ATATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:29651388 original size:16 final size:17
Alignment explanation
Indices: 29651362--29651393 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29651352 AAATAAGAAA
29651362 TAATAATTATAATAATT
1 TAATAATTATAATAATT
29651379 TAATAA-TATAATAAT
1 TAATAATTATAATAAT
29651394 ATATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:29653196 original size:20 final size:20
Alignment explanation
Indices: 29653162--29653213 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
29653152 CCCATGGCCT
* *
29653162 GGCCCCACGGCCATGTCCCCA
1 GGCCACACGGGCATGT-CCCA
29653183 -GCCACACGGGCATGTCCCA
1 GGCCACACGGGCATGTCCCA
29653202 GGCCACACGGGC
1 GGCCACACGGGC
29653214 TTGTGCCCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.17, C:0.46, G:0.29, T:0.08
Consensus pattern (20 bp):
GGCCACACGGGCATGTCCCA
Found at i:29661509 original size:28 final size:28
Alignment explanation
Indices: 29661477--29661549 Score: 146
Period size: 28 Copynumber: 2.6 Consensus size: 28
29661467 AGATTGCTGC
29661477 GAAAGAAATGGACCAGTATGAGATTATA
1 GAAAGAAATGGACCAGTATGAGATTATA
29661505 GAAAGAAATGGACCAGTATGAGATTATA
1 GAAAGAAATGGACCAGTATGAGATTATA
29661533 GAAAGAAATGGACCAGT
1 GAAAGAAATGGACCAGT
29661550 GGCATATCGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.47, C:0.08, G:0.26, T:0.19
Consensus pattern (28 bp):
GAAAGAAATGGACCAGTATGAGATTATA
Found at i:29662247 original size:8 final size:8
Alignment explanation
Indices: 29662214--29662249 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
29662204 TAAATAAGAA
29662214 ATAATAATT
1 ATAATAA-T
29662223 ATAATAAT
1 ATAATAAT
*
29662231 TTAATAAT
1 ATAATAAT
29662239 ATAATAAT
1 ATAATAAT
29662247 ATA
1 ATA
29662250 TACGTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAATAAT
Found at i:29662399 original size:16 final size:17
Alignment explanation
Indices: 29662373--29662404 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29662363 AAATAAGAAA
29662373 TAATAATTATAATAATT
1 TAATAATTATAATAATT
29662390 TAATAA-TATAATAAT
1 TAATAATTATAATAAT
29662405 ATATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:29662401 original size:158 final size:161
Alignment explanation
Indices: 29662153--29662471 Score: 608
Period size: 158 Copynumber: 2.0 Consensus size: 161
29662143 ATGAATACAT
29662153 CTGTATTATTTTAATTGGTACAATTGTATGTATAAATAAGTATTTACTTATTAAATAAGAAATAA
1 CTGTATTATTTTAATTGGTACAATTGTATGTATAAATAAGTATTTACTTATTAAATAAGAAATAA
29662218 TAATTATAATAATTTAATAATATAATAATATATACG-T-T-ATAATAATAGAATAAAGAAAATAA
66 TAATTATAATAATTTAATAATATAATAATATATACGTTATAATAATAATAGAATAAAGAAAATAA
29662280 AAGGAATAAAACATAAAGAAAAAGAAAGGAG
131 AAGGAATAAAACATAAAGAAAAAGAAAGGAG
29662311 CTGTATTATTTTAATTGGTACAATTGTATGTATAAATAAGTATTTACTTATTAAATAAGAAATAA
1 CTGTATTATTTTAATTGGTACAATTGTATGTATAAATAAGTATTTACTTATTAAATAAGAAATAA
*
29662376 TAATTATAATAATTTAATAATATAATAATATATATGTTATAATAATAATAGAATAAAGAAAATAA
66 TAATTATAATAATTTAATAATATAATAATATATACGTTATAATAATAATAGAATAAAGAAAATAA
29662441 AAGGAATAAAACATAAAGAAAAAGAAAGGAG
131 AAGGAATAAAACATAAAGAAAAAGAAAGGAG
29662472 AAAGGGACGA
Statistics
Matches: 157, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
158 100 0.64
159 1 0.01
160 1 0.01
161 55 0.35
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.33
Consensus pattern (161 bp):
CTGTATTATTTTAATTGGTACAATTGTATGTATAAATAAGTATTTACTTATTAAATAAGAAATAA
TAATTATAATAATTTAATAATATAATAATATATACGTTATAATAATAATAGAATAAAGAAAATAA
AAGGAATAAAACATAAAGAAAAAGAAAGGAG
Found at i:29664214 original size:20 final size:20
Alignment explanation
Indices: 29664185--29664231 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
29664175 GGCCTGGCCC
* *
29664185 CACGGCCATGTCCCCAGCCA
1 CACGGGCATGTCCCAAGCCA
29664205 CACGGGCATGTCCCAAGCCA
1 CACGGGCATGTCCCAAGCCA
29664225 CACGGGC
1 CACGGGC
29664232 GTGTGCCCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.45, G:0.26, T:0.09
Consensus pattern (20 bp):
CACGGGCATGTCCCAAGCCA
Found at i:29675758 original size:29 final size:28
Alignment explanation
Indices: 29675723--29675778 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
29675713 GAGTTATACC
29675723 GATTTGGCTTCGGGCCATGAATATCAGTT
1 GATTTGGCTTCGGGCCATG-ATATCAGTT
*
29675752 GATTTGGCTTTGGGCCATGATATCAGT
1 GATTTGGCTTCGGGCCATGATATCAGT
29675779 ATTTCAGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.36
Consensus pattern (28 bp):
GATTTGGCTTCGGGCCATGATATCAGTT
Found at i:29679145 original size:68 final size:71
Alignment explanation
Indices: 29679049--29679183 Score: 177
Period size: 72 Copynumber: 1.9 Consensus size: 71
29679039 TTTAATAGAT
* * *
29679049 TTAATATTACATTTAATTTAATAATTATC-CTA-CT-AGTATTATATTAATTTAATATTAAAGTG
1 TTAATATTAAATTTAATTTAATAATTATCTCTAGATAAATATTATATTAATTTAATATTAAAGTG
29679111 AGTATC
66 AGTATC
* ** *
29679117 TTAATATTAAATTTAATTTCATGTTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAGT
1 TTAATATTAAATTTAATTTAATAATTATC-TCTAGATAAATATTATATTAATTTAATATTAAAGT
29679182 GA
65 GA
29679184 TTAAGTTTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 25 0.45
70 2 0.04
71 1 0.02
72 28 0.50
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (71 bp):
TTAATATTAAATTTAATTTAATAATTATCTCTAGATAAATATTATATTAATTTAATATTAAAGTG
AGTATC
Found at i:29680297 original size:105 final size:107
Alignment explanation
Indices: 29680118--29680314 Score: 319
Period size: 106 Copynumber: 1.9 Consensus size: 107
29680108 GAAAAGGTAT
*
29680118 TAAAGTAAAATAAGTGAAATAAAAATGAAAGTGGAAGAGGGTGGAGTTATTTACATGAAAACCTT
1 TAAAGTAAAATAAGTGAAATAAAAATGAAAGTGGAAGAGGGTGGAGTTATTTACATGAAAACATT
*
29680183 CAAAGAAAAA-AAAGAAAGAAAGAAAAGAATTAAAAAAGAAC
66 AAAAGAAAAAGAAAGAAAGAAAGAAAAGAATTAAAAAAGAAC
*
29680224 TAAAGTAAAATAAGTGAAATAAAAAT-AAAGTGGAA-AGGGATGGAGTTATTTACATGCAAACAT
1 TAAAGTAAAATAAGTGAAATAAAAATGAAAGTGGAAGAGGG-TGGAGTTATTTACATGAAAACAT
* *
29680287 TAAAATAAAAAGAAAGAAAGGAAGAAAA
65 TAAAAGAAAAAGAAAGAAAGAAAGAAAA
29680315 TAGCAAGGGA
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
104 4 0.05
105 39 0.46
106 41 0.49
ACGTcount: A:0.58, C:0.04, G:0.20, T:0.18
Consensus pattern (107 bp):
TAAAGTAAAATAAGTGAAATAAAAATGAAAGTGGAAGAGGGTGGAGTTATTTACATGAAAACATT
AAAAGAAAAAGAAAGAAAGAAAGAAAAGAATTAAAAAAGAAC
Found at i:29682635 original size:5 final size:5
Alignment explanation
Indices: 29682625--29682655 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
29682615 TGTATGTAAG
29682625 TATTT TATTT TATTT TATTT TATTT T-TTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TA
29682656 AGAACAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:29700610 original size:20 final size:20
Alignment explanation
Indices: 29700585--29700630 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
29700575 ATTGGGCCTT
29700585 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
29700605 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
29700624 GCCCATA
1 GCCCATA
29700631 ACAAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:29714848 original size:105 final size:105
Alignment explanation
Indices: 29714666--29714854 Score: 335
Period size: 105 Copynumber: 1.8 Consensus size: 105
29714656 ATGTTAATAT
29714666 ATGTAATTACATCTCTCGTTCCAAGTTTCATTTTTCGGAGTATTATTGAAGTTTGTATTTCTTCC
1 ATGTAATTACATCTCTCGTTCCAAGTTTCATTTTTCGGAGTATTATTGAAGTTTGTATTTCTTCC
29714731 ACTCTAGCGTTTCTAGAAGTTCTGGATTGAAAATTTGAGA
66 ACTCTAGCGTTTCTAGAAGTTCTGGATTGAAAATTTGAGA
*
29714771 ATGTAATTACATCTCTCGTTCCAAGTTTCATTTGTT-GGAGTATTATTTAAGTTTGTATTTCTTC
1 ATGTAATTACATCTCTCGTTCCAAGTTTCATTT-TTCGGAGTATTATTGAAGTTTGTATTTCTTC
* *
29714835 CACTCTAGTGTTTCTGGAAG
65 CACTCTAGCGTTTCTAGAAG
29714855 ATATAAAACT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
105 78 0.98
106 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.44
Consensus pattern (105 bp):
ATGTAATTACATCTCTCGTTCCAAGTTTCATTTTTCGGAGTATTATTGAAGTTTGTATTTCTTCC
ACTCTAGCGTTTCTAGAAGTTCTGGATTGAAAATTTGAGA
Found at i:29731105 original size:29 final size:30
Alignment explanation
Indices: 29731068--29731133 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
29731058 TTTAAGTCCA
* *
29731068 TTTAATTTTCAATTTGTCTTTCTT-TTTAC
1 TTTAATTTTCAATTTGCCTTTCTTCTTGAC
* **
29731097 TTTATTTTTCTTTTTGCCTTTCTTCTTGAC
1 TTTAATTTTCAATTTGCCTTTCTTCTTGAC
29731127 TTTAATT
1 TTTAATT
29731134 ATCATTTTCC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.14, C:0.15, G:0.05, T:0.67
Consensus pattern (30 bp):
TTTAATTTTCAATTTGCCTTTCTTCTTGAC
Found at i:29733663 original size:46 final size:46
Alignment explanation
Indices: 29733613--29733788 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
29733603 TGATTGAGCA
*
29733613 TCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
29733659 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
29733704 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
29733752 -CCTGATCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29733789 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:29733769 original size:93 final size:93
Alignment explanation
Indices: 29733610--29733781 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
29733600 GGATGATTGA
*
29733610 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
29733675 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
29733703 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGATCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
29733767 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
29733782 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:29735289 original size:18 final size:18
Alignment explanation
Indices: 29735246--29735281 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29735236 TCACCTAGAT
29735246 AATATCATCTACCATAAA
1 AATATCATCTACCATAAA
29735264 AATATCATCTACCATAAA
1 AATATCATCTACCATAAA
29735282 GGTATCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (18 bp):
AATATCATCTACCATAAA
Found at i:29742132 original size:76 final size:75
Alignment explanation
Indices: 29741998--29742150 Score: 234
Period size: 76 Copynumber: 2.0 Consensus size: 75
29741988 TAAAAATTAG
* **
29741998 GACTATCATGTTAGTGAGAATCCAAAGAAAGTAAAAGAGAAGAGAAAACTGTTAGAAGAGGACCA
1 GACTATCATGTTAGTAAGAATCCAAAGAAAGTAAAAGAGAAGAGAAAACCATTAGAAGAGGACCA
29742063 ATGGTCGGAA
66 ATGGTCGGAA
* *
29742073 GANCTATCATGTTAGTAAGCATCCAAAGAAAGTAAAAGAGAAGAGAAAACCATTTGAAGAGGACC
1 GA-CTATCATGTTAGTAAGAATCCAAAGAAAGTAAAAGAGAAGAGAAAACCATTAGAAGAGGACC
**
29742138 GGTGGTCGGAA
65 AATGGTCGGAA
29742149 GA
1 GA
29742151 GCGACGGCGT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 2 0.03
76 68 0.97
ACGTcount: A:0.44, C:0.12, G:0.27, T:0.17
Consensus pattern (75 bp):
GACTATCATGTTAGTAAGAATCCAAAGAAAGTAAAAGAGAAGAGAAAACCATTAGAAGAGGACCA
ATGGTCGGAA
Found at i:29745537 original size:40 final size:39
Alignment explanation
Indices: 29745493--29745597 Score: 113
Period size: 39 Copynumber: 2.6 Consensus size: 39
29745483 AGTGACCATA
*
29745493 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* * *
29745533 TCCGGGCTAAGCCCGAAGGTATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
29745571 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
29745598 AACGAGTAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.04
39 31 0.55
40 23 0.41
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:29745557 original size:39 final size:40
Alignment explanation
Indices: 29745456--29745597 Score: 141
Period size: 40 Copynumber: 3.6 Consensus size: 40
29745446 AATGATGTCT
* * *
29745456 GGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACC
* *
29745496 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACC
* *
29745536 GGGCTAAG-CCCGAAGGTATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
*
29745575 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
29745598 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 33 0.38
40 42 0.49
41 10 0.12
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
Found at i:29745891 original size:47 final size:47
Alignment explanation
Indices: 29745822--29745989 Score: 237
Period size: 47 Copynumber: 3.6 Consensus size: 47
29745812 AAGGGTTGGT
*
29745822 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATATGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29745869 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * * *
29745916 AATGTGAAAGTGTATATATGTAACAGGGCCGAGTGACCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
29745963 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
29745990 TCCCGAAGGG
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 107 1.00
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:29756234 original size:24 final size:24
Alignment explanation
Indices: 29756202--29756250 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
29756192 TCCCTTATGA
*
29756202 TGGTCTACGAGACTTAAAACATAC
1 TGGTCTACGAGACCTAAAACATAC
29756226 TGGTCTACGAGACCTAAAACATAC
1 TGGTCTACGAGACCTAAAACATAC
29756250 T
1 T
29756251 TTTAAGGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (24 bp):
TGGTCTACGAGACCTAAAACATAC
Found at i:29760253 original size:33 final size:33
Alignment explanation
Indices: 29760210--29760276 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
29760200 TAAAAAGCTC
29760210 AATTTGGATTGTTTGAAACTTTGATGTTCTTAT
1 AATTTGGATTGTTTGAAACTTTGATGTTCTTAT
* *
29760243 AATTTTGATTGTTTGAAACTTTGATGTTTTTAT
1 AATTTGGATTGTTTGAAACTTTGATGTTCTTAT
29760276 A
1 A
29760277 GTTAAGCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.04, G:0.16, T:0.54
Consensus pattern (33 bp):
AATTTGGATTGTTTGAAACTTTGATGTTCTTAT
Found at i:29760267 original size:16 final size:15
Alignment explanation
Indices: 29760219--29760271 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
29760209 CAATTTGGAT
29760219 TGTTTGAAACTTTGA
1 TGTTTGAAACTTTGA
* *
29760234 TGTTCTTATAATTTTGA
1 TGTT-TGA-AACTTTGA
29760251 TTGTTTGAAACTTTGA
1 -TGTTTGAAACTTTGA
29760267 TGTTT
1 TGTTT
29760272 TTATAGTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 9 0.29
16 9 0.29
17 9 0.29
18 4 0.13
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.55
Consensus pattern (15 bp):
TGTTTGAAACTTTGA
Found at i:29760658 original size:30 final size:30
Alignment explanation
Indices: 29760623--29760702 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
29760613 AGAAACTTCT
** *
29760623 ACACGGGTGATCCACACGCTTATGTGTGAC
1 ACACGGGTGATCCACACGCCCATGTATGAC
*
29760653 ACACGGGTGATCCACACGCCCGTGTATGAC
1 ACACGGGTGATCCACACGCCCATGTATGAC
29760683 ACACGGGTAGA-CCACACGCC
1 ACACGGGT-GATCCACACGCC
29760703 TGTGTGTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 43 0.96
31 2 0.04
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (30 bp):
ACACGGGTGATCCACACGCCCATGTATGAC
Found at i:29770556 original size:9 final size:10
Alignment explanation
Indices: 29770529--29770555 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
29770519 GAGCCAAAAA
29770529 AAAAAAAAGG
1 AAAAAAAAGG
29770539 AAAAAAAAGG
1 AAAAAAAAGG
29770549 AAAAAAA
1 AAAAAAA
29770556 GAAATGTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:29772030 original size:19 final size:20
Alignment explanation
Indices: 29772006--29772054 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
29771996 ATTATAAAAT
29772006 AATTTAATTTTAGT-GTTAA
1 AATTTAATTTTAGTAGTTAA
*
29772025 AATTT-ATTTTTGTAGTTAA
1 AATTTAATTTTAGTAGTTAA
29772044 AATTTAATTTT
1 AATTTAATTTT
29772055 TATACATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.26
19 15 0.56
20 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (20 bp):
AATTTAATTTTAGTAGTTAA
Found at i:29772660 original size:31 final size:29
Alignment explanation
Indices: 29772613--29772693 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 29
29772603 GTTTATAAAA
* *
29772613 TTTTAAATTAATAATAAAATTGTACTTTTATC
1 TTTTAAA--AATAATAAAATT-TAATTTAATC
*
29772645 TTTTTATAAATAATAAAAATTTAATTTAATC
1 -TTTTAAAAATAAT-AAAATTTAATTTAATC
*
29772676 TTTTAAAAATTATAAAAT
1 TTTTAAAAATAATAAAAT
29772694 ATAAATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
29 5 0.12
30 11 0.26
31 14 0.33
32 6 0.14
33 6 0.14
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (29 bp):
TTTTAAAAATAATAAAATTTAATTTAATC
Found at i:29772691 original size:30 final size:32
Alignment explanation
Indices: 29772613--29772692 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 32
29772603 GTTTATAAAA
* *
29772613 TTTTAAATTAATAAT-AAAATTGTACTTTTATCT
1 TTTTAAA--AATAATAAAAATTGTAATTTAATCT
*
29772646 TTTTATAAATAATAAAAATT-TAATTTAATC-
1 TTTTAAAAATAATAAAAATTGTAATTTAATCT
*
29772676 TTTTAAAAATTATAAAA
1 TTTTAAAAATAATAAAA
29772693 TATAAATTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 15 0.37
31 14 0.34
32 6 0.15
33 6 0.15
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (32 bp):
TTTTAAAAATAATAAAAATTGTAATTTAATCT
Found at i:29772716 original size:17 final size:16
Alignment explanation
Indices: 29772681--29772720 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
29772671 TAATCTTTTA
29772681 AAAATTA-TAAAATAT
1 AAAATTATTAAAATAT
29772696 -AAATTATTAAAATATT
1 AAAATTATTAAAATA-T
29772712 AAAATTATT
1 AAAATTATT
29772721 TATTAGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 7 0.32
16 1 0.05
17 8 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATTATTAAAATAT
Found at i:29775136 original size:23 final size:22
Alignment explanation
Indices: 29775094--29775136 Score: 77
Period size: 22 Copynumber: 1.9 Consensus size: 22
29775084 TTTCTGACAC
29775094 TTAACAAGCTTATTTATAACTG
1 TTAACAAGCTTATTTATAACTG
29775116 TTAACAAGCTTATTTTATAAC
1 TTAACAAGCTTA-TTTATAAC
29775137 GGTTTTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (22 bp):
TTAACAAGCTTATTTATAACTG
Found at i:29785445 original size:11 final size:11
Alignment explanation
Indices: 29785428--29785476 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
29785418 AGATAAATAT
29785428 TATTTTATTAA
1 TATTTTATTAA
* *
29785439 TACTTTAATAAGA
1 TA-TTTTATTA-A
*
29785452 TATTTTATTAT
1 TATTTTATTAA
29785463 TATTTTATTAA
1 TATTTTATTAA
29785474 TAT
1 TAT
29785477 ATAAAGAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
11 15 0.50
12 12 0.40
13 3 0.10
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:29785473 original size:27 final size:27
Alignment explanation
Indices: 29785396--29785475 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
29785386 GAGATATTTT
* *
29785396 GATATTTTATAATTATTTAATTAGATAA
1 GATATTTTATTATTATTTTATTA-ATAA
**
29785424 -ATATTATT-TTATTAATACT-TTAATAA
1 GATATT-TTATTATT-ATTTTATTAATAA
29785450 GATATTTTATTATTATTTTATTAATA
1 GATATTTTATTATTATTTTATTAATA
29785476 TATAAAGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
26 9 0.22
27 28 0.68
28 4 0.10
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (27 bp):
GATATTTTATTATTATTTTATTAATAA
Found at i:29785478 original size:24 final size:24
Alignment explanation
Indices: 29785423--29785478 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
29785413 TAATTAGATA
29785423 AATATTATTTTATTAATACTTTAAT
1 AATA-TATTTTATTAATACTTTAAT
* * * *
29785448 AAGATATTTTATTATTATTTTATT
1 AATATATTTTATTAATACTTTAAT
29785472 AATATAT
1 AATATAT
29785479 AAAGAAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
AATATATTTTATTAATACTTTAAT
Found at i:29787696 original size:46 final size:46
Alignment explanation
Indices: 29787643--29787851 Score: 276
Period size: 46 Copynumber: 4.5 Consensus size: 46
29787633 AATTAAAAGT
*
29787643 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAG
* *
29787689 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAG
* * * * * **
29787735 ACCATGGTCGAAGGATACCATGGCAACGTGACATGAAAAGAACAAG
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAG
*
29787781 ACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAATGAGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGAGTAAG
* * *
29787827 ACCATAGTTGAAAGACACTATGGCA
1 ACCATGGTTGAAAGATACCATGGCA
29787852 TCACGTCAAA
Statistics
Matches: 142, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.01
46 141 0.99
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (46 bp):
ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAG
Found at i:29795665 original size:21 final size:20
Alignment explanation
Indices: 29795627--29795666 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
29795617 CTGTATGTTT
*
29795627 TTGGAAAATTGAGTTTAAGG
1 TTGGAAAATTGAGCTTAAGG
*
29795647 TTGGAAATTTTGAGCTTAAG
1 TTGGAAA-ATTGAGCTTAAG
29795667 TCATAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.38
Consensus pattern (20 bp):
TTGGAAAATTGAGCTTAAGG
Found at i:29799578 original size:42 final size:42
Alignment explanation
Indices: 29799531--29799645 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 42
29799521 AGGGTTACTC
29799531 AGACTACGTGTAAGACCATATCTGGGATACGACATCAATATG
1 AGACTACGTGTAAGACCATATCTGGGATACGACATCAATATG
* * * * * *
29799573 AGACTACATGTAAGACCATATTTGGGGTATGGCATCGATATG
1 AGACTACGTGTAAGACCATATCTGGGATACGACATCAATATG
* * * *
29799615 AGACTTCGTTTAAGACCATAGCTGGGCTACG
1 AGACTACGTGTAAGACCATATCTGGGATACG
29799646 TGTAAGACCA
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTGGGATACGACATCAATATG
Found at i:29799694 original size:65 final size:65
Alignment explanation
Indices: 29799576--29799699 Score: 194
Period size: 65 Copynumber: 1.9 Consensus size: 65
29799566 CAATATGAGA
* * * * *
29799576 CTACATGTAAGACCATATTTGGGGTATGGCATCGATATGAGACTTCGTTTAAGACCATAGCTGGG
1 CTACATGTAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTGTAAGACCATAGCTGGG
*
29799641 CTACGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTGTAAGACCATA
1 CTACATGTAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTGTAAGACCATA
29799700 TTTGGGGTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (65 bp):
CTACATGTAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTGTAAGACCATAGCTGGG
Found at i:29799700 original size:42 final size:42
Alignment explanation
Indices: 29799641--29799799 Score: 210
Period size: 42 Copynumber: 3.8 Consensus size: 42
29799631 CATAGCTGGG
*
29799641 CTACGTGTAAGACCATATCTGGGATATGGCATCAATATGAGA
1 CTACGTGTAAGACCATATCTGGGATATGGCATCGATATGAGA
* * *
29799683 CTACGTGTAAGACCATATTTGGGGTATGACATCGATATGAGA
1 CTACGTGTAAGACCATATCTGGGATATGGCATCGATATGAGA
** * * *
29799725 CTTTGTGTAAGACCATAGCTGGGCTATTGTCATCGATATGAGA
1 CTACGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGA
* *
29799768 TTACATGTAAGACCATATCTGGGATATGGCAT
1 CTACGTGTAAGACCATATCTGGGATATGGCAT
29799800 TGGTACGGTA
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 64 0.65
43 35 0.35
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
CTACGTGTAAGACCATATCTGGGATATGGCATCGATATGAGA
Found at i:29799720 original size:107 final size:107
Alignment explanation
Indices: 29799534--29799750 Score: 380
Period size: 107 Copynumber: 2.0 Consensus size: 107
29799524 GTTACTCAGA
29799534 CTACGTGTAAGACCATATCTGGGATACGACATCAATATGAGACTACATGTAAGACCATATTTGGG
1 CTACGTGTAAGACCATATCTGGGATACGACATCAATATGAGACTACATGTAAGACCATATTTGGG
* *
29799599 GTATGGCATCGATATGAGACTTCGTTTAAGACCATAGCTGGG
66 GTATGACATCGATATGAGACTTCGTGTAAGACCATAGCTGGG
* * *
29799641 CTACGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTGTAAGACCATATTTGGG
1 CTACGTGTAAGACCATATCTGGGATACGACATCAATATGAGACTACATGTAAGACCATATTTGGG
*
29799706 GTATGACATCGATATGAGACTTTGTGTAAGACCATAGCTGGG
66 GTATGACATCGATATGAGACTTCGTGTAAGACCATAGCTGGG
29799748 CTA
1 CTA
29799751 TTGTCATCGA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 104 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (107 bp):
CTACGTGTAAGACCATATCTGGGATACGACATCAATATGAGACTACATGTAAGACCATATTTGGG
GTATGACATCGATATGAGACTTCGTGTAAGACCATAGCTGGG
Found at i:29799817 original size:85 final size:84
Alignment explanation
Indices: 29799645--29799818 Score: 197
Period size: 85 Copynumber: 2.1 Consensus size: 84
29799635 GCTGGGCTAC
* * * *
29799645 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTACGTGTAAGACCATATTTGGGGTAT
1 GTGTAAGACCATAGCTGGGATATGGCATCAATATGAGACTACATGTAAGACCATATCTGGGATAT
* **
29799710 GACATCGATATGAGACTTT
66 GACATCGATACGAGACCAT
* * * *
29799729 GTGTAAGACCATAGCTGGGCTATTGTCATCGATATGAGATTACATGTAAGACCATATCTGGGATA
1 GTGTAAGACCATAGCTGGGATA-TGGCATCAATATGAGACTACATGTAAGACCATATCTGGGATA
* * *
29799794 TGGCATTGGTACG-GTACCAT
65 TGACATCGATACGAG-ACCAT
29799814 GTGTA
1 GTGTA
29799819 CCGAACTCCC
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
84 21 0.28
85 53 0.72
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGATATGGCATCAATATGAGACTACATGTAAGACCATATCTGGGATAT
GACATCGATACGAGACCAT
Found at i:29806322 original size:42 final size:41
Alignment explanation
Indices: 29806231--29806353 Score: 111
Period size: 42 Copynumber: 3.0 Consensus size: 41
29806221 CTTACATGGG
* * * * *
29806231 ATCTCATATCCATGCCAATAGCCCAGCCATGGTCTTACATGA
1 ATCTCATATCGATGCC-ATATCCAAGACATGGTCTTACACGA
* * *
29806273 TTTTCATATCGATGCCATTTCCAAGACATGGTCTTACACGAA
1 ATCTCATATCGATGCCATATCCAAGACATGGTCTTACACG-A
* * * * *
29806315 ATCTCATAACGATGTCATATCCTAGATATAGTCTTACAC
1 ATCTCATATCGATGCCATATCCAAGACATGGTCTTACAC
29806354 ATAAACTCAT
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 19 0.30
42 45 0.70
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (41 bp):
ATCTCATATCGATGCCATATCCAAGACATGGTCTTACACGA
Found at i:29806363 original size:42 final size:42
Alignment explanation
Indices: 29806276--29806366 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
29806266 TACATGATTT
* * * *
29806276 TCATATCGATGCCATTTCCAAGACATGGTCTTACACGAAATC
1 TCATAACGATGCCATATCCAAGACATAGTCTTACACGAAAAC
* * *
29806318 TCATAACGATGTCATATCCTAGATATAGTCTTACAC-ATAAAC
1 TCATAACGATGCCATATCCAAGACATAGTCTTACACGA-AAAC
29806360 TCATAAC
1 TCATAAC
29806367 CCTAATGTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.02
42 40 0.98
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (42 bp):
TCATAACGATGCCATATCCAAGACATAGTCTTACACGAAAAC
Found at i:29809580 original size:22 final size:22
Alignment explanation
Indices: 29809540--29809581 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
29809530 ATGACCTATT
*
29809540 TGTAAAAGGGTTATAAAATGTG
1 TGTAAAAGGGTGATAAAATGTG
* *
29809562 TGTAAAAGTGTGATTAAATG
1 TGTAAAAGGGTGATAAAATG
29809582 AAAAATGTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.33
Consensus pattern (22 bp):
TGTAAAAGGGTGATAAAATGTG
Found at i:29810098 original size:42 final size:42
Alignment explanation
Indices: 29810039--29810202 Score: 229
Period size: 42 Copynumber: 3.9 Consensus size: 42
29810029 TTAGGGTTAT
* *
29810039 TGAGACTACGTTTAAGACCATATCTAGGATATGGAATCAATA
1 TGAGACTACGTGTAAGACCATATCTAGGATATGGCATCAATA
29810081 TGAGACTACGTGTAAGACCATATCTAGGATATGGCATCAATA
1 TGAGACTACGTGTAAGACCATATCTAGGATATGGCATCAATA
* * * *
29810123 TGAGACTTCGTGTAAGACCTTAGCTTGGATATTGGCATCAATA
1 TGAGACTACGTGTAAGACCATATCTAGGATA-TGGCATCAATA
* * * *
29810166 CGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGACTACGTGTAAGACCATATCTAGGATATGGCAT
29810203 TGGTATGATT
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 73 0.68
43 35 0.32
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (42 bp):
TGAGACTACGTGTAAGACCATATCTAGGATATGGCATCAATA
Found at i:29810221 original size:85 final size:84
Alignment explanation
Indices: 29810039--29810202 Score: 229
Period size: 85 Copynumber: 1.9 Consensus size: 84
29810029 TTAGGGTTAT
* * * * *
29810039 TGAGACTACGTTTAAGACCATATCTAGGATATGGAATCAATATGAGACTACGTGTAAGACCATAT
1 TGAGACTTCGTGTAAGACCATAGCTAGGATATGGAATCAATACGAGACTACATGTAAGACCATAT
29810104 CTAGGATATGGCATCAATA
66 CTAGGATATGGCATCAATA
* * * *
29810123 TGAGACTTCGTGTAAGACCTTAGCTTGGATATTGGCATCAATACGAGATTACATGTAAGACCATA
1 TGAGACTTCGTGTAAGACCATAGCTAGGATA-TGGAATCAATACGAGACTACATGTAAGACCATA
*
29810188 TCTGGGATATGGCAT
65 TCTAGGATATGGCAT
29810203 TGGTATGATT
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
84 26 0.38
85 43 0.62
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (84 bp):
TGAGACTTCGTGTAAGACCATAGCTAGGATATGGAATCAATACGAGACTACATGTAAGACCATAT
CTAGGATATGGCATCAATA
Found at i:29810462 original size:65 final size:65
Alignment explanation
Indices: 29810348--29810471 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 65
29810338 ACTCATGAGA
* * * *
29810348 CTACTTGTAAGACCATATTTGAGGTATGGCATCGATATGAGACTTCGTGTAAGACCATAGCTGGG
1 CTACGTGTAAAACCATATTTGAGGTATGGCATCAATATGAGACTACGTGTAAGACCATAGCTGGG
29810413 CTACGTGTAAAACCATATTTG-GGATATGGCATCAATATGAGACTACGTGTAAGACCATA
1 CTACGTGTAAAACCATATTTGAGG-TATGGCATCAATATGAGACTACGTGTAAGACCATA
29810472 TTTGGGGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
64 2 0.04
65 52 0.96
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (65 bp):
CTACGTGTAAAACCATATTTGAGGTATGGCATCAATATGAGACTACGTGTAAGACCATAGCTGGG
Found at i:29810472 original size:42 final size:42
Alignment explanation
Indices: 29810413--29810566 Score: 200
Period size: 42 Copynumber: 3.6 Consensus size: 42
29810403 CATAGCTGGG
* * *
29810413 CTACGTGTAAAACCATATTTGGGATATGGCATCAATATGAGA
1 CTACATGTAAGACCATATTTGGGATATGGCATCGATATGAGA
* * *
29810455 CTACGTGTAAGACCATATTTGGGGTATGGCATTGATATGAGA
1 CTACATGTAAGACCATATTTGGGATATGGCATCGATATGAGA
* ** *
29810497 CTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGA
1 CTACATGTAAGACCATATTTGGGATA-TGGCATCGATATGAGA
*
29810540 TTACATGTAAGACCATATTTGGGATAT
1 CTACATGTAAGACCATATTTGGGATAT
29810567 AGAATTGGTA
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 60 0.62
43 36 0.38
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (42 bp):
CTACATGTAAGACCATATTTGGGATATGGCATCGATATGAGA
Found at i:29811853 original size:31 final size:31
Alignment explanation
Indices: 29811815--29811874 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
29811805 AAAAGGGAAG
*
29811815 GGAAAGAGAGTAAGCATAAAGGTTAGTAAAT
1 GGAAAGAGAGTAAGCATAAAGCTTAGTAAAT
29811846 GGAAAGAGAGTAAGCATAAAGCTTAGTAA
1 GGAAAGAGAGTAAGCATAAAGCTTAGTAA
29811875 GTTGCATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.48, C:0.05, G:0.28, T:0.18
Consensus pattern (31 bp):
GGAAAGAGAGTAAGCATAAAGCTTAGTAAAT
Found at i:29812438 original size:94 final size:92
Alignment explanation
Indices: 29812192--29812508 Score: 325
Period size: 94 Copynumber: 3.4 Consensus size: 92
29812182 TCCATCGAGG
* * * *
29812192 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTATACGTGCTGATGCATGTCCCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATG-ATGCG-GCTGATGCATGTCCCA
* *
29812257 GACATGTCTTACAC-GAGCACGAAACTTAG
64 GACATGTCTTACACTG-GCACTAAACTTAA
* * * * * * *
29812286 CCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTAACATCATTGAGGCTGGTGCATGTCCCAA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATGA-TGCGGCTGATGCATGTCCCAG
* *
29812349 ACATGTCTTACACTGGCACTCACCTCTACA
65 ACATGTCTTACACTGGCACTAAACT-TA-A
* *
29812379 CCGATGCCATGTCCCAAACGTGGTCTTACACGGGCTATCATGATGCGGCTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATGATGCGGCTGATGCATGTCCCAGA
* * * ***
29812444 CACGTCTTACACTAGCCCTTGTCTTAA
66 CATGTCTTACACTGGCACTAAACTTAA
*
29812471 TGCCGATGCCATGTCCCAAACATGGTCTTATACTGGCT
1 --CCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
29812509 CTCACATAAC
Statistics
Matches: 184, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
91 36 0.20
92 22 0.12
93 21 0.11
94 87 0.47
95 18 0.10
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (92 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATGATGCGGCTGATGCATGTCCCAGA
CATGTCTTACACTGGCACTAAACTTAA
Found at i:29816276 original size:32 final size:32
Alignment explanation
Indices: 29816226--29816297 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
29816216 CCTATGACAC
* *
29816226 GAGGAC-TTAACTTTCCCTTTTTATCAAATCT
1 GAGGACTTTAACTTGCCCTTTTTACCAAATCT
29816257 GAGGACTTTAACTTGCCCTTTTTACCAAATCT
1 GAGGACTTTAACTTGCCCTTTTTACCAAATCT
29816289 GAGGACTTT
1 GAGGACTTT
29816298 CCTCTATGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 6 0.16
32 32 0.84
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (32 bp):
GAGGACTTTAACTTGCCCTTTTTACCAAATCT
Found at i:29818721 original size:20 final size:20
Alignment explanation
Indices: 29818698--29818739 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
29818688 ATGCCCGAAC
29818698 TCGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGT
29818718 TCGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGT
29818738 TC
1 TC
29818740 ACTTATGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.17, G:0.33, T:0.36
Consensus pattern (20 bp):
TCGTTGAGTTGAGTCCGAGT
Found at i:29818771 original size:66 final size:66
Alignment explanation
Indices: 29818655--29818786 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 66
29818645 TCAAAACTCA
* *
29818655 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTTGAGTCCGAGTTC
29818720 G
66 G
*
29818721 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC-AAGCTCATTGAGTTGAGTTCGAGTT
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAA-CTCATTGAGTTGAGTCCGAGTT
29818785 CG
65 CG
29818787 CTTATGGGCG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
65 2 0.03
66 60 0.97
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (66 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTTGAGTCCGAGTTC
G
Found at i:29827368 original size:6 final size:6
Alignment explanation
Indices: 29827357--29827381 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
29827347 GCATTGATGT
29827357 AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA A
29827382 TGGTTTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:29832486 original size:39 final size:40
Alignment explanation
Indices: 29832428--29832516 Score: 126
Period size: 39 Copynumber: 2.2 Consensus size: 40
29832418 TGTTTGACAA
* * **
29832428 TTAGTGTGCATTTCGAAATAGTTTCAGTTATATAAAGCAC
1 TTAGTGTGCGTTTCAAAATAGTTTCAGCCATATAAAGCAC
*
29832468 TTAGT-TGCGTTTCAAAATAGTTTCGGCCATATAAAGCAC
1 TTAGTGTGCGTTTCAAAATAGTTTCAGCCATATAAAGCAC
29832507 TTAGTGTGCG
1 TTAGTGTGCG
29832517 AACTAAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 34 0.79
40 9 0.21
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (40 bp):
TTAGTGTGCGTTTCAAAATAGTTTCAGCCATATAAAGCAC
Found at i:29834423 original size:49 final size:49
Alignment explanation
Indices: 29834259--29834441 Score: 213
Period size: 49 Copynumber: 3.7 Consensus size: 49
29834249 CTGGTATGCA
* ** *
29834259 TAGTAGCCTGCACTTAGTACCACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACACG
* * * * *
29834309 TAGTAGCCTGCCCTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGGTACACG
* * * *
29834360 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
*
29834409 TAGTAGCCTGCACTTAGTGCTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
29834442 TCACAATAGA
Statistics
Matches: 109, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
49 39 0.36
50 34 0.31
51 36 0.33
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
Found at i:29834432 original size:100 final size:101
Alignment explanation
Indices: 29834246--29834439 Score: 273
Period size: 100 Copynumber: 1.9 Consensus size: 101
29834236 TAGACAAGGC
* * * *
29834246 TATCTGGTATGCATAGTAGCCTGCACTTAGTACCACACACGTGACCTAACCATCTGATACACGTA
1 TATCGGGTACGCATAGTAGCCTACACTTAGTACCACACACGCGACCTAACCATCTGATACACGTA
*
29834311 GTAGCCTGCCCTTAGTACTACACACGTGATCGAAGT
66 GTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * ** * *
29834347 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCTGGTACATGTA
1 TATCGGGTACGCATAGTAGCCTACACTTAGTACCACACACGCGACCTAACCATCTGATACACGTA
*
29834411 GTAGCCTGCACTTAGTGCTACACACGTGA
66 GTAGCCTGCACTTAGTACTACACACGTGA
29834440 CCTCACAATA
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 41 0.51
101 40 0.49
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (101 bp):
TATCGGGTACGCATAGTAGCCTACACTTAGTACCACACACGCGACCTAACCATCTGATACACGTA
GTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:29841890 original size:79 final size:81
Alignment explanation
Indices: 29841775--29841957 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
29841765 TACTCATTCA
* * *
29841775 AATGCCTTCGGGACATGGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
29841838 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
29841855 AATGCCTTC-GGACTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
29841918 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
29841934 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
29841958 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:29841957 original size:40 final size:39
Alignment explanation
Indices: 29841773--29841957 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
29841763 GCTACTCATT
* * *
29841773 CAAATGCCTTCGGGACATGGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTCGCA
* *
29841813 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTCGCA
* *
29841853 CCAATGCCTTCGGACTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
29841892 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATAGTAAC-TCGCA
29841933 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
29841958 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 37 0.30
40 74 0.60
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:29855080 original size:21 final size:21
Alignment explanation
Indices: 29855055--29855095 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
29855045 GCTGAATGGC
*
29855055 TAATGTGAAATATGTGTGAGT
1 TAATGTGAAATATGTATGAGT
29855076 TAATGTGAAATATGTATGAG
1 TAATGTGAAATATGTATGAG
29855096 ATATGTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (21 bp):
TAATGTGAAATATGTATGAGT
Found at i:29855129 original size:48 final size:48
Alignment explanation
Indices: 29855076--29855335 Score: 466
Period size: 48 Copynumber: 5.3 Consensus size: 48
29855066 ATGTGTGAGT
*
29855076 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGAC
1 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
29855124 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
29855172 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
29855220 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
29855268 TAATGTGAAATAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TAATGTG----AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
*
29855320 TAGTGTGAAATATGTA
1 TAATGTGAAATATGTA
29855336 GGCGACGTGT
Statistics
Matches: 206, Mismatches: 2, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
48 159 0.77
52 47 0.23
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
Found at i:29855395 original size:100 final size:99
Alignment explanation
Indices: 29855083--29855376 Score: 395
Period size: 96 Copynumber: 3.0 Consensus size: 99
29855073 AGTTAATGTG
* *
29855083 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATAT
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATAT
* *
29855148 GTATATGTGGTAAAGCCGAATGGCTAATGTG----
66 GTATATGTGGT-AAGCCGAATGCCAAATGTGAAAT
*
29855179 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATAT
* *
29855244 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
66 GTATATGTGGT-AAGCCGAATGCCAAATGTGAAAT
* *
29855279 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGACGT
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGA--T
* *
29855344 GTGTATAT-T-GT-GGCCGAATGACCAAATGTGAAA
64 ATGTATATGTGGTAAGCCGAATG-CCAAATGTGAAA
29855377 GGTGTGTATT
Statistics
Matches: 183, Mismatches: 8, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
96 95 0.52
98 8 0.04
99 10 0.05
100 61 0.33
101 1 0.01
102 8 0.04
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (99 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATAT
GTATATGTGGTAAGCCGAATGCCAAATGTGAAAT
Found at i:29855590 original size:37 final size:37
Alignment explanation
Indices: 29855482--29855590 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
29855472 GGAAATATAT
*
29855482 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
29855519 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
29855556 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
29855591 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:29858630 original size:27 final size:27
Alignment explanation
Indices: 29858600--29859669 Score: 861
Period size: 27 Copynumber: 39.3 Consensus size: 27
29858590 TTAGTTTACC
**
29858600 AAATTACCAAAATACCCTTCTTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
29858627 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
29858654 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * * *
29858681 AAATCAGCAAAACACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
29858708 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
29858735 AAATCACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * *
29858762 AAATTACTAGAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
29858789 AAATCACCAAAATACCCCT-G---ATA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
29858812 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
29858839 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
29858866 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
29858893 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
29858920 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
29858947 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
29858974 AATTTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
29859001 AAATCACCAAAATACCCCTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
*
29859028 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* ****
29859055 AAATCACCAAAATA----AAAATTACTA
1 AAATTACCAAAATACCCTTGGTTTA-TA
** **** *** **** *
29859079 AAATGCCCTTTGT-TTATAAAATTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
29859105 AAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTAGTTTACA
1 AAATTA-CC---------AAAA-TA--------CCCTTGGTTTATA
* * *
29859151 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
29859178 AAATTACTAAAATGCCCTTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
29859205 AAATTACAAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
29859232 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* * **
29859259 AAATTACCAACATACCCCTGGTTTGCA
1 AAATTACCAAAATACCCTTGGTTTATA
* * * * *
29859286 AATTTACTAGAATACCTTTGGTATATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
29859313 AAATCACCAAAATACCCCTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
29859340 AAATTACCAAAATATCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
29859367 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
29859394 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
29859421 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
*
29859448 AAATTACCAAAATACCCCTT--TTTGTA
1 AAATTACCAAAATA-CCCTTGGTTTATA
* * *
29859474 AAATTACTAGAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
29859501 AAATCACCAAAATATCCC-TGGTTTGTA
1 AAATTACCAAAATA-CCCTTGGTTTATA
* *
29859528 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
29859555 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
29859582 AAATTACTAAAATGCCCTTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
29859609 AAATTACAAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
29859636 AAATTACCAAAATACCCCTT-GTTTGTG
1 AAATTACCAAAATA-CCCTTGGTTTATA
29859663 AAATTAC
1 AAATTAC
29859670 TCCTCGACCT
Statistics
Matches: 828, Mismatches: 180, Indels: 70
0.77 0.17 0.06
Matches are distributed among these distances:
23 22 0.03
24 9 0.01
25 5 0.01
26 23 0.03
27 735 0.89
28 13 0.02
35 2 0.00
36 4 0.00
37 1 0.00
45 2 0.00
46 12 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:29858668 original size:54 final size:54
Alignment explanation
Indices: 29858600--29859669 Score: 1188
Period size: 54 Copynumber: 20.1 Consensus size: 54
29858590 TTAGTTTACC
** *
29858600 AAATTACCAAAATACCCTTCTTTTATAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * *
29858654 AAATTACTAGAATACCCTTGGTTTATAAAATCAGCAAAACACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * *
29858708 AAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * * *
29858762 AAATTACTAGAATACCCCTGGTTTGTAAAATCACCAAAATACCCCT-G---ATA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * *
29858812 AAATTACCAAAATACCCTTAGTTTACAAAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
*
29858866 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
*
29858920 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * *
29858974 AATTTACTAGAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* *
29859028 AAATTACCAAAATACCCTTGGTTTACAAAATCACCAAAATA------------A
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * *
29859070 AAATTACTAAAATGCCCTTTGTTTATAAAATTACAAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * *
29859124 AAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * *
29859178 AAATTACTAAAATGCCCTTTGTTTATAAAATTACAAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * *
29859232 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAACATACCCCTGGTTTGCA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * * * **
29859286 AATTTACTAGAATACCTTTGGTATATAAAATCACCAAAATACCCCTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * * *
29859340 AAATTACCAAAATATCCTTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * * **
29859394 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * * *
29859448 AAATTACCAAAATACCCCTT--TTTGTAAAATTACTAGAATACCCTTAGTTTATA
1 AAATTACCAAAATA-CCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * ** **
29859501 AAATCACCAAAATATCCC-TGGTTTGTAAAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATA-CCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * * * * *
29859555 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATGCCCTTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * *
29859609 AAATTACAAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTTGTTTGTG
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
29859663 AAATTAC
1 AAATTAC
29859670 TCCTCGACCT
Statistics
Matches: 876, Mismatches: 120, Indels: 40
0.85 0.12 0.04
Matches are distributed among these distances:
42 36 0.04
50 42 0.05
51 1 0.00
52 1 0.00
53 50 0.06
54 742 0.85
55 4 0.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
Found at i:29858716 original size:81 final size:81
Alignment explanation
Indices: 29858600--29859669 Score: 1152
Period size: 81 Copynumber: 13.4 Consensus size: 81
29858590 TTAGTTTACC
* ** * * * * * *
29858600 AAATTACCAAAATACCCTTCTTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAGA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
29858665 ATACCCTTGGTTTATA
66 ATACCCTTGGTTTATA
* * * *
29858681 AAATCAGCAAAACACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
* *
29858746 ATACCCTTAGTTTGTA
66 ATACCCTTGGTTTATA
* * * *
29858762 AAATTACTAGAATACCCCTGGTTTGTAAAATCACCAAAATACCCCT-G---ATAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
* *
29858823 ATACCCTTAGTTTACA
66 ATACCCTTGGTTTATA
* *
29858839 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
* *
29858904 ATACCCCTGGTTTGTA
66 ATACCCTTGGTTTATA
* ** * * * * *
29858920 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAATTTACTAGA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
29858985 ATACCCTTGGTTTATA
66 ATACCCTTGGTTTATA
* * * *
29859001 AAATCACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCCTTGGTTTACAAAATCACC-AA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
29859065 A-A---------TA-A
66 ATACCCTTGGTTTATA
* * * * * * *
29859070 AAATTACTAAAATGCCCTTTGTTTATAAAATTACAAAAATACCCTTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
* *
29859135 ATACCCTTAGTTTACA
66 ATACCCTTGGTTTATA
* * * * *
29859151 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATGCCCTTTGTTTATAAAATTACAAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
* *
29859216 ATACCCCTGGTTTGTA
66 ATACCCTTGGTTTATA
* ** * * ** * * *
29859232 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAACATACCCCTGGTTTGCAAATTTACTAGA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
* *
29859297 ATACCTTTGGTATATA
66 ATACCCTTGGTTTATA
* ** * * * *
29859313 AAATCACCAAAATACCCCTGGTTTACAAAATTACCAAAATATCCTTGGTTTGTAAAATTACTAGA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
29859378 ATACCCTTGGTTTATA
66 ATACCCTTGGTTTATA
* * *
29859394 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
*
29859459 ATACCCCTT--TTTGTA
66 ATA-CCCTTGGTTTATA
* * * * * * *
29859474 AAATTACTAGAATACCCTTAGTTTATAAAATCACCAAAATATCCC-TGGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCCTTGGTTTATAAAATTACCAA
* *
29859538 AATACCATTGGTTTACA
65 AATACCCTTGGTTTATA
* * * * *
29859555 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATGCCCTTTGTTTATAAAATTACAAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
*
29859620 ATACCCTTGGTTTGTA
66 ATACCCTTGGTTTATA
* *
29859636 AAATTACCAAAATACCCCTTGTTTGTGAAATTAC
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTAC
29859670 TCCTCGACCT
Statistics
Matches: 824, Mismatches: 144, Indels: 42
0.82 0.14 0.04
Matches are distributed among these distances:
69 54 0.07
70 5 0.01
71 1 0.00
77 68 0.08
78 1 0.00
79 5 0.01
80 67 0.08
81 618 0.75
82 5 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAA
ATACCCTTGGTTTATA
Found at i:29859074 original size:42 final size:42
Alignment explanation
Indices: 29859027--29859110 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
29859017 CCTGGTTTAT
*
29859027 AAAATTACCAAAATACCCTTGGTTTACAAAATCACCAAAATA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATCACAAAAATA
* * * * *
29859069 AAAATTACTAAAATGCCCTTTGTTTATAAAATTACAAAAATA
1 AAAATTACCAAAATACCCTTGGTTTACAAAATCACAAAAATA
29859111 CCCTTGGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.29
Consensus pattern (42 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATCACAAAAATA
Found at i:29859082 original size:69 final size:69
Alignment explanation
Indices: 29859000--29859137 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 69
29858990 CTTGGTTTAT
*
29859000 AAAATCACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCCTTGGTTTACAAAATCACCAA
1 AAAATCACCAAAATACCCCTGGTTTATAAAATTACAAAAATACCCTTGGTTTACAAAATCACCAA
29859065 AATA
66 AATA
* * * * * ** *
29859069 AAAATTACTAAAATGCCCTTTGTTTATAAAATTACAAAAATACCCTTGGTTTGTAAAATTACCAA
1 AAAATCACCAAAATACCCCTGGTTTATAAAATTACAAAAATACCCTTGGTTTACAAAATCACCAA
29859134 AATA
66 AATA
29859138 CCCTTAGTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.29
Consensus pattern (69 bp):
AAAATCACCAAAATACCCCTGGTTTATAAAATTACAAAAATACCCTTGGTTTACAAAATCACCAA
AATA
Found at i:29859703 original size:27 final size:29
Alignment explanation
Indices: 29859661--29859715 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
29859651 CCCTTGTTTG
29859661 TGAAATTACTCCTCGACCTGTAAAATTAT
1 TGAAATTACTCCTCGACCTGTAAAATTAT
*
29859690 TGAAA-TAC-CCTCGACTTGTAAAATTA
1 TGAAATTACTCCTCGACCTGTAAAATTA
29859716 CCAAAGTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.68
28 3 0.12
29 5 0.20
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (29 bp):
TGAAATTACTCCTCGACCTGTAAAATTAT
Found at i:29859725 original size:27 final size:27
Alignment explanation
Indices: 29859671--29859727 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
29859661 TGAAATTACT
**
29859671 CCTCGACCTGTAAAATTATTGAAATAC
1 CCTCGACCTGTAAAATTATCCAAATAC
*
29859698 CCTCGACTTGTAAAATTA-CCAAAGTAC
1 CCTCGACCTGTAAAATTATCCAAA-TAC
29859725 CCT
1 CCT
29859728 TGATTTACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (27 bp):
CCTCGACCTGTAAAATTATCCAAATAC
Found at i:29859741 original size:27 final size:26
Alignment explanation
Indices: 29859710--29859783 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 26
29859700 TCGACTTGTA
29859710 AAATTACCAAAGTACCCTTGATTTA-C
1 AAATTACCAAA-TACCCTTGATTTACC
**
29859736 AGAATTACCATTTTACCCTTGATTTACC
1 A-AATTACCA-AATACCCTTGATTTACC
*
29859764 AAATTACTGAAATACCCTTG
1 AAATTAC-CAAATACCCTTG
29859784 TAGGGTAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 35 0.90
28 3 0.08
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
AAATTACCAAATACCCTTGATTTACC
Found at i:29859803 original size:27 final size:27
Alignment explanation
Indices: 29859768--29860037 Score: 287
Period size: 27 Copynumber: 10.0 Consensus size: 27
29859758 TTTACCAAAT
29859768 TACTGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
* *
29859795 TGCTAAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
* *
29859822 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
* *
29859849 TA-TCGAAATACCCCTGTAGCGTAGAAA
1 TACT-GAAATACCCTTGTAGGGTAGAAA
* * *
29859876 TACCGAAATACCCCTGTAGCGTAGAAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
** * *
29859903 TACCAAAATACCCTTGTAGGATAGAAT
1 TACTGAAATACCCTTGTAGGGTAGAAA
* * * *
29859930 TACTAAAATGCCCCTGTAGGGTAGAAT
1 TACTGAAATACCCTTGTAGGGTAGAAA
*
29859957 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
* *
29859984 TACCT-AAATACTCC-TGTAAGGTAGAAT
1 TA-CTGAAATAC-CCTTGTAGGGTAGAAA
* *
29860011 TACTGAGATACCCTTGTGGGGTA-AAA
1 TACTGAAATACCCTTGTAGGGTAGAAA
29860037 T
1 T
29860038 TACCATTTTA
Statistics
Matches: 207, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.03
27 197 0.95
28 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
TACTGAAATACCCTTGTAGGGTAGAAA
Found at i:29859858 original size:54 final size:54
Alignment explanation
Indices: 29859772--29860037 Score: 327
Period size: 54 Copynumber: 4.9 Consensus size: 54
29859762 CCAAATTACT
* * **
29859772 GAAATACCCTTGTAGGGTAGAAATGCTAAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACC
* * *
29859826 GAAATACCCCTGTAGGGTAGAAATATCGAAATACCCCTGTAGCGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACC
* * * * *
29859880 GAAATACCCCTGTAGCGTAGAAATACCAAAATACCCTTGTAGGATAGAATTACT
1 GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACC
* * *
29859934 AAAATGCCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACC
* * * * * * *
29859988 TAAATACTCCTGTAAGGTAGAATTACTGAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAAT
29860038 TACCATTTTA
Statistics
Matches: 182, Mismatches: 30, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
53 4 0.02
54 178 0.98
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (54 bp):
GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACC
Found at i:29860041 original size:81 final size:80
Alignment explanation
Indices: 29859765--29860037 Score: 327
Period size: 81 Copynumber: 3.4 Consensus size: 80
29859755 TGATTTACCA
* * ** *
29859765 AATTACTGAAATACCCTTGTAGGGTAGAAATGCTAAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCAAAA
*
29859830 TACCCCTGTAGGGTAG
66 TA-CCCTGTAAGGTAG
* * * *
29859846 AAATA-TCGAAATACCCCTGTAGCGTAGAAATACCGAAATACCCCTGTAGCGTAGAAATACCAAA
1 AATTACT-GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCAAA
29859910 ATACCCTTGT-AGGATAG
65 ATACCC-TGTAAGG-TAG
* * * *
29859927 AATTACTAAAATGCCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCTAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCAAAA
29859992 TACTCCTGTAAGGTAG
66 TAC-CCTGTAAGGTAG
* * *
29860008 AATTACTGAGATACCCTTGTGGGGTA-AAAT
1 AATTACTGAAATACCCCTGTAGGGTAGAAAT
29860038 TACCATTTTA
Statistics
Matches: 162, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
80 9 0.06
81 147 0.91
82 6 0.04
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (80 bp):
AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCAAAA
TACCCTGTAAGGTAG
Found at i:29860330 original size:27 final size:26
Alignment explanation
Indices: 29860286--29860337 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
29860276 CTCGCTGCAA
* *
29860286 TCTGGTGGCTTTGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
29860313 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
29860338 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:29860346 original size:67 final size:67
Alignment explanation
Indices: 29860267--29860420 Score: 281
Period size: 67 Copynumber: 2.3 Consensus size: 67
29860257 GAGGAAGTGT
* * *
29860267 TCTGGTAGCCTCGCTGCAATCTGGTGGCTTTGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTACGTCACAA
29860332 TA
66 TA
29860334 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTACGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTACGTCACAA
29860399 TA
66 TA
29860401 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
29860421 TTCTGTGGTG
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 84 1.00
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTACGTCACAA
TA
Found at i:29860397 original size:27 final size:26
Alignment explanation
Indices: 29860353--29860404 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
29860343 CTCGCTGCAA
* *
29860353 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTACGCCACA-ATATCTGT
*
29860380 TCTGGTGACTACGTCACAATATCTG
1 TCTGGTGACTACGCCACAATATCTG
29860405 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACTACGCCACAATATCTGT
Found at i:29860554 original size:6 final size:6
Alignment explanation
Indices: 29860523--29860600 Score: 70
Period size: 6 Copynumber: 12.7 Consensus size: 6
29860513 TTGCATTCAT
* *
29860523 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
29860572 -TCACCTA ATTCTG ATTCTG ATTCTG ATTC
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTC
29860601 ATGTAATGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
5 3 0.05
6 48 0.83
7 5 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:29860558 original size:31 final size:31
Alignment explanation
Indices: 29860523--29860600 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
29860513 TTGCATTCAT
* * *
29860523 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
*
29860554 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
29860585 ATTCTGATTCTGATTC
1 ATTCTGATTCTGATTC
29860601 ATGTAATGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:29863775 original size:27 final size:27
Alignment explanation
Indices: 29863724--29863781 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
29863714 CTATCTCATT
* * *
29863724 TTTATTGTCTTGGCGGACTACCCCGTG
1 TTTATTGTCTCGGCAGACTACCCCGTA
29863751 TTTATTGTCTCGGCAGACTACCCCGTA
1 TTTATTGTCTCGGCAGACTACCCCGTA
29863778 TTTA
1 TTTA
29863782 CTTTATCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.38
Consensus pattern (27 bp):
TTTATTGTCTCGGCAGACTACCCCGTA
Found at i:29864596 original size:21 final size:21
Alignment explanation
Indices: 29864554--29864596 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
29864544 AGATATGGAG
**
29864554 TATAAAAACTTATCTGGTGCT
1 TATAAAAACTTATCTGACGCT
29864575 TATAAAAACTTATCTGACGCT
1 TATAAAAACTTATCTGACGCT
29864596 T
1 T
29864597 CTTTCCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (21 bp):
TATAAAAACTTATCTGACGCT
Found at i:29882369 original size:39 final size:40
Alignment explanation
Indices: 29882274--29882535 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
29882264 TTGAATGATG
*
29882274 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
29882312 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
29882353 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
29882392 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
29882431 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
29882470 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
29882509 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
29882536 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:29890499 original size:40 final size:40
Alignment explanation
Indices: 29890354--29890537 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
29890344 TTGAATGATG
* *
29890354 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
29890393 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29890433 TCCGGGATAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
29890472 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
29890513 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29890538 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
39 53 0.42
40 62 0.50
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29890559 original size:79 final size:79
Alignment explanation
Indices: 29890406--29890560 Score: 183
Period size: 79 Copynumber: 2.0 Consensus size: 79
29890396 GGACTAAGAT
* ** *
29890406 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGATAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAGTGACTAA
29890471 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
29890485 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGATAAG-CCCGAAGGCATTTGAACGAGTGA-
*
29890547 CTATATCC-GGTTAA
62 CTAAATCCGGGTTAA
29890561 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
78 3 0.05
79 37 0.57
80 25 0.38
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAGTC
Found at i:29898927 original size:22 final size:21
Alignment explanation
Indices: 29898897--29898943 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
29898887 TACAAATTAA
29898897 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
29898919 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
29898940 ATCT
1 ATCT
29898944 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:29898949 original size:19 final size:19
Alignment explanation
Indices: 29898914--29898992 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
29898904 AGATTACAAG
29898914 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
29898935 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
29898952 ATCATAACTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
29898971 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
29898990 ATC
1 ATC
29898993 CTTAAATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 29 0.54
20 1 0.02
21 8 0.15
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:29899833 original size:41 final size:42
Alignment explanation
Indices: 29899780--29900254 Score: 192
Period size: 41 Copynumber: 11.4 Consensus size: 42
29899770 ATCTGCTCCG
29899780 CTACTGCTTA-GGGATAAGATCTGCAAATTTAACCTGTTACC
1 CTACTGCTTAGGGGATAAGATCTGCAAATTTAACCTGTTACC
** * * *
29899821 CTACTGCTTAGGGGATTAAG----GCAGGTCTTCGATCTGCT-CC
1 CTACTGCTTAGGGGA-TAAGATCTGCAAAT-TT-AACCTGTTACC
*
29899861 ACTACTGCTTAGGGAGATAAGATCTGTAAATTTAACCTGTTACC
1 -CTACTGCTTAGGG-GATAAGATCTGCAAATTTAACCTGTTACC
** * * *
29899905 CTACTGCTTAGGGGATTAAG----GCAGGTCTTCGATCTGCT-CC
1 CTACTGCTTAGGGGA-TAAGATCTGCAAAT-TT-AACCTGTTACC
*
29899945 ACTACTGCTTAGGGAGATAAGATCTGTAAATTTAACCTGTTACC
1 -CTACTGCTTAGGG-GATAAGATCTGCAAATTTAACCTGTTACC
* ** **** ** * *
29899989 CTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGCT-CC
1 CTACTGCTTAGGGGA-TAAGATCTG-CAAATTTAACCTGTTACC
* ** * *
29900032 GCTACTGTTTAGACAGATAAGATCTGC-----GAACCTATTACC
1 -CTACTGCTTAG-GGGATAAGATCTGCAAATTTAACCTGTTACC
* * * * *
29900071 CTACTGCTTAGGGGATTAAG----GCGAGTCTTCGATCTGCT-CC
1 CTACTGCTTAGGGGA-TAAGATCTGCAAAT-TT-AACCTGTTACC
29900111 ACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGG-GATAAGATCTGCAAATTTAACCTGTTACC
* * * * * **
29900155 CTACTACTTAGGGGATTAAG-GC-G-AGACTTTGATCTACT-CC
1 CTACTGCTTAGGGGA-TAAGATCTGCA-AATTTAACCTGTTACC
29900195 ACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGG-GATAAGATCTGCAAATTTAACCTGTTACC
*
29900239 CTACTACTTAGGGGAT
1 CTACTGCTTAGGGGAT
29900255 TAAGGCGTTG
Statistics
Matches: 311, Mismatches: 74, Indels: 97
0.65 0.15 0.20
Matches are distributed among these distances:
34 2 0.01
37 2 0.01
38 18 0.06
39 9 0.03
40 13 0.04
41 100 0.32
42 23 0.07
43 95 0.31
44 37 0.12
45 12 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (42 bp):
CTACTGCTTAGGGGATAAGATCTGCAAATTTAACCTGTTACC
Found at i:29900080 original size:166 final size:163
Alignment explanation
Indices: 29899733--29900260 Score: 690
Period size: 166 Copynumber: 3.2 Consensus size: 163
29899723 ATCATTTTGG
* * *
29899733 ACCCTACTGCTTAGGGGGTTAAGGTGCATCGTCTTCGATCTGCTCCGCTACTGCTTA-GG-GATA
1 ACCCTACTGCTTAGGGGATTAA-G-GCA-GGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
*
29899796 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCAG-GTCTTCGATCTGCTC
63 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGGAGCGTC-TCGATCTGCTC
*
29899860 CACTACTGCTTAGGGAGATAAGATCTGTAAATTTAACCTGTT
127 CACTACTGCTTAGGGAGATAAGATCTG-----CTAACCTGTT
29899902 ACCCTACTGCTTAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
29899967 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGCTCC
66 TCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGG-GAG-CGTC-TCGATCTGCTCC
* * ** * *
29900032 GCTACTGTTTAGACAGATAAGATCTGCGAACCTATT
128 ACTACTGCTTAGGGAGATAAGATCTGCTAACCTGTT
29900068 ACCCTACTGCTTAGGGGATTAAGGC-GAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 ACCCTACTGCTTAGGGGATTAAGGCAG-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
* * *
29900132 ATCTGCAAATTTAACCTGTTACCCTACTACTTAGGGGATTAAGGCGAGAC-T-TTGATCTACTCC
65 ATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGG-GAG-CGTCTCGATCTGCTCC
29900195 ACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTT
128 ACTACTGCTTAGGGAGATAAGATCTGC-----TAACCTGTT
*
29900236 ACCCTACTACTTAGGGGATTAAGGC
1 ACCCTACTGCTTAGGGGATTAAGGC
29900261 GTTGAATTTT
Statistics
Matches: 322, Mismatches: 26, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
163 33 0.10
165 2 0.01
166 141 0.44
167 5 0.02
168 81 0.25
169 23 0.07
171 37 0.11
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (163 bp):
ACCCTACTGCTTAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGGAGCGTCTCGATCTGCTCCACT
ACTGCTTAGGGAGATAAGATCTGCTAACCTGTT
Found at i:29900197 original size:250 final size:249
Alignment explanation
Indices: 29899733--29900259 Score: 828
Period size: 250 Copynumber: 2.1 Consensus size: 249
29899723 ATCATTTTGG
* * *
29899733 ACCCTACTGCTTAGGGGGTTAAGGTGCATCGTCTTCGATCTGCTCCGCTACTGCTTAGGGATAAG
1 ACCCTACTGCTTAGGGGATTAAGGTGCATCGTCGTCGATCTGCTCCGCTACTGCTTAGAGATAAG
* *
29899798 ATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCAGGTCTTCGATCTGCTCCAC
66 ATCTGC--A--GAACCTATTACCCTACTGCTTAGGGGATTAAGGCAGGTCTTCGATCTGCTCCAC
* *
29899863 TACTGCTTAGGGAGATAAGATCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCA
127 TACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTACTTAGGGGATTAAGGCA
* * *
29899928 GGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAATTTAACCTGTT
192 GGACTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTT
*
29899986 ACCCTACTGCTTAGGGGATTAAGGTG-AGTCGTCGTCGATCTGCTCCGCTACTGTTTAGACAGAT
1 ACCCTACTGCTTAGGGGATTAAGGTGCA-TCGTCGTCGATCTGCTCCGCTACTGCTTAG--AGAT
29900050 AAGATCTGC-GAACCTATTACCCTACTGCTTAGGGGATTAAGGC-GAGTCTTCGATCTGCTCCAC
63 AAGATCTGCAGAACCTATTACCCTACTGCTTAGGGGATTAAGGCAG-GTCTTCGATCTGCTCCAC
29900113 TACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTACTTAGGGGATTAAGGC-
127 TACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTACTTAGGGGATTAAGGCA
*
29900177 GAGACTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTT
192 G-GACTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTT
*
29900236 ACCCTACTACTTAGGGGATTAAGG
1 ACCCTACTGCTTAGGGGATTAAGG
29900260 CGTTGAATTT
Statistics
Matches: 256, Mismatches: 13, Indels: 13
0.91 0.05 0.05
Matches are distributed among these distances:
249 2 0.01
250 188 0.73
252 1 0.00
253 53 0.21
255 12 0.05
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (249 bp):
ACCCTACTGCTTAGGGGATTAAGGTGCATCGTCGTCGATCTGCTCCGCTACTGCTTAGAGATAAG
ATCTGCAGAACCTATTACCCTACTGCTTAGGGGATTAAGGCAGGTCTTCGATCTGCTCCACTACT
GCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTACTTAGGGGATTAAGGCAGGAC
TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTT
Done.