Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 120 of 213
Found at i:34386223 original size:27 final size:26
Alignment explanation
Indices: 34386158--34386309 Score: 130
Period size: 27 Copynumber: 5.7 Consensus size: 26
34386148 TTACCCTATA
34386158 AGGGTATTTCGGTAATTTT-CAAATTG
1 AGGGTATTT-GGTAATTTTACAAATTG
*
34386184 AGGGTATTTTGGTAATTTTAC-AATTT
1 AGGGTA-TTTGGTAATTTTACAAATTG
*
34386210 AGGGGTACTTTGGTAATTTCT-CAAACTG
1 A-GGGTA-TTTGGTAATTT-TACAAATTG
* *
34386238 AGGGTATTTTGTAATTTTACAAATCG
1 AGGGTATTTGGTAATTTTACAAATTG
* * * * *
34386264 GGGGTACTTCGATAATTTTACAAGTCG
1 AGGGTA-TTTGGTAATTTTACAAATTG
*
34386291 AGGGTATTTAAGTAATTTT
1 AGGGTATTT-GGTAATTTT
34386310 GTAAACCAAG
Statistics
Matches: 102, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
25 1 0.01
26 42 0.41
27 54 0.53
28 5 0.05
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (26 bp):
AGGGTATTTGGTAATTTTACAAATTG
Found at i:34386225 original size:53 final size:52
Alignment explanation
Indices: 34386159--34386309 Score: 169
Period size: 53 Copynumber: 2.8 Consensus size: 52
34386149 TACCCTATAA
* *
34386159 GGGTA-TTTCGGTAATTTTCAAATTGAGGGTATTTTGGTAATTTTACAATTTAG
1 GGGTACTTT-GGTAATTTTCAAATTGAGGGTATTTT-GTAATTTTACAAATCAG
* *
34386212 GGGTACTTTGGTAATTTCTCAAACTGAGGGTATTTTGTAATTTTACAAATCGG
1 GGGTACTTTGGTAATTT-TCAAATTGAGGGTATTTTGTAATTTTACAAATCAG
* * * * *
34386265 GGGTACTTCGATAATTTTACAAGTCGAGGGTATTTAAGTAATTTT
1 GGGTACTTTGGTAATTTT-CAAATTGAGGGTATTT-TGTAATTTT
34386310 GTAAACCAAG
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
52 1 0.01
53 55 0.65
54 28 0.33
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.42
Consensus pattern (52 bp):
GGGTACTTTGGTAATTTTCAAATTGAGGGTATTTTGTAATTTTACAAATCAG
Found at i:34386321 original size:27 final size:27
Alignment explanation
Indices: 34386291--34386372 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
34386281 TTACAAGTCG
34386291 AGGGTATTTAAGTAATTTTGTAAACCA
1 AGGGTATTTAAGTAATTTTGTAAACCA
* * * *
34386318 AGGGTATTTTATTAACTTTGTAAACTA
1 AGGGTATTTAAGTAATTTTGTAAACCA
* *
34386345 AGAGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTAAGTAATTTTGTAAACCA
34386372 A
1 A
34386373 AGTATTCTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (27 bp):
AGGGTATTTAAGTAATTTTGTAAACCA
Found at i:34388279 original size:20 final size:20
Alignment explanation
Indices: 34388236--34388279 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
34388226 AAATTCACAT
*
34388236 AATTAAAATAAGACACAATT
1 AATTAAAATAAGACACAATA
*
34388256 AATTAAATTAAGAC-CTAATA
1 AATTAAAATAAGACAC-AATA
34388276 AATT
1 AATT
34388280 CGGTTAGGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.30
Consensus pattern (20 bp):
AATTAAAATAAGACACAATA
Found at i:34390617 original size:27 final size:27
Alignment explanation
Indices: 34390587--34390642 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
34390577 CAGTAGCAGA
*
34390587 ACAGAACAATGTGGG-CTTTAGCCCAAT
1 ACAGAACAAGGTGGGTC-TTAGCCCAAT
34390614 ACAGAACAAGGTGGGTCTTAGCCCAAT
1 ACAGAACAAGGTGGGTCTTAGCCCAAT
34390641 AC
1 AC
34390643 CATATCAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
ACAGAACAAGGTGGGTCTTAGCCCAAT
Found at i:34391166 original size:27 final size:27
Alignment explanation
Indices: 34391108--34391314 Score: 111
Period size: 27 Copynumber: 7.7 Consensus size: 27
34391098 TTACCCTATA
** * *
34391108 AGGGTATTTTGGTAATTCTCCAAACTA-
1 AGGGTATTTCAGTAATTTTGCAAAC-AG
*
34391135 AGGGTATTTCAGTAATTTTGCAATTCAG
1 AGGGTATTTCAGTAATTTTGCAA-ACAG
* * *
34391163 -GGGTTATTT-GGTAATTTTTCAAACTG
1 AGGG-TATTTCAGTAATTTTGCAAACAG
* * *
34391189 AGGATATTTCAGTAATTTTGTAAACTG
1 AGGGTATTTCAGTAATTTTGCAAACAG
* * * **
34391216 AGGATACTTCAGTAATTTTACAGGTC-G
1 AGGGTATTTCAGTAATTTTGCA-AACAG
* *
34391243 AGGGTATTTTAGTAATTTTGTAAACTA-
1 AGGGTATTTCAGTAATTTTGCAAAC-AG
* * **
34391270 AGAGTATTTTAGTAATTTTATAAACCA-
1 AGGGTATTTCAGTAATTTTGCAAA-CAG
*
34391297 AGGGTATTTTAGTAATTT
1 AGGGTATTTCAGTAATTT
34391315 AGTAAACCAA
Statistics
Matches: 143, Mismatches: 28, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
26 8 0.06
27 127 0.89
28 8 0.06
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTGCAAACAG
Found at i:34391231 original size:54 final size:54
Alignment explanation
Indices: 34391173--34391321 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
34391163 GGGTTATTTG
* * *
34391173 GTAATTTTTCAAACTGAGGATATTTCAGTAATTTTGTAAACTGAG-GATACTTCA
1 GTAATTTTTCAAACTGAGGGTATTTTAGTAATTTTGTAAACTAAGAG-TACTTCA
* ** * *
34391227 GTAATTTTAC-AGGTCGAGGGTATTTTAGTAATTTTGTAAACTAAGAGTATTTTA
1 GTAATTTTTCAAACT-GAGGGTATTTTAGTAATTTTGTAAACTAAGAGTACTTCA
** *
34391281 GTAATTTTAT-AAACCAAGGGTATTTTAGTAATTTAGTAAAC
1 GTAATTTT-TCAAACTGAGGGTATTTTAGTAATTTTGTAAAC
34391322 CAAAGTATTC
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
53 2 0.03
54 73 0.95
55 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.40
Consensus pattern (54 bp):
GTAATTTTTCAAACTGAGGGTATTTTAGTAATTTTGTAAACTAAGAGTACTTCA
Found at i:34391311 original size:81 final size:80
Alignment explanation
Indices: 34391110--34391314 Score: 200
Period size: 81 Copynumber: 2.5 Consensus size: 80
34391100 ACCCTATAAG
* * ** * * *
34391110 GGTATTTTGGTAATTCTCCAAACTAAGGGTATTTCAGTAATTTTGCAATTCAGGGGTTATTTGGT
1 GGTATTTTAGTAATTTTATAAACTAAGGGTATTTCAGTAATTTTACAAGTCAGGGGTTATTTAGT
*
34391175 AATTTTTCAAACTGA
66 AATTTTTCAAACTAA
* * * * * *
34391190 GGATATTTCAGTAATTTTGTAAACTGAGGATACTTCAGTAATTTTACAGGTC-GAGGG-TATTTT
1 GG-TATTTTAGTAATTTTATAAACTAAGGGTATTTCAGTAATTTTACAAGTCAG-GGGTTA-TTT
34391253 AGTAATTTTGT-AAACTAA
63 AGTAATTTT-TCAAACTAA
* *
34391271 GAGTATTTTAGTAATTTTATAAACCAAGGGTATTTTAGTAATTT
1 G-GTATTTTAGTAATTTTATAAACTAAGGGTATTTCAGTAATTT
34391315 AGTAAACCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
80 5 0.05
81 93 0.93
82 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (80 bp):
GGTATTTTAGTAATTTTATAAACTAAGGGTATTTCAGTAATTTTACAAGTCAGGGGTTATTTAGT
AATTTTTCAAACTAA
Found at i:34391320 original size:27 final size:27
Alignment explanation
Indices: 34391243--34391324 Score: 121
Period size: 27 Copynumber: 3.0 Consensus size: 27
34391233 TTACAGGTCG
* *
34391243 AGGGTATTTTAGTAATTTTGTAAACTA
1 AGGGTATTTTAGTAATTTAGTAAACCA
*
34391270 AGAGTATTTTAGTAATTTTA-TAAACCA
1 AGGGTATTTTAGTAA-TTTAGTAAACCA
34391297 AGGGTATTTTAGTAATTTAGTAAACCA
1 AGGGTATTTTAGTAATTTAGTAAACCA
34391324 A
1 A
34391325 AGTATTCTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.08
27 42 0.86
28 3 0.06
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTAGTAAACCA
Found at i:34402752 original size:22 final size:22
Alignment explanation
Indices: 34402721--34402779 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
34402711 TGCCTAGCAG
*
34402721 GCTTTATGCCGGTGTTATTCAA
1 GCTTTGTGCCGGTGTTATTCAA
*
34402743 GCTTTGTGCCGGTGTTATTCAG
1 GCTTTGTGCCGGTGTTATTCAA
* *
34402765 GCGTTGTGCCAGTGT
1 GCTTTGTGCCGGTGT
34402780 ATTAAAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.39
Consensus pattern (22 bp):
GCTTTGTGCCGGTGTTATTCAA
Found at i:34404671 original size:39 final size:39
Alignment explanation
Indices: 34404608--34404695 Score: 131
Period size: 39 Copynumber: 2.3 Consensus size: 39
34404598 TTTGGATAAA
34404608 AAAAACGCCGCTAAACATCAAGCATTAACGGCGCTTTCC
1 AAAAACGCCGCTAAACATCAAGCATTAACGGCGCTTTCC
* * * *
34404647 AAAAACGCCGCTAAAGATCGAGCATTAGCGGCGTTTTCC
1 AAAAACGCCGCTAAACATCAAGCATTAACGGCGCTTTCC
*
34404686 AAAATCGCCG
1 AAAAACGCCG
34404696 TGAAAACCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.18
Consensus pattern (39 bp):
AAAAACGCCGCTAAACATCAAGCATTAACGGCGCTTTCC
Found at i:34404813 original size:41 final size:41
Alignment explanation
Indices: 34404742--34405387 Score: 815
Period size: 41 Copynumber: 15.9 Consensus size: 41
34404732 TTTTGCGGCT
* * *
34404742 TTTAGCGGCGTTTCTGAAAA-ACGCCACTAATGCTCGGGGC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
* *
34404782 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGCC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
** * * *
34404823 TTTAGCAACGTTTTTAGTAAA-GTGCCGCTAATGCTCGGGGT
1 TTTAGCGGCGTTTTT-GAAAAGGCGCCGCTAATGCTCGGGGC
* * *
34404864 TTTAGCGGCATTTTTGAAAAGGCACCGCTAATGCTCGAGGC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
* * * *
34404905 TTTAGCGGTGTTTTCGAAAAGGCGCCGCTAATGCTTGGGCC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
*
34404946 TTTAGCGGCGTTTTCGAAAAGGCGCCGCTAATGCTC-GGGC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
*
34404986 TTTAGCGGCGTTTTCGAAAAGGCGCCGCTAATGCTC-GGGC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
* *
34405026 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTTGGGCC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
* * *
34405067 TTTAGCGGCGTTTTCGAAAAGGCGCCGCTAATGCTTGGGCC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
* * * *
34405108 TTTAGCGGCATTTTCGAAAAGGCACCGCTAATGCTCGGGCC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
* *
34405149 TTTAGCTGCGTTTTCGAAAAGGCGCCGCTAATGCTC-GGGC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
* * *
34405189 TTTAGCGGCGTTTTCGAAAAGGCGCCGCTAATGCTTGGGCC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
* * * *
34405230 TTTAGCGGCATTTTTGAAAAAGCGTCGCTAATGCTCGGGAC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
*
34405271 TTTAGCGGCGTGTTTTGGAAAA-GCGCTGCTAATGCTCGGGGC
1 TTTAGCGGCGT-TTTT-GAAAAGGCGCCGCTAATGCTCGGGGC
* * * *
34405313 TTTAGCGGTGTTTGT-AAAAAGCGCTGCTAATGCTC-GGGC
1 TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
34405352 TTTAGCGGCGTTTTTGAAGAA-GCGCCGCTAATGCTC
1 TTTAGCGGCGTTTTTGAA-AAGGCGCCGCTAATGCTC
34405388 TATTTTTAGC
Statistics
Matches: 539, Mismatches: 57, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
39 21 0.04
40 168 0.31
41 310 0.58
42 35 0.06
43 5 0.01
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.28
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGC
Found at i:34405176 original size:163 final size:162
Alignment explanation
Indices: 34404742--34405386 Score: 858
Period size: 163 Copynumber: 4.0 Consensus size: 162
34404732 TTTTGCGGCT
* * * * *
34404742 TTTAGCGGCG-TTTCTGAAAA-ACGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGC
1 TTTAGCGGCGTTTTC-GAAAAGGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTCGAAAAGGC
* * * * *
34404805 GCCGCTAATGCTCGGGCCTTTAGCAACGTTTTTAGTAAA-GTGCCGCTAATGCTCGGGGTTTTAG
65 GCCGCTAATGCTCGGGCCTTTAGC-GCG-TTTTCGAAAAGGCGCCGCTAATGCTC-GGGCTTTAG
* * *
34404869 CGGCATTTTTGAAAAGGCACCGCTAATGCTCGAGG-C
127 CGGCGTTTTTGAAAAGGCGCCGCTAATGCTTG-GGCC
* *
34404905 TTTAGCGGTGTTTTCGAAAAGGCGCCGCTAATGCTTGGGCCTTTAGCGGCGTTTTCGAAAAGGCG
1 TTTAGCGGCGTTTTCGAAAAGGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTCGAAAAGGCG
34404970 CCGCTAATGCTCGGG-CTTTAGCGGCGTTTTCGAAAAGGCGCCGCTAATGCTCGGGCTTTAGCGG
66 CCGCTAATGCTCGGGCCTTTAGC-GCGTTTTCGAAAAGGCGCCGCTAATGCTCGGGCTTTAGCGG
34405034 CGTTTTTGAAAAGGCGCCGCTAATGCTTGGGCC
130 CGTTTTTGAAAAGGCGCCGCTAATGCTTGGGCC
* * *
34405067 TTTAGCGGCGTTTTCGAAAAGGCGCCGCTAATGCTTGGGCCTTTAGCGGCATTTTCGAAAAGGCA
1 TTTAGCGGCGTTTTCGAAAAGGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTCGAAAAGGCG
34405132 CCGCTAATGCTCGGGCCTTTAGCTGCGTTTTCGAAAAGGCGCCGCTAATGCTCGGGCTTTAGCGG
66 CCGCTAATGCTCGGGCCTTTAGC-GCGTTTTCGAAAAGGCGCCGCTAATGCTCGGGCTTTAGCGG
*
34405197 CGTTTTCGAAAAGGCGCCGCTAATGCTTGGGCC
130 CGTTTTTGAAAAGGCGCCGCTAATGCTTGGGCC
* * * * * *
34405230 TTTAGCGGCATTTTTGAAAAAGCGTCGCTAATGCTCGGGACTTTAGCGGCGTGTTTTGGAAAA-G
1 TTTAGCGGCGTTTTCGAAAAGGCGCCGCTAATGCTCGGGCCTTTAGCGGC--GTTTTCGAAAAGG
* * * *
34405294 CGCTGCTAATGCTCGGGGCTTTAGCG-GTGTTT-GTAAAAAGCGCTGCTAATGCTCGGGCTTTAG
64 CGCCGCTAATGCTCGGGCCTTTAGCGCGT-TTTCG-AAAAGGCGCCGCTAATGCTCGGGCTTTAG
34405357 CGGCGTTTTTGAAGAA-GCGCCGCTAATGCT
127 CGGCGTTTTTGAA-AAGGCGCCGCTAATGCT
34405387 CTATTTTTAG
Statistics
Matches: 437, Mismatches: 35, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
161 2 0.00
162 126 0.29
163 218 0.50
164 82 0.19
165 9 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (162 bp):
TTTAGCGGCGTTTTCGAAAAGGCGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTCGAAAAGGCG
CCGCTAATGCTCGGGCCTTTAGCGCGTTTTCGAAAAGGCGCCGCTAATGCTCGGGCTTTAGCGGC
GTTTTTGAAAAGGCGCCGCTAATGCTTGGGCC
Found at i:34405524 original size:15 final size:15
Alignment explanation
Indices: 34405506--34405534 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34405496 CTATTTTAAG
34405506 GTTTAGGGATTATGT
1 GTTTAGGGATTATGT
34405521 GTTTAGGGATTATG
1 GTTTAGGGATTATG
34405535 GATTATGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (15 bp):
GTTTAGGGATTATGT
Found at i:34405630 original size:7 final size:7
Alignment explanation
Indices: 34405500--34405659 Score: 69
Period size: 7 Copynumber: 22.7 Consensus size: 7
34405490 GAGTTACTAT
*
34405500 TTTAAGG
1 TTTAGGG
34405507 TTTAGGG
1 TTTAGGG
* *
34405514 ATTATGTG
1 TTTA-GGG
34405522 TTTAGGG
1 TTTAGGG
* *
34405529 ATTATGG
1 TTTAGGG
* *
34405536 ATTATGG
1 TTTAGGG
*
34405543 TTTATGG
1 TTTAGGG
34405550 TTTAAGGG
1 TTT-AGGG
34405558 -TTAGGG
1 TTTAGGG
34405564 TTTAAGGG
1 TTT-AGGG
34405572 -TTAGGG
1 TTTAGGG
*
34405578 GTTAGGG
1 TTTAGGG
*
34405585 GTTAGGG
1 TTTAGGG
*
34405592 GTTATGGG
1 TTTA-GGG
34405600 TTTA-GG
1 TTTAGGG
* * *
34405606 TTCATGT
1 TTTAGGG
* *
34405613 TTTATGA
1 TTTAGGG
34405620 TTTAGGG
1 TTTAGGG
*
34405627 TTTAGGA
1 TTTAGGG
*
34405634 ATT-GAGG
1 TTTAG-GG
34405641 -TTAGGGG
1 TTTA-GGG
34405648 TTTAGGG
1 TTTAGGG
34405655 TTTAG
1 TTTAG
34405660 ATTAATTGAT
Statistics
Matches: 123, Mismatches: 19, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
6 16 0.13
7 85 0.69
8 22 0.18
ACGTcount: A:0.20, C:0.01, G:0.38, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:34407285 original size:29 final size:29
Alignment explanation
Indices: 34407192--34407294 Score: 84
Period size: 29 Copynumber: 3.5 Consensus size: 29
34407182 GGTCCTTGAT
*
34407192 TTTATTTTATTTTTCCAGTATTTTTCCTC
1 TTTATTTTGTTTTTCCAGTATTTTTCCTC
* * * * **
34407221 TTTATTTTCTTCGCTT-CATTTTTTTTGAGAT-
1 TTTATTTTGTT--TTTCCAGTATTTTT--CCTC
34407252 TTTATTTTGTTTTTCCAGTATTTTTCCTC
1 TTTATTTTGTTTTTCCAGTATTTTTCCTC
*
34407281 TTTATTTTGGTTTT
1 TTTATTTTGTTTTT
34407295 AATTTTTTTT
Statistics
Matches: 55, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
28 1 0.02
29 25 0.45
30 16 0.29
31 12 0.22
32 1 0.02
ACGTcount: A:0.12, C:0.14, G:0.08, T:0.67
Consensus pattern (29 bp):
TTTATTTTGTTTTTCCAGTATTTTTCCTC
Found at i:34407303 original size:60 final size:58
Alignment explanation
Indices: 34407189--34407304 Score: 171
Period size: 60 Copynumber: 2.0 Consensus size: 58
34407179 AGGGGTCCTT
*
34407189 GATTTTATTTTATTTTTCCAGTATTTTTCCTCTTTATTTTCTTCGCTTCATTTTTTTTGA
1 GATTTTATTTTATTTTTCCAGTATTTTTCCTCTTTATTTTCTT--CTTAATTTTTTTTGA
* *
34407249 GATTTTATTTTGTTTTTCCAGTATTTTTCCTCTTTATTTTGGTT-TTAATTTTTTTT
1 GATTTTATTTTATTTTTCCAGTATTTTTCCTCTTTATTTT-CTTCTTAATTTTTTTT
34407305 CATATTTGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 11 0.21
60 39 0.75
61 2 0.04
ACGTcount: A:0.13, C:0.12, G:0.08, T:0.67
Consensus pattern (58 bp):
GATTTTATTTTATTTTTCCAGTATTTTTCCTCTTTATTTTCTTCTTAATTTTTTTTGA
Found at i:34410180 original size:43 final size:43
Alignment explanation
Indices: 34410063--34410251 Score: 187
Period size: 43 Copynumber: 4.5 Consensus size: 43
34410053 TAAATTTTTT
* * *
34410063 TAAAGGTTATGTT-TTTAGCGGCGTTTTTG-CTAAAAGCACCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC-AAAAGCGCCGC
* * *
34410105 TAAATGT-TTGTTCTTTAGCGGC----GTGATAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAAGCGCCGC
* * *
34410143 TAAAAGTCATGTTCTTTAGTGGCGTTTGTGACAAAAGCGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAAGCGCCGC
* * *
34410186 TAAAGGTCATGATCTTTAGCAGTGTTTGTGATC-AAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGA-CAAAAGCGCCGC
*
34410229 TAAAGGTCATGATCTTTAGCGGC
1 TAAAGGTCATGTTCTTTAGCGGC
34410252 ATTTTTTTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 15
0.79 0.12 0.10
Matches are distributed among these distances:
38 18 0.15
39 13 0.11
41 4 0.03
42 15 0.12
43 70 0.58
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAAGCGCCGC
Found at i:34413035 original size:9 final size:9
Alignment explanation
Indices: 34413023--34413047 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34413013 ATAATTTGGA
34413023 TAATTCAAT
1 TAATTCAAT
34413032 TAATTCAAT
1 TAATTCAAT
34413041 TAATTCA
1 TAATTCA
34413048 GTCCATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATTCAAT
Found at i:34418466 original size:13 final size:13
Alignment explanation
Indices: 34418450--34418514 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
34418440 TTTAAACCAA
34418450 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
34418463 ACTTCTC-AAAGC
1 ACTTTTCAAAAGC
*
34418475 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
**
34418488 ACTCCTCAAAAGC
1 ACTTTTCAAAAGC
34418501 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
34418514 A
1 A
34418515 TTGCTAAACT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
12 14 0.34
13 25 0.61
14 2 0.05
ACGTcount: A:0.37, C:0.31, G:0.06, T:0.26
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:34418478 original size:25 final size:26
Alignment explanation
Indices: 34418450--34418514 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
34418440 TTTAAACCAA
*
34418450 ACTTTTCAAAAGCACTTCTC-AAAGC
1 ACTTTTCAAAAGCACTCCTCAAAAGC
*
34418475 ACTTTTCCACAA-CACTCCTCAAAAGC
1 ACTTTT-CAAAAGCACTCCTCAAAAGC
34418501 ACTTTTCAAAAGCA
1 ACTTTTCAAAAGCA
34418515 TTGCTAAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 17 0.50
26 17 0.50
ACGTcount: A:0.37, C:0.31, G:0.06, T:0.26
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTCCTCAAAAGC
Found at i:34423698 original size:27 final size:27
Alignment explanation
Indices: 34423667--34423721 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
34423657 AGTCCTTCTG
* *
34423667 TTTTTACACTAATAATATTATTATTAT
1 TTTTTAAACTAATAATATAATTATTAT
* *
34423694 TTTTTAAACTATTATTATAATTATTAT
1 TTTTTAAACTAATAATATAATTATTAT
34423721 T
1 T
34423722 ATCACATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTTAAACTAATAATATAATTATTAT
Found at i:34423831 original size:21 final size:21
Alignment explanation
Indices: 34423798--34423840 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
34423788 TTTTAGACTT
34423798 TATAAATACATGTATATATTA
1 TATAAATACATGTATATATTA
* * * *
34423819 TATACATATATGTTTATTTTA
1 TATAAATACATGTATATATTA
34423840 T
1 T
34423841 TTTCATAACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (21 bp):
TATAAATACATGTATATATTA
Found at i:34429894 original size:43 final size:43
Alignment explanation
Indices: 34429786--34430013 Score: 318
Period size: 43 Copynumber: 5.3 Consensus size: 43
34429776 ACGTCGCTAA
* * * *
34429786 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAAACGCCGCTAATGATCATGTT
34429830 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
* *
34429872 CTTTAGCAGCGCTTAGGAAAAAAATGCCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
* *
34429915 CTTTAGCAGCGCTTAGGAAAAAAACACCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
* * *
34429958 CTTTAGCGGCGCTT-GGGAAAAAACGCCGCTAA-AAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGA-TCATGTT
34430000 CTTTAGCGGCGCTT
1 CTTTAGCGGCGCTT
34430014 CATCTACAAA
Statistics
Matches: 169, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.01
42 75 0.44
43 79 0.47
44 14 0.08
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
Found at i:34430026 original size:85 final size:85
Alignment explanation
Indices: 34429786--34430057 Score: 318
Period size: 85 Copynumber: 3.2 Consensus size: 85
34429776 ACGTCGCTAA
* * * *
34429786 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAA
1 CTTTAGCGGCGCTTA-GGAAAAAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTTAGAAAAA
*
34429851 AACGCCGCTAATGATCATGTT
65 AACACCGCTAATGATCATGTT
* * * *
34429872 CTTTAGCAGCGCTTAGGAAAAAAATGCCGCT-AATGATCATGTTCTTTAGCAGCGCTTAGGAAAA
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAG-TCATGTTCTTTAGCGGCGCTTA-GAAAA
34429936 AAACACCGCTAATGATCATGTT
64 AAACACCGCTAATGATCATGTT
* * *** *
34429958 CTTTAGCGGCGCTT-GGGAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTCATCTACA
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTT-AGAAAAA
*
34430022 AACACCGCTAA-AAGT-AGTGTT
65 AACACCGCTAATGA-TCA-TGTT
34430043 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
34430058 TTTCACAAAC
Statistics
Matches: 160, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
84 5 0.03
85 100 0.62
86 55 0.34
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (85 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTTAGAAAAAA
ACACCGCTAATGATCATGTT
Found at i:34430030 original size:128 final size:128
Alignment explanation
Indices: 34429794--34430057 Score: 313
Period size: 128 Copynumber: 2.1 Consensus size: 128
34429784 AACTTTTGCG
* *
34429794 GCGCTTACAGAAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGC
1 GCGCTTACAGAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGC
* * * *
34429859 TAATGATCATGTTCTTTAGCAGCGCTTAGGAAAAAAATGCCGCT-AATGATCA-TGTTCTTTAGC
66 TAAAGATAATGTTCTTTAGCAGCGCTTACGAAAAAAA-GCCGCTAAAAG-T-AGTGTTCTTTAGC
34429922 A
128 A
* * *
34429923 GCGCTTA-GGAAAAAAACACCGCTAATGATCATGTTCTTTAGCGGCGCTTGGGAAAAAACGCCGC
1 GCGCTTACAGAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGC
* * * *
34429987 TAAA-AGTAATGTTCTTTAGCGGCGCTTCATCTACAAACA-CCGCTAAAAGTAGTGTTCTTTAGC
66 TAAAGA-TAATGTTCTTTAGCAGCGCTT-A-CGAAAAAAAGCCGCTAAAAGTAGTGTTCTTTAGC
*
34430050 G
128 A
34430051 GCGCTTA
1 GCGCTTA
34430058 TTTCACAAAC
Statistics
Matches: 116, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
127 2 0.02
128 98 0.84
129 11 0.09
130 5 0.04
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (128 bp):
GCGCTTACAGAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGC
TAAAGATAATGTTCTTTAGCAGCGCTTACGAAAAAAAGCCGCTAAAAGTAGTGTTCTTTAGCA
Found at i:34430534 original size:21 final size:21
Alignment explanation
Indices: 34430490--34430537 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
34430480 TTCTTTTGAA
* *
34430490 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCCCTCGCTCTAG
34430511 CCTCTGCTTCCCTCGCTACT-G
1 CCTCTGCTTCCCTCGCT-CTAG
34430532 CCTCTG
1 CCTCTG
34430538 TTTTAAGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.04, C:0.44, G:0.17, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTCTAG
Found at i:34433045 original size:80 final size:80
Alignment explanation
Indices: 34432890--34433046 Score: 237
Period size: 80 Copynumber: 2.0 Consensus size: 80
34432880 AATTTCAGAA
* *
34432890 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATTCACTAGCATTAAGCCTGCTAGACAT
1 CACCGGCATTAAGCCTACTAGACATTAAGTCTGAATAATTCACCAGCATTAAGCCTGCTAGACAT
* *
34432955 TAAGTCTGAATAATT
66 GAACTCTGAATAATT
*
34432970 CACCGGCATTAAGCCTACTAGACATTAAGTCTGAATAATTCACCGGCATTAAGCCTGCTAGGTAC
1 CACCGGCATTAAGCCTACTAGACATTAAGTCTGAATAATTCACCAGCATTAAGCCTGCTA-G-AC
34433035 A-GAACT-TGAATA
64 ATGAACTCTGAATA
34433047 TCACAAATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
80 63 0.90
81 4 0.06
82 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (80 bp):
CACCGGCATTAAGCCTACTAGACATTAAGTCTGAATAATTCACCAGCATTAAGCCTGCTAGACAT
GAACTCTGAATAATT
Found at i:34433046 original size:40 final size:40
Alignment explanation
Indices: 34432890--34433030 Score: 255
Period size: 40 Copynumber: 3.5 Consensus size: 40
34432880 AATTTCAGAA
34432890 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
**
34432930 CACTAGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
*
34432970 CACCGGCATTAAGCCTACTAGACATTAAGTCTGAATAATT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
34433010 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
34433031 GTACAGAACT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAATAATT
Found at i:34436039 original size:50 final size:50
Alignment explanation
Indices: 34435975--34436115 Score: 162
Period size: 50 Copynumber: 2.8 Consensus size: 50
34435965 ATTATCATTC
* * *
34435975 GATACATGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AACT-TTT
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGATCATAA-TATCT
* * * *
34436024 CGGTTCACGTAGTAGCCTACACATAGTACTACACGCGTGACCATTAATATCT
1 -GATACACGTAGTAGCCTACACATAGTACTACACACGTGATCA-TAATATCT
*
34436076 GATACACGTAGTAG-CTGCACATAGTACTACACACGTGATC
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGATC
34436116 GAAGCTATCC
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
50 59 0.78
51 13 0.17
52 4 0.05
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
GATACACGTAGTAGCCTACACATAGTACTACACACGTGATCATAATATCT
Found at i:34440883 original size:11 final size:11
Alignment explanation
Indices: 34440854--34440883 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
34440844 GATGCTCTAG
*
34440854 TAATTAAGTTC
1 TAATTAATTTC
34440865 TAATTAATTTC
1 TAATTAATTTC
34440876 TAATTAAT
1 TAATTAAT
34440884 GATGAGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (11 bp):
TAATTAATTTC
Found at i:34440911 original size:17 final size:17
Alignment explanation
Indices: 34440889--34440928 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
34440879 TTAATGATGA
34440889 GCTAATTAGGAATTAGG
1 GCTAATTAGGAATTAGG
34440906 GCTAATTAGGAATTAGG
1 GCTAATTAGGAATTAGG
34440923 GCTAAT
1 GCTAAT
34440929 GTGCCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (17 bp):
GCTAATTAGGAATTAGG
Found at i:34442506 original size:44 final size:43
Alignment explanation
Indices: 34442405--34442545 Score: 151
Period size: 44 Copynumber: 3.2 Consensus size: 43
34442395 ACCATTGAAA
* * * * *
34442405 TTCTTACCTAAACAATCAACCAAGACAATTATATTACATGTCCAT
1 TTCTTACCAAAACAATCAACTAA-AC-ATTATAATGCATGTTCAT
*
34442450 TGCTTACC-AAACAATCAACTAAACATTTATAATGCATGTTCAT
1 TTCTTACCAAAACAATCAACTAAACA-TTATAATGCATGTTCAT
* *
34442493 TTATTACCAAAACAATCAA-TCAAACGATTATAATGCCTGTTCAT
1 TTCTTACCAAAACAATCAACT-AAAC-ATTATAATGCATGTTCAT
34442537 TTCTTACCA
1 TTCTTACCA
34442546 TTTAACAACT
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.01
43 23 0.28
44 51 0.61
45 8 0.10
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.33
Consensus pattern (43 bp):
TTCTTACCAAAACAATCAACTAAACATTATAATGCATGTTCAT
Found at i:34443333 original size:42 final size:44
Alignment explanation
Indices: 34443287--34443383 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
34443277 TCCTAGATAG
* * * *
34443287 GGTCTTACACGT-AATCATATA-CGATGCCAAAGTCCCAGTCTT
1 GGTCTTACACGTAAACCATAAATCGATGCCAAAGTCCCAGACCT
* * * *
34443329 GGTCTTACATGTAAACCTTAAATTGATGCCAACGTCCCAGACCT
1 GGTCTTACACGTAAACCATAAATCGATGCCAAAGTCCCAGACCT
34443373 GGTCTTACACG
1 GGTCTTACACG
34443384 AATTCACATT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 11 0.25
43 6 0.14
44 27 0.61
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (44 bp):
GGTCTTACACGTAAACCATAAATCGATGCCAAAGTCCCAGACCT
Found at i:34450292 original size:27 final size:27
Alignment explanation
Indices: 34450253--34450324 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
34450243 ATAACAGAAA
* **
34450253 GCAT-ACAATCATTTTATAATTTAGGG-
1 GCATAACAGTCATTTTATAACAT-GGGC
**
34450279 GCATAACAGTCATTTTACCACATGGGC
1 GCATAACAGTCATTTTATAACATGGGC
34450306 GCATAACAGTCATTTTATA
1 GCATAACAGTCATTTTATA
34450325 TCAGTTTGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 7 0.19
27 30 0.81
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (27 bp):
GCATAACAGTCATTTTATAACATGGGC
Found at i:34463890 original size:15 final size:15
Alignment explanation
Indices: 34463870--34463898 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34463860 ATTAAGAATG
34463870 TTATTAAATTATATA
1 TTATTAAATTATATA
34463885 TTATTAAATTATAT
1 TTATTAAATTATAT
34463899 TTAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATTAAATTATATA
Found at i:34468244 original size:24 final size:24
Alignment explanation
Indices: 34468217--34468276 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
34468207 ATATATAACC
34468217 AAATAATATTAAATTA-AAGAATAA
1 AAATAATATTAAATTATAA-AATAA
*
34468241 AAATAATATAAAATTATAAAATAA
1 AAATAATATTAAATTATAAAATAA
34468265 AAA-ATATATTAA
1 AAATA-ATATTAA
34468277 GATATTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 1 0.03
24 29 0.91
25 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
AAATAATATTAAATTATAAAATAA
Found at i:34473905 original size:19 final size:19
Alignment explanation
Indices: 34473881--34473928 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
34473871 ATTACGTGTT
34473881 TGAATAGAAATGAACAAAA
1 TGAATAGAAATGAACAAAA
*
34473900 TGAATAGAAATGAACGAAA
1 TGAATAGAAATGAACAAAA
34473919 TGAATAGAAA
1 TGAATAGAAA
34473929 AATATAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.19, T:0.17
Consensus pattern (19 bp):
TGAATAGAAATGAACAAAA
Found at i:34474042 original size:18 final size:18
Alignment explanation
Indices: 34474015--34474092 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
34474005 TAGGTTTCTA
*
34474015 AAAATAGAAATGGAAATG
1 AAAATGGAAATGGAAATG
*
34474033 GAAATGGAAATGGAAATG
1 AAAATGGAAATGGAAATG
* *
34474051 AAAATGAAAATGAAAATG
1 AAAATGGAAATGGAAATG
***
34474069 AAAATGGAAACAAAAATG
1 AAAATGGAAATGGAAATG
34474087 AAAATG
1 AAAATG
34474093 ATCCATTTGC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.62, C:0.01, G:0.22, T:0.15
Consensus pattern (18 bp):
AAAATGGAAATGGAAATG
Found at i:34474090 original size:6 final size:6
Alignment explanation
Indices: 34474022--34474093 Score: 81
Period size: 6 Copynumber: 12.0 Consensus size: 6
34474012 CTAAAAATAG
* * * *
34474022 AAATGG AAATGG AAATGG AAATGG AAATGA AAATGA AAATGA AAATGA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
* **
34474070 AAATGG AAACAA AAATGA AAATGA
1 AAATGA AAATGA AAATGA AAATGA
34474094 TCCATTTGCA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.61, C:0.01, G:0.22, T:0.15
Consensus pattern (6 bp):
AAATGA
Found at i:34474312 original size:25 final size:26
Alignment explanation
Indices: 34474240--34474312 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
34474230 ATATTTTCTT
* * *
34474240 AAAATTTTACCAGGGGCAAAATCGTT
1 AAAATTTTACCAGGAGTAAAATCGTC
*
34474266 AAAATTTTACCAGGAGTAAAATTGTC
1 AAAATTTTACCAGGAGTAAAATCGTC
*
34474292 AAAATTTT-CCTGGAGTAAAAT
1 AAAATTTTACCAGGAGTAAAAT
34474313 AGGAATGAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 12 0.29
26 30 0.71
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (26 bp):
AAAATTTTACCAGGAGTAAAATCGTC
Found at i:34486752 original size:15 final size:16
Alignment explanation
Indices: 34486723--34486752 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34486713 CAAACGTGCT
34486723 TTAACACATTATCAAA
1 TTAACACATTATCAAA
34486739 TTAACACA-TATCAA
1 TTAACACATTATCAA
34486753 CAAGACACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:34502196 original size:17 final size:17
Alignment explanation
Indices: 34502157--34502189 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34502147 AATTATGTTT
34502157 TGTTTTTAGGACTTTTA
1 TGTTTTTAGGACTTTTA
*
34502174 TGTTTTTATGACTTTT
1 TGTTTTTAGGACTTTT
34502190 TATTTTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.06, G:0.15, T:0.64
Consensus pattern (17 bp):
TGTTTTTAGGACTTTTA
Found at i:34506447 original size:35 final size:35
Alignment explanation
Indices: 34506401--34506471 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
34506391 TAAGATAAGG
34506401 TTAGTAAAACTTTTTATATTAATTATATACTACTA
1 TTAGTAAAACTTTTTATATTAATTATATACTACTA
34506436 TTAGTAAAACTTTTTATATTAATTATATACTACTA
1 TTAGTAAAACTTTTTATATTAATTATATACTACTA
34506471 T
1 T
34506472 GTTAAATGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.49
Consensus pattern (35 bp):
TTAGTAAAACTTTTTATATTAATTATATACTACTA
Found at i:34539256 original size:1 final size:1
Alignment explanation
Indices: 34539246--34539358 Score: 172
Period size: 1 Copynumber: 113.0 Consensus size: 1
34539236 CCTGAACCCA
* *
34539246 TTTTTATTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
34539311 TTTTTTTATTTTTATTTTTTTTTATTTTTTTTTTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
34539359 ATTACGAACC
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 100 1.00
ACGTcount: A:0.04, C:0.00, G:0.01, T:0.95
Consensus pattern (1 bp):
T
Found at i:34540917 original size:28 final size:28
Alignment explanation
Indices: 34540883--34541037 Score: 222
Period size: 28 Copynumber: 5.5 Consensus size: 28
34540873 ATATTAAGTC
*
34540883 CGCACACTCAGTGCTATATAATC-AACTT
1 CGCACACTTAGTGCTATATAATCAAAC-T
*
34540911 GGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
34540939 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
34540967 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34540995 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
34541024 CGTACACTTAGTGC
1 CGCACACTTAGTGC
34541038 CAATCTCATG
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
28 96 0.82
29 21 0.18
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34549039 original size:28 final size:28
Alignment explanation
Indices: 34548976--34549157 Score: 285
Period size: 28 Copynumber: 6.5 Consensus size: 28
34548966 ATATTAAGTC
*
34548976 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
34549003 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
34549031 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
34549059 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
34549087 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34549115 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
34549144 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34549158 CAATCTCATT
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 21 0.15
28 104 0.72
29 19 0.13
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34550170 original size:52 final size:48
Alignment explanation
Indices: 34550151--34550353 Score: 256
Period size: 46 Copynumber: 4.3 Consensus size: 48
34550141 TGACAAGTGG
* *
34550151 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
34550197 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* * *
34550249 AAAGTGATAAGTGATAGCTTCGGTTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
34550295 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
34550341 AAAGTGATAAGTG
1 AAAGTGATAAGTG
34550354 GCTACACTTA
Statistics
Matches: 142, Mismatches: 9, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
46 99 0.70
52 43 0.30
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:34550205 original size:98 final size:98
Alignment explanation
Indices: 34550085--34550353 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
34550075 TTTGAGTACT
*
34550085 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
34550150 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
34550183 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
34550248 AAAAGTGATAAGTGATAGCTTCGGTTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
34550281 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
34550346 GATAAGTG
65 GAAAAGTG
34550354 GCTACACTTA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 148 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:34550361 original size:37 final size:37
Alignment explanation
Indices: 34550317--34550462 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
34550307 GATAGCTTTA
*
34550317 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
34550354 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
34550391 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
34550428 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
34550463 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:34555567 original size:40 final size:40
Alignment explanation
Indices: 34555523--34555601 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
34555513 AATTTTAATG
*
34555523 AACTCATCTTAGTTAATAATTGAGTTGTTCGACTTTATTA
1 AACTCATCTTAGTTAATAATTGAGTTATTCGACTTTATTA
*
34555563 AACTCATCTTAGTTAATAATTGAGTTATTGGACTTTATT
1 AACTCATCTTAGTTAATAATTGAGTTATTCGACTTTATT
34555602 TTTATTAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (40 bp):
AACTCATCTTAGTTAATAATTGAGTTATTCGACTTTATTA
Found at i:34558158 original size:19 final size:19
Alignment explanation
Indices: 34558134--34558178 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
34558124 AGCTCACTCG
34558134 AGCTCA-ATTCAGCTCATTT
1 AGCTCATATT-AGCTCATTT
*
34558153 AGCTCATTATTAGCTCTTTT
1 AGCTCA-TATTAGCTCATTT
34558173 AGCTCA
1 AGCTCA
34558179 CTAAATCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 14 0.61
21 3 0.13
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.40
Consensus pattern (19 bp):
AGCTCATATTAGCTCATTT
Found at i:34563653 original size:6 final size:6
Alignment explanation
Indices: 34563624--34563757 Score: 92
Period size: 6 Copynumber: 22.0 Consensus size: 6
34563614 AATGAAAAAG
* **
34563624 AAGAAA AATAAA AAGAAA GTGAAA AAGAAA AAGAAA AAGAAA ACA-AAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A-AGAAA
** * * ** **
34563672 AAGAAA AAG-AA AAGAAA TTGCAA AATAAA AAGAAA TCGAAA AAGTGA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* * *
34563719 GAGAAA AAGAAA ATGAAGAA AAGAAA ATTGAAA AAGAAA
1 AAGAAA AAGAAA AAG-A-AA AAGAAA A-AGAAA AAGAAA
34563758 TTGAGATTGA
Statistics
Matches: 94, Mismatches: 28, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
5 6 0.06
6 76 0.81
7 8 0.09
8 4 0.04
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.07
Consensus pattern (6 bp):
AAGAAA
Found at i:34565574 original size:20 final size:20
Alignment explanation
Indices: 34565549--34565616 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
34565539 TCCATGCGGT
34565549 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
*
34565569 TCAGCTCATTCGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
** * *
34565589 TTGGCTCACACGAGCTCAAT
1 TCAGCTCACTCGAGCTCAAG
34565609 TCAGCTCA
1 TCAGCTCA
34565617 TTGAGCTCGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (20 bp):
TCAGCTCACTCGAGCTCAAG
Found at i:34574251 original size:17 final size:18
Alignment explanation
Indices: 34574229--34574269 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
34574219 CATTTCTTTT
34574229 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
34574246 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
34574264 T-TTTTG
1 TCTTTTG
34574270 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:34578264 original size:13 final size:13
Alignment explanation
Indices: 34578248--34578273 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34578238 AAAGTGTGCA
34578248 AAATACAAAAGTG
1 AAATACAAAAGTG
34578261 AAATACAAAAGTG
1 AAATACAAAAGTG
34578274 GGAGTTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (13 bp):
AAATACAAAAGTG
Found at i:34581980 original size:52 final size:50
Alignment explanation
Indices: 34581922--34582030 Score: 121
Period size: 52 Copynumber: 2.1 Consensus size: 50
34581912 AATGACAAAT
* *
34581922 GAGTTACTTAATGCAAGAC-TTAATTTAATGATGCGGACTTAAACTAACATGG
1 GAGTTACCTAATGCAAGACATT-ATTT-ATGATGCAGACTT-AACTAACATGG
* * * *
34581974 GAGTTACCTAATGCATGTCATTATTTATGATGCATACTTAACTAGCATGG
1 GAGTTACCTAATGCAAGACATTATTTATGATGCAGACTTAACTAACATGG
*
34582024 AAGTTAC
1 GAGTTAC
34582031 ATAGTGCATA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
50 16 0.33
51 11 0.22
52 20 0.41
53 2 0.04
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (50 bp):
GAGTTACCTAATGCAAGACATTATTTATGATGCAGACTTAACTAACATGG
Found at i:34582048 original size:50 final size:52
Alignment explanation
Indices: 34581923--34582053 Score: 124
Period size: 50 Copynumber: 2.6 Consensus size: 52
34581913 ATGACAAATG
* * * *
34581923 AGTTACTTAATGCA-AGACTTAATTTAATGATGCGGACTTAAACTAACATGGG
1 AGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATGGA
* ** * * *
34581975 AGTTACCTAATGCATGTCATTATTT-ATGATGCATACTT-AACTAGCATGGA
1 AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
* *
34582025 AGTTACATAGTGCATAACTTTATTAAATG
1 AGTTACATAATGCATAACTTTATTTAATG
34582054 TAGAACACAC
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
50 29 0.47
51 14 0.23
52 19 0.31
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (52 bp):
AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
Found at i:34587386 original size:27 final size:27
Alignment explanation
Indices: 34587356--34587531 Score: 192
Period size: 27 Copynumber: 6.5 Consensus size: 27
34587346 ATATTGAGTC
* * * *
34587356 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34587383 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
34587410 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAGTCAA-AT
** * *
34587438 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34587465 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34587492 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34587519 CGCACACTTAGTG
1 CGCACACTTAGTG
34587532 TTGTACAATT
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34587495 original size:82 final size:81
Alignment explanation
Indices: 34587377--34587531 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 81
34587367 TGCTATATAA
* * *
34587377 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAA-ATCGCA
34587442 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34587459 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34587523 CACTTAGTG
65 CACTTAGTG
34587532 TTGTACAATT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34595290 original size:27 final size:27
Alignment explanation
Indices: 34595260--34595437 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
34595250 ATATTGAGTC
* * * *
34595260 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34595287 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
34595314 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAGTCAA-AT
** * *
34595342 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34595369 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34595396 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34595423 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34595438 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34595399 original size:82 final size:81
Alignment explanation
Indices: 34595281--34595436 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
34595271 TGCTATATAA
* * *
34595281 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAA-ATCGCA
34595346 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34595363 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34595427 CACTTAGTGC
65 CACTTAGTGC
34595437 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34597147 original size:24 final size:22
Alignment explanation
Indices: 34597073--34597147 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 22
34597063 AAGGGGCTGT
34597073 TACATCAATTAAAGGAGAGCATTA
1 TACATC-ATTAAAGGA-AGCATTA
*
34597097 TACATCATTTAAAGG-AG--TTGT
1 TACATCA-TTAAAGGAAGCATT-A
34597118 TACATCATTCAAAGGAAAGCATTA
1 TACATCATT-AAAGG-AAGCATTA
34597142 TACATC
1 TACATC
34597148 CTTTAAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
20 4 0.10
21 12 0.29
22 2 0.05
23 3 0.07
24 19 0.45
25 2 0.05
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (22 bp):
TACATCATTAAAGGAAGCATTA
Found at i:34633334 original size:79 final size:81
Alignment explanation
Indices: 34633199--34633412 Score: 212
Period size: 79 Copynumber: 2.7 Consensus size: 81
34633189 AAATCACGTA
** * *
34633199 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTT-GTTCAAATGCCTTCGGGACATAGCCCGG-TT
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
*
34633259 ATAGTAACCCGCACAATTG
64 -TAGTAACCCGCACAAATG
* *
34633278 CCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGAATT
* *
34633340 AGTATCTCGCACAAATG
65 AGTAACCCGCACAAATG
** * *
34633357 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCC
34633413 TGGACATCAT
Statistics
Matches: 112, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
78 3 0.03
79 65 0.58
80 44 0.39
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
GTAACCCGCACAAATG
Found at i:34633349 original size:39 final size:40
Alignment explanation
Indices: 34633232--34633412 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
34633222 GCTACTTGTT
* *
34633232 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
34633272 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
34633312 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
34633351 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
34633392 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
34633413 TGGACATCAT
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.28
40 72 0.60
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34641278 original size:79 final size:81
Alignment explanation
Indices: 34641150--34641333 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
34641140 GCTACTCGTT
* * *
34641150 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCG
* *
34641213 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* * **
34641229 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGGACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCG
* *
34641292 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
34641309 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34641334 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 23 0.26
79 47 0.53
80 19 0.21
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:34641333 original size:40 final size:40
Alignment explanation
Indices: 34641131--34641333 Score: 211
Period size: 39 Copynumber: 5.1 Consensus size: 40
34641121 CGGAATTTAA
** *
34641131 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34641171 CCGGTTATAGTAACTCGCAC-AATTCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
34641210 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34641249 CCGGA-ATTAGTATCTCGGACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34641289 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34641329 CCGGA
1 CCGGA
34641334 CATCATTCAA
Statistics
Matches: 135, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 66 0.49
40 56 0.41
41 11 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34644440 original size:46 final size:46
Alignment explanation
Indices: 34644390--34644566 Score: 193
Period size: 47 Copynumber: 3.8 Consensus size: 46
34644380 TGATTGAGCA
34644390 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34644436 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
34644481 CATCCGAACTCGTTGAGTTGAGTCCGAGGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGA-GTTCACTTATGGATGCGAATG
* * *
34644530 -CTTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34644567 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 22
0.77 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 41 0.37
47 46 0.42
48 4 0.04
49 3 0.03
51 4 0.04
52 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34644547 original size:94 final size:93
Alignment explanation
Indices: 34644387--34644559 Score: 294
Period size: 94 Copynumber: 1.8 Consensus size: 93
34644377 GGATGATTGA
*
34644387 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
34644452 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
34644480 GCATCCGAACTCGTTGAGTTGAGTCCGAGGTTCACTTATGGATGCGAACG-CTTGAGCTCGTTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGA-GTTCACTTATGGATGCGAACGTC-CGAACTCGTTGA
34644544 GTTGAGTCCGAGTTCG
64 GTTGAGTCCGAGTTCG
34644560 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
93 29 0.39
94 46 0.61
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34646132 original size:40 final size:40
Alignment explanation
Indices: 34646088--34646310 Score: 371
Period size: 40 Copynumber: 5.6 Consensus size: 40
34646078 GCTACTAGCT
*
34646088 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
34646128 CAAATGCCTTCGGGACTTAGCCCGGATATAG-AACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
34646167 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
34646207 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
34646247 CAAATGCCTTCGGG-CTTATCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
34646286 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
34646311 TTATCAATCC
Statistics
Matches: 173, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
38 1 0.01
39 72 0.42
40 100 0.58
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:34646186 original size:79 final size:79
Alignment explanation
Indices: 34646088--34646310 Score: 360
Period size: 79 Copynumber: 2.8 Consensus size: 79
34646078 GCTACTAGCT
34646088 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
34646153 ATATAG-AACTCGGA
65 ATATAGTAACTCGCA
34646167 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
34646232 ATATAGTAACTCGCA
65 ATATAGTAACTCGCA
* * * *
34646247 CAAATGCCTTCGGG-CTTATCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
34646311 TTATCAATCC
Statistics
Matches: 136, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
78 1 0.01
79 114 0.84
80 21 0.15
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TATAGTAACTCGCA
Found at i:34646289 original size:119 final size:119
Alignment explanation
Indices: 34646088--34646310 Score: 369
Period size: 119 Copynumber: 1.9 Consensus size: 119
34646078 GCTACTAGCT
*
34646088 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
34646153 ATATAGAACTCGGACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
66 ATATAGAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
34646207 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTATCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
34646271 A-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
66 ATA-TAG-AACTAGCACAAATGCCTTCGGGACTTAGCCCGG
34646311 TTATCAATCC
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
117 1 0.01
118 13 0.13
119 83 0.86
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:34647508 original size:53 final size:54
Alignment explanation
Indices: 34647433--34647557 Score: 198
Period size: 53 Copynumber: 2.3 Consensus size: 54
34647423 CTCAAAGCTC
*
34647433 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTT-TT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTT
*
34647486 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAGCAACATGAGAGCTTCTT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTT
*
34647540 TTCTTTCCTTTTTTTTTC
1 TT-TTT-CTTTCTTTTTC
34647558 ATCATCATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
53 49 0.74
54 4 0.06
55 3 0.05
56 10 0.15
ACGTcount: A:0.15, C:0.22, G:0.10, T:0.52
Consensus pattern (54 bp):
TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTCTT
Found at i:34650633 original size:45 final size:45
Alignment explanation
Indices: 34650567--34650868 Score: 186
Period size: 45 Copynumber: 6.7 Consensus size: 45
34650557 ATTATTGACA
* ** * *
34650567 CCATGTCCCAAACATGGTCTTACACTAGCTCTCTTCTCAATG-CGAGG
1 CCATGT-CC-AACATGGTCTTACACTGGCTCTC-AATCAACGCCAAGG
* *
34650614 CCATGTCCAACATGGTCTTACACTGGCTCACAATCAACGCCAATG
1 CCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGCCAAGG
* *** *
34650659 CCATGTCCAACATGTTCTTACACTGGCTCTCGTAAT-GTGGCC-GGTG
1 CCATGTCCAACATGGTCTTACACTGGCTCTC--AATCAACGCCAAG-G
* * ** **
34650705 CCATGTCCAACATGGTCTTACACTGGCTCACAA-CAACACTGATT
1 CCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGCCAAGG
* * * ** * *
34650749 TCATGTCTAGCATGGTCTTACACTGGCTCTCGTAAT--GTGCCGATG
1 CCATGTCCAACATGGTCTTACACTGGCTCTC--AATCAACGCCAAGG
* * * * * *
34650794 CCATGTCCAACATGGTCTTATACTGGCTCACAGTCAACGTCGATG
1 CCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGCCAAGG
* *
34650839 CCATGTGCAACAT-GTCTTACACTGACTCTC
1 CCATGTCCAACATGGTCTTACACTGGCTCTC
34650869 GTAATATGGC
Statistics
Matches: 198, Mismatches: 46, Indels: 25
0.74 0.17 0.09
Matches are distributed among these distances:
43 2 0.01
44 49 0.25
45 101 0.51
46 37 0.19
47 9 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
CCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGCCAAGG
Found at i:34650856 original size:89 final size:88
Alignment explanation
Indices: 34650613--34650892 Score: 368
Period size: 89 Copynumber: 3.1 Consensus size: 88
34650603 TCAATGCGAG
* *
34650613 GCCATGTCCAACATGGTCTTACACTGGCTCACAATCAACGCCAATGCCATGTCCAACATGTTCTT
1 GCCATGTCCAACATGGTCTTACACTGGCTCAC-ATCAACGACGATGCCATGT-CAACATG-TCTT
*
34650678 ACACTGGCTCTCGTAATGTGGCCGGT
63 ACACTGGCTCTCGTAATGTGGCCGAT
* ** *
34650704 GCCATGTCCAACATGGTCTTACACTGGCTCACAACAAC-ACTGATTTCATGTCTAGCATGGTCTT
1 GCCATGTCCAACATGGTCTTACACTGGCTCACATCAACGAC-GATGCCATGTC-AACAT-GTCTT
34650768 ACACTGGCTCTCGTAATGT-GCCGAT
63 ACACTGGCTCTCGTAATGTGGCCGAT
* *
34650793 GCCATGTCCAACATGGTCTTATACTGGCTCACAGTCAACGTCGATGCCATGTGCAACATGTCTTA
1 GCCATGTCCAACATGGTCTTACACTGGCTCACA-TCAACGACGATGCCATGT-CAACATGTCTTA
* *
34650858 CACTGACTCTCGTAATATGGCCGAT
64 CACTGGCTCTCGTAATGTGGCCGAT
34650883 G-CATGTCCAA
1 GCCATGTCCAA
34650893 TGTGGTTTAA
Statistics
Matches: 167, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
89 70 0.42
90 62 0.37
91 35 0.21
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (88 bp):
GCCATGTCCAACATGGTCTTACACTGGCTCACATCAACGACGATGCCATGTCAACATGTCTTACA
CTGGCTCTCGTAATGTGGCCGAT
Found at i:34650883 original size:45 final size:46
Alignment explanation
Indices: 34650613--34650892 Score: 263
Period size: 45 Copynumber: 6.2 Consensus size: 46
34650603 TCAATGCGAG
* *
34650613 GCCATGTCCAACATGGTCTTACACTGGCTCAC--AATCAACGCCAAT
1 GCCATGTCCAACATGGTCTTACACTGGCTCACGTAAT-ATCGCCGAT
* * * * *
34650658 GCCATGTCCAACATGTTCTTACACTGGCTCTCGTAATGTGGCCGGT
1 GCCATGTCCAACATGGTCTTACACTGGCTCACGTAATATCGCCGAT
* * * *
34650704 GCCATGTCCAACATGGTCTTACACTGGCTCAC--AACAACACTGAT
1 GCCATGTCCAACATGGTCTTACACTGGCTCACGTAATATCGCCGAT
** * * * *
34650748 TTCATGTCTAGCATGGTCTTACACTGGCTCTCGTAATGT-GCCGAT
1 GCCATGTCCAACATGGTCTTACACTGGCTCACGTAATATCGCCGAT
* * *
34650793 GCCATGTCCAACATGGTCTTATACTGGCTCACAGTCA-A-CGTCGAT
1 GCCATGTCCAACATGGTCTTACACTGGCTCAC-GTAATATCGCCGAT
* * * *
34650838 GCCATGTGCAACAT-GTCTTACACTGACTCTCGTAATATGGCCGAT
1 GCCATGTCCAACATGGTCTTACACTGGCTCACGTAATATCGCCGAT
34650883 G-CATGTCCAA
1 GCCATGTCCAA
34650893 TGTGGTTTAA
Statistics
Matches: 184, Mismatches: 43, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
43 3 0.02
44 55 0.30
45 84 0.46
46 39 0.21
47 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCATGTCCAACATGGTCTTACACTGGCTCACGTAATATCGCCGAT
Found at i:34650936 original size:180 final size:180
Alignment explanation
Indices: 34650613--34650950 Score: 466
Period size: 180 Copynumber: 1.9 Consensus size: 180
34650603 TCAATGCGAG
34650613 GCCATGTCCAACATGGTCTTACACTGGCTCACAATCAACGCCAATGCCATGTCCAACATGTTCTT
1 GCCATGTCCAACATGGTCTTACACTGGCTCACAATCAACGCCAATGCCATGTCCAACATGTTCTT
* * * * *
34650678 ACACTGGCTCTCGTAATGTGGCCGGTGCCATGTCCAACATGGTCTTACACTGGCTCACAACAACA
66 ACACTGACTCTCGTAATATGGCCGATGCCATGTCCAACATGGTCTTACACTAGCGCACAACAACA
* ** *
34650743 CTGATTTCATGTCTAGCATGGTCTTACACTGGCTCTCGTAATGTGCCGAT
131 CCGATGCCATGTCTAGAATGGTCTTACACTGGCTCTCGTAATGTGCCGAT
* * * * *
34650793 GCCATGTCCAACATGGTCTTATACTGGCTCACAGTCAACGTCGATGCCATGTGCAACATG-TCTT
1 GCCATGTCCAACATGGTCTTACACTGGCTCACAATCAACGCCAATGCCATGTCCAACATGTTCTT
**
34650857 ACACTGACTCTCGTAATATGGCCGATG-CATGTCCAATGTGGT-TTAACACTAGCGCACATATCA
66 ACACTGACTCTCGTAATATGGCCGATGCCATGTCCAACATGGTCTT-ACACTAGCGCACA-A-CA
**
34650920 ATGCCGATGCCATGTCTAGAATGGTCTTACA
128 ACACCGATGCCATGTCTAGAATGGTCTTACA
34650951 ATAGCATACA
Statistics
Matches: 137, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
177 2 0.01
178 24 0.18
179 29 0.21
180 82 0.60
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (180 bp):
GCCATGTCCAACATGGTCTTACACTGGCTCACAATCAACGCCAATGCCATGTCCAACATGTTCTT
ACACTGACTCTCGTAATATGGCCGATGCCATGTCCAACATGGTCTTACACTAGCGCACAACAACA
CCGATGCCATGTCTAGAATGGTCTTACACTGGCTCTCGTAATGTGCCGAT
Found at i:34665209 original size:26 final size:26
Alignment explanation
Indices: 34665168--34665243 Score: 125
Period size: 26 Copynumber: 2.9 Consensus size: 26
34665158 TCTCATCCCT
* *
34665168 ATTTTACCCTTGGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
34665194 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
34665220 ATTTTTCCCCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
34665244 GAAAACATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:34665521 original size:10 final size:10
Alignment explanation
Indices: 34665492--34665524 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
34665482 TTCTCATTTC
34665492 TCATTTCCTAT
1 TCATTT-CTAT
34665503 TCA-TTCTAT
1 TCATTTCTAT
34665512 TCATTTCTAT
1 TCATTTCTAT
34665522 TCA
1 TCA
34665525 AACATGCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.33
10 11 0.52
11 3 0.14
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (10 bp):
TCATTTCTAT
Found at i:34668322 original size:257 final size:257
Alignment explanation
Indices: 34667865--34668361 Score: 742
Period size: 257 Copynumber: 1.9 Consensus size: 257
34667855 AGAAAGTTTA
* * *
34667865 TTCGTAATCGATATGTTATTTTTGAGTATAACATTTTGCTACAAGTCTGTCATTATAAGTTTTTA
1 TTCGTAATCGATATGTTATTTCTGAGTATAACAATTTGCTACAAGTCTGTCATTATAAGTTTGTA
* * * *
34667930 CTTTTCCATCCGTATTTCTTTTCCTCTTGTAGATCCACTTACACCTTATGGGTTTTATCCCTTCT
66 CTTTTCCATCCGCATCTCTTTTCCTCTTGTAGATCCACTTACACCCTATGGGTTTTATCCATTCT
** * * * *
34667995 AGTAAGTATACAAGTTTCCATACTGAGTTGGAATAAATAGAGTCCATCTTAGCTTTTATAGTTAT
131 AGTAAGTATACAAGTCCCCACAATGAGTTGGAATAAATAGAGTCCATCTCAGCTTTCATAGTTAT
* * * *
34668060 TTCCCAGAGACTAGAATTAGCACTCTGCATTATTTCATCATATGTGAGTGCGTTATCATTTC
196 TTCCCAAAGACTAGAATCAACACTCTGCATCATTTCATCATATGTGAGTGCGTTATCATTTC
* *
34668122 TTCGTAATCGATATGTTCTTTCTGAGTATAACAATTTGCTACAAGTCTGTCCTTATAAGTTTGTA
1 TTCGTAATCGATATGTTATTTCTGAGTATAACAATTTGCTACAAGTCTGTCATTATAAGTTTGTA
*
34668187 CTTTTCCATCCGCATCTCTTTTCCTCTTGTAGATCTACTTACACCCTATGGGTTTTATCCATTCT
66 CTTTTCCATCCGCATCTCTTTTCCTCTTGTAGATCCACTTACACCCTATGGGTTTTATCCATTCT
* ** * *
34668252 GGTAAGTATACAAGTCCCCACAATGAGTTGGAATGCATAGAGTGCATCTCAGCTTTCATAGTTGT
131 AGTAAGTATACAAGTCCCCACAATGAGTTGGAATAAATAGAGTCCATCTCAGCTTTCATAGTTAT
** *
34668317 TTCCCAAATCCTAGAATCAACACTCTGCATCGTTTCATCATATGT
196 TTCCCAAAGACTAGAATCAACACTCTGCATCATTTCATCATATGT
34668362 CAGTAGGTCA
Statistics
Matches: 212, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
257 212 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (257 bp):
TTCGTAATCGATATGTTATTTCTGAGTATAACAATTTGCTACAAGTCTGTCATTATAAGTTTGTA
CTTTTCCATCCGCATCTCTTTTCCTCTTGTAGATCCACTTACACCCTATGGGTTTTATCCATTCT
AGTAAGTATACAAGTCCCCACAATGAGTTGGAATAAATAGAGTCCATCTCAGCTTTCATAGTTAT
TTCCCAAAGACTAGAATCAACACTCTGCATCATTTCATCATATGTGAGTGCGTTATCATTTC
Found at i:34675778 original size:27 final size:27
Alignment explanation
Indices: 34675748--34675925 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
34675738 ATATTGAGTC
* *
34675748 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
34675775 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
34675802 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
34675830 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
34675857 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
34675884 CGCGCACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
34675911 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34675926 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34675892 original size:82 final size:81
Alignment explanation
Indices: 34675769--34675924 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
34675759 TGCTATATAA
* *
34675769 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34675834 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
34675851 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCGCACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34675915 CACTTAGTGC
65 CACTTAGTGC
34675925 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34675908 original size:54 final size:54
Alignment explanation
Indices: 34675748--34675924 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
34675738 ATATTGAGTC
* * * *
34675748 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
34675802 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
34675857 CGCACACTTAGTGCATCATATTCATTTCGCGCACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
34675911 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34675925 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 56 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:34677883 original size:23 final size:22
Alignment explanation
Indices: 34677838--34677896 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
34677828 TAAAGGGTGT
* * *
34677838 TTACAAATTAAATC-TCTACGA
1 TTACAAATCATATCTTCTAAGA
34677859 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
* *
34677882 TTGCATATCATATCT
1 TTACAAATCATATCT
34677897 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.13
22 18 0.58
23 9 0.29
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:34682705 original size:23 final size:22
Alignment explanation
Indices: 34682660--34682718 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
34682650 TAAAGGGTGT
* * *
34682660 TTACAAATTAAATC-TCTACGA
1 TTACAAATCATATCTTCTAAGA
34682681 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
* *
34682704 TTGCATATCATATCT
1 TTACAAATCATATCT
34682719 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.13
22 18 0.58
23 9 0.29
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:34684017 original size:11 final size:11
Alignment explanation
Indices: 34684001--34684031 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
34683991 GTCTTCTTTA
34684001 GCTCCATCTCC
1 GCTCCATCTCC
34684012 GCTCCATCTCC
1 GCTCCATCTCC
34684023 GCTTCCATC
1 GC-TCCATC
34684032 GTCAATATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.10, C:0.52, G:0.10, T:0.29
Consensus pattern (11 bp):
GCTCCATCTCC
Found at i:34696897 original size:17 final size:16
Alignment explanation
Indices: 34696875--34696906 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
34696865 TTAATCACTT
34696875 TAATATTAAATTTAATC
1 TAATATT-AATTTAATC
34696892 TAATATTAATTTAAT
1 TAATATTAATTTAAT
34696907 ATTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATATTAATTTAATC
Found at i:34698611 original size:14 final size:15
Alignment explanation
Indices: 34698578--34698609 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
34698568 TATGCATGCA
*
34698578 AAATATAAAAAACAT
1 AAATACAAAAAACAT
34698593 AAATACAAAAAACAT
1 AAATACAAAAAACAT
34698608 AA
1 AA
34698610 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (15 bp):
AAATACAAAAAACAT
Found at i:34701737 original size:40 final size:40
Alignment explanation
Indices: 34701693--34701823 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
34701683 GGACTAAGAT
*
34701693 CCGAAGGCATTTGTGCGAGTTATTAATTCCGAGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
34701733 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
34701773 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
34701813 CCGAAGGCATT
1 CCGAAGGCATT
34701824 GTATGAGTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 80 0.99
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:34701844 original size:39 final size:38
Alignment explanation
Indices: 34701693--34701860 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 38
34701683 GGACTAAGAT
* * *
34701693 CCGAAGGCATTTGTGCGAGTTATTAATTCCGAGTTAAGTC
1 CCGAAGGCA-TTGTGCGAGTTACTAA-ACCGGGTTAAGTC
* * *
34701733 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAA-ACCGGGTTAAGTC
*
34701773 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATT-GTGCGAGTTACT-AAA-CCGGGTTAAGTC
** * *
34701813 CCGAAGGCATTGTATGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTA-AACCGGGTTAAGTC
34701852 CCGAAGGCA
1 CCGAAGGCA
34701861 CTTGAACGAG
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
39 31 0.28
40 77 0.71
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGAAGGCATTGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:34709638 original size:40 final size:40
Alignment explanation
Indices: 34709594--34709724 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
34709584 GGACTAAGAT
*
34709594 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCAGGTTAAGTC
* * *
34709634 CCGAAGGCCTTTGTGCGAGATACTAATTCCAGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCAGGTTAAGTC
* * * *
34709674 CCGAAGGCAATCGTGTGAGTT-TTAAAATCCAGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCAGGTTAAGTC
34709714 CCGAAGGCATT
1 CCGAAGGCATT
34709725 GTATGAGTTA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 77 0.99
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCAGGTTAAGTC
Found at i:34712912 original size:53 final size:52
Alignment explanation
Indices: 34712837--34712946 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 52
34712827 GATAAACTAC
* * *
34712837 TATAAGACAAAGATCCCATGTAAGACCATGACAAGGCAT-GACAATGGTGAGT
1 TATAAGACAAAGATACCATGTAAGACCATGACAAGACATGGA-AATGGTAAGT
* * *
34712889 TCATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGAAATGGTAAGT
1 T-ATAAGACAAAGATACCATGTAAGACCATGACAAGACATGGAAATGGTAAGT
34712942 TATAA
1 TATAA
34712947 AAGGGAAAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
52 5 0.10
53 43 0.86
54 2 0.04
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (52 bp):
TATAAGACAAAGATACCATGTAAGACCATGACAAGACATGGAAATGGTAAGT
Found at i:34720368 original size:53 final size:54
Alignment explanation
Indices: 34720199--34720401 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 54
34720189 GGGTTTAAGA
* * * * *
34720199 ATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAATAAGGCAAGG
* * * * * * ** **
34720253 AAATCATGTAAGACCATGTCAAGACATGACATTGATAA-ACCAATATAAGGCAAAT
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTC-A-ATAAGGCAAGG
* * *
34720308 ATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAATAAGGCAAGG
*
34720361 ATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
34720402 TAAAAAAGGA
Statistics
Matches: 116, Mismatches: 30, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
53 47 0.41
54 31 0.27
55 37 0.32
56 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (54 bp):
ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAATAAGGCAAGG
Found at i:34722329 original size:33 final size:34
Alignment explanation
Indices: 34722237--34722329 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 34
34722227 TCTTAGTTAA
* *
34722237 GGCCTTAGCCCATTTCAGTAACAGTAGTAGTCTG
1 GGCCTAAGCCCATTTCAGTAACAGTAGTAGTCGG
* *
34722271 GGCCTGAGCCCATTTCAATAACAGTA-TCAGT-GG
1 GGCCTAAGCCCATTTCAGTAACAGTAGT-AGTCGG
* *
34722304 GGCCTAAGCCCATTACAGTATCAGTA
1 GGCCTAAGCCCATTTCAGTAACAGTA
34722330 CAATATGCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.47
34 27 0.53
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (34 bp):
GGCCTAAGCCCATTTCAGTAACAGTAGTAGTCGG
Found at i:34728294 original size:35 final size:35
Alignment explanation
Indices: 34728248--34728316 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
34728238 CAGGCAATAC
34728248 TAAAACAGGAGCTTCAGTTAACAGTGTCTTTAACT
1 TAAAACAGGAGCTTCAGTTAACAGTGTCTTTAACT
* *
34728283 TAAAATAGGAGCTTCAGTTAATAGTGTCTTTAAC
1 TAAAACAGGAGCTTCAGTTAACAGTGTCTTTAAC
34728317 CTCTCAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (35 bp):
TAAAACAGGAGCTTCAGTTAACAGTGTCTTTAACT
Found at i:34738074 original size:23 final size:23
Alignment explanation
Indices: 34738042--34738088 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
34738032 TTTTGGTTGG
*
34738042 TTTGGCCATGGAGAGAGCTTTTA
1 TTTGGACATGGAGAGAGCTTTTA
34738065 TTTGGACATGGAGAGAGCTTTTA
1 TTTGGACATGGAGAGAGCTTTTA
34738088 T
1 T
34738089 CCCTATCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.11, G:0.30, T:0.36
Consensus pattern (23 bp):
TTTGGACATGGAGAGAGCTTTTA
Found at i:34740670 original size:42 final size:42
Alignment explanation
Indices: 34740564--34740728 Score: 170
Period size: 43 Copynumber: 3.9 Consensus size: 42
34740554 TTTCGATATG
* * * *
34740564 TGATATCGTGTAAGACCACATCTGGGACGTTGGCATTGACTTT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAC-TT
* * *
34740607 TGTTTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA-TC
1 TGATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCG-ACTT
* *
34740650 TGATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGACGTT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAC-TT
* * **
34740693 TGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
34740729 TGTATATGCT
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 31 0.30
43 41 0.40
44 28 0.27
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTT
Found at i:34752260 original size:37 final size:37
Alignment explanation
Indices: 34752154--34752262 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
34752144 AGGTCAGACG
* * * *
34752154 AAATCTCCACACGAAGTTATCGGGTTTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
34752191 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
34752228 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
34752263 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:34762696 original size:20 final size:20
Alignment explanation
Indices: 34762673--34762732 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
34762663 GGGTATCGAA
*
34762673 GTACAAATAGGGGCACGTAT
1 GTACAAACAGGGGCACGTAT
* *
34762693 GTACAAACAGGGGTACCG-AA
1 GTACAAACAGGGGCA-CGTAT
34762713 GTACAAACAGGGGCACGTAT
1 GTACAAACAGGGGCACGTAT
34762733 CAAAGCTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.15
Consensus pattern (20 bp):
GTACAAACAGGGGCACGTAT
Found at i:34767880 original size:40 final size:40
Alignment explanation
Indices: 34767783--34768046 Score: 261
Period size: 40 Copynumber: 6.7 Consensus size: 40
34767773 TTGAATGCTG
* * * *
34767783 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ATTAAA
** *
34767823 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATA-CAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATATTAAA
* * *
34767862 TTCCAGGTTAAGCCCCGAAGGCCTTTGTGCGAGATATTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATTAAA
* *
34767903 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATT-AA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATTAAA
* *
34767942 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATTAAA
* * * *
34767982 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATTAAA
* * *
34768021 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
34768047 AACGAGGAGC
Statistics
Matches: 195, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
39 75 0.38
40 106 0.54
41 13 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATTAAA
Found at i:34767979 original size:79 final size:78
Alignment explanation
Indices: 34767783--34768046 Score: 280
Period size: 79 Copynumber: 3.3 Consensus size: 78
34767773 TTGAATGCTG
* * * * **
34767783 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCA-
* *
34767846 TTGTGCGAGATACAAA
63 TTGTGCGAGTTATAAA
* * * * *
34767862 TTCCAGGTTAAGCCCCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
*
34767927 CGTGCGAGTTATTAA
65 -GTGCGAGTTATAAA
* * *
34767942 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
*
34768007 TGTGAGTTACTAAA
66 TGCGAGTTA-TAAA
* *
34768021 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34768047 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
78 9 0.06
79 86 0.55
80 53 0.34
81 7 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTATAAA
Found at i:34768064 original size:79 final size:79
Alignment explanation
Indices: 34767899--34768079 Score: 206
Period size: 79 Copynumber: 2.3 Consensus size: 79
34767889 TGCGAGATAT
* * *
34767899 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGGCA
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATAAAACCGGGCTAAGTCCCGAAGGCA
** * *
34767964 TTCGTGCGAGTTAT
66 TTCGAACGAGTGAC
* * *
34767978 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TAAAACCGGGCTAAGTCCCGAAGGC
*
34768042 ATTTGAACGAG-GAGC
65 ATTCGAACGAGTGA-C
* *
34768057 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
34768080 TACGTGATTT
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 24 0.28
79 62 0.72
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATAAAACCGGGCTAAGTCCCGAAGGCA
TTCGAACGAGTGAC
Found at i:34769591 original size:45 final size:45
Alignment explanation
Indices: 34769475--34769592 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 45
34769465 ATATAATGTT
* * *
34769475 ATAGTGTCTTTCAACTATTGTCTTACACGTTTGAGTCGTGATGCC
1 ATAGTGTCTTTCAGCTATAGTCTTACTCGTTTGAGTCGTGATGCC
* * * *
34769520 ATAGTGTCTTTTAGCTATAGTCTTACTCGTTTGATTCGTGCTGTC
1 ATAGTGTCTTTCAGCTATAGTCTTACTCGTTTGAGTCGTGATGCC
* *
34769565 ATATTGTCTTTCAGCTATGGTCTTACTC
1 ATAGTGTCTTTCAGCTATAGTCTTACTC
34769593 ATATTTCAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (45 bp):
ATAGTGTCTTTCAGCTATAGTCTTACTCGTTTGAGTCGTGATGCC
Found at i:34774423 original size:21 final size:25
Alignment explanation
Indices: 34774399--34774456 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 25
34774389 TTTTTGTACG
34774399 AAATTACTAAAATT-CTT-A-AA-A
1 AAATTACTAAAATTCCTTAATAATA
*
34774420 AAATGACT-AAATTCCTTAATAATA
1 AAATTACTAAAATTCCTTAATAATA
*
34774444 AAATTACCAAAAT
1 AAATTACTAAAAT
34774457 CTTTTATAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 5 0.17
21 10 0.34
22 1 0.03
23 2 0.07
24 7 0.24
25 4 0.14
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (25 bp):
AAATTACTAAAATTCCTTAATAATA
Found at i:34774673 original size:20 final size:20
Alignment explanation
Indices: 34774626--34774673 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
34774616 AGATTAACTC
* *
34774626 AATCTCTTCCAAATTTACTG
1 AATCTCTTACAAAATTACTG
* * *
34774646 GATTTCTTACAAAATTAGTG
1 AATCTCTTACAAAATTACTG
34774666 AATCTCTT
1 AATCTCTT
34774674 GTAGTATTAT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (20 bp):
AATCTCTTACAAAATTACTG
Found at i:34774779 original size:24 final size:25
Alignment explanation
Indices: 34774752--34774825 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
34774742 AAAATTATCC
34774752 AAAATATTTAATTTCTTACAA-ATT
1 AAAATATTTAATTTCTTACAACATT
* *
34774776 AAAATTATTAAATCTCTTACAACATT
1 AAAA-TATTTAATTTCTTACAACATT
** * *
34774802 TTAAT-TTTAATTTATTAAAACATT
1 AAAATATTTAATTTCTTACAACATT
34774826 GTAAATTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 19 0.47
25 16 0.40
26 5 0.12
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.46
Consensus pattern (25 bp):
AAAATATTTAATTTCTTACAACATT
Found at i:34775262 original size:43 final size:43
Alignment explanation
Indices: 34775215--34775305 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
34775205 GAACATGACA
*
34775215 TTTAGCAACGCTTCTCA-TAAAAACGCTGCTAAATGTCATGTTC
1 TTTAGCAACG-TTCTCAGTAAAAACGCCGCTAAATGTCATGTTC
** * * * *
34775258 TTTAGCGGCGTTTTTAGTAACAGCGCCGCTAAATGTCATGTTC
1 TTTAGCAACGTTCTCAGTAAAAACGCCGCTAAATGTCATGTTC
34775301 TTTAG
1 TTTAG
34775306 TGACACTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 4 0.10
43 36 0.90
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (43 bp):
TTTAGCAACGTTCTCAGTAAAAACGCCGCTAAATGTCATGTTC
Found at i:34775316 original size:43 final size:43
Alignment explanation
Indices: 34775232--34775350 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 43
34775222 ACGCTTCTCA
* * ** *
34775232 TAAAAACGCTGCTAAATGTCATGTTCTTTAGCGGCGTTTTTAG
1 TAAAAACGCCGCTAAATGTCATGTTCTTTAGCGACACTTTTAC
* * *
34775275 TAACAGCGCCGCTAAATGTCATGTTCTTTAGTGACACTTTTAC
1 TAAAAACGCCGCTAAATGTCATGTTCTTTAGCGACACTTTTAC
* * * *
34775318 TAAAAATGTCGCGAAAGGTCATGTTCTTTAGCG
1 TAAAAACGCCGCTAAATGTCATGTTCTTTAGCG
34775351 GCATTTGTGG
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (43 bp):
TAAAAACGCCGCTAAATGTCATGTTCTTTAGCGACACTTTTAC
Found at i:34775699 original size:66 final size:65
Alignment explanation
Indices: 34775623--34775756 Score: 180
Period size: 66 Copynumber: 2.0 Consensus size: 65
34775613 ATTTTGAAGC
* * * * *
34775623 TGTAGCTGGAGTTCGTCATATTTTCTGCTT-GCCTCTGTTTCTCTCGCTGCTACCTCTGCTTTGA
1 TGTAGCTGGAGTTCATCATATTTTCT--TTAGCCTCTGCTTCTCTCGATGCTACCTCCGCTTTAA
34775687 GT
64 GT
*
34775689 TGTAGCTGGAGTTCATCATATTTTCTTTGAGCCTCTGCTTCTCTCGATGCTGCCTCCGCTTTAAG
1 TGTAGCTGGAGTTCATCATATTTTCTTT-AGCCTCTGCTTCTCTCGATGCTACCTCCGCTTTAAG
34775754 T
65 T
34775755 TG
1 TG
34775757 AGCAATTTGC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
64 2 0.03
66 58 0.97
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.43
Consensus pattern (65 bp):
TGTAGCTGGAGTTCATCATATTTTCTTTAGCCTCTGCTTCTCTCGATGCTACCTCCGCTTTAAGT
Found at i:34781665 original size:28 final size:29
Alignment explanation
Indices: 34781634--34781734 Score: 86
Period size: 28 Copynumber: 3.5 Consensus size: 29
34781624 TTATTCCTAC
34781634 AATT-ATCATAAAATATGATTATTTATTT
1 AATTAATCATAAAATATGATTATTTATTT
* * *
34781662 AATTAATC-GAAAATA-AATTAATTATTCAT
1 AATTAATCATAAAATATGATTATTTATT--T
* *
34781691 AGAATT-ATTATGAAATATGATTATTTATTT
1 --AATTAATCATAAAATATGATTATTTATTT
34781721 AATTAATCA-AAAAT
1 AATTAATCATAAAAT
34781735 TAATTAATTA
Statistics
Matches: 55, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
27 9 0.16
28 18 0.33
29 7 0.13
30 3 0.05
31 9 0.16
32 9 0.16
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.44
Consensus pattern (29 bp):
AATTAATCATAAAATATGATTATTTATTT
Found at i:34781675 original size:59 final size:59
Alignment explanation
Indices: 34781528--34781898 Score: 454
Period size: 59 Copynumber: 6.4 Consensus size: 59
34781518 TATGATAATC
* * * *
34781528 ATTATGAAATATGATCATTTA--T--TTAACCGAAGATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * *
34781583 ATTATGAAACATGATTATTTA--T--TTAATCTAAAATAAATTAATTATTCCTACAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * *
34781638 ATCATAAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * *
34781697 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCGTATAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * *
34781756 ATTATGATATAAGAATA-TTATTTAATTAATCTAAAATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * * *
34781814 ATTATGAAATATGGTTATTTATTTAATTAATTAAAAATTAATTAATTATTCGTATAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* *
34781873 ATTATGAAATAAGAATATTTATTTAA
1 ATTATGAAATATGATTATTTATTTAA
34781899 AGTTTCTTCA
Statistics
Matches: 273, Mismatches: 38, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
55 66 0.24
57 1 0.00
58 50 0.18
59 156 0.57
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (59 bp):
ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
Found at i:34781815 original size:117 final size:118
Alignment explanation
Indices: 34781544--34781898 Score: 531
Period size: 117 Copynumber: 3.1 Consensus size: 118
34781534 AAATATGATC
* * * *
34781544 ATTTATTTAACCGAAGATAAATTAATTATTCATAGAATTATTATGAAACATGATTATTTA--T--
1 ATTTAATTAATCGAAAATAAATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTAA
* * * * * * * *
34781605 TTAATCTAAAATAAATTAATTATTCCTACAATTATCATAAAATATGATTATTT
66 TTAATCAAAAATTAATTAATTATTCGTATAATTATTATGAAATAAGAATATTT
34781658 ATTTAATTAATCGAAAATAAATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTAA
1 ATTTAATTAATCGAAAATAAATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTAA
*
34781723 TTAATCAAAAATTAATTAATTATTCGTATAATTATTATGATATAAGAATA-TT
66 TTAATCAAAAATTAATTAATTATTCGTATAATTATTATGAAATAAGAATATTT
* *
34781775 ATTTAATTAATCTAAAATAAATTAATTATTCATAGAATTATTATGAAATATGGTTATTTATTTAA
1 ATTTAATTAATCGAAAATAAATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTAA
*
34781840 TTAATTAAAAATTAATTAATTATTCGTATAATTATTATGAAATAAGAATATTT
66 TTAATCAAAAATTAATTAATTATTCGTATAATTATTATGAAATAAGAATATTT
34781893 ATTTAA
1 ATTTAA
34781899 AGTTTCTTCA
Statistics
Matches: 219, Mismatches: 17, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
114 56 0.26
116 1 0.00
117 113 0.52
118 49 0.22
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.45
Consensus pattern (118 bp):
ATTTAATTAATCGAAAATAAATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTAA
TTAATCAAAAATTAATTAATTATTCGTATAATTATTATGAAATAAGAATATTT
Found at i:34781826 original size:176 final size:173
Alignment explanation
Indices: 34781563--34781898 Score: 485
Period size: 176 Copynumber: 1.9 Consensus size: 173
34781553 ACCGAAGATA
* *
34781563 AATTAATTATTCATAGAATTATTATGAAACATGATTATTTATTTAATCTAAAATAAATTAATTAT
1 AATTAATTATTCATAGAATTATTATGAAAAATGATTATTTAATTAATCTAAAATAAATTAATTAT
* *
34781628 TCCTACAATTATCATAAAATATGATTATTTATTTAATTAATCGAAAATAAATTAATTATTCATAG
66 TCATACAATTATCATAAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAG
* *
34781693 AATTATTATGAAATATGATTATTTATTTAATTAATCAAAAATT
131 AATTATTATGAAATAAGAATATTTATTTAATTAATCAAAAATT
* *
34781736 AATTAATTATTCGTATAATTATTATGATATAAGAAT-ATTATTTAATTAATCTAAAATAAATTAA
1 AATTAATTATTCATAGAATTATTATG--A-AA-AATGATTATTTAATTAATCTAAAATAAATTAA
* * * * * *
34781800 TTATTCATAGAATTATTATGAAATATGGTTATTTATTTAATTAATTAAAAATTAATTAATTATTC
62 TTATTCATACAATTATCATAAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTC
* *
34781865 GTATAATTATTATGAAATAAGAATATTTATTTAA
127 ATAGAATTATTATGAAATAAGAATATTTATTTAA
34781899 AGTTTCTTCA
Statistics
Matches: 143, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
173 24 0.17
175 1 0.01
176 116 0.81
177 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (173 bp):
AATTAATTATTCATAGAATTATTATGAAAAATGATTATTTAATTAATCTAAAATAAATTAATTAT
TCATACAATTATCATAAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAG
AATTATTATGAAATAAGAATATTTATTTAATTAATCAAAAATT
Found at i:34795045 original size:17 final size:17
Alignment explanation
Indices: 34795013--34795046 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34795003 TCTTATTGAC
*
34795013 ATTAAACTCCTAAATAA
1 ATTAAACTACTAAATAA
*
34795030 ATTAAACTACTTAATAA
1 ATTAAACTACTAAATAA
34795047 TTATTAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTAAACTACTAAATAA
Found at i:34799433 original size:149 final size:149
Alignment explanation
Indices: 34799163--34799449 Score: 493
Period size: 149 Copynumber: 1.9 Consensus size: 149
34799153 CCAAATGCTT
* *
34799163 TCCTAAGTATAAAAACATGAATCTAAAGGATTAGAAGCATCGAATTTATCATTAACATTGAATAA
1 TCCTAAGTATAAAAACATGAATCTAAAGGATTAAAAGCATCAAATTTATCATTAACATTGAATAA
*
34799228 TCACCCAAAAACGCATTAAGAATTAGATTAAAACATGTTACTTTTAGCATTTATCAAATATCCCC
66 TCACCCAAAAACGCATTAAGAATTAGATTAAAACATGTTACTTTTAGCACTTATCAAATATCCCC
34799293 ACACTTAAACGTTTGTTTC
131 ACACTTAAACGTTTGTTTC
*
34799312 TCCTAAGTATAAAAACATGAATTTAAAGGATTAAAAGCATCAAATTTATCATTAACATTGAATAA
1 TCCTAAGTATAAAAACATGAATCTAAAGGATTAAAAGCATCAAATTTATCATTAACATTGAATAA
* * * *
34799377 TCAGCCAAAAATGCATTAAGAGTTAGATTAAAACATGTTACTTTTAGCACTTATCAAATATCCCG
66 TCACCCAAAAACGCATTAAGAATTAGATTAAAACATGTTACTTTTAGCACTTATCAAATATCCCC
*
34799442 ATACTTAA
131 ACACTTAA
34799450 GCGCTTGCTT
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
149 129 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (149 bp):
TCCTAAGTATAAAAACATGAATCTAAAGGATTAAAAGCATCAAATTTATCATTAACATTGAATAA
TCACCCAAAAACGCATTAAGAATTAGATTAAAACATGTTACTTTTAGCACTTATCAAATATCCCC
ACACTTAAACGTTTGTTTC
Found at i:34801004 original size:22 final size:22
Alignment explanation
Indices: 34800960--34801004 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34800950 AAACCGACAA
* * **
34800960 AATAATAAAAATAACAATGCAT
1 AATAAAAAAAAAAACAAAACAT
34800982 AATAAAAAAAAAAACAAAACAT
1 AATAAAAAAAAAAACAAAACAT
34801004 A
1 A
34801005 TAAGTCTAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.73, C:0.09, G:0.02, T:0.16
Consensus pattern (22 bp):
AATAAAAAAAAAAACAAAACAT
Found at i:34804344 original size:39 final size:40
Alignment explanation
Indices: 34804301--34804468 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
34804291 CTCGTTCAAG
* * * *
34804301 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
34804340 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
34804380 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
34804420 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
34804460 TGCCTTCGG
1 TGCCTTCGG
34804469 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:34804452 original size:80 final size:80
Alignment explanation
Indices: 34804336--34804521 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
34804326 AGTAACTCAT
* * *
34804336 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
34804400 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
34804415 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
34804479 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
34804496 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
34804522 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:34804481 original size:40 final size:40
Alignment explanation
Indices: 34804338--34804521 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
34804328 TAACTCATAC
* *
34804338 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
34804378 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
34804418 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
34804458 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
34804499 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34804522 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:34812273 original size:40 final size:38
Alignment explanation
Indices: 34812224--34812352 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 38
34812214 TAACTCATAC
*
34812224 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA--TTAAAACTCGCACA
* *
34812264 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTA-AAACTCGCACA
* *
34812304 AAGGCCTTCGGGACTT-ACCCGGAATAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTAA-AACTCGCACA
34812342 AATGCCTTCGG
1 AATGCCTTCGG
34812353 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
38 22 0.28
39 9 0.12
40 46 0.59
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAACCCGGATTAAAACTCGCACA
Done.