Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 152 of 325
Found at i:48223840 original size:27 final size:27
Alignment explanation
Indices: 48223810--48223895 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 27
48223800 GTAAATCTAC
48223810 AAACCAATGGTATTTCAGTAATTTTGT
1 AAACCAATGGTATTTCAGTAATTTTGT
48223837 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAATGGTATTTC-AGTAATTTTGT
* *
48223863 AGAAAGTCAAGGGTATTT-ATGTAATTTTGT
1 --AAA-CCAATGGTATTTCA-GTAATTTTGT
48223893 AAA
1 AAA
48223896 TTAGGGGTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
26 1 0.02
27 24 0.48
28 7 0.14
29 17 0.34
30 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (27 bp):
AAACCAATGGTATTTCAGTAATTTTGT
Found at i:48223913 original size:27 final size:27
Alignment explanation
Indices: 48223873--48224023 Score: 178
Period size: 27 Copynumber: 5.6 Consensus size: 27
48223863 AGAAAGTCAA
** *
48223873 GGGTATTTAT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
* *
48223900 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
48223927 GGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
48223954 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
48223981 GAGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
48224008 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
48224024 CTGTCCTATA
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 106 0.99
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:48223990 original size:81 final size:81
Alignment explanation
Indices: 48223874--48224023 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
48223864 GAAAGTCAAG
* ** * * *
48223874 GGTATTTATGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGT
1 GGTATTTAGGTAATTTTACAAACTAGGAGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGT
48223939 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
* *
48223955 GGTATTTCGGTAATTTTACAAACTAGGAGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGT
1 GGTATTTAGGTAATTTTACAAACTAGGAGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGT
48224020 AATT
66 AATT
48224024 CTGTCCTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (81 bp):
GGTATTTAGGTAATTTTACAAACTAGGAGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGT
AATTTCACAAACCAGT
Found at i:48224091 original size:27 final size:27
Alignment explanation
Indices: 48224054--48224334 Score: 303
Period size: 27 Copynumber: 10.4 Consensus size: 27
48224044 GTAATTTCAC
* * *
48224054 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
48224081 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* **
48224108 AATTGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
***
48224135 AATCGAGGGTACTTTGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
48224162 AATCGAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
48224189 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
48224216 AATTGAGGGTGAAATAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
48224243 AATCAAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
48224270 AATCGAAGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * * *
48224297 AATAGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
48224324 AATCAAGGGTA
1 AATCGAGGGTA
48224335 CTTTGGTAAT
Statistics
Matches: 216, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.00
27 215 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:48225954 original size:21 final size:20
Alignment explanation
Indices: 48225911--48225955 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
48225901 CTATGATTAT
* *
48225911 TAAGTCTCTATTTCTGTGGC
1 TAAGTCTCTATTTATGTAGC
*
48225931 TAAGTACTCTATTTATGTATC
1 TAAGT-CTCTATTTATGTAGC
48225952 TAAG
1 TAAG
48225956 ATTGGAGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (20 bp):
TAAGTCTCTATTTATGTAGC
Found at i:48229007 original size:27 final size:27
Alignment explanation
Indices: 48228976--48229153 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48228966 TAAATTGTAC
48228976 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48229003 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48229029 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48229057 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
48229085 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48229112 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48229139 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48229154 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48229090 original size:82 final size:81
Alignment explanation
Indices: 48228977--48229132 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48228967 AAATTGTACA
* *
48228977 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
48229041 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
48229058 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
48229123 TGCGAGTTGA
65 TGCGAATTGA
48229133 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48229144 original size:82 final size:81
Alignment explanation
Indices: 48228973--48229153 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
48228963 GATTAAATTG
* *
48228973 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
48229038 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
48229054 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
48229118 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48229136 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48229154 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48237059 original size:27 final size:27
Alignment explanation
Indices: 48237001--48237176 Score: 155
Period size: 27 Copynumber: 6.5 Consensus size: 27
48236991 AAATTGTACA
*
48237001 GCACTAAGTGTGCG-ATTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGAT
* *
48237027 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGAT
* **
48237054 GCACTAAGTGT-CGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGAT
*
48237080 GCACTAAGTGTGCGAGTTTGACTATG-T
1 GCACTAAGTGTGCGA-ATTGACTATGAT
* * *
48237107 AGCACTAAAGTGTGCGATTTGATTACG-T
1 -GCACT-AAGTGTGCGAATTGACTATGAT
* *
48237135 AGCACTAAGTGTGCGAGTTGATTAT-AT
1 -GCACTAAGTGTGCGAATTGACTATGAT
*
48237162 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
48237177 GACTCAATAT
Statistics
Matches: 128, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
26 35 0.27
27 55 0.43
28 28 0.22
29 10 0.08
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGAT
Found at i:48237060 original size:53 final size:54
Alignment explanation
Indices: 48237000--48237176 Score: 182
Period size: 53 Copynumber: 3.3 Consensus size: 54
48236990 TAAATTGTAC
* *
48237000 AGCACTAAGTGTGCGATTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
* ** * *
48237054 -GCACTAAGTGT-CGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGA-ATTGAATATGAT
* * * *
48237107 AGCACTAAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACT-AAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
*
48237162 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48237177 GACTCAATAT
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
52 2 0.02
53 36 0.35
54 20 0.20
55 21 0.21
56 23 0.23
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
Found at i:48248088 original size:68 final size:68
Alignment explanation
Indices: 48248007--48248218 Score: 181
Period size: 68 Copynumber: 3.1 Consensus size: 68
48247997 TATGGGAAAT
48248007 TGTAAGTTCATATGATTTTTAATAAGGCAATGTGTAATTTAATGTTATTGCCTTGATATTAAATG
1 TGTAAGTTCATATGATTTTTAATAAGGCAATGTGTAATTTAATGTTATTGCCTTGATATTAAATG
48248072 AGA
66 AGA
* ** *
48248075 TGTAAG-TCTATATGCATTGAATTATCATACA-TAAATGTG--ATTTCTATGATTA-TG----GA
1 TGTAAGTTC-ATATG-ATT---TT-TAATA-AGGCAATGTGTAATTT-AATG-TTATTGCCTTGA
*** *
48248131 TATTATGGGAAA
57 TATTAAATGAGA
* *
48248143 TTGTAAGTTCATATTATTTTTAATAAGGCAATGTGTAATTTAATGTTATTACCTTGATATTAAAT
1 -TGTAAGTTCATATGATTTTTAATAAGGCAATGTGTAATTTAATGTTATTGCCTTGATATTAAAT
48248208 GAGA
65 GAGA
48248212 TGTAAGT
1 TGTAAGT
48248219 CTATATGTAA
Statistics
Matches: 107, Mismatches: 18, Indels: 38
0.66 0.11 0.23
Matches are distributed among these distances:
63 1 0.01
64 13 0.12
65 6 0.06
66 4 0.04
67 2 0.02
68 31 0.29
69 23 0.21
70 2 0.02
71 4 0.04
72 7 0.07
73 13 0.12
74 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.42
Consensus pattern (68 bp):
TGTAAGTTCATATGATTTTTAATAAGGCAATGTGTAATTTAATGTTATTGCCTTGATATTAAATG
AGA
Found at i:48248198 original size:137 final size:137
Alignment explanation
Indices: 48247950--48248225 Score: 516
Period size: 137 Copynumber: 2.0 Consensus size: 137
48247940 GTACATGAAG
*
48247950 TGCATTGTATTATCATACATAAATGTGATTCCTATGATTATGGATATTATGGGAAATTGTAAGTT
1 TGCATTGAATTATCATACATAAATGTGATTCCTATGATTATGGATATTATGGGAAATTGTAAGTT
*
48248015 CATATGATTTTTAATAAGGCAATGTGTAATTTAATGTTATTGCCTTGATATTAAATGAGATGTAA
66 CATATGATTTTTAATAAGGCAATGTGTAATTTAATGTTATTACCTTGATATTAAATGAGATGTAA
48248080 GTCTATA
131 GTCTATA
*
48248087 TGCATTGAATTATCATACATAAATGTGATTTCTATGATTATGGATATTATGGGAAATTGTAAGTT
1 TGCATTGAATTATCATACATAAATGTGATTCCTATGATTATGGATATTATGGGAAATTGTAAGTT
*
48248152 CATATTATTTTTAATAAGGCAATGTGTAATTTAATGTTATTACCTTGATATTAAATGAGATGTAA
66 CATATGATTTTTAATAAGGCAATGTGTAATTTAATGTTATTACCTTGATATTAAATGAGATGTAA
48248217 GTCTATA
131 GTCTATA
48248224 TG
1 TG
48248226 TAAGTAATAC
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 135 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (137 bp):
TGCATTGAATTATCATACATAAATGTGATTCCTATGATTATGGATATTATGGGAAATTGTAAGTT
CATATGATTTTTAATAAGGCAATGTGTAATTTAATGTTATTACCTTGATATTAAATGAGATGTAA
GTCTATA
Found at i:48248523 original size:64 final size:64
Alignment explanation
Indices: 48248442--48248613 Score: 170
Period size: 67 Copynumber: 2.7 Consensus size: 64
48248432 AGACATTATG
* *
48248442 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
48248506 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGATACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
48248570 TAA
62 TAA
* * * *
48248573 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGT
48248614 TTGCAAGAGA
Statistics
Matches: 85, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
63 8 0.09
64 23 0.27
65 4 0.05
66 18 0.21
67 32 0.38
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:48250774 original size:35 final size:36
Alignment explanation
Indices: 48250706--48250795 Score: 146
Period size: 35 Copynumber: 2.5 Consensus size: 36
48250696 AGTACATCGA
*
48250706 TAATCCAGCCAAAACACACCAGATGCTTATAAGAGC
1 TAATCCATCCAAAACACACCAGATGCTTATAAGAGC
* *
48250742 TAATCTATCCGAAACACACCA-ATGCTTATAAGAGC
1 TAATCCATCCAAAACACACCAGATGCTTATAAGAGC
48250777 TAATCCATCCAAAACACAC
1 TAATCCATCCAAAACACAC
48250796 AAAAATAGAG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 31 0.63
36 18 0.37
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (36 bp):
TAATCCATCCAAAACACACCAGATGCTTATAAGAGC
Found at i:48262287 original size:30 final size:30
Alignment explanation
Indices: 48262253--48262313 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
48262243 TTCCCGAGCC
48262253 TAGGGGTAAAAGTGTAAATTTGCAAAAGTT
1 TAGGGGTAAAAGTGTAAATTTGCAAAAGTT
* *
48262283 TAGGGGTAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGTAAAAGTGTAAATTTGCAAAAGTT
48262313 T
1 T
48262314 GAGTTAAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (30 bp):
TAGGGGTAAAAGTGTAAATTTGCAAAAGTT
Found at i:48276706 original size:40 final size:40
Alignment explanation
Indices: 48276654--48277009 Score: 532
Period size: 40 Copynumber: 8.9 Consensus size: 40
48276644 GTTATATATG
48276654 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
* * * *
48276694 ATCCGGGCTAAGTCCCAAAGAGCGTTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
*
48276734 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
* * * * *
48276774 ATCCGGGCTAAGTCTCGATGAGCATATGTGTTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
48276814 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
48276854 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
* * *
48276894 ATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
** * * *
48276934 ATCAAGGTTAAGTCCCGAAGAGCATTCGTACTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
* *
48276974 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTG
48277010 ATGTGTATTC
Statistics
Matches: 286, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 286 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
Found at i:48277223 original size:25 final size:25
Alignment explanation
Indices: 48277173--48277225 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
48277163 TGTGTAACAA
* *
48277173 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
48277198 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
48277223 CAA
1 CAA
48277226 GTTCTTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:48288423 original size:28 final size:28
Alignment explanation
Indices: 48288360--48288457 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
48288350 ATATTAAGTC
* *
48288360 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
48288387 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
48288415 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
48288443 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48288458 GTACAATTTA
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 21 0.31
28 47 0.69
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:48296701 original size:28 final size:28
Alignment explanation
Indices: 48296639--48296736 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
48296629 ATATTAAGTC
* *
48296639 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
48296666 CGCACACTTAGTGTTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
48296694 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
48296722 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48296737 GTACAATTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 20 0.30
28 46 0.70
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:48302488 original size:23 final size:23
Alignment explanation
Indices: 48302460--48302507 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 23
48302450 ATACATAATA
48302460 AAATATATATAAAAATT-AGAAAT
1 AAATATATA-AAAAATTAAGAAAT
48302483 AAATATATAAAAAATTCAAGAAAT
1 AAATATATAAAAAATT-AAGAAAT
48302507 A
1 A
48302508 TATAAAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.30
23 9 0.39
24 7 0.30
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
AAATATATAAAAAATTAAGAAAT
Found at i:48302490 original size:21 final size:20
Alignment explanation
Indices: 48302459--48302535 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
48302449 TATACATAAT
*
48302459 AAAATATATATAAAAATTAG
1 AAAAAATATATAAAAATTAG
*
48302479 AAATAAATATATAAAAAATT-C
1 AAA-AAATATAT-AAAAATTAG
*
48302500 AAGAAATATAT-AAAATCTAG
1 AAAAAATATATAAAAAT-TAG
48302520 AAAAAA-ATATAAAAAT
1 AAAAAATATATAAAAAT
48302536 AAAATTTACA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.11
19 5 0.11
20 21 0.45
21 9 0.19
22 7 0.15
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.26
Consensus pattern (20 bp):
AAAAAATATATAAAAATTAG
Found at i:48302619 original size:10 final size:11
Alignment explanation
Indices: 48302590--48302617 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
48302580 TTAATAATAT
48302590 TATTTTTAAAA
1 TATTTTTAAAA
48302601 TATTTTTAAAA
1 TATTTTTAAAA
48302612 TATTTT
1 TATTTT
48302618 AATTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:48302847 original size:26 final size:26
Alignment explanation
Indices: 48302791--48302848 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
48302781 ATTAAAAATT
* *
48302791 AAAAAATTATTTTAATACCTAATTGA
1 AAAAAATTATTTTAATACCAAAATGA
* *
48302817 GAAAAATT-TTTATAATACGAAAATGA
1 AAAAAATTATTT-TAATACCAAAATGA
48302843 AAAAAA
1 AAAAAA
48302849 AAATATTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.12
26 23 0.88
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (26 bp):
AAAAAATTATTTTAATACCAAAATGA
Found at i:48303777 original size:52 final size:53
Alignment explanation
Indices: 48303703--48303815 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 53
48303693 ATGGTAAGGG
* *
48303703 TTAATTTTAAATTTAGAATATTATT-TAATTTTTTTAATTTATGTAATTTTAA
1 TTAATTTTAAATTTAGAATATTATTATAATTCTTTTAATTTATGTAATTTAAA
* ** * *
48303755 TTAATTTTAATTTTTTAATATTATTCATTATTCTTTTCATTTATGTAATTTAAA
1 TTAATTTTAAATTTAGAATATTATT-ATAATTCTTTTAATTTATGTAATTTAAA
48303809 TTAATTT
1 TTAATTT
48303816 GTATTTTATA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
52 22 0.42
54 30 0.58
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (53 bp):
TTAATTTTAAATTTAGAATATTATTATAATTCTTTTAATTTATGTAATTTAAA
Found at i:48305381 original size:18 final size:18
Alignment explanation
Indices: 48305358--48305400 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
48305348 TGCCAGGTGG
*
48305358 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
48305376 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
48305394 GTTTCCT
1 GTATCCT
48305401 TTTTCCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:48309147 original size:126 final size:126
Alignment explanation
Indices: 48308914--48309181 Score: 351
Period size: 126 Copynumber: 2.1 Consensus size: 126
48308904 GGCCAAGCAT
* * * * * * *
48308914 GAACTACTGTAGAAAAATAGCGTCCACATGAGAGCTTTTTTTAGAACTTTTGTTGATATTGCATC
1 GAACTACTGTAGAAAAAGAACGTCCACATGAGAGCTTTTTTCAAAAATTTTGCTGACATTGCATC
* * *
48308979 ATGCTTAAAGCGTTTTTGACACTATTTGTTTAGAAATATCTTCTCAAATTTATTTTTTCAG
66 ATACTTAAAGCGTTTTTGACACTATTTGTTTAGAAATATCTTCTCAAAATTATTTTTTCAA
* * * *
48309040 GAACTACTATAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTGACATTGCGTC
1 GAACTACTGTAGAAAAAGAACGTCCACATGAGAGCTTTTTTCAAAAATTTTGCTGACATTGCATC
* *
48309105 ATACTTGAAGCGTTTTTGACACTATTTGTTT-GAAA-ACGTCTTCTTAAAATTATTTTTTCAA
66 ATACTTAAAGCGTTTTTGACACTATTTGTTTAGAAATA--TCTTCTCAAAATTATTTTTTCAA
*
48309166 GAACTATTGTAGAAAA
1 GAACTACTGTAGAAAA
48309182 GCCATAAACC
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
124 1 0.01
125 4 0.03
126 117 0.96
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAACGTCCACATGAGAGCTTTTTTCAAAAATTTTGCTGACATTGCATC
ATACTTAAAGCGTTTTTGACACTATTTGTTTAGAAATATCTTCTCAAAATTATTTTTTCAA
Found at i:48309347 original size:49 final size:51
Alignment explanation
Indices: 48309249--48309354 Score: 126
Period size: 49 Copynumber: 2.1 Consensus size: 51
48309239 TTAAAATCTA
* * *
48309249 CTAAAATCCTAAACCCTAACTTATTCTAACAAAAACTTAAAACTTAAAA-C
1 CTAAAATCCTAAACCCTAAATTATTCTAACAAAAACCTAAAACTAAAAACC
* * * **
48309299 CTAAAA-CCTAAACCCTAAATTATTTTAGCAAAACCCTAACCCTAAAAACC
1 CTAAAATCCTAAACCCTAAATTATTCTAACAAAAACCTAAAACTAAAAACC
48309349 CTAAAA
1 CTAAAA
48309355 AACCCTAGGG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 34 0.72
50 13 0.28
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (51 bp):
CTAAAATCCTAAACCCTAAATTATTCTAACAAAAACCTAAAACTAAAAACC
Found at i:48318885 original size:28 final size:28
Alignment explanation
Indices: 48318812--48318886 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
48318802 TGGCCCCTTT
*
48318812 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
48318840 AGGCCTAATCACTTTCATATGGCCTATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
48318868 AGGCCCAATCACACTCATA
1 AGGCCCAATCACATTCATA
48318887 GTCATGCAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.25
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:48324216 original size:29 final size:29
Alignment explanation
Indices: 48324130--48324236 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 29
48324120 TACATACATG
48324130 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTCTTATT
* * * *
48324158 CAAATGGCCCATTTGGCCCAGTT-TATATT
1 CATATGGCCCACTAGGCCCAATTCT-TATT
* *
48324187 CTTATGGCCCACTAGGCCCAATTCTCATT
1 CATATGGCCCACTAGGCCCAATTCTTATT
* * *
48324216 CATCTAGCCCATTAGGCCCAA
1 CATATGGCCCACTAGGCCCAA
48324237 ATCATATTAT
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 18 0.29
29 43 0.69
30 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCTTATT
Found at i:48324244 original size:58 final size:57
Alignment explanation
Indices: 48324132--48324244 Score: 145
Period size: 58 Copynumber: 2.0 Consensus size: 57
48324122 CATACATGCA
* * * ** *
48324132 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATTTGGCCCAGTTTATATTCT
1 TATGGCCCACTAGGCCCAATCTCATTCAAATAGCCCATTAGGCCCAAATCATATTCT
**
48324189 TATGGCCCACTAGGCCCAATTCTCATTCATCTAGCCCATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCTCATTCAAATAGCCCATTAGGCCCAAATCATATT
48324245 ATATTCATGC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
57 19 0.40
58 28 0.60
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTCATTCAAATAGCCCATTAGGCCCAAATCATATTCT
Found at i:48324350 original size:19 final size:18
Alignment explanation
Indices: 48324317--48324353 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
48324307 TGGGCCCAAC
48324317 AGCCCATCAGGCCCATTT
1 AGCCCATCAGGCCCATTT
*
48324335 AGCCCATTCCGGCCCATTT
1 AGCCCA-TCAGGCCCATTT
48324354 GGCCAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.41, G:0.16, T:0.24
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:48324362 original size:19 final size:19
Alignment explanation
Indices: 48324326--48324362 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48324316 CAGCCCATCA
*
48324326 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
48324345 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
48324363 TCAACCCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:48340736 original size:18 final size:18
Alignment explanation
Indices: 48340700--48340750 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
48340690 TTTTTGATAA
*
48340700 TTATACATTTAA-AAGTAT
1 TTATA-ATTTAATAAATAT
48340718 TTATAATTTAATAAATAT
1 TTATAATTTAATAAATAT
48340736 TGTGATAATTATAAT
1 T-T-ATAATT-TAAT
48340751 TTTAAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.21
18 11 0.39
19 1 0.04
20 6 0.21
21 4 0.14
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (18 bp):
TTATAATTTAATAAATAT
Found at i:48344163 original size:51 final size:49
Alignment explanation
Indices: 48344039--48344184 Score: 202
Period size: 51 Copynumber: 2.9 Consensus size: 49
48344029 TAGACAAGGC
* * *
48344039 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * *
48344088 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
*
48344139 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
48344185 TCACAATAGA
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 38 0.46
50 4 0.05
51 41 0.49
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:48344461 original size:27 final size:27
Alignment explanation
Indices: 48344431--48344484 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
48344421 TCATACAACC
* *
48344431 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
48344458 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
48344485 TCACGTGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:48350741 original size:22 final size:22
Alignment explanation
Indices: 48350716--48350765 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
48350706 TTAAGATACA
*
48350716 ATGTGACATTTCACTAGGAACT
1 ATGTGACATGTCACTAGGAACT
48350738 ATGTGACATGTCACTAGGAACT
1 ATGTGACATGTCACTAGGAACT
48350760 ATGTGA
1 ATGTGA
48350766 ATATGAGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (22 bp):
ATGTGACATGTCACTAGGAACT
Found at i:48352006 original size:42 final size:42
Alignment explanation
Indices: 48351947--48352027 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
48351937 AGAAATTGTC
* *
48351947 CACACGGTTAGACACACGGGCATGTGTCT-AGGCCGTGTGTGA
1 CACACGGTTAGACACACGGCCATATGTCTCA-GCCGTGTGTGA
*
48351989 CACACGAG-TAGAGACACGGCCATATGTCTCAGCCGTGTG
1 CACACG-GTTAGACACACGGCCATATGTCTCAGCCGTGTG
48352028 AAGGACACGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.20
Consensus pattern (42 bp):
CACACGGTTAGACACACGGCCATATGTCTCAGCCGTGTGTGA
Found at i:48355159 original size:49 final size:49
Alignment explanation
Indices: 48355092--48355271 Score: 170
Period size: 49 Copynumber: 3.7 Consensus size: 49
48355082 TGTTGCGTGT
* *
48355092 CAGTGCAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAAGC
* * * *
48355141 CAGTGTAAGACCTGTCTGGAACACGGCATC-A-ACCTTGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACC--GATAGATGAAAGC
* * *** **
48355190 TAGTGTAAGACCTGTCTGGGACATGACATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAAGC
* *
48355237 CAGTGTAAGACCATGTCTAGGACATGGCGTCGACA
1 CAGTGTAAGACC-TGTCTGGGACATGGCATCGACA
48355272 TCTTATCCCA
Statistics
Matches: 104, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
47 18 0.17
48 19 0.18
49 66 0.63
50 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAAGC
Found at i:48361047 original size:63 final size:64
Alignment explanation
Indices: 48360867--48361118 Score: 199
Period size: 63 Copynumber: 3.9 Consensus size: 64
48360857 ATATAGTTCG
* * * * *
48360867 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACA-TATATCCCAT
48360929 A
64 A
* * * *
48360930 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCA
1 GCTCTCTTGTCTACATGGTG---TACACTTAGTACCACCCATGCGACCTAGCTACATATATCCCA
48360995 TA
63 TA
* * *
48360997 GCTCTCTT-TCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACAT-AT-A--TCCC
*
48361061 GTA
62 ATA
* * * * ** *
48361064 GCTCTCTTGTAC-ACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACATA
48361119 CCATCTGTAT
Statistics
Matches: 151, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 46 0.30
64 2 0.01
65 1 0.01
66 34 0.23
67 30 0.20
68 36 0.24
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACATATATCCCATA
Found at i:48361817 original size:30 final size:30
Alignment explanation
Indices: 48361783--48361843 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48361773 TCCTTAACTC
48361783 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
48361813 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
48361843 A
1 A
48361844 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:48362746 original size:45 final size:45
Alignment explanation
Indices: 48362682--48362850 Score: 160
Period size: 50 Copynumber: 3.6 Consensus size: 45
48362672 TACGAGAGCT
*
48362682 AGTGTAAGACCATGTCTGGGACATGGCATCGGTTTGATATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTTTGATATGTGCC
* * *
48362727 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACTAATAGATGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG---T--TTGAT-ATGTGCC
* * * * *
48362777 AATGTAAGACCATGTCTGGGACACGACATCGACTTTGATGTGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCG-GTTTGATATGT--GCC
*
48362825 AGTGTAAGACCATGTCCGGGACATGG
1 AGTGTAAGACCATGTCTGGGACATGG
48362851 TGTCGGCACC
Statistics
Matches: 98, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
45 31 0.32
46 5 0.05
48 27 0.28
50 34 0.35
51 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGTTTGATATGTGCC
Found at i:48364985 original size:77 final size:78
Alignment explanation
Indices: 48364858--48365013 Score: 260
Period size: 77 Copynumber: 2.0 Consensus size: 78
48364848 GCGTGTTACA
*
48364858 AAAATATCATCAATGAAAACAACCACGAACCTGTCCAGGTATGGTCTGAAAATTTTGTTCACTAA
1 AAAATATCATCAATGAAAACAACCACGAACCTGTCCAGGTATGGTCTGAAAATTCTGTTCACTAA
48364923 ATCCATAAA-ACC
66 ATCCATAAATACC
* * * *
48364935 AAAATATCATCGATGAAAACAACCACGAATCTGTCTAGGTTTGGTCTGAAAATTCTGTTCACTAA
1 AAAATATCATCAATGAAAACAACCACGAACCTGTCCAGGTATGGTCTGAAAATTCTGTTCACTAA
48365000 ATCCATAAATACC
66 ATCCATAAATACC
48365013 A
1 A
48365014 TCGGGGCATT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
77 69 0.95
78 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (78 bp):
AAAATATCATCAATGAAAACAACCACGAACCTGTCCAGGTATGGTCTGAAAATTCTGTTCACTAA
ATCCATAAATACC
Found at i:48367371 original size:43 final size:44
Alignment explanation
Indices: 48367306--48367472 Score: 173
Period size: 43 Copynumber: 3.9 Consensus size: 44
48367296 AACTCGCACA
* *
48367306 ATGCC-ATATCCTAGATATGGTCTTACATGCT-ATCACATAT-CG
1 ATGCCAATATCCCAGACATGGTCTTACATG-TAATCACATATACG
* * * * *
48367348 ATGCCACTATCCCAGACAAGGTCTTACACGAAATCATA-ATACG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATACG
* * * *
48367391 ATGCCAATGTCCCAGACATGGTCTTTCATGTAATCA-AAATACA
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATACG
* *
48367434 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACAT
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACAT
48367473 CTTGATAACC
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
42 8 0.08
43 94 0.91
44 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (44 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATACG
Found at i:48372008 original size:57 final size:57
Alignment explanation
Indices: 48371912--48372050 Score: 144
Period size: 57 Copynumber: 2.4 Consensus size: 57
48371902 GCTATATTAT
* * * *
48371912 AGGATTACCAGTCTAGGCTAAATCCTTTTCATATCATATACTCTGAAG-AGCTTA-AT-
1 AGGATTACCCGTCTGGGCTAAATCCCTCTCATATCATATACTC--AAGCAGCTTACATC
*
48371968 ATGGATTACCCGTCTGGGCTAAATCCACTCT-ATAGT-ATATACTCAAGCGGCTTACATC
1 A-GGATTACCCGTCTGGGCTAAATCC-CTCTCATA-TCATATACTCAAGCAGCTTACATC
*
48372026 AGGATTACCCGTCTGAGCTAAATCC
1 AGGATTACCCGTCTGGGCTAAATCC
48372051 TTTATACAAC
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
55 3 0.04
56 6 0.08
57 58 0.82
58 4 0.06
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (57 bp):
AGGATTACCCGTCTGGGCTAAATCCCTCTCATATCATATACTCAAGCAGCTTACATC
Found at i:48377072 original size:23 final size:22
Alignment explanation
Indices: 48377046--48377095 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
48377036 CTTCCTTTTG
* *
48377046 TTTTCTTTTTCTTC-CTTTCGCT
1 TTTTCCTTTGCTTCTCTTTC-CT
48377068 CTTTTCCTTTGCTTCTCTTTCCT
1 -TTTTCCTTTGCTTCTCTTTCCT
48377091 TTTTC
1 TTTTC
48377096 GCTTGGTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 5 0.21
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTTCCTTTGCTTCTCTTTCCT
Found at i:48379550 original size:43 final size:44
Alignment explanation
Indices: 48379455--48379621 Score: 141
Period size: 43 Copynumber: 3.9 Consensus size: 44
48379445 ATCGAGATGT
* * * * *
48379455 GATTACATGTAAGACCATGTTTGGGACATTGACAT-TGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTAATCA
48379498 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCAT-TAATCA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATC-TGTAATCA
* * * * *
48379542 -ATTTCGTGTAAGACCCTGTCTGAGACAGTGGCATC-G-ATATGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTA-ATCA
* * * *
48379584 GATAACATGTAAGACCATATCTGGGATA-TGGCAT-TGTA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTA
48379622 CGAGCTTATG
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 10 0.10
43 84 0.84
44 4 0.04
45 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (44 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCTGTAATCA
Found at i:48380471 original size:24 final size:23
Alignment explanation
Indices: 48380414--48380472 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
48380404 TAGTATGTTT
*
48380414 TGATTATGGAATTGAGTGGTTGAA
1 TGATTAT-GAATAGAGTGGTTGAA
* *
48380438 TGGTTGTGAATAGA-TGGTGTGATA
1 TGATTATGAATAGAGTGGT-TGA-A
48380462 TGATTATGAAT
1 TGATTATGAAT
48380473 TGGCATGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 4 0.14
23 9 0.32
24 15 0.54
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (23 bp):
TGATTATGAATAGAGTGGTTGAA
Found at i:48385162 original size:50 final size:50
Alignment explanation
Indices: 48385044--48385321 Score: 245
Period size: 50 Copynumber: 5.5 Consensus size: 50
48385034 CTGGTACGCA
* * ** * *
48385044 TAGTAGCCTGCACTTAGTACTACACATGCAACC-AACAATC-CAGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGA-TACACG
*
48385093 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * *** * * * *
48385143 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAA-CCATCTGATACACG
* * * * * * *
48385194 TAGGAGCCTACACTTAGTACTACACATGCGACATAACTATCTGGTACATG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * *
48385244 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTACACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
* *
48385296 TAGTAGCCTATACATAGTACTACACA
1 TAGTAGCCTACACTTAGTACTACACA
48385322 TGTGTTCTCA
Statistics
Matches: 183, Mismatches: 41, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
49 30 0.16
50 82 0.45
51 38 0.21
52 33 0.18
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:48387732 original size:28 final size:29
Alignment explanation
Indices: 48387692--48387803 Score: 156
Period size: 29 Copynumber: 3.9 Consensus size: 29
48387682 TGGGAAGTAG
48387692 TTGGGCCTGATGGGCCATATGAATGTGA-
1 TTGGGCCTGATGGGCCATATGAATGTGAT
48387720 TTGGGCCTGATGGGCCATATGAATGTGAT
1 TTGGGCCTGATGGGCCATATGAATGTGAT
* ** *
48387749 TTGGGCCTAATGGGCCATACAAATGTAAT
1 TTGGGCCTGATGGGCCATATGAATGTGAT
*
48387778 TTGGGCCT-AGTGGGCCATATGCATGT
1 TTGGGCCTGA-TGGGCCATATGAATGT
48387804 ATGTATACTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
28 29 0.39
29 46 0.61
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.29
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATGAATGTGAT
Found at i:48387762 original size:57 final size:58
Alignment explanation
Indices: 48387692--48387803 Score: 156
Period size: 57 Copynumber: 1.9 Consensus size: 58
48387682 TGGGAAGTAG
* ** *
48387692 TTGGGCCTGATGGGCCATATGAATGTGA-TTGGGCCT-GATGGGCCATATGAATGTGAT
1 TTGGGCCTAATGGGCCATACAAATGTAATTTGGGCCTAG-TGGGCCATATGAATGTGAT
*
48387749 TTGGGCCTAATGGGCCATACAAATGTAATTTGGGCCTAGTGGGCCATATGCATGT
1 TTGGGCCTAATGGGCCATACAAATGTAATTTGGGCCTAGTGGGCCATATGAATGT
48387804 ATGTATACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 24 0.50
58 23 0.48
59 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.29
Consensus pattern (58 bp):
TTGGGCCTAATGGGCCATACAAATGTAATTTGGGCCTAGTGGGCCATATGAATGTGAT
Found at i:48390931 original size:33 final size:33
Alignment explanation
Indices: 48390894--48390989 Score: 106
Period size: 34 Copynumber: 2.9 Consensus size: 33
48390884 CTATGGGCCA
* *
48390894 TACTGTTATCTGAAAAGGGGCTAAGGCCCAGT-T
1 TACTGTTATCTGAAAA-GGGCTTAGGCCCAGTAC
*
48390927 TACTG-TATTCTGAAAAGGGCTTCGGCCCAGTACC
1 TACTGTTA-TCTGAAAAGGGCTTAGGCCCAGTA-C
* *
48390961 CACTGTTATCTGAATAGGGCTTAGGCCCA
1 TACTGTTATCTGAAAAGGGCTTAGGCCCA
48390990 ATGGGCTTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
32 15 0.28
33 13 0.25
34 23 0.43
35 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (33 bp):
TACTGTTATCTGAAAAGGGCTTAGGCCCAGTAC
Found at i:48394347 original size:16 final size:17
Alignment explanation
Indices: 48394315--48394347 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
48394305 CATTAAGAAG
48394315 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
48394333 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
48394348 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:48394625 original size:27 final size:27
Alignment explanation
Indices: 48394586--48394897 Score: 299
Period size: 27 Copynumber: 11.6 Consensus size: 27
48394576 TAATAAAGAG
** *
48394586 AAATTACTAAAATACCCTTAATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
*
48394613 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* * *
48394640 AAATTACCGAAACACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTTGATTTGTA
*
48394666 AAATTATCGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* ** *
48394693 AAATTACTGAAATACCCCCGATTTGTG
1 AAATTACCGAAATACCCTTGATTTGTA
*
48394720 AAATTACCGAAACA-CCTTGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* * * *
48394746 AAATTATCAAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* * *
48394773 AAATTATCAAAATACCCTTAATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* **
48394800 AAATTACTGAAATACCCCCGATTTGTA
1 AAATTACCGAAATACCCTTGATTTGTA
* * * *
48394827 AACTTATCAAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTTGAT-TTGTA
* *
48394854 AAATTACTGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTTGAT-TTGTA
* *
48394881 AAATGACCGACATACCC
1 AAATTACCGAAATACCC
48394898 CTGTAGGGTA
Statistics
Matches: 235, Mismatches: 47, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
26 43 0.18
27 192 0.82
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTTGATTTGTA
Found at i:48394718 original size:80 final size:80
Alignment explanation
Indices: 48394585--48394871 Score: 341
Period size: 80 Copynumber: 3.6 Consensus size: 80
48394575 ATAATAAAGA
* *
48394585 GAAATTA-CTAAAATACCCTTAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCG
1 GAAATTATC-AAAATACCCTTGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCG
48394649 AAACACCCTCGATTGT
65 AAACACCCTCGATTGT
* * *
48394665 GAAATTATCGAAATACCCTTGATTTGTAAAATTACTGAAATACCCCCGATTTGTGAAATTACCGA
1 GAAATTATCAAAATACCCTTGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGA
*
48394730 AACA-CCTTGATTTGT
66 AACACCCTCGA-TTGT
* * * * ** *
48394745 AAAATTATCAAAATATCCTCGATTTGTAAAATTA-TCAAAATACCCTTAATTTGTAAAATTACTG
1 GAAATTATCAAAATACCCTTGATTTGTAAAATTACT-GAAATACCCTCGATTTGTAAAATTACCG
* *
48394809 AAATACCCCCGATT-T
65 AAACACCCTCGATTGT
*
48394824 GTAAACTTATCAAAATACCCTTG-TAGTGTAAAATTACTGAAATACCCT
1 G-AAA-TTATCAAAATACCCTTGAT-TTGTAAAATTACTGAAATACCCT
48394872 TGTAGTGTAA
Statistics
Matches: 175, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
79 7 0.04
80 128 0.73
81 39 0.22
82 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (80 bp):
GAAATTATCAAAATACCCTTGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGA
AACACCCTCGATTGT
Found at i:48394777 original size:107 final size:107
Alignment explanation
Indices: 48394586--48394828 Score: 344
Period size: 107 Copynumber: 2.3 Consensus size: 107
48394576 TAATAAAGAG
* *** * *
48394586 AAATTACTAAAATACCCTTAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAA
1 AAATTACTGAAATACCCCCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAAA
* * *
48394651 ACACCCTCGATTGTGAAATTATCGAAATACCCTTGATTTGTA
66 ACACCCTCGATTGTAAAATTATCAAAATACCCTTAATTTGTA
* * *
48394693 AAATTACTGAAATACCCCCGATTTGTGAAATTACCGAAACA-CCTTGATTTGTAAAATTATCAAA
1 AAATTACTGAAATACCCCCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAAA
* *
48394757 ATATCCTCGATTTGTAAAATTATCAAAATACCCTTAATTTGTA
66 ACACCCTCGA-TTGTAAAATTATCAAAATACCCTTAATTTGTA
48394800 AAATTACTGAAATACCCCCGATTTGTAAA
1 AAATTACTGAAATACCCCCGATTTGTAAA
48394829 CTTATCAAAA
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
106 28 0.23
107 92 0.77
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (107 bp):
AAATTACTGAAATACCCCCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAAA
ACACCCTCGATTGTAAAATTATCAAAATACCCTTAATTTGTA
Found at i:48394813 original size:54 final size:54
Alignment explanation
Indices: 48394586--48394871 Score: 346
Period size: 54 Copynumber: 5.3 Consensus size: 54
48394576 TAATAAAGAG
* ** * *
48394586 AAATTACTAAAATACCCTTAATTTGTAAAATTACCGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTA
* * *
48394640 AAATTACCGAAACACCCTCGA-TTGTGAAATTATCGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTA
* * * *
48394693 AAATTACTGAAATACCCCCGATTTGTGAAATTACCGAAACA-CCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTA
* * * *
48394746 AAATTA-TCAAAATATCCTCGATTTGTAAAATTATCAAAATACCCTTAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTA
* * * *
48394800 AAATTACTGAAATACCCCCGATTTGTAAACTTATCAAAATACCCTTG-TAGTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGAT-TTGTA
48394854 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
48394872 TGTAGTGTAA
Statistics
Matches: 199, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
52 1 0.01
53 92 0.46
54 105 0.53
55 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTA
Found at i:48394902 original size:27 final size:27
Alignment explanation
Indices: 48394836--48394910 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
48394826 AAACTTATCA
* *
48394836 AAATACCCTTGTAGTGTAAAATTACTG
1 AAATACCCTTGTAGTGTAAAATGACCG
48394863 AAATACCCTTGTAGTGTAAAATGACCG
1 AAATACCCTTGTAGTGTAAAATGACCG
* * *
48394890 ACATACCCCTGTAGGGTAAAA
1 AAATACCCTTGTAGTGTAAAA
48394911 GGATTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (27 bp):
AAATACCCTTGTAGTGTAAAATGACCG
Found at i:48396494 original size:21 final size:21
Alignment explanation
Indices: 48396468--48396519 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
48396458 GGGGTTACAT
48396468 GCCCGTGTGGCTTTGGAACAC
1 GCCCGTGTGGCTTTGGAACAC
* *
48396489 GCCCGTGTGGCTTTGGGACAT
1 GCCCGTGTGGCTTTGGAACAC
*
48396510 GCCTGTGTGG
1 GCCCGTGTGG
48396520 GTAGGCTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.10, C:0.25, G:0.38, T:0.27
Consensus pattern (21 bp):
GCCCGTGTGGCTTTGGAACAC
Found at i:48400239 original size:41 final size:40
Alignment explanation
Indices: 48400186--48400355 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
48400176 AGTCCGACTC
*
48400186 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
48400225 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
48400265 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
48400310 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
48400349 TTTAGAC
1 -TTAGAC
48400356 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:48408578 original size:41 final size:40
Alignment explanation
Indices: 48408525--48408694 Score: 152
Period size: 41 Copynumber: 4.2 Consensus size: 40
48408515 AGTCCGACTC
*
48408525 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
48408564 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
48408604 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
*
48408649 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
48408688 TTTAGAC
1 -TTAGAC
48408695 CCTGATTAGC
Statistics
Matches: 106, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 50 0.47
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:48422410 original size:13 final size:13
Alignment explanation
Indices: 48422392--48422418 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48422382 AAAGGGATGT
48422392 GATCGAGTAAGGA
1 GATCGAGTAAGGA
48422405 GATCGAGTAAGGA
1 GATCGAGTAAGGA
48422418 G
1 G
48422419 GGGATAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.41, T:0.15
Consensus pattern (13 bp):
GATCGAGTAAGGA
Found at i:48422601 original size:23 final size:25
Alignment explanation
Indices: 48422575--48422620 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
48422565 TTCTGACCAT
*
48422575 TCTCTTCTCTT-TT-TCTTTTCTCC
1 TCTCATCTCTTATTCTCTTTTCTCC
48422598 TCTCATCTCTTATTCTCTTTTCT
1 TCTCATCTCTTATTCTCTTTTCT
48422621 TCTTCTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 2 0.10
25 8 0.40
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (25 bp):
TCTCATCTCTTATTCTCTTTTCTCC
Found at i:48424262 original size:6 final size:6
Alignment explanation
Indices: 48424251--48424407 Score: 128
Period size: 6 Copynumber: 25.8 Consensus size: 6
48424241 AACCAAAATG
*
48424251 AGAATC AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC
* *
48424299 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTAA-C AGAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AG-AATC AGAATC
* * * * *
48424348 AGAATC AGAATC AGTATT AGTAA-C AGAATT AGAATT ACGTGA-C AGAATC
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC A-G-AATC AGAATC
48424397 AGAATC AGAAT
1 AGAATC AGAAT
48424408 GTGAATGCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
5 9 0.07
6 103 0.84
7 8 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:48424335 original size:61 final size:65
Alignment explanation
Indices: 48424262--48424403 Score: 177
Period size: 61 Copynumber: 2.2 Consensus size: 65
48424252 GAATCAGAAT
** *
48424262 CAGAATCAGAATCAATATTAGTAA-CAGAATCAGAATCAG-A-A-T-CAGAATCAGAATTAGGTG
1 CAGAATCAGAATCAATAACAG-AATCAGAATCAGAATCAGTATAGTACAGAATCAGAATTACGTG
48424322 A
65 A
* *
48424323 CAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATTAGAATTACGT
1 CAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAGTA-TAGT-ACAGAATCAGAATTACGT
48424388 GA
64 GA
48424390 CAGAATCAGAATCA
1 CAGAATCAGAATCA
48424404 GAATGTGAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
60 2 0.03
61 33 0.48
62 1 0.01
64 1 0.01
65 1 0.01
67 31 0.45
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (65 bp):
CAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAGTATAGTACAGAATCAGAATTACGTGA
Found at i:48424337 original size:67 final size:67
Alignment explanation
Indices: 48424256--48424407 Score: 195
Period size: 67 Copynumber: 2.3 Consensus size: 67
48424246 AAATGAGAAT
*
48424256 CAGAATCAGAATCAGAATCA-ATATTAGTAA-CAGAATCAGAATCAG-AATCAGAATCAGAATTA
1 CAGAATCAGAATCAGAATCAGA-ATCAG-AATCAGAATCAGAATCAGTAA-CAGAATCAGAATTA
*
48424318 GGTGA
63 CGTGA
* * *
48424323 CAGAATCAGAATCAGTAA-CAGAATCAGAATCAGAATCAGTATTAGTAACAGAATTAGAATTACG
1 CAGAATCAGAATCAG-AATCAGAATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATTACG
48424387 TGA
65 TGA
48424390 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
48424408 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
66 4 0.05
67 66 0.88
68 5 0.07
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (67 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATTACGT
GA
Found at i:48424357 original size:49 final size:49
Alignment explanation
Indices: 48424292--48424407 Score: 171
Period size: 49 Copynumber: 2.4 Consensus size: 49
48424282 GTAACAGAAT
*
48424292 CAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCA-GTAA
1 CAGAATCAGAATCAGAATCAGAATTA-GTAACAGAATCAGAATCACGTAA
* * * *
48424341 CAGAATCAGAATCAGAATCAGTATTAGTAACAGAATTAGAATTACGTGA
1 CAGAATCAGAATCAGAATCAGAATTAGTAACAGAATCAGAATCACGTAA
48424390 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
48424408 GTGAATGCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 15 0.25
49 46 0.75
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (49 bp):
CAGAATCAGAATCAGAATCAGAATTAGTAACAGAATCAGAATCACGTAA
Found at i:48424796 original size:22 final size:22
Alignment explanation
Indices: 48424764--48424821 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
48424754 TAAATACGTT
*
48424764 TGGCACGAAGCCATATTCAAGA
1 TGGCACAAAGCCATATTCAAGA
* * *
48424786 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATATTCAAGA
*
48424808 TGGCACAGAGCCAT
1 TGGCACAAAGCCAT
48424822 TAATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (22 bp):
TGGCACAAAGCCATATTCAAGA
Found at i:48424988 original size:27 final size:26
Alignment explanation
Indices: 48424909--48424991 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
48424899 TCGATCGGTC
* * *
48424909 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
48424935 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
48424962 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
48424989 AAC
1 AAC
48424992 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:48425220 original size:27 final size:27
Alignment explanation
Indices: 48425190--48425358 Score: 203
Period size: 27 Copynumber: 6.3 Consensus size: 27
48425180 GGGGCAAAAT
* * *
48425190 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48425217 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48425244 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * * *
48425271 GATAATTCTAACCAACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48425298 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48425325 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48425352 CGTAATT
1 GGTAATT
48425359 TCACAATCAA
Statistics
Matches: 119, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:48425393 original size:27 final size:27
Alignment explanation
Indices: 48425363--48425907 Score: 600
Period size: 27 Copynumber: 20.2 Consensus size: 27
48425353 GTAATTTCAC
* *
48425363 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48425390 AATCGAGGGTAAAA-GGATAATTTTGTA
1 AATCGAGGGTAAAACGG-TAATTCTGTA
* *
48425417 AA-CTGAGGGT-AACCTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
48425444 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48425471 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
***
48425498 AATCGAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
48425525 AA-CTGAGGGTAAAACGGTAATTTTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* ** * **
48425552 AATCGAGGATAAAATTGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
48425579 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
48425606 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48425633 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
48425660 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
48425687 AA-CTGAGGGTAAAATAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
48425714 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48425741 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
48425768 AATCAAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
48425795 AATCAAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
48425822 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
48425849 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48425876 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48425903 AATCG
1 AATCG
48425908 GGAGTACTTT
Statistics
Matches: 439, Mismatches: 65, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
26 9 0.02
27 421 0.96
28 9 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:48425938 original size:108 final size:108
Alignment explanation
Indices: 48425353--48425897 Score: 722
Period size: 108 Copynumber: 5.1 Consensus size: 108
48425343 GGGTATTTCC
* * * *
48425353 GTAATTTCAC-AATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA-GGATAATTTTGT
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGG-TAATTCTGT
** * *
48425416 AAACTGAGGGTAACCTAGTAATTCTGTAAATCAAGGGTAAAACG
65 AAACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
* ***
48425460 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAATAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
* * * * **
48425525 AACTGAGGGTAAAACGGTAATTTTATAAATCGAGGATAAAATT
66 AACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
**
48425568 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
* *
48425633 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAACG
66 AACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
** *
48425676 GTAATTTTGTAAA-CTGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGT
1 GTAATTTTACAAATC-GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGT
*
48425740 AAACTGAGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACG
65 AAACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * *
48425784 GTAATTTTAAAAATCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATT-T-TA
1 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGT-
* *
48425847 AAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACG
65 AAACT-GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
48425892 GTAATT
1 GTAATT
48425898 CTGTAAATCG
Statistics
Matches: 389, Mismatches: 43, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
106 1 0.00
107 15 0.04
108 372 0.96
109 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (108 bp):
GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
AACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:48427937 original size:6 final size:6
Alignment explanation
Indices: 48427926--48427993 Score: 104
Period size: 6 Copynumber: 11.3 Consensus size: 6
48427916 AACCAAAATG
48427926 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AG-AATC
48427974 AGAATC AGAATC AGAATC AG
1 AGAATC AGAATC AGAATC AG
48427994 TATTAGTAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
5 4 0.07
6 50 0.86
7 4 0.07
ACGTcount: A:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (6 bp):
AGAATC
Found at i:48427953 original size:24 final size:24
Alignment explanation
Indices: 48427926--48428039 Score: 149
Period size: 24 Copynumber: 4.7 Consensus size: 24
48427916 AACCAAAATG
48427926 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
48427950 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
**
48427974 AGAATCAGAATCAGAATCAGTATT
1 AGAATCAGAATCAGAATCAGTAAC
* * * *
48427998 AGTAA-CAAAATCAAAATTACGTGAC
1 AG-AATCAGAATCAGAATCA-GTAAC
48428023 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
48428040 GTGAATGCAA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
24 61 0.79
25 16 0.21
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:48427954 original size:18 final size:18
Alignment explanation
Indices: 48427931--48428036 Score: 101
Period size: 18 Copynumber: 5.8 Consensus size: 18
48427921 AAATGAGAAT
48427931 CAGAATCAGAATCAGTAA
1 CAGAATCAGAATCAGTAA
48427949 CAGAATCAGAATCAG-AA
1 CAGAATCAGAATCAGTAA
48427966 TCAGTAA-CAGAATCAG-AA
1 -CAG-AATCAGAATCAGTAA
* *
48427984 TCAGAATCAGTATTAGTAA
1 -CAGAATCAGAATCAGTAA
* * * *
48428003 CAAAATCAAAATTACGTGA
1 CAGAATCAGAATCA-GTAA
48428022 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
48428037 AATGTGAATG
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
17 4 0.05
18 52 0.70
19 18 0.24
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (18 bp):
CAGAATCAGAATCAGTAA
Found at i:48428228 original size:27 final size:27
Alignment explanation
Indices: 48428155--48428229 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 27
48428145 CAGCATGGCT
* *
48428155 ACCAGAA-CAGAT-ATCGTGACAGAGTC
1 ACCAGAATCAGATAAT-GTGGCAGAGCC
* * *
48428181 ACCAG-ATACATATATTATGGCAGAGCC
1 ACCAGAAT-CAGATAATGTGGCAGAGCC
48428208 ACCAGAATCAGATAATGTGGCA
1 ACCAGAATCAGATAATGTGGCA
48428230 AACCCACCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 28 0.76
28 3 0.08
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (27 bp):
ACCAGAATCAGATAATGTGGCAGAGCC
Found at i:48428442 original size:22 final size:22
Alignment explanation
Indices: 48428394--48428452 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
48428384 GTAAATACGT
*
48428394 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
48428416 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
48428438 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
48428453 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:48428619 original size:27 final size:26
Alignment explanation
Indices: 48428540--48428622 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
48428530 TCGATCGGTC
* * *
48428540 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
48428566 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
48428593 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
48428620 AAC
1 AAC
48428623 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:48428851 original size:27 final size:27
Alignment explanation
Indices: 48428821--48429008 Score: 205
Period size: 27 Copynumber: 7.0 Consensus size: 27
48428811 GGGGCAAAAT
* * *
48428821 GGTAATTTTATCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48428848 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48428875 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48428902 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48428929 GGTAATTCTATCATATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
48428956 AGTAATTCTACCCAATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48428983 AGAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
48429009 TAGTAATTTT
Statistics
Matches: 137, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 137 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:48428965 original size:81 final size:82
Alignment explanation
Indices: 48428823--48429031 Score: 235
Period size: 81 Copynumber: 2.6 Consensus size: 82
48428813 GGCAAAATGG
* * * * * * * * *
48428823 TAATTTTATCCTACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCATACAAGGGTATTTCAGTAATTCTACCC
* *
48428888 TACAAGGGTATTT-TGA
66 AACAAGGGTATTTCAGA
* *
48428904 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCATATAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCATACAAGGGTATTTCAGTAATTCTACCC
* *
48428969 AATAGGGGTATTTCAGA
66 AACAAGGGTATTTCAGA
* * *
48428986 -AATTCTACCCTACAGGGGTATTTTAGTAATTTTACAAT-CAAGGGTA
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCATACAAGGGTA
48429032 AAATGATAAT
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
80 7 0.07
81 98 0.92
82 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (82 bp):
TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCATACAAGGGTATTTCAGTAATTCTACCC
AACAAGGGTATTTCAGA
Found at i:48429029 original size:27 final size:27
Alignment explanation
Indices: 48428839--48429029 Score: 110
Period size: 27 Copynumber: 7.1 Consensus size: 27
48428829 TATCCTACAA
* * *
48428839 GGGTATCTCGGTAATTCTACC-CTACAG
1 GGGTATTTCAGTAATTCTACCAATA-AG
* * * *
48428866 GGGTATTTCGGTATTTCTACC-CTACAA
1 GGGTATTTCAGTAATTCTACCAATA-AG
* *
48428893 GGGTATTT-TGATAATTCTACC-CTACAG
1 GGGTATTTCAG-TAATTCTACCAATA-AG
** *
48428920 GGGTATTTTGGTAATTCTATCATATAA-
1 GGGTATTTCAGTAATTCTACCA-ATAAG
48428947 GGGTATTTCAGTAATTCTACCCAAT-AG
1 GGGTATTTCAGTAATTCTA-CCAATAAG
* *
48428974 GGGTATTTCAGAAATTCTACC-CTACAG
1 GGGTATTTCAGTAATTCTACCAATA-AG
* *
48429001 GGGTATTTTAGTAATTTTA-CAATCAAG
1 GGGTATTTCAGTAATTCTACCAAT-AAG
48429028 GG
1 GG
48429030 TAAAATGATA
Statistics
Matches: 136, Mismatches: 18, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
25 1 0.01
26 5 0.04
27 123 0.90
28 5 0.04
29 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCAATAAG
Found at i:48429051 original size:27 final size:27
Alignment explanation
Indices: 48429021--48429617 Score: 688
Period size: 27 Copynumber: 22.1 Consensus size: 27
48429011 GTAATTTTAC
* * *
48429021 AATCAAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
48429048 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
48429075 AA-CTGAGGGT-AACCTAGTAATTCTATA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
48429102 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48429129 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
48429156 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48429183 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
48429210 AAGCG-GAGGTAAAATAGTAATTCTGTA
1 AATCGAG-GGTAAAACGGTAATTCTGTA
*
48429237 AA-CTAAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
48429264 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48429291 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
48429318 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48429345 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
48429372 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48429399 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
48429426 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
48429453 AA-CTGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
48429480 AATCGAGGGTAAAATGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** * *
48429507 AATTAAGGGTAAAATGGTAATTCTTTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
48429534 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48429561 AATCGAGGTTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48429588 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48429615 AAT
1 AAT
48429618 TGGGAGTACT
Statistics
Matches: 493, Mismatches: 61, Indels: 32
0.84 0.10 0.05
Matches are distributed among these distances:
26 10 0.02
27 473 0.96
28 10 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:48430644 original size:28 final size:27
Alignment explanation
Indices: 48430613--48430675 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
48430603 AGTTACTAGA
*
48430613 ATACCCCTAAGTATGGAAAATTACCATT
1 ATACCCCTAAG-ATGGAAAATGACCATT
* * *
48430641 ATACCCCT-AGGTGTAAAATGATCATT
1 ATACCCCTAAGATGGAAAATGACCATT
48430667 ATACCCCTA
1 ATACCCCTA
48430676 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 20 0.67
27 2 0.07
28 8 0.27
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.29
Consensus pattern (27 bp):
ATACCCCTAAGATGGAAAATGACCATT
Found at i:48430840 original size:27 final size:26
Alignment explanation
Indices: 48430783--48430869 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 26
48430773 AGGAAGCATC
* *
48430783 CTGGTGGCTATGCCAAATTATCTGTT
1 CTGGTGGCTCTGCCAAAATATCTGTT
*
48430809 CTGGTGGTTCTGCCAGAAATATCTGTT
1 CTGGTGGCTCTGCCA-AAATATCTGTT
*
48430836 TTGGTGGCTCTGCCACAAATATCTGTGT
1 CTGGTGGCTCTGCCA-AAATATCTGT-T
48430864 CTGGTG
1 CTGGTG
48430870 ACTATGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 13 0.25
27 33 0.63
28 6 0.12
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCAAAATATCTGTT
Found at i:48430880 original size:28 final size:27
Alignment explanation
Indices: 48430783--48430889 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 27
48430773 AGGAAGCATC
*
48430783 CTGGTGGCTATGCCA-AATTATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGTT
* * *
48430809 CTGGTGGTTCTGCCAGAAATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGTT
* *
48430836 TTGGTGGCTCTGCCACAAATATCTGTGT
1 CTGGTGGCTATGCCACAAATATCTGT-T
* * *
48430864 CTGGTGACTATGTCAC-ATTATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGTT
48430890 TTGGAAGCCA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 14 0.21
27 41 0.60
28 13 0.19
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAAATATCTGTT
Found at i:48441062 original size:27 final size:26
Alignment explanation
Indices: 48441032--48441290 Score: 232
Period size: 27 Copynumber: 9.7 Consensus size: 26
48441022 TTAGTATACC
* *
48441032 AAATCACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACC-CTAGTTTGTA
* * **
48441059 AAATTACCAATATACCCTTGGTTTACA
1 AAATTACCAAAATACCC-TAGTTTGTA
48441086 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCC-TAGTTTGTA
* * * *
48441113 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACC-CTAGTTTGTA
48441140 AAATTACCAAAATACCC-ATGTTTGTA
1 AAATTACCAAAATACCCTA-GTTTGTA
*
48441166 AAACTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTAGTTTGTA
* *
48441193 AAATTACCAAAATACCTCTAATTTGTG
1 AAATTACCAAAATACC-CTAGTTTGTA
* * **
48441220 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTAG-TTTGTA
** * *
48441247 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTAG-TTTGTA
*
48441274 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
48441291 CCAATTTATA
Statistics
Matches: 194, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
26 24 0.12
27 169 0.87
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
AAATTACCAAAATACCCTAGTTTGTA
Found at i:48441195 original size:53 final size:53
Alignment explanation
Indices: 48441032--48441290 Score: 259
Period size: 54 Copynumber: 4.8 Consensus size: 53
48441022 TTAGTATACC
* * * *
48441032 AAATCACCAAAATACCTCTGGTTTGTAAAATTACCAATATACCCTTGGTTTACA
1 AAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
48441086 AAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
48441140 AAATTACCAAAATACCC-ATGTTTGTAAAACTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTA-GTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * *** *
48441193 AAATTACCAAAATACCTCTAATTTGTGAAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
** * * *
48441247 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCTAG-TTTGTAAAATTACCAAAATACCC
48441291 CCAATTTATA
Statistics
Matches: 170, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
52 1 0.01
53 47 0.28
54 121 0.71
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (53 bp):
AAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:48441277 original size:134 final size:134
Alignment explanation
Indices: 48441037--48441290 Score: 305
Period size: 134 Copynumber: 1.9 Consensus size: 134
48441027 ATACCAAATC
* * * **
48441037 ACCAAAATACCTCTGGTTTGTAAAATTACCAATATACCCTTGGTTTACAAAATTACCAAAATACC
1 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAATTTACAAAATTACCAAAATACC
* ** * **
48441102 CTTAGTTTGTAAAATTACTAAAATACCATTGGTTTATAAAATTACCAAAATACCCATGTTTGTAA
66 CTGAGCCTGTAAAATTACTAAAATACCATCGACTTATAAAATTACCAAAATACCCATGTTTGTAA
48441167 AACT
131 AACT
*** *
48441171 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCTCTAATTTGTGAAATTACTAAAATAC
1 ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCT-TAATTTACAAAATTACCAAAATAC
* * * *
48441235 CCTCGA-CCTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
65 CCT-GAGCCTGTAAAATTACTAAAATACCATCGACTTATAAAATTACCAAAATACCC
48441291 CCAATTTATA
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
133 3 0.03
134 95 0.96
135 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (134 bp):
ACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAATTTACAAAATTACCAAAATACC
CTGAGCCTGTAAAATTACTAAAATACCATCGACTTATAAAATTACCAAAATACCCATGTTTGTAA
AACT
Found at i:48441343 original size:27 final size:27
Alignment explanation
Indices: 48441220--48441345 Score: 94
Period size: 27 Copynumber: 4.7 Consensus size: 27
48441210 CTAATTTGTG
* * *
48441220 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACTTATA
*
48441247 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTATA
* * * *
48441274 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCGACTTATA
* *** * *
48441301 GAATTA-TCGTTTTACCCTCGATTTACA
1 AAATTACT-GAAATACCCTCGACTTATA
48441328 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
48441346 TGTAGGGTAG
Statistics
Matches: 76, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
26 3 0.04
27 72 0.95
28 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTATA
Found at i:48441359 original size:27 final size:27
Alignment explanation
Indices: 48441329--48441469 Score: 187
Period size: 27 Copynumber: 5.2 Consensus size: 27
48441319 CGATTTACAA
48441329 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
48441356 AATTA-TCGAAATACCCCTGTAGGTTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
48441383 AATTACCT-AAATACCCTTGTAGGGTAG
1 AATTA-CTGAAATACCCTTGTAGGGTAG
* *
48441410 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
48441437 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
48441464 AATTAC
1 AATTAC
48441470 CATTTTGCCC
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.02
27 96 0.97
29 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:48441909 original size:22 final size:23
Alignment explanation
Indices: 48441860--48441910 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
48441850 AATTATTCTG
*
48441860 ATTATGGCTTTGCGCCAACCTAC
1 ATTATGGCTCTGCGCCAACCTAC
*
48441883 A-TATGGCTCTGTGCCAACCTA-
1 ATTATGGCTCTGCGCCAACCTAC
48441904 ATTATGG
1 ATTATGG
48441911 TTGTGTGCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (23 bp):
ATTATGGCTCTGCGCCAACCTAC
Found at i:48441917 original size:22 final size:22
Alignment explanation
Indices: 48441860--48441918 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
48441850 AATTATTCTG
*
48441860 ATTATGGCTTTGCGCCAACCTAC
1 ATTATGG-TTTGTGCCAACCTAC
*
48441883 A-TATGGCTCTGTGCCAACCTA-
1 ATTATGG-TTTGTGCCAACCTAC
48441904 ATTATGGTTGTGTGC
1 ATTATGGTT-TGTGC
48441919 GAAACGTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.06
22 28 0.90
23 1 0.03
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (22 bp):
ATTATGGTTTGTGCCAACCTAC
Found at i:48442110 original size:27 final size:27
Alignment explanation
Indices: 48442080--48442163 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
48442070 ATTCTGTTAA
* * *
48442080 GTGGCTTTGCCACATTATTTGTTTCTG
1 GTGGCTATGCCACAATATATGTTTCTG
*
48442107 GTGGCTATGCCACAAATATAT-ATTCTG
1 GTGGCTATGCCAC-AATATATGTTTCTG
* * *
48442134 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATATGTTTCTG
48442161 GTG
1 GTG
48442164 ACTGTCACAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
26 6 0.13
27 36 0.77
28 5 0.11
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACAATATATGTTTCTG
Found at i:48442336 original size:25 final size:25
Alignment explanation
Indices: 48442308--48442370 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
48442298 TTCACATTTC
* *
48442308 GATTCTAATTCTGTTACCTGATACT
1 GATTCTAATTCTGTCACCTAATACT
* * *
48442333 GATTCTTATTTTGTCACCTAATTCT
1 GATTCTAATTCTGTCACCTAATACT
*
48442358 GATTCTGATTCTG
1 GATTCTAATTCTG
48442371 ATTCTGTCAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.48
Consensus pattern (25 bp):
GATTCTAATTCTGTCACCTAATACT
Found at i:48442364 original size:6 final size:6
Alignment explanation
Indices: 48442353--48442421 Score: 70
Period size: 6 Copynumber: 11.3 Consensus size: 6
48442343 TTGTCACCTA
* *
48442353 ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
48442402 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
48442422 AATGTTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 2 0.04
6 45 0.87
7 4 0.08
8 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:48442366 original size:31 final size:31
Alignment explanation
Indices: 48442325--48442407 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 31
48442315 ATTCTGTTAC
* *
48442325 CTGATACTGATTCTTATTTTGTCACCTAATT
1 CTGATTCTGATTCTCATTTTGTCACCTAATT
* * *
48442356 CTGATTCTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTCATTTTGTCACCTAATT
48442387 CTGATTCTGATTCTCATTTTG
1 CTGATTCTGATTCTCATTTTG
48442408 ATTCTAGTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.48
Consensus pattern (31 bp):
CTGATTCTGATTCTCATTTTGTCACCTAATT
Found at i:48444347 original size:27 final size:27
Alignment explanation
Indices: 48444317--48444575 Score: 277
Period size: 27 Copynumber: 9.6 Consensus size: 27
48444307 TTAGTTTACC
* *
48444317 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* **
48444344 AAATTACCAAAATACCCTTTGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
**
48444371 AAATTACCAAAATACTTTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
48444398 AAATTACTAAAATACCCTTGGTTTAT-
1 AAATTACCAAAATACCCTTGGTTTGTA
*
48444424 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
48444451 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
48444478 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTA
** * ***
48444505 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* ****
48444532 AAATTACTAAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
48444559 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
48444576 CCGATTTATA
Statistics
Matches: 198, Mismatches: 33, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 23 0.12
27 175 0.88
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:48444487 original size:107 final size:107
Alignment explanation
Indices: 48444317--48444522 Score: 322
Period size: 107 Copynumber: 1.9 Consensus size: 107
48444307 TTAGTTTACC
* *
48444317 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTTGTTTACAAAATTACCAAA
1 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAA
** *
48444382 ATACTTTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTAT
66 ATACCCTTGATTTGTAAAATTACTAAAATACCCTTGGTTTAT
* **
48444424 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAA
* *
48444489 ATACCCTTGATTTGTGAAATTACTGAAATACCCT
66 ATACCCTTGATTTGTAAAATTACTAAAATACCCT
48444523 CGACCTGTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
107 89 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (107 bp):
AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAA
ATACCCTTGATTTGTAAAATTACTAAAATACCCTTGGTTTAT
Found at i:48444628 original size:27 final size:27
Alignment explanation
Indices: 48444317--48444630 Score: 233
Period size: 27 Copynumber: 11.7 Consensus size: 27
48444307 TTAGTTTACC
* *
48444317 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* **
48444344 AAATTACCAAAATACCCTTTG-TTTACA
1 AAATTACCAAAATACCC-TCGATTTGTA
** * *
48444371 AAATTACCAAAATACTTTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
48444398 AAATTACTAAAATACCCTTGGTTTAT-
1 AAATTACCAAAATACCCTCGATTTGTA
*
48444424 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
48444451 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
48444478 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** **
48444505 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
48444532 AAATTACTAAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
48444559 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **** **
48444586 GAATTATCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
48444613 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
48444631 TGTAGGGTAG
Statistics
Matches: 232, Mismatches: 48, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
26 25 0.11
27 205 0.88
28 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:48444644 original size:27 final size:27
Alignment explanation
Indices: 48444614--48444809 Score: 275
Period size: 27 Copynumber: 7.3 Consensus size: 27
48444604 CGATTTACAA
48444614 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
48444641 AATTACTGAAATACCCTTGGAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
48444668 AATTACCTAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
48444695 AAATACCGAATTACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
48444722 AATTACTGAGATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
48444749 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
48444776 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
48444803 AATTACC
1 AATTACC
48444810 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:48445229 original size:22 final size:22
Alignment explanation
Indices: 48445199--48445260 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
48445189 AATTATTCTG
* *
48445199 ATTATGGCTTTGCGCCAACCTA
1 ATTATGGCTCTGTGCCAACCTA
48445221 CA-TATGGCTCTGTGCCAACCTA
1 -ATTATGGCTCTGTGCCAACCTA
*
48445243 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
48445261 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:48445499 original size:27 final size:27
Alignment explanation
Indices: 48445421--48445500 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
48445411 TCTGTTAAGT
* * * * *
48445421 GGCTTTGCCACATTATTTGTTTCTGGT
1 GGCTATGCCACAATATATGTATCTGGC
*
48445448 GGCTATGCCACAA-ATATATATTCTGGC
1 GGCTATGCCACAATATATGTA-TCTGGC
* *
48445475 GGCTCTGCCACAATATCTGTATCTGG
1 GGCTATGCCACAATATATGTATCTGG
48445501 TGACTGTCAC
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
26 4 0.10
27 33 0.79
28 5 0.12
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
GGCTATGCCACAATATATGTATCTGGC
Found at i:48445669 original size:6 final size:6
Alignment explanation
Indices: 48445658--48445726 Score: 70
Period size: 6 Copynumber: 11.3 Consensus size: 6
48445648 TTGTCACCTA
* *
48445658 ATTCTG ATTCTG ATTCTG ATTCT- ATCACCTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
48445707 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
48445727 AATGTTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 3 0.06
6 44 0.85
7 3 0.06
8 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:48447643 original size:27 final size:27
Alignment explanation
Indices: 48447613--48447873 Score: 279
Period size: 27 Copynumber: 9.7 Consensus size: 27
48447603 TTAGTTTACC
* *
48447613 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* **
48447640 AAATTACCAAAATACCCTTTGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
**
48447667 AAATTACCAAAATACTTTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
48447694 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
48447721 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
48447748 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
48447775 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTA
*** * ***
48447802 AAATTATTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* ****
48447829 AAATTACTAAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
48447856 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
48447874 CGATTTATAG
Statistics
Matches: 199, Mismatches: 35, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 199 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:48447887 original size:27 final size:27
Alignment explanation
Indices: 48447613--48447927 Score: 242
Period size: 27 Copynumber: 11.7 Consensus size: 27
48447603 TTAGTTTACC
* *
48447613 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* **
48447640 AAATTACCAAAATACCCTTTG-TTTACA
1 AAATTACCAAAATACCC-TCGATTTGTA
** * *
48447667 AAATTACCAAAATACTTTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
48447694 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
48447721 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
48447748 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
48447775 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
*** **
48447802 AAATTATTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
48447829 AAATTACTAAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
48447856 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** **
48447883 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
**
48447910 AAATTACTGAAATACCCT
1 AAATTACCAAAATACCCT
48447928 TGTAGGGTAG
Statistics
Matches: 235, Mismatches: 47, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.01
27 230 0.98
28 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:48447941 original size:27 final size:27
Alignment explanation
Indices: 48447911--48448105 Score: 275
Period size: 27 Copynumber: 7.2 Consensus size: 27
48447901 CGATTTACAA
48447911 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
48447938 AATTACTGAAATACCCTTGGAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
48447965 AATTACCT-AAATACCCTTGTAGGGTAG
1 AATTA-CTGAAATACCCTTGTAGGGTAG
* * *
48447992 AAATACCGAATTACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
48448019 AATTACTGAGATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
48448046 AAATACTGAATTACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
48448073 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
48448100 AATTAC
1 AATTAC
48448106 CATTTTGCCC
Statistics
Matches: 148, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 145 0.98
28 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:48448431 original size:22 final size:22
Alignment explanation
Indices: 48448398--48448462 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
48448388 GCCAATTATT
* *
48448398 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
48448420 CT-ATATATGGCTCTGTGCCAAC
1 CTGAT-TATGGCTCTGTGCCAAC
*
48448442 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
48448463 ACGTATTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:48448651 original size:27 final size:26
Alignment explanation
Indices: 48448621--48448729 Score: 137
Period size: 27 Copynumber: 4.1 Consensus size: 26
48448611 ATTCTGTTAA
* *
48448621 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
48448648 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
48448675 GAGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
48448702 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
48448728 GT
1 GT
48448730 AGCCATGCTG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.21
27 51 0.70
28 7 0.10
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:48448901 original size:25 final size:25
Alignment explanation
Indices: 48448845--48448903 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
48448835 TTGCATTCAC
* * *
48448845 ATTCTGATTCTAATTATGTTACTTG
1 ATTCTGATTCTAATTATGTCACCTA
* *
48448870 ATACTGATTCTAATTTTGTCACCTA
1 ATTCTGATTCTAATTATGTCACCTA
48448895 ATTCTGATT
1 ATTCTGATT
48448904 TTGATTCTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTAATTATGTCACCTA
Found at i:48448909 original size:31 final size:31
Alignment explanation
Indices: 48448868--48448949 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
48448858 TTATGTTACT
*
48448868 TGATACTGATTCTAATTTTGTCACCTAATTC
1 TGATTCTGATTCTAATTTTGTCACCTAATTC
* * * * *
48448899 TGATTTTGATTCTGATTCTGTCACCTGATTT
1 TGATTCTGATTCTAATTTTGTCACCTAATTC
*
48448930 TGATTCTGATTCTCATTTTG
1 TGATTCTGATTCTAATTTTG
48448950 ATTCTAGTTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (31 bp):
TGATTCTGATTCTAATTTTGTCACCTAATTC
Found at i:48448914 original size:6 final size:6
Alignment explanation
Indices: 48448895--48448963 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
48448885 TTGTCACCTA
* * * *
48448895 ATTCTG ATTTTG ATTCTG ATTCTG -TCACCTG ATTTTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
48448944 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
48448964 AATGTTTCTT
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
5 2 0.04
6 41 0.85
7 4 0.08
8 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.14, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:48451233 original size:15 final size:15
Alignment explanation
Indices: 48451213--48451307 Score: 110
Period size: 15 Copynumber: 6.5 Consensus size: 15
48451203 GGACTAAAAT
48451213 CATAAATATTAATTA
1 CATAAATATTAATTA
48451228 CATAAATATTAATTA
1 CATAAATATTAATTA
*
48451243 CA-AACT-TATAATTA
1 CATAAATAT-TAATTA
48451257 CATAAATATTAA-TA
1 CATAAATATTAATTA
*
48451271 -AAAAACT-TATAATTA
1 CATAAA-TAT-TAATTA
48451286 CATAAATATTAATTA
1 CATAAATATTAATTA
48451301 CATAAAT
1 CATAAAT
48451308 GGAATTAACA
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
13 6 0.09
14 17 0.25
15 39 0.57
16 6 0.09
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (15 bp):
CATAAATATTAATTA
Found at i:48451256 original size:14 final size:14
Alignment explanation
Indices: 48451237--48451287 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
48451227 ACATAAATAT
48451237 TAATTACAAACTTA
1 TAATTACAAACTTA
*
48451251 TAATTACATAA-ATA
1 TAATTACA-AACTTA
* *
48451265 TTAATAAAAAACTTA
1 -TAATTACAAACTTA
48451280 TAATTACA
1 TAATTACA
48451288 TAAATATTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATTACAAACTTA
Found at i:48451264 original size:29 final size:29
Alignment explanation
Indices: 48451222--48451302 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
48451212 TCATAAATAT
48451222 TAATTACATAAATATTAATTACAAACTTA
1 TAATTACATAAATATTAATTACAAACTTA
* *
48451251 TAATTACATAAATATTAATAAAAAACTTA
1 TAATTACATAAATATTAATTACAAACTTA
48451280 TAATTACATAAATATTAATTACA
1 TAATTACATAAATATTAATTACA
48451303 TAAATGGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (29 bp):
TAATTACATAAATATTAATTACAAACTTA
Found at i:48451314 original size:29 final size:28
Alignment explanation
Indices: 48451216--48451307 Score: 114
Period size: 29 Copynumber: 3.1 Consensus size: 28
48451206 CTAAAATCAT
48451216 AAATATTAATTACATAAATATTAATTACA
1 AAATA-TAATTACATAAATATTAATTACA
* *
48451245 AACTTATAATTACATAAATATTAA-TAAA
1 AA-ATATAATTACATAAATATTAATTACA
48451273 AAACTTATAATTACATAAATATTAATTACA
1 AAA--TATAATTACATAAATATTAATTACA
48451303 TAAAT
1 -AAAT
48451308 GGAATTAACA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
28 5 0.09
29 41 0.76
30 5 0.09
31 3 0.06
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (28 bp):
AAATATAATTACATAAATATTAATTACA
Found at i:48451813 original size:13 final size:13
Alignment explanation
Indices: 48451777--48451850 Score: 76
Period size: 13 Copynumber: 5.7 Consensus size: 13
48451767 CTCAAAATTT
*
48451777 TCAAAAGCACCTC
1 TCAAAAGCACTTC
*
48451790 TTAAAAGCACTTC
1 TCAAAAGCACTTC
* *
48451803 TAAAAAGCACTTT
1 TCAAAAGCACTTC
* *
48451816 TCCACAGCACTTC
1 TCAAAAGCACTTC
*
48451829 TCAAAAGCACTTT
1 TCAAAAGCACTTC
*
48451842 TTAAAAGCA
1 TCAAAAGCA
48451851 ATGAAGAACT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:48454647 original size:46 final size:46
Alignment explanation
Indices: 48454593--48454765 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
48454583 TGGTTGAGCA
48454593 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
48454639 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
48454684 CATCCGAAGTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48454732 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
48454766 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 57 0.56
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48454749 original size:93 final size:93
Alignment explanation
Indices: 48454590--48454760 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
48454580 GGATGGTTGA
* * *
48454590 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
*
48454655 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* * *
48454683 GCATCCGAAGTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
48454748 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
48454761 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:48458827 original size:7 final size:7
Alignment explanation
Indices: 48458817--48458843 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
48458807 AATGATGAAT
48458817 GATGAGG
1 GATGAGG
48458824 GATGAGG
1 GATGAGG
48458831 GATGAGG
1 GATGAGG
48458838 GATGAG
1 GATGAG
48458844 TAGAAATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:48474074 original size:35 final size:34
Alignment explanation
Indices: 48474035--48474101 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
48474025 TTTGTAACCT
* *
48474035 TATCTATATCTGAAATGGGCTCAGGCCCGAATTTA
1 TATCTATATCTGAAATAGGCTCAAGCCC-AATTTA
* *
48474070 TATCTGTATCTGACATAGGCTCAAGCCCAATT
1 TATCTATATCTGAAATAGGCTCAAGCCCAATT
48474102 ATGATATTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 4 0.14
35 24 0.86
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (34 bp):
TATCTATATCTGAAATAGGCTCAAGCCCAATTTA
Found at i:48475718 original size:49 final size:49
Alignment explanation
Indices: 48475654--48475968 Score: 177
Period size: 49 Copynumber: 6.6 Consensus size: 49
48475644 CATCAAAGTC
* *
48475654 AATGCCATGTCCCAGAGAGGTCTTACACTGACTTTCATATATCGAGGCT
1 AATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCT
* * * * * * *
48475703 AATGTCGTGTCCCAGACAAGTCTTACACTGGCTCTCATTTATCGATGTT
1 AATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCT
* * * * *
48475752 GATGCCATGTCCCAGACAGGTCTTACGCT-AGCT-TGTATATCTCGAGGCC
1 AATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATCGAGGCT
* * * ** * * * *
48475801 GAT-CCATATCCCAGACATGTCTTACACT-AGCTCT--GGTCTCAATGCC
1 AATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCGAGGCT
* * * * * * *
48475847 GATG-CATGTCCTAGACATGTCTTACACTGGCT-TGCATCTCTCGAGGCC
1 AATGCCATGTCCCAGACAGGTCTTACACTGACTCT-CATATATCGAGGCT
* * * * * *
48475895 AATG-CATGTCCCAGACATGTCTTACACTGGCTCTCGTA-A-AGTGGCC
1 AATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCT
*
48475941 AATG-CATGTCCCAGACATGTCTTACACT
1 AATGCCATGTCCCAGACAGGTCTTACACT
48475969 AGCACACATA
Statistics
Matches: 215, Mismatches: 42, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.00
46 68 0.32
48 67 0.31
49 79 0.37
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
AATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCT
Done.