Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 44 of 145
Found at i:15633305 original size:21 final size:20
Alignment explanation
Indices: 15633281--15633324 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
15633271 TTTGATTTGA
15633281 AATGGCAACAATAAAATTTCT
1 AATGG-AACAATAAAATTTCT
* * *
15633302 AATGGAATACTAAATTTTCT
1 AATGGAACAATAAAATTTCT
15633322 AAT
1 AAT
15633325 AAGATAGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (20 bp):
AATGGAACAATAAAATTTCT
Found at i:15634097 original size:50 final size:50
Alignment explanation
Indices: 15634028--15634122 Score: 181
Period size: 50 Copynumber: 1.9 Consensus size: 50
15634018 AGTAAGCATT
*
15634028 TTTTTTTATTTTCAAAATGTCGCTCCAACGAGTTTAAAAGAAAATAAGCA
1 TTTTTTTATTTTCAAAATGTCGCTCCAACGAGTTTAAAAAAAAATAAGCA
15634078 TTTTTTTATTTTCAAAATGTCGCTCCAACGAGTTTAAAAAAAAAT
1 TTTTTTTATTTTCAAAATGTCGCTCCAACGAGTTTAAAAAAAAAT
15634123 TTAATGGTGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (50 bp):
TTTTTTTATTTTCAAAATGTCGCTCCAACGAGTTTAAAAAAAAATAAGCA
Found at i:15638908 original size:49 final size:48
Alignment explanation
Indices: 15638855--15638973 Score: 193
Period size: 49 Copynumber: 2.5 Consensus size: 48
15638845 CTTCAGGCAT
15638855 GGCACTTGGTGCCCAGGTGTGTTTCAGAGGGATGTTAGCCTACGGGGTA
1 GGCACTTGGTGCCCAGGTGTGTTTCAGAGGGATGTTAGCCTA-GGGGTA
* *
15638904 GGCACTTGGTGCCCAGGTATGTTTTAGAGGGATGTTAGCCTAGGGGTA
1 GGCACTTGGTGCCCAGGTGTGTTTCAGAGGGATGTTAGCCTAGGGGTA
* *
15638952 GGCACTTAGTGCCTAGGTGTGT
1 GGCACTTGGTGCCCAGGTGTGT
15638974 GCTCGGTTGG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
48 25 0.38
49 40 0.62
ACGTcount: A:0.17, C:0.17, G:0.38, T:0.29
Consensus pattern (48 bp):
GGCACTTGGTGCCCAGGTGTGTTTCAGAGGGATGTTAGCCTAGGGGTA
Found at i:15639834 original size:21 final size:21
Alignment explanation
Indices: 15639810--15639851 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15639800 GTTTTTGGCA
*
15639810 TGTTTCGAGCTGGTTTAATTT
1 TGTTTCGAGCAGGTTTAATTT
*
15639831 TGTTTTGAGCAGGTTTAATTT
1 TGTTTCGAGCAGGTTTAATTT
15639852 CTGGTAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.07, G:0.24, T:0.52
Consensus pattern (21 bp):
TGTTTCGAGCAGGTTTAATTT
Found at i:15640205 original size:8 final size:9
Alignment explanation
Indices: 15640176--15640208 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
15640166 TGTGACCTCT
15640176 ATTTTCAAA
1 ATTTTCAAA
15640185 ATTTTCAAA
1 ATTTTCAAA
15640194 ATTTTCAAA
1 ATTTTCAAA
*
15640203 TTTTTC
1 ATTTTC
15640209 TATAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (9 bp):
ATTTTCAAA
Found at i:15642705 original size:15 final size:15
Alignment explanation
Indices: 15642685--15642715 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15642675 GTTATGTAAG
15642685 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
15642700 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
15642715 T
1 T
15642716 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:15645114 original size:15 final size:15
Alignment explanation
Indices: 15645094--15645124 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15645084 GTTATGTAAG
15645094 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
15645109 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
15645124 T
1 T
15645125 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:15645773 original size:43 final size:43
Alignment explanation
Indices: 15645722--15646037 Score: 420
Period size: 43 Copynumber: 7.3 Consensus size: 43
15645712 GTTTTTAGAA
* *
15645722 ACAAACGCCGCTAAAGACTAAGACCATTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* *
15645765 ACAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCCTTTT-CC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCG-CTTTTCCC
* *
15645808 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGTTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* *
15645851 ACAAACGCCGCTAAAGACCAAGACCATTAGCGGCGCTTTTCCA
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * *
15645894 ACAAACGCCGCTAAAGACCAAGACCATTAGCGACGCTTTTCCA
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * * * *
15645937 ACAAACGCCACTAAAGACAAAAACCTTTAGCGGTGCTTTCCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
* * *
15645980 ACAAACACCGCTAAAGACCATA-ACCTTTAGCGGCGCTTCTCGC
1 ACAAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTTCCC
*
15646023 AAAAACGCCGCTAAA
1 ACAAACGCCGCTAAA
15646038 AACATAACCT
Statistics
Matches: 242, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.02
43 232 0.96
44 6 0.02
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.19
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCC
Found at i:15653639 original size:3 final size:3
Alignment explanation
Indices: 15653631--15653676 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
15653621 TACATCAATA
15653631 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
15653677 GTAGAACGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:15656159 original size:14 final size:14
Alignment explanation
Indices: 15656140--15656177 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
15656130 CTTAAATCAC
15656140 TAACTCTTAACCCA
1 TAACTCTTAACCCA
*
15656154 TAACTCTTAACCCT
1 TAACTCTTAACCCA
*
15656168 TAACCCTTAA
1 TAACTCTTAA
15656178 ACCTTAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (14 bp):
TAACTCTTAACCCA
Found at i:15656182 original size:14 final size:14
Alignment explanation
Indices: 15656145--15656200 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
15656135 ATCACTAACT
*
15656145 CTTAACCCAT-AAC
1 CTTAACCCTTAAAC
*
15656158 TCTTAACCCTTAACC
1 -CTTAACCCTTAAAC
*
15656173 CTTAAACCTTAAAC
1 CTTAACCCTTAAAC
*
15656187 C-CAACCCTTAAAC
1 CTTAACCCTTAAAC
15656200 C
1 C
15656201 ATAATCCCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
13 11 0.31
14 22 0.63
15 2 0.06
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (14 bp):
CTTAACCCTTAAAC
Found at i:15656183 original size:21 final size:21
Alignment explanation
Indices: 15656140--15656209 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 21
15656130 CTTAAATCAC
* *
15656140 TAACTCTTAACCCAT-AACTCT
1 TAACCCTTAACCCTTAAAC-CT
15656161 TAACCCTTAACCCTTAAACCT
1 TAACCCTTAACCCTTAAACCT
*
15656182 TAAACCC--AACCCTTAAACCA
1 T-AACCCTTAACCCTTAAACCT
15656202 TAATCCCT
1 TAA-CCCT
15656210 AAATCCATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.05
20 16 0.38
21 16 0.38
22 8 0.19
ACGTcount: A:0.36, C:0.37, G:0.00, T:0.27
Consensus pattern (21 bp):
TAACCCTTAACCCTTAAACCT
Found at i:15656540 original size:7 final size:7
Alignment explanation
Indices: 15656530--15656611 Score: 92
Period size: 7 Copynumber: 11.6 Consensus size: 7
15656520 CCCCAGCCTT
15656530 TAAACCA
1 TAAACCA
15656537 TAAACCA
1 TAAACCA
15656544 TAAACCA
1 TAAACCA
15656551 TAAACCA
1 TAAACCA
*
15656558 TAAACCG
1 TAAACCA
15656565 TAAACCA
1 TAAACCA
*
15656572 TAAACTA
1 TAAACCA
* *
15656579 TAACCCC
1 TAAACCA
15656586 TAAACCCA
1 TAAA-CCA
*
15656594 TAATCCA
1 TAAACCA
* *
15656601 CAAACCT
1 TAAACCA
15656608 TAAA
1 TAAA
15656612 ATGGTAACAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.17
Consensus pattern (7 bp):
TAAACCA
Found at i:15656889 original size:40 final size:40
Alignment explanation
Indices: 15656822--15657227 Score: 246
Period size: 41 Copynumber: 9.9 Consensus size: 40
15656812 TTTTAAATCC
* * *
15656822 CTGAGCATTAGCAGCGCTTTTTAAAAAACGTCGCTAAAA-A
1 CTGAGCATTAGCGGCGCTTTATCAAAAACG-CGCTAAAACA
* *
15656862 -TAGAGCATTCGCGGCGCTTTATCAAAAATGCAGCTAAAAGCA
1 CT-GAGCATTAGCGGCGCTTTATCAAAAACGC-GCTAAAA-CA
* ** * *
15656904 CTGAGCATTAGCGGCGCTATCCCAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTTATCAAAAACG-CGCTAAAACA
* ** * * *
15656945 CTGAGCATTAGCGGCGCTATCCCAAAAATGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTTATCAAAAACG-CGCTAAAACA
* *** * *
15656986 CTGAGCATTAGCGGCACTTCCCCAAAACCGCCGCTAAAGC-
1 CTGAGCATTAGCGGCGCTTTATCAAAAACG-CGCTAAAACA
** * *
15657026 CTTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
1 C-TGAGCATTAGCGGCGCTTTATCAAAAACG-CGCTAAAACA
* ** * *
15657068 CTGAGCATTAGCGACGC-TTCCCCAAAACGCCGCTAAAGCA
1 CTGAGCATTAGCGGCGCTTTATCAAAAACG-CGCTAAAACA
*** * *
15657108 CTGAGCATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTTATCAAAAACG-CGCTAAAACA
* * * *
15657149 CTGAGCATTAGCGGCAC-TTACCCAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTTA-TCAAAAACG-CGCTAAAACA
* * ***
15657190 CTGAACATTAGCGACGCTTCCCCAAAAACGCCGCTAAA
1 CTGAGCATTAGCGGCGCTTTATCAAAAACG-CGCTAAA
15657228 GCCCAGAAAG
Statistics
Matches: 319, Mismatches: 36, Indels: 21
0.85 0.10 0.06
Matches are distributed among these distances:
39 2 0.01
40 69 0.22
41 214 0.67
42 32 0.10
43 2 0.01
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.17
Consensus pattern (40 bp):
CTGAGCATTAGCGGCGCTTTATCAAAAACGCGCTAAAACA
Found at i:15656955 original size:41 final size:40
Alignment explanation
Indices: 15656864--15657231 Score: 511
Period size: 41 Copynumber: 9.0 Consensus size: 40
15656854 GCTAAAAATA
* ** * * *
15656864 GAGCATTCGCGGCGCTTTATCAAAAATGCAGCTAAAAGCACT
1 GAGCATTAGCGGCGC-TTCCCAAAAACGCCGCT-AAAGCCCT
15656906 GAGCATTAGCGGCGCTATCCCAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCT-TCCCAAAAACGCCGCTAAAGCCCT
*
15656947 GAGCATTAGCGGCGCTATCCCAAAAATGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCT-TCCCAAAAACGCCGCTAAAGCCCT
* * *
15656988 GAGCATTAGCGGCACTTCCCCAAAACCGCCGCTAAAGCCTT
1 GAGCATTAGCGGCGCTT-CCCAAAAACGCCGCTAAAGCCCT
15657029 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGC-TTCCCAAAAACGCCGCTAAAGCCCT
* * *
15657070 GAGCATTAGCGACGCTTCCCCAAAACGCCGCTAAAGCACT
1 GAGCATTAGCGGCGCTTCCCAAAAACGCCGCTAAAGCCCT
15657110 GAGCATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCTT-CCCAAAAACGCCGCTAAAGCCCT
*
15657151 GAGCATTAGCGGCACTTACCCAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCTT-CCCAAAAACGCCGCTAAAGCCCT
* *
15657192 GAACATTAGCGACGCTTCCCCAAAAACGCCGCTAAAGCCC
1 GAGCATTAGCGGCGCTT-CCCAAAAACGCCGCTAAAGCCC
15657232 AGAAAGCTCA
Statistics
Matches: 296, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
40 40 0.14
41 228 0.77
42 28 0.09
ACGTcount: A:0.30, C:0.34, G:0.21, T:0.16
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTCCCAAAAACGCCGCTAAAGCCCT
Found at i:15657134 original size:163 final size:164
Alignment explanation
Indices: 15656864--15657231 Score: 560
Period size: 163 Copynumber: 2.2 Consensus size: 164
15656854 GCTAAAAATA
* ** * * * *
15656864 GAGCATTCGCGGCGCTTTATCAAAAATGCAGCTAAAAGCACTGAGCATTAGCGGCGCTATCCCAA
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCT-AAAGCCCTGAGCATTAGCGACGCTATCCCAA
* *
15656929 AAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTATCCCAAAAATGCCGCTAAAGCCCTGAGCAT
65 AAACGCCGCTAAAGCACTGAGCATTAGCGGCGCTATCCCAAAAACGCCGCTAAAGCCCTGAGCAT
* * *
15656994 TAGCGGCACTTCCCCAAAACCGCCGCTAAAGCCTT
130 TAGCGGCACTTACCCAAAAACGCCGCTAAAGCCCT
*
15657029 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCT-TCCCCAA
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTATCCCAAA
15657093 AACGCCGCTAAAGCACTGAGCATTAGCGGCGCT-TCCCCAAAAACGCCGCTAAAGCCCTGAGCAT
66 AACGCCGCTAAAGCACTGAGCATTAGCGGCGCTAT-CCCAAAAACGCCGCTAAAGCCCTGAGCAT
15657157 TAGCGGCACTTACCCAAAAACGCCGCTAAAGCCCT
130 TAGCGGCACTTACCCAAAAACGCCGCTAAAGCCCT
* * *
15657192 GAACATTAGCGACGCTTCCCCAAAAACGCCGCTAAAGCCC
1 GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
15657232 AGAAAGCTCA
Statistics
Matches: 186, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
162 1 0.01
163 135 0.73
164 22 0.12
165 28 0.15
ACGTcount: A:0.30, C:0.34, G:0.21, T:0.16
Consensus pattern (164 bp):
GAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTATCCCAAA
AACGCCGCTAAAGCACTGAGCATTAGCGGCGCTATCCCAAAAACGCCGCTAAAGCCCTGAGCATT
AGCGGCACTTACCCAAAAACGCCGCTAAAGCCCT
Found at i:15657335 original size:39 final size:40
Alignment explanation
Indices: 15657292--15657401 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 40
15657282 CTGGAAAACA
* * **
15657292 CCACTAATGCTTG-TTTTTAGCGGCGTTTTTCTTAAAGCG
1 CCACTAATGCTCGATCTTTAGCGGCGTTTTTCAAAAAGCG
* * *
15657331 CCACTAATACTCGATCTTTAGCAGCGTTTTCCAAAAAGCG
1 CCACTAATGCTCGATCTTTAGCGGCGTTTTTCAAAAAGCG
*
15657371 CCGCTAATGCTCGATCTTTAGCGGCGTTTTT
1 CCACTAATGCTCGATCTTTAGCGGCGTTTTT
15657402 TATCCAAACG
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 11 0.19
40 48 0.81
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (40 bp):
CCACTAATGCTCGATCTTTAGCGGCGTTTTTCAAAAAGCG
Found at i:15657722 original size:41 final size:41
Alignment explanation
Indices: 15657665--15658028 Score: 421
Period size: 41 Copynumber: 8.9 Consensus size: 41
15657655 CAGATAAAAT
15657665 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
* *
15657706 GCATTAGTGGCGCTTTTTCAAAAAAGCCGCTAAAAGTCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
*
15657747 GCATTAGCGACGCTTTTTCAAAAACGCCGCTAAAAG-CATGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTC-TGA
* * * *
15657788 GCATTAGCGCCGCTTCTTCAAAAACGCCGCTAGAAGCCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
* * * *
15657829 GCATTAGCGGTGCTTCTTCAAAAACGCCGCTAAAAGCCTAA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
* * * * **
15657870 ACATTAGCAGCGC-TTTTCTAGAAACGCAGCT-AAAGCTCCAA
1 GCATTAGCGGCGCTTTTTC-AAAAACGCCGCTAAAAG-TCTGA
* *
15657911 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAAGCCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
* * * * *
15657952 ACATTGGCGGCCCTTTTTTAAAAACGCCGCT-AAAGCTCCGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAG-TCTGA
* * *
15657993 GCATTAGCGACGCTTTCTCAAAAATGCCGCTAAAAG
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAG
15658029 CCCCGAAAGG
Statistics
Matches: 273, Mismatches: 42, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
40 13 0.05
41 247 0.90
42 13 0.05
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
Found at i:15658196 original size:40 final size:40
Alignment explanation
Indices: 15658094--15658196 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 40
15658084 AAAAAATGCT
* * *
15658094 GCTAATGCTC-ATTTTTGGCGGCGCTTTCCTGAAAGCGCC
1 GCTAATACTCGATTTTTAGCGGCGCTTTCATGAAAGCGCC
* * * * *
15658133 GCTAATGCTCGGTCTTTAACGGCGCTTT-ATGTAGAGCGCC
1 GCTAATACTCGATTTTTAGCGGCGCTTTCATG-AAAGCGCC
*
15658173 GCTAATACTTGATTTTTAGCGGCG
1 GCTAATACTCGATTTTTAGCGGCG
15658197 TTTTTTGTCC
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
39 12 0.24
40 39 0.76
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.32
Consensus pattern (40 bp):
GCTAATACTCGATTTTTAGCGGCGCTTTCATGAAAGCGCC
Found at i:15666857 original size:28 final size:28
Alignment explanation
Indices: 15666817--15666874 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
15666807 TGTATTTCAC
15666817 GTTTTGATGTTGAGACGATATCGATCTA
1 GTTTTGATGTTGAGACGATATCGATCTA
15666845 GTTTTGATGTTGAGACGATATCGATCTA
1 GTTTTGATGTTGAGACGATATCGATCTA
15666873 GT
1 GT
15666875 CCGTCACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (28 bp):
GTTTTGATGTTGAGACGATATCGATCTA
Found at i:15669384 original size:27 final size:28
Alignment explanation
Indices: 15669332--15669387 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
15669322 CTCCAAGGGG
*
15669332 ACTTGTGGATACCGCCTTGTCTTTATAT
1 ACTTGTGGATACCACCTTGTCTTTATAT
15669360 ACTTGTGGATA-CACCTTGTCTTTATAT
1 ACTTGTGGATACCACCTTGTCTTTATAT
15669387 A
1 A
15669388 TTTTATTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 16 0.59
28 11 0.41
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (28 bp):
ACTTGTGGATACCACCTTGTCTTTATAT
Found at i:15671541 original size:27 final size:27
Alignment explanation
Indices: 15671499--15671646 Score: 176
Period size: 27 Copynumber: 5.5 Consensus size: 27
15671489 TGCGATTTGT
15671499 GGGTAAAATGACTGAAATACCCCAGAA
1 GGGTAAAATGACTGAAATACCCCAGAA
*
15671526 GGGTAAAATGATTGAAATACCCTCAG-A
1 GGGTAAAATGACTGAAATACCC-CAGAA
* * **
15671553 GGGTAAAATGGCCGAAATACCCCTTAA
1 GGGTAAAATGACTGAAATACCCCAGAA
* *
15671580 GGGTAAAATGACCGAAATACCTTCA-AA
1 GGGTAAAATGACTGAAATACC-CCAGAA
**
15671607 GGGTAAAATGACTGAAATACCCC-TTA
1 GGGTAAAATGACTGAAATACCCCAGAA
15671633 GGGTAAAATGACTG
1 GGGTAAAATGACTG
15671647 TTATACCACT
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.16
27 84 0.80
28 4 0.04
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.20
Consensus pattern (27 bp):
GGGTAAAATGACTGAAATACCCCAGAA
Found at i:15671570 original size:54 final size:53
Alignment explanation
Indices: 15671499--15671644 Score: 202
Period size: 54 Copynumber: 2.7 Consensus size: 53
15671489 TGCGATTTGT
* ** *
15671499 GGGTAAAATGACTGAAATACCCCAGAAGGGTAAAATGATTGAAATACCCTCAGA
1 GGGTAAAATGACTGAAATACCCC-TAAGGGTAAAATGACCGAAATACCCTCAAA
* * *
15671553 GGGTAAAATGGCCGAAATACCCCTTAAGGGTAAAATGACCGAAATACCTTCAAA
1 GGGTAAAATGACTGAAATACCCC-TAAGGGTAAAATGACCGAAATACCCTCAAA
*
15671607 GGGTAAAATGACTGAAATACCCCTTAGGGTAAAATGAC
1 GGGTAAAATGACTGAAATACCCCTAAGGGTAAAATGAC
15671645 TGTTATACCA
Statistics
Matches: 81, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 14 0.17
54 67 0.83
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (53 bp):
GGGTAAAATGACTGAAATACCCCTAAGGGTAAAATGACCGAAATACCCTCAAA
Found at i:15680751 original size:17 final size:18
Alignment explanation
Indices: 15680717--15680752 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
15680707 AAAATGGCTT
15680717 ATTTTATATTAATTTAAGC
1 ATTTTATATT-ATTTAAGC
15680736 ATTTTATATT-TTTAAGC
1 ATTTTATATTATTTAAGC
15680753 TATGAAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
ATTTTATATTATTTAAGC
Found at i:15681389 original size:28 final size:28
Alignment explanation
Indices: 15681343--15681438 Score: 149
Period size: 28 Copynumber: 3.4 Consensus size: 28
15681333 GAGCCCTATA
15681343 CAATAACAGT-ACAGTGTGGGCCTTAGCC
1 CAAT-ACAGTAACAGTGTGGGCCTTAGCC
* *
15681371 CAAAATAGTAACAGTGTGGGCCTTAGCC
1 CAATACAGTAACAGTGTGGGCCTTAGCC
*
15681399 CAATACAGTAATAGTGTGGGCCTTAGCC
1 CAATACAGTAACAGTGTGGGCCTTAGCC
15681427 CAATACAGTAAC
1 CAATACAGTAAC
15681439 TAGTACAGTG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 4 0.07
28 57 0.93
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (28 bp):
CAATACAGTAACAGTGTGGGCCTTAGCC
Found at i:15681797 original size:27 final size:26
Alignment explanation
Indices: 15681764--15682012 Score: 284
Period size: 27 Copynumber: 9.3 Consensus size: 26
15681754 GGTTATAACA
15681764 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCT-TGAGGGTATTTCG
* *
15681791 GTTATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCC-TTGAGGGTATTTCG
*
15681818 GTTATTTTACCCTTCG-GGGTATTTCG
1 GTCATTTTACCCTT-GAGGGTATTTCG
* * *
15681844 ATCATTTTACCCTTTGGGGGTATTTTG
1 GTCATTTTACCC-TTGAGGGTATTTCG
* *
15681871 GTCGTTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTT-GAGGGTATTTCG
* *
15681898 GTCATTTTACCCTTTGAAGGTATTTCA
1 GTCATTTTACCC-TTGAGGGTATTTCG
*
15681925 ATCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTT-GAGGGTATTTCG
* * *
15681952 ATCATTTTACCCTTTAGGGGTATTTTG
1 GTCATTTTACCCTTGA-GGGTATTTCG
15681979 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTT-GAGGGTATTTCG
15682006 GTCATTT
1 GTCATTT
15682013 GCCCATGAAT
Statistics
Matches: 193, Mismatches: 20, Indels: 18
0.84 0.09 0.08
Matches are distributed among these distances:
26 28 0.15
27 161 0.83
28 4 0.02
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (26 bp):
GTCATTTTACCCTTGAGGGTATTTCG
Found at i:15681920 original size:54 final size:54
Alignment explanation
Indices: 15681764--15682012 Score: 342
Period size: 54 Copynumber: 4.6 Consensus size: 54
15681754 GGTTATAACA
* *
15681764 GTCATTTTACCCTAT-GAGGGTATTTCGGTTATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCG
* * * *
15681818 GTTATTTTACCCTTCG-GGGTATTTCGATCATTTTACCCTTTGGGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCG
* * * *
15681871 GTCGTTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTTGAAGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCG
* * *
15681925 ATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTT-AGGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGA-GGGTATTTCG
15681979 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTT
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTT
15682013 GCCCATGAAT
Statistics
Matches: 171, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
53 50 0.29
54 121 0.71
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (54 bp):
GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTGAGGGTATTTCG
Found at i:15682011 original size:81 final size:80
Alignment explanation
Indices: 15681765--15682012 Score: 329
Period size: 81 Copynumber: 3.1 Consensus size: 80
15681755 GTTATAACAG
* * * *
15681765 TCATTTTACCCTATGAGGGTATTTCGGTTATTTTACCCTTTGGGGGTATTTCGGTTATTTTACCC
1 TCATTTTACCCT-TGAGGGTATTTCGGTCATTTTACCCTTTAGGGGTATTTTGGTCATTTTACCC
15681830 TTCG-GGGTATTTCGA
65 TTCGAGGGTATTTCGA
* * * *
15681845 TCATTTTACCCTTTGGGGGTATTTTGGTCGTTTTACCC-TTCGAGGGTATTTTGGTCATTTTACC
1 TCATTTTACCC-TTGAGGGTATTTCGGTCATTTTACCCTTTAG-GGGTATTTTGGTCATTTTACC
* * *
15681909 CTTTGAAGGTATTTCAA
64 CTTCGAGGGTATTTCGA
*
15681926 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTTAGGGGTATTTTGGTCATTTTACCC
1 TCATTTTACCCTT-GAGGGTATTTCGGTCATTTTACCCTTTAGGGGTATTTTGGTCATTTTACCC
*
15681991 TTCGAGGGTATTTCGG
65 TTCGAGGGTATTTCGA
15682007 TCATTT
1 TCATTT
15682013 GCCCATGAAT
Statistics
Matches: 144, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.02
80 57 0.40
81 81 0.56
82 3 0.02
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (80 bp):
TCATTTTACCCTTGAGGGTATTTCGGTCATTTTACCCTTTAGGGGTATTTTGGTCATTTTACCCT
TCGAGGGTATTTCGA
Found at i:15684057 original size:16 final size:15
Alignment explanation
Indices: 15684030--15684069 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
15684020 CACTCTTCAA
15684030 TCATCC-CTCATCCC
1 TCATCCTCTCATCCC
*
15684044 TCATTCCTCTCATCTC
1 TCA-TCCTCTCATCCC
15684060 TCATCCTCTC
1 TCATCCTCTC
15684070 TCTCAACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.12, C:0.50, G:0.00, T:0.38
Consensus pattern (15 bp):
TCATCCTCTCATCCC
Found at i:15686715 original size:50 final size:50
Alignment explanation
Indices: 15686640--15686742 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
15686630 GGGCAATACT
15686640 AAGAATCCAAGGAATTTGGGTAAAGAACATATCAAGTTAATGGCATTGCG
1 AAGAATCCAAGGAATTTGGGTAAAGAACATATCAAGTTAATGGCATTGCG
15686690 AAGAATCCAAGGAATTTGGGTAAAGAACATATCAAGTTAATGGCATTGCG
1 AAGAATCCAAGGAATTTGGGTAAAGAACATATCAAGTTAATGGCATTGCG
15686740 AAG
1 AAG
15686743 TGGTAAGACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (50 bp):
AAGAATCCAAGGAATTTGGGTAAAGAACATATCAAGTTAATGGCATTGCG
Found at i:15694912 original size:16 final size:15
Alignment explanation
Indices: 15694885--15694924 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
15694875 CACTCTTCAA
15694885 TCATCC-CTCATCCC
1 TCATCCTCTCATCCC
*
15694899 TCATTCCTCTCATCTC
1 TCA-TCCTCTCATCCC
15694915 TCATCCTCTC
1 TCATCCTCTC
15694925 TCTCAACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.12, C:0.50, G:0.00, T:0.38
Consensus pattern (15 bp):
TCATCCTCTCATCCC
Found at i:15701923 original size:12 final size:13
Alignment explanation
Indices: 15701900--15701928 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15701890 ACAAAGTTAG
15701900 TTTTAGGTTTTTA
1 TTTTAGGTTTTTA
15701913 TTTTA-GTTTTTA
1 TTTTAGGTTTTTA
15701925 TTTT
1 TTTT
15701929 CTTTCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (13 bp):
TTTTAGGTTTTTA
Found at i:15703657 original size:26 final size:25
Alignment explanation
Indices: 15703628--15703686 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
15703618 ACACTCATTT
15703628 CATATGCAT-AACACATAAGACACAAG
1 CATATGCATCAAC-CAT-AGACACAAG
*
15703654 CATAT-CATCAACCATAGCCACAAG
1 CATATGCATCAACCATAGACACAAG
15703678 C-TAGTGCAT
1 CATA-TGCAT
15703687 TTAAACATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 10 0.34
25 9 0.31
26 8 0.28
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.19
Consensus pattern (25 bp):
CATATGCATCAACCATAGACACAAG
Found at i:15718898 original size:29 final size:29
Alignment explanation
Indices: 15718831--15718904 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
15718821 TAAAGTAGAT
*
15718831 GCCTTGGTGGCTGATTTTGTCATATGAGA
1 GCCTTAGTGGCTGATTTTGTCATATGAGA
*
15718860 GCCCTAGTGGCTGATTTTGTCATATGAGA
1 GCCTTAGTGGCTGATTTTGTCATATGAGA
* *
15718889 GCCTTTGTGGTTGATT
1 GCCTTAGTGGCTGATT
15718905 CTATTAAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.16, C:0.15, G:0.30, T:0.39
Consensus pattern (29 bp):
GCCTTAGTGGCTGATTTTGTCATATGAGA
Found at i:15721053 original size:18 final size:17
Alignment explanation
Indices: 15721019--15721060 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
15721009 TGATTTACAG
15721019 TCTTTTTTTCTTGGTTT
1 TCTTTTTTTCTTGGTTT
15721036 TCTTTCTTTTCTCT-GTTT
1 TCTTT-TTTTCT-TGGTTT
15721054 T-TTTTTT
1 TCTTTTTT
15721061 CATTTCTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 11 0.48
19 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (17 bp):
TCTTTTTTTCTTGGTTT
Found at i:15721056 original size:20 final size:19
Alignment explanation
Indices: 15721033--15721076 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
15721023 TTTTTCTTGG
*
15721033 TTTTCTTTCTTTTCTCTGTT
1 TTTTCTTTCATTTCTCT-TT
* *
15721053 TTTTTTTTCATTTCTGTTT
1 TTTTCTTTCATTTCTCTTT
15721072 TTTTC
1 TTTTC
15721077 CTTATATGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.77
Consensus pattern (19 bp):
TTTTCTTTCATTTCTCTTT
Found at i:15722057 original size:5 final size:5
Alignment explanation
Indices: 15722047--15722072 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15722037 TAAATCTTCA
15722047 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
15722073 GTAATCAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:15727628 original size:14 final size:14
Alignment explanation
Indices: 15727611--15727655 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
15727601 AAAAAAAAGA
15727611 GGAAAAATGAAAAT
1 GGAAAAATGAAAAT
*
15727625 GG-AAAATGAAAAA
1 GGAAAAATGAAAAT
*
15727638 GGAAAAAGTAAAAAT
1 GGAAAAA-TGAAAAT
15727653 GGA
1 GGA
15727656 GAGGCTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 12 0.46
14 6 0.23
15 8 0.31
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.11
Consensus pattern (14 bp):
GGAAAAATGAAAAT
Found at i:15729042 original size:88 final size:88
Alignment explanation
Indices: 15728893--15729875 Score: 1319
Period size: 88 Copynumber: 11.2 Consensus size: 88
15728883 AGATCAGTGA
* * * * * *
15728893 AGATCGAAGATACCAGCCTTGCCTCCCTCGATTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTA
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* * *
15728958 CCTTCTTGCGCTGAAAGCGAAGC
66 CCTTCCTGCACTGACAGCGAAGC
* * * * * * *
15728981 AGATCGAAGATACCATCCTTACCTCCCTCGGTTGTAGTGGATCAGGTTAAATATAGCAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
15729046 CCTTCCTGCACTGAGAGCGAAGC
66 CCTTCCTGCACTGACAGCGAAGC
*
15729069 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGACCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
15729134 CCTTCCTACA-TCGACAGCGAAGC
66 CCTTCCTGCACT-GACAGCGAAGC
*
15729157 AGATCGAAGACACAAGCCTTGCCTCCCTCAGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* *
15729222 CCTTCCTGTACTGACGGCGAAGC
66 CCTTCCTGCACTGACAGCGAAGC
* * * *
15729245 AGATCGAAGACACAAGCCTTGCCTCCCTCGATTGCAGTGGAGAAGGTTGAAGATAGTAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* * *
15729310 CCTTCCTACGCTGACAGTGAAGC
66 CCTTCCTGCACTGACAGCGAAGC
* * * * *
15729333 AGATCGAAGATACAAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATAACAGATCTTA
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* * * * *
15729398 CCTTCCTGTACTAACGGTGAAGT
66 CCTTCCTGCACTGACAGCGAAGC
* * * *
15729421 AGATCAAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTAGAGCATGTTGAAGATAGTAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
15729486 CCTTCCTGCA-TCGACAGCGAAGC
66 CCTTCCTGCACT-GACAGCGAAGC
* * * *
15729509 AGATCGAAGACACAAGCCTTGCCTCCCTTGGTTATAGTGGAGCAGGTTGAAGATAGTAGATCTTA
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* * * *
15729574 CCTTCCTGTACTGACGGTGAAAC
66 CCTTCCTGCACTGACAGCGAAGC
* * *
15729597 AGATCAAAGACACAAGCCTTGCCTCTCTCAGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
15729662 CCTTCCTGCA-TCGACAGTGAAGC
66 CCTTCCTGCACT-GACAGCGAAGC
*
15729685 AGATTGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
15729750 CCTTCCTGCA-TCGACAGCGAAGC
66 CCTTCCTGCACT-GACAGCGAAGC
* * * * * *
15729773 AGATTGAAAACA-AAGCCTTGCCTCCCTCTGTTGCAGTGGAGCAGGTTAAAGATAACAGATCTTG
1 AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
*
15729837 CCTTCCTGCATTGACAGCGAAGC
66 CCTTCCTGCACTGACAGCGAAGC
*
15729860 AGATCGAAGATACAAG
1 AGATCGAAGACACAAG
15729876 TCCTATCTCC
Statistics
Matches: 792, Mismatches: 96, Indels: 14
0.88 0.11 0.02
Matches are distributed among these distances:
87 81 0.10
88 709 0.90
89 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
AGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
CCTTCCTGCACTGACAGCGAAGC
Found at i:15729134 original size:44 final size:43
Alignment explanation
Indices: 15728910--15729839 Score: 242
Period size: 44 Copynumber: 21.2 Consensus size: 43
15728900 AGATACCAGC
* *
15728910 CTTGCCTCCCTCGATTGCAGTGGAGTAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCG-TTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * * * *
15728954 CTTACCTTCTTGCGCTGAAAGCGAAGCAGATCGAAGATA-C-CAT
1 CTTGCCTCCCT-CGTTG-TAGTGGAGCAGGTTGAAGATAGCAGAT
* * * *
15728997 CCTTACCTCCCTCGGTTGTAGTGGATCAGGTTAAATATAGCAGAT
1 -CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* ** * * * * *
15729042 CTTGCCTTCCTGCACTG-AGAGCGAAGCAGATCGAAGACA-CA-AGC
1 CTTGCCTCCCT-CGTTGTAGTG-G-AGCAGGTTGAAGATAGCAGA-T
*
15729086 CTTGCCTCCCTCGGTTGTAGTGGACCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * * * *
15729130 CTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGACA-CA-AGC
1 CTTGCCTCCCT-CGTTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
15729174 CTTGCCTCCCTCAGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * *
15729218 CTTGCCTTCCT-GTACTG-ACG-GCGAAGCAGATCGAAGACA-CA-AGC
1 CTTGCCTCCCTCGT--TGTA-GTG-G-AGCAGGTTGAAGATAGCAGA-T
* * *
15729262 CTTGCCTCCCTCGATTGCAGTGGAGAAGGTTGAAGATAGTAGAT
1 CTTGCCTCCCTCG-TTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * *
15729306 CTTGCCTTCCTACGCTGACAGTGAAGCAGATCGAAGATA-CA-AGC
1 CTTGCCTCCCT-CGTTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
* * *
15729350 CTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATAACAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * ** * * * ** * *
15729394 CTTACCTTCCT-GTACTAACGGTGAAGTAGATCAAAGACA-CA-AGC
1 CTTGCCTCCCTCGTTGT-A--GTGGAGCAGGTTGAAGATAGCAGA-T
* * *
15729438 CTTGCCTCCCTCGGTTGTAGTAGAGCATGTTGAAGATAGTAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * * * *
15729482 CTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACA-CA-AGC
1 CTTGCCTCCCT-CGTTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
* * *
15729526 CTTGCCTCCCTTGGTTATAGTGGAGCAGGTTGAAGATAGTAGAT
1 CTTGCCTCCC-TCGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * ** * *
15729570 CTTACCTTCCT-GTACTG-ACGGTGAAACAGATCAAAGACA-CA-AGC
1 CTTGCCTCCCTCGT--TGTA--GTGGAGCAGGTTGAAGATAGCAGA-T
*
15729614 CTTGCCTCTCTCAGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * *
15729658 CTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACA-CA-AGC
1 CTTGCCTCCCT-CGTTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
15729702 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * * * *
15729746 CTTGCCTTCCTGCATCGACAGCGAAGCAGATTGAA-A-A-CAAAGC
1 CTTGCCTCCCT-CGTTG-TAGTGGAGCAGGTTGAAGATAGCAGA-T
* * *
15729789 CTTGCCTCCCTCTGTTGCAGTGGAGCAGGTTAAAGATAACAGAT
1 CTTGCCTCCCTC-GTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
15729833 CTTGCCT
1 CTTGCCT
15729840 TCCTGCATTG
Statistics
Matches: 612, Mismatches: 199, Indels: 150
0.64 0.21 0.16
Matches are distributed among these distances:
42 23 0.04
43 160 0.26
44 255 0.42
45 168 0.27
46 6 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (43 bp):
CTTGCCTCCCTCGTTGTAGTGGAGCAGGTTGAAGATAGCAGAT
Found at i:15730863 original size:18 final size:17
Alignment explanation
Indices: 15730835--15730876 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
15730825 TGATTTACAG
*
15730835 TCTTTTTTTCTTTGTTT
1 TCTTTTTTTCTCTGTTT
15730852 TCTTTCTTTTCTCTGTTT
1 TCTTT-TTTTCTCTGTTT
15730870 T-TTTTTT
1 TCTTTTTT
15730877 CATTTATGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (17 bp):
TCTTTTTTTCTCTGTTT
Found at i:15731497 original size:16 final size:16
Alignment explanation
Indices: 15731467--15731504 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15731457 AATTAATTGG
*
15731467 TTTATT-GTTATTATT
1 TTTATTAGTCATTATT
15731482 TTTATTAGTCATTATT
1 TTTATTAGTCATTATT
*
15731498 ATTATTA
1 TTTATTA
15731505 TTATTATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTATTAGTCATTATT
Found at i:15731497 original size:25 final size:25
Alignment explanation
Indices: 15731468--15731532 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
15731458 ATTAATTGGT
* *
15731468 TTATTGTTATTATTTTTATTAGTCA
1 TTATTATTATTATTATTATTAGTCA
15731493 TTATTATTATTATTATTATTAGTC-
1 TTATTATTATTATTATTATTAGTCA
* *
15731517 TTTTTATT-TTTTTATT
1 TTATTATTATTATTATT
15731533 TTATTTTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 7 0.19
24 7 0.19
25 22 0.61
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (25 bp):
TTATTATTATTATTATTATTAGTCA
Found at i:15731498 original size:3 final size:3
Alignment explanation
Indices: 15731468--15731513 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
15731458 ATTAATTGGT
* * *
15731468 TTA TTG TTA TTA TTT TTA TTA GTCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
15731514 GTCTTTTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 34 0.94
4 2 0.06
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:15731728 original size:23 final size:25
Alignment explanation
Indices: 15731702--15731748 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
15731692 ACATTTAACT
*
15731702 TCAAATTTTTTTATA-ATA-ATATC
1 TCAAATTTTTATATATATATATATC
*
15731725 TCAAGTTTTTATATATATATATAT
1 TCAAATTTTTATATATATATATAT
15731749 ATGTATATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 3 0.15
25 4 0.20
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (25 bp):
TCAAATTTTTATATATATATATATC
Found at i:15766180 original size:1 final size:1
Alignment explanation
Indices: 15766174--15766204 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
15766164 CAAAGTTCCC
15766174 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15766205 GAGTTTGCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15770250 original size:16 final size:17
Alignment explanation
Indices: 15770229--15770261 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15770219 TTGGCCTCGG
15770229 GGCAAAA-AATTAATTT
1 GGCAAAATAATTAATTT
*
15770245 GGCAAAATCATTAATTT
1 GGCAAAATAATTAATTT
15770262 ATTTTGGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (17 bp):
GGCAAAATAATTAATTT
Found at i:15780594 original size:54 final size:54
Alignment explanation
Indices: 15780449--15780577 Score: 213
Period size: 54 Copynumber: 2.4 Consensus size: 54
15780439 ATCGTGACCT
*
15780449 CTTATGAGATTTTCAAAATCTCGCGGTTTGTCGATTTTTGATCACAACCTCCTA
1 CTTATGAGATTTTCAAAATCTCGCGGTTTGTCGATTTATGATCACAACCTCCTA
* *
15780503 CTTATGAGATTTTCAGAATCTCGCGGTTTGTCGATTTATGATCACAACCTTCTA
1 CTTATGAGATTTTCAAAATCTCGCGGTTTGTCGATTTATGATCACAACCTCCTA
* *
15780557 CTTATGAAATTTTTAAAATCT
1 CTTATGAGATTTTCAAAATCT
15780578 TTCAGTTTGC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (54 bp):
CTTATGAGATTTTCAAAATCTCGCGGTTTGTCGATTTATGATCACAACCTCCTA
Found at i:15780605 original size:54 final size:54
Alignment explanation
Indices: 15780449--15780606 Score: 163
Period size: 54 Copynumber: 2.9 Consensus size: 54
15780439 ATCGTGACCT
* * * ***
15780449 CTTATGAGATTTTCAAAATCTCGCGGTTTGTCGATTTTTGATCACAACCTCCTA
1 CTTATGAAATTTTCAAAATCTCGCAGTTTGCCGATTTACAATCACAACCTCCTA
* * * * ** *
15780503 CTTATGAGATTTTCAGAATCTCGCGGTTTGTCGATTTATGATCACAACCTTCTA
1 CTTATGAAATTTTCAAAATCTCGCAGTTTGCCGATTTACAATCACAACCTCCTA
* ** *
15780557 CTTATGAAATTTTTAAAATCTTTCAGTTTGCCGATTTACAATCGCAACCT
1 CTTATGAAATTTTCAAAATCTCGCAGTTTGCCGATTTACAATCACAACCT
15780607 ACTGCTTACA
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (54 bp):
CTTATGAAATTTTCAAAATCTCGCAGTTTGCCGATTTACAATCACAACCTCCTA
Found at i:15781050 original size:24 final size:24
Alignment explanation
Indices: 15781021--15781067 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
15781011 TAAATTTTTT
*
15781021 TGCATAGCTAGTATAATTTTCTAA
1 TGCATAGCTAGCATAATTTTCTAA
* *
15781045 TGCATAGTTCGCATAATTTTCTA
1 TGCATAGCTAGCATAATTTTCTA
15781068 CTACTAGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (24 bp):
TGCATAGCTAGCATAATTTTCTAA
Found at i:15785215 original size:29 final size:29
Alignment explanation
Indices: 15785173--15785334 Score: 231
Period size: 29 Copynumber: 5.7 Consensus size: 29
15785163 NNNNNNNNNN
*
15785173 GGGTTTTTAGTTAATTTAGGTTAGGTTTA
1 GGGTTTTTAATTAATTTAGGTTAGGTTTA
*
15785202 GGGTTTTTAATTAATTTAGGTTA-GATTA
1 GGGTTTTTAATTAATTTAGGTTAGGTTTA
*
15785230 GGGTTTTAAATTAATTTAGGTTAGGTTTA
1 GGGTTTTTAATTAATTTAGGTTAGGTTTA
* *
15785259 GGGTTTTTAATTAATTTAGATTA-GATT-
1 GGGTTTTTAATTAATTTAGGTTAGGTTTA
*
15785286 GGGTTTTTAGTTAATTTAGGTTAGGTTTA
1 GGGTTTTTAATTAATTTAGGTTAGGTTTA
* *
15785315 GGGTTTTTAATCAAATTAGG
1 GGGTTTTTAATTAATTTAGG
15785335 GTTTTTATTT
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 21 0.18
28 32 0.27
29 64 0.55
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (29 bp):
GGGTTTTTAATTAATTTAGGTTAGGTTTA
Found at i:15785261 original size:57 final size:56
Alignment explanation
Indices: 15785173--15785334 Score: 270
Period size: 57 Copynumber: 2.9 Consensus size: 56
15785163 NNNNNNNNNN
15785173 GGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATT
1 GGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATT
* * *
15785229 AGGGTTTTAAATTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGATTAGATT
1 -GGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATT
* *
15785286 GGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATCAAATTAGG
1 GGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGG
15785335 GTTTTTATTT
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
56 44 0.45
57 53 0.55
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (56 bp):
GGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATT
Found at i:15785413 original size:26 final size:25
Alignment explanation
Indices: 15785382--15785430 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
15785372 CTTAAAAAAT
15785382 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
15785408 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
15785431 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:15785572 original size:24 final size:24
Alignment explanation
Indices: 15785544--15785596 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
15785534 GGTGGTTGTT
*
15785544 CTTCCTCTGGTGCTGATTGTGGTC
1 CTTCCTCCGGTGCTGATTGTGGTC
* * *
15785568 CTTCCTCCGGTGGTGGTTGTGGTT
1 CTTCCTCCGGTGCTGATTGTGGTC
15785592 CTTCC
1 CTTCC
15785597 GGTTCGACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.02, C:0.26, G:0.30, T:0.42
Consensus pattern (24 bp):
CTTCCTCCGGTGCTGATTGTGGTC
Found at i:15785894 original size:18 final size:18
Alignment explanation
Indices: 15785850--15785895 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
15785840 TATTCGGAAA
* *
15785850 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
15785868 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
15785886 AGGAAACATA
1 AGGATACATA
15785896 CCTGACATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:15804904 original size:15 final size:15
Alignment explanation
Indices: 15804884--15804912 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15804874 AAAAAAACAA
15804884 AAAAGGCATAATAAT
1 AAAAGGCATAATAAT
15804899 AAAAGGCATAATAA
1 AAAAGGCATAATAA
15804913 ATGGATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.14, T:0.17
Consensus pattern (15 bp):
AAAAGGCATAATAAT
Found at i:15809367 original size:28 final size:28
Alignment explanation
Indices: 15809313--15809377 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
15809303 GCACAGTGTG
* **
15809313 CCTGGAACTGAAACACTGGAATGTAGTA
1 CCTGGAACTGAAACACCGGAACATAGTA
* *
15809341 CCTGAAACTGAAACACCGGTACATAGTA
1 CCTGGAACTGAAACACCGGAACATAGTA
15809369 CCTGGAACT
1 CCTGGAACT
15809378 TTAATTACTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (28 bp):
CCTGGAACTGAAACACCGGAACATAGTA
Found at i:15824330 original size:16 final size:18
Alignment explanation
Indices: 15824303--15824335 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15824293 TGGAATTGGG
15824303 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
15824320 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
15824336 TATAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:15827769 original size:21 final size:20
Alignment explanation
Indices: 15827736--15827774 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
15827726 AATATACATC
15827736 TGTTTGTCAGAACATTTTGTT
1 TGTTTGTCAGAAC-TTTTGTT
**
15827757 TGTTTGTGTGAACTTTTG
1 TGTTTGTCAGAACTTTTG
15827775 GTTATTGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (20 bp):
TGTTTGTCAGAACTTTTGTT
Found at i:15852077 original size:49 final size:49
Alignment explanation
Indices: 15851972--15852070 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
15851962 GCTACTTATA
* * *
15851972 ATGATTAAAATATTCGAATTTGAATATGCAGTTTTCACATCAAATCCCT
1 ATGATTAAAATATTCGAATTTGAATATGCAATATTCACACCAAATCCCT
15852021 ATGATTAAAATATTCGAATTTGAATATGCAATATTCACACCAAATCCCT
1 ATGATTAAAATATTCGAATTTGAATATGCAATATTCACACCAAATCCCT
15852070 A
1 A
15852071 GCATTAATGG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.34
Consensus pattern (49 bp):
ATGATTAAAATATTCGAATTTGAATATGCAATATTCACACCAAATCCCT
Found at i:15856274 original size:18 final size:18
Alignment explanation
Indices: 15856239--15856274 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15856229 ACACCAATTT
*
15856239 ATTATTTGAGTTAATCGA
1 ATTATTTGAATTAATCGA
*
15856257 ATTATTTGAATTATTCGA
1 ATTATTTGAATTAATCGA
15856275 GTTGTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (18 bp):
ATTATTTGAATTAATCGA
Found at i:15857604 original size:29 final size:28
Alignment explanation
Indices: 15857562--15857617 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
15857552 CAATAATTTT
*
15857562 TATAATTTCTTTCT-ATTTTTATAATATG
1 TATAATTTCTTTCTGAATTTT-TAATATG
*
15857590 TATACATTTTTTTCTGAATTTTTAATAT
1 TATA-ATTTCTTTCTGAATTTTTAATAT
15857618 ATTTATTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
29 15 0.62
30 5 0.21
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.61
Consensus pattern (28 bp):
TATAATTTCTTTCTGAATTTTTAATATG
Found at i:15868332 original size:26 final size:26
Alignment explanation
Indices: 15868303--15868367 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
15868293 AGTTTAGCAA
15868303 TGCTTTTGAAAAGCGCTTTTATA-AAG
1 TGCTTTTGAAAAGCGCTTTTA-AGAAG
* *
15868329 TGC-TGTGCAAAAGTGCTTTTAAGAAG
1 TGCTTTTG-AAAAGCGCTTTTAAGAAG
* *
15868355 TACTTTTAAAAAG
1 TGCTTTTGAAAAG
15868368 TTTAGTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
25 4 0.13
26 25 0.81
27 2 0.06
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (26 bp):
TGCTTTTGAAAAGCGCTTTTAAGAAG
Found at i:15870486 original size:27 final size:27
Alignment explanation
Indices: 15870434--15870503 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
15870424 ACAAGAAACC
* * *
15870434 ATCAAAATTTTACAATTAAAATTTAAA
1 ATCAAAATTTTAAAACTAAAACTTAAA
15870461 ATCAAAATTTATAAAACT-AAACTTAAA
1 ATCAAAATTT-TAAAACTAAAACTTAAA
* * *
15870488 ACCAAATTTTTTAAAC
1 ATCAAAATTTTAAAAC
15870504 ATGTATCAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.14
27 26 0.72
28 5 0.14
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (27 bp):
ATCAAAATTTTAAAACTAAAACTTAAA
Found at i:15883926 original size:17 final size:17
Alignment explanation
Indices: 15883904--15883936 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15883894 ATGGAATGTC
15883904 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
15883921 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
15883937 AAATCTGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:15888508 original size:17 final size:17
Alignment explanation
Indices: 15888486--15888518 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15888476 ATGGAATGTC
15888486 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
15888503 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
15888519 AAATCTGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:15891246 original size:15 final size:15
Alignment explanation
Indices: 15891223--15891257 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15891213 ATAATTATAA
15891223 TGAAAAGAATAAAAT
1 TGAAAAGAATAAAAT
*
15891238 TGAAGAGAATAAAAT
1 TGAAAAGAATAAAAT
15891253 T-AAAA
1 TGAAAA
15891258 AAAAGTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (15 bp):
TGAAAAGAATAAAAT
Found at i:15891313 original size:7 final size:7
Alignment explanation
Indices: 15891303--15891330 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
15891293 ATTCAAAATA
15891303 TAAATTT
1 TAAATTT
15891310 TAAATTT
1 TAAATTT
15891317 TAAATTT
1 TAAATTT
15891324 TAAATTT
1 TAAATTT
15891331 GAAGATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAAATTT
Found at i:15891348 original size:21 final size:21
Alignment explanation
Indices: 15891297--15891358 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
15891287 TTCAAAATTC
* *
15891297 AAAATATAAATTTTAAATTTT
1 AAAATATAAATTTGAAATTTG
* *
15891318 AAATTTTAAATTTGAAGA-TTG
1 AAAATATAAATTTGAA-ATTTG
*
15891339 AAAATATAAAATTGGAAATT
1 AAAATAT-AAATTTGAAATT
15891359 GAGGATTGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (21 bp):
AAAATATAAATTTGAAATTTG
Found at i:15891366 original size:14 final size:15
Alignment explanation
Indices: 15891349--15891380 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15891339 AAAATATAAA
15891349 ATTGGAA-ATTGAGG
1 ATTGGAAGATTGAGG
15891363 ATT-GAAGATTGAGG
1 ATTGGAAGATTGAGG
15891377 ATTG
1 ATTG
15891381 AGAATTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.19
14 13 0.81
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (15 bp):
ATTGGAAGATTGAGG
Found at i:15891391 original size:14 final size:13
Alignment explanation
Indices: 15891353--15891391 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
15891343 TATAAAATTG
15891353 GAAATTGAGGATT
1 GAAATTGAGGATT
15891366 GAAGATTGAGGATT
1 GAA-ATTGAGGATT
*
15891380 GAGAATTTAGGA
1 GA-AATTGAGGA
15891392 AGGAAGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 19 0.83
15 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.28
Consensus pattern (13 bp):
GAAATTGAGGATT
Found at i:15892520 original size:14 final size:14
Alignment explanation
Indices: 15892501--15892556 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
15892491 TTTGGGCCGG
15892501 TTGGGTTAGGGTAT
1 TTGGGTTAGGGTAT
15892515 TTGGGTT----TAAT
1 TTGGGTTAGGGT-AT
15892526 TTGGGTTAGGGTAT
1 TTGGGTTAGGGTAT
*
15892540 TTGGGTTAGGGTTT
1 TTGGGTTAGGGTAT
15892554 TTG
1 TTG
15892557 TAATGGACTG
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
10 1 0.03
11 9 0.25
14 25 0.69
15 1 0.03
ACGTcount: A:0.12, C:0.00, G:0.39, T:0.48
Consensus pattern (14 bp):
TTGGGTTAGGGTAT
Found at i:15899007 original size:71 final size:71
Alignment explanation
Indices: 15898891--15899032 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
15898881 TTTAACTGTA
15898891 GGGGTGTGATAAATGCTTGTAATTCATGCATTTTAGGGTCTTATTGCTTTACTTTTTACCGATTT
1 GGGGTGTGATAAATGCTTGTAATTCATGCATTTTAGGGTCTTATTGCTTTACTTTTTACCGATTT
15898956 TTTAGC
66 TTTAGC
15898962 GGGGTGTGATAAATGCTTGTAATTCATGCATTTTAGGGTCTTATTGCTTTACTTTTTACCGATTT
1 GGGGTGTGATAAATGCTTGTAATTCATGCATTTTAGGGTCTTATTGCTTTACTTTTTACCGATTT
15899027 TTTAGC
66 TTTAGC
15899033 AAAATACCAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.20, C:0.13, G:0.21, T:0.46
Consensus pattern (71 bp):
GGGGTGTGATAAATGCTTGTAATTCATGCATTTTAGGGTCTTATTGCTTTACTTTTTACCGATTT
TTTAGC
Found at i:15902346 original size:25 final size:25
Alignment explanation
Indices: 15902318--15902370 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
15902308 ACTAATCGGT
* * *
15902318 GAGCACTGACGTGCTAATAATTAGA
1 GAGCACTAACGTGCTAAAAATGAGA
*
15902343 GAGCACTAATGTGCTAAAAATGAGA
1 GAGCACTAACGTGCTAAAAATGAGA
15902368 GAG
1 GAG
15902371 TGCGCTAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (25 bp):
GAGCACTAACGTGCTAAAAATGAGA
Found at i:15905905 original size:16 final size:15
Alignment explanation
Indices: 15905871--15905916 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
15905861 ATAAAAGACT
* *
15905871 AATAATAATAATAAT
1 AATAATAACAATAAA
*
15905886 AATAATGACCAATAAA
1 AATAAT-AACAATAAA
15905902 AATAATAACAATAAA
1 AATAATAACAATAAA
15905917 TCAATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (15 bp):
AATAATAACAATAAA
Found at i:15907014 original size:16 final size:16
Alignment explanation
Indices: 15906993--15907030 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
15906983 TGACTTGGGC
15906993 ATATTGGGTTTTCTGG
1 ATATTGGGTTTTCTGG
*
15907009 ATATTGGGTTTTGTGG
1 ATATTGGGTTTTCTGG
15907025 ATATTG
1 ATATTG
15907031 TAATTGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.03, G:0.32, T:0.50
Consensus pattern (16 bp):
ATATTGGGTTTTCTGG
Found at i:15907482 original size:51 final size:50
Alignment explanation
Indices: 15907427--15907522 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
15907417 AATCAGTTCC
* * *
15907427 ACTGCACCGCCTAGGAAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTA
1 ACTGCAACGCC-AGGAAAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTA
* *
15907478 ACTGCAATGCCAGGGAAGTAAGATTCGCCATTGTAGCTTTAATCT
1 ACTGCAACGCCAGGAAAGTAAGATTCGCCATTGTAGCTTTAATCT
15907523 ATTCATTCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 31 0.77
51 9 0.22
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (50 bp):
ACTGCAACGCCAGGAAAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTA
Found at i:15907503 original size:50 final size:51
Alignment explanation
Indices: 15907389--15907527 Score: 154
Period size: 51 Copynumber: 2.7 Consensus size: 51
15907379 TGTGATGTCG
* * * * * *
15907389 GGGAAGTAAGATTTGCTGTTGTAGCTTCAATCAGTTCCACTGCACCGCCTA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTGTTCAACTGCAACGCCTA
* * * * *
15907440 GGAAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGCC-A
1 GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTGTTCAACTGCAACGCCTA
* *
15907490 GGGAAGTAAGATTCGCCATTGTAGCTTTAATCTATTCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTGTTCA
15907528 TTCGCCATTG
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 34 0.47
51 38 0.53
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (51 bp):
GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTGTTCAACTGCAACGCCTA
Found at i:15907905 original size:131 final size:131
Alignment explanation
Indices: 15907691--15908222 Score: 488
Period size: 132 Copynumber: 4.0 Consensus size: 131
15907681 CACTACTGCT
* *
15907691 CAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCATC
1 CAGGGAAATAAGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCATC
*
15907756 TTCGATCTGCTCCACTACTGCATAGGGAGATGAGATCTGTAATTT-TCAACCTATTCCACTGCCG
66 TTCGATCTGCTCCACTACTGCATAGGGAGATAAGATCTGTAATTTCT-AACCTATTCCACTGCCG
15907820 AC
130 AC
* * *
15907822 CAGGGAAATAAGACTTGTGGCTTAAATCTTCTTCCCTACTCTTGGGGAAGATAAGATTCGCCGTC
1 CAGGGAAATAAGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCATC
* * * *
15907887 TTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGA
66 TTCGATCTGCTCCACTACTGCATAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCCGA
15907952 C
131 C
* * * * * * * ** * * *
15907953 CAGGGAGAT-AGAATTACTGGCTTCAATGTAC-TCCACTGTA-ACCTCAGGCAGGTAA-AATCTG
1 CAGGGAAATAAGACTT-GTGGCTTAAATCTGCTTCC-C--TACTCCTGGGGAAGATAAGATTC-G
* * * * *
15908014 TCATTTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACT
61 CCATCTTCGATCTGCTCCACTACTGCATAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACT
*
15908079 GCTGAC
126 GCCGAC
* * * * * * * ** * * *
15908085 CAGGGAGAT-AGAATTACTGGCTTCAATGTAC-TCCACTGTA-ACCTCAGGCAGGTAA-AATCTG
1 CAGGGAAATAAGACTT-GTGGCTTAAATCTGCTTCC-C--TACTCCTGGGGAAGATAAGATTC-G
* * * * *
15908146 TCATTTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACT
61 CCATCTTCGATCTGCTCCACTACTGCATAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACT
*
15908211 GCTGAC
126 GCCGAC
15908217 CAGGGA
1 CAGGGA
15908223 GATAGAATTA
Statistics
Matches: 365, Mismatches: 30, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
130 8 0.02
131 142 0.39
132 213 0.58
133 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
CAGGGAAATAAGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCATC
TTCGATCTGCTCCACTACTGCATAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCCGA
C
Found at i:15907958 original size:44 final size:45
Alignment explanation
Indices: 15907910--15908226 Score: 191
Period size: 44 Copynumber: 7.2 Consensus size: 45
15907900 GCTACTGCTT
* *
15907910 AGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGAC-C
1 AGGGAGATAAGATCTGTAATTTCTAATCTACTCCACTGCTGACTC
** * *
15907954 AGGGAGAT-AGAATTACTG--GCTTC-AATGTACTCCACTG-TAACCTC
1 AGGGAGATAAG-A-T-CTGTAATTTCTAATCTACTCCACTGCTGA-CTC
* * * * * *
15907998 AGGCAGGTAAAATCTGTCATTT-TCAATCTACTCCACTACTG-CTT
1 AGGGAGATAAGATCTGTAATTTCT-AATCTACTCCACTGCTGACTC
* *
15908042 AGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGAC-C
1 AGGGAGATAAGATCTGTAATTTCTAATCTACTCCACTGCTGACTC
** * *
15908086 AGGGAGAT-AGAATTACTG--GCTTC-AATGTACTCCACTG-TAACCTC
1 AGGGAGATAAG-A-T-CTGTAATTTCTAATCTACTCCACTGCTGA-CTC
* * * * * *
15908130 AGGCAGGTAAAATCTGTCATTT-TCAATCTACTCCACTACTG-CTT
1 AGGGAGATAAGATCTGTAATTTCT-AATCTACTCCACTGCTGACTC
* *
15908174 AGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGAC-C
1 AGGGAGATAAGATCTGTAATTTCTAATCTACTCCACTGCTGACTC
15908218 AGGGAGATA
1 AGGGAGATA
15908227 GAATTACTGG
Statistics
Matches: 201, Mismatches: 46, Indels: 52
0.67 0.15 0.17
Matches are distributed among these distances:
42 10 0.05
43 30 0.15
44 121 0.60
45 32 0.16
46 8 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (45 bp):
AGGGAGATAAGATCTGTAATTTCTAATCTACTCCACTGCTGACTC
Found at i:15908062 original size:132 final size:132
Alignment explanation
Indices: 15907750--15909207 Score: 1839
Period size: 132 Copynumber: 11.0 Consensus size: 132
15907740 GATAAGATTC
* * * * *
15907750 GCCATCTTCGATCTGCTCCACTACTGCATAGGGAGATGAGATCTGTAATTTTCAACCTATTCCAC
1 GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCAC
* * * * * * * ** *
15907815 TGCCGACCAGGGAAATAAGACTT-GTGGCTTAAATCTTCTTCC-C--T-ACTCTTGGGGAAGATA
66 TGCTGACCAGGGAGAT-AGAATTACTGGCTTCAATGTAC-TCCACTGTAAC-CTCAGGG-AGGTA
*
15907875 AGAT-T
127 AAATCT
* * * * *
15907880 CGCCGTCTTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAAT-TTCTAACCTATTCC
1 -GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC-AATCTATTCC
*
15907944 ACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGCAGGTAAA
64 ACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAA
15908009 ATCT
129 ATCT
* * * *
15908013 GTCATTTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCTAACCTATTCCA
1 GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC-AATCTATTCCA
*
15908077 CTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGCAGGTAAAA
65 CTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA
15908142 TCT
130 TCT
* * * *
15908145 GTCATTTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCTAACCTATTCCA
1 GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC-AATCTATTCCA
* *
15908209 CTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCTACTGTAACCTCAGGAAGGTAAAA
65 CTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA
*
15908274 TTTT
130 -TCT
* * * * *
15908278 GTCATCTTCGATCTACTCCACTAGTGCTTAGGAAGACT-AGATTTGCT-ATCTTTAATCTATTCC
1 GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGA-TAAGATCTG-TAATCTTCAATCTATTCC
** * *
15908341 ACTGCCAACCAGGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGCAGGTAAA
64 ACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAA
15908406 ATCT
129 ATCT
* * *
15908410 GCCATTTTCAATCTACTCCACTACTGCTTAGGGAGACT-AGATCTGCT-ATCTTTAATCTATTCC
1 GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGA-TAAGATCTG-TAATCTTCAATCTATTCC
** * * * *
15908473 ACTGCCAACCAGGGAGATAGAGTTACTGACTTCAATGTACTCCATTGTACCCTCAGGGAGGTAAA
64 ACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAA
15908538 ATCT
129 ATCT
* * * *
15908542 ACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAAATTTGTAATATTCAATCTATTCCAC
1 GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCAC
* ** * * *
15908607 TGCTGCCCAAAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGAGAGGTAAAAT
66 TGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT
15908672 CT
131 CT
*
15908674 GCCATTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATAC-ATTCCA
1 GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT-CTATTCCA
* * * *
15908738 CTACTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAGCCTCAGGGAGGTAAAC
65 CTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA
*
15908803 TCC
130 TCT
* * * *
15908806 ACCATCTTCGATCTACTCCATTATTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCAC
1 GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCAC
* * * * * *
15908871 TGCTGCCCAGGAAGATAGAATTACTAGCTTCAATGCACTCCACTGTAATCACAGGGAGGTAAAAT
66 TGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT
*
15908936 CC
131 CT
* * * * * *
15908938 GTCATCTTCGATCTACTCTACTACTACTTAGGGAGATAAAATCTGAAATCTTCAATCTATTCCAT
1 GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCAC
* * * * *
15909003 TGCCGACCAGGGAGATAGAATTACTGGCTTCAATATATTCCATTGTAACCTCAAGGAGGTAAAAT
66 TGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT
15909068 CT
131 CT
15909070 GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCCT-TAATCTTCAATCTATTCCA
1 GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGAT-CTGTAATCTTCAATCTATTCCA
* *
15909134 CTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAA
65 CTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA
*
15909199 TCC
130 TCT
15909202 GCCATC
1 GCCATC
15909208 AACCTGCTCT
Statistics
Matches: 1177, Mismatches: 134, Indels: 31
0.88 0.10 0.02
Matches are distributed among these distances:
130 11 0.01
131 85 0.07
132 954 0.81
133 121 0.10
134 6 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (132 bp):
GCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCAC
TGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT
CT
Found at i:15908575 original size:44 final size:44
Alignment explanation
Indices: 15908392--15909179 Score: 259
Period size: 44 Copynumber: 17.9 Consensus size: 44
15908382 CCACTGTAAC
* * * *
15908392 CTCAGGCAGGTAAAATCTGCCATTTTCAATCTACTCCACTACTG
1 CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCACTACTG
* * * * * * * **
15908436 CTTAGGGAGACT-AGATCTGCTATCTTTAATCTATTCCACTGCCAA
1 CTCAGGGAGA-TAAAATCTACCATCTTCAATCTACTCCACT-ACTG
* * * * * *
15908481 C-CAGGGAGATAGAGT-TACTGA-CTTCAATGTACTCCATTGTAC-C
1 CTCAGGGAGATAAAATCTAC-CATCTTCAATCTACTCCA--CTACTG
* *
15908524 CTCAGGGAGGTAAAATCTACCATCTTCGATCTACTCCACTACTG
1 CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCACTACTG
* * *** * * *
15908568 CTTAGGGAGATAAAATTTGTAATATTCAATCTATTCCACTGCTG
1 CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCACTACTG
* ** * *** * *
15908612 CCCAAAGAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTAAT-
1 CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCAC--TACTG
* * * * * *
15908656 CACAGAGAGGTAAAATCTGCCATTTTCGATCTACTCCACTACTG
1 CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCACTACTG
* * *** *
15908700 CTTAGGGAGATAAGATCTGTAATCTTCAATAC-ATTCCACTACTG
1 CTCAGGGAGATAAAATCTACCATCTTCAAT-CTACTCCACTACTG
* * *** * *
15908744 CCCAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACT-GTAG
1 CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCACTACT-G
* * * * * *
15908787 CCTCAGGGAGGTAAACTCCACCATCTTCGATCTACTCCATTATTG
1 -CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCACTACTG
* * ** * *
15908832 CTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTG
1 CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCACTACTG
* * * * * *
15908876 CCCAGGAAGATAGAAT-TACTAGCTTCAATGC-ACTCCACTGTAAT-
1 CTCAGGGAGATAAAATCTACCATCTTCAAT-CTACTCCAC--TACTG
* * *** * * *
15908920 CACAGGGAGGTAAAATCCGTCATCTTCGATCTACTCTACTACTA
1 CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCACTACTG
* * * * * *
15908964 CTTAGGGAGATAAAATCTGA-AATCTTCAATCTATTCCATTGCCG
1 CTCAGGGAGATAAAATCT-ACCATCTTCAATCTACTCCACTACTG
* *** * * *
15909008 AC-CAGGGAGATAGAAT-TACTGGCTTCAATATATTCCATTGTAAC--
1 -CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCA--CT-ACTG
* * * *
15909052 CTCAAGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTG
1 CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCACTACTG
* * * *
15909096 CTTAGGGAGATAAGATCCTTA--ATCTTCAATCTATTCCACTGCTG
1 CTCAGGGAGATAAAAT-C-TACCATCTTCAATCTACTCCACTACTG
* * *** *
15909140 CCCAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTA
1 CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCACTA
15909180 TAACCTCAGG
Statistics
Matches: 518, Mismatches: 186, Indels: 81
0.66 0.24 0.10
Matches are distributed among these distances:
41 2 0.00
42 4 0.01
43 103 0.20
44 319 0.62
45 87 0.17
46 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
CTCAGGGAGATAAAATCTACCATCTTCAATCTACTCCACTACTG
Found at i:15911466 original size:39 final size:38
Alignment explanation
Indices: 15911402--15911480 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
15911392 GACCTCTCCT
*
15911402 TTTTCTTTTCTTTTTTTTATTTTGATGTT-AATTATTA
1 TTTTCTCTTCTTTTTTTTATTTTGATGTTGAATTATTA
* * *
15911439 TTTTCTCTTCTTTTTTTGATTTTTTGATTTTGATTTATTA
1 TTTTCTCTTCTTTTTTT--TATTTTGATGTTGAATTATTA
15911479 TT
1 TT
15911481 ATTATTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 16 0.46
39 10 0.29
40 9 0.26
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.73
Consensus pattern (38 bp):
TTTTCTCTTCTTTTTTTTATTTTGATGTTGAATTATTA
Found at i:15912283 original size:25 final size:25
Alignment explanation
Indices: 15912255--15912320 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
15912245 AAGAAAGTCC
*
15912255 AAAAGAATGAAAGAATAATTA-TTCA
1 AAAAGAATGAAAGAA-AATTAGCTCA
*
15912280 AAAAGAATGAAAGAACATTAGCTCA
1 AAAAGAATGAAAGAAAATTAGCTCA
15912305 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
15912321 TGTATTTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 4 0.11
25 22 0.61
26 5 0.14
27 5 0.14
ACGTcount: A:0.59, C:0.08, G:0.15, T:0.18
Consensus pattern (25 bp):
AAAAGAATGAAAGAAAATTAGCTCA
Found at i:15913469 original size:59 final size:59
Alignment explanation
Indices: 15913377--15913627 Score: 493
Period size: 59 Copynumber: 4.3 Consensus size: 59
15913367 CCAAAAATGA
*
15913377 AGAAAAAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
1 AGAAATAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
15913436 AGAAATAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
1 AGAAATAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
15913495 AGAAATAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
1 AGAAATAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
15913554 AGAAATAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
1 AGAAATAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
15913613 AGAAATAAAGAAAAC
1 AGAAATAAAGAAAAC
15913628 ATAAAAATAA
Statistics
Matches: 191, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 191 1.00
ACGTcount: A:0.57, C:0.08, G:0.17, T:0.18
Consensus pattern (59 bp):
AGAAATAAAGAAAACCAAAATATGAACTTTGGAAAAGAAACTAACGTTTGAGTAAAAAG
Found at i:15913717 original size:5 final size:5
Alignment explanation
Indices: 15913707--15913734 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15913697 ATTTTAAAAC
15913707 AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA
15913735 ATATTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:15915996 original size:13 final size:13
Alignment explanation
Indices: 15915937--15915998 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
15915927 TTTTTCTTGC
15915937 TAAGTTTTAAATT
1 TAAGTTTTAAATT
* *
15915950 T-AGTTCTGAATT
1 TAAGTTTTAAATT
15915962 TAAGTTTTCTATAATT
1 TAAG-TTT-TA-AATT
*
15915978 TTAGTTTTAAATT
1 TAAGTTTTAAATT
15915991 TAAGTTTT
1 TAAGTTTT
15915999 TTAAAAATCT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 10 0.26
13 14 0.36
14 4 0.10
15 4 0.10
16 7 0.18
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (13 bp):
TAAGTTTTAAATT
Found at i:15922300 original size:27 final size:25
Alignment explanation
Indices: 15922270--15922319 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
15922260 TTTAATGTAG
15922270 ATATTAATTAAATTTGGATTTCAAAGC
1 ATATTAA-TAAATTTGGA-TTCAAAGC
* *
15922297 ATATTTATGAATTTGGATTCAAA
1 ATATTAATAAATTTGGATTCAAA
15922320 ATTTGCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 9 0.43
27 6 0.29
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (25 bp):
ATATTAATAAATTTGGATTCAAAGC
Found at i:15926442 original size:29 final size:29
Alignment explanation
Indices: 15926402--15926478 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
15926392 TTTTTCTCGG
* * *
15926402 GTTACATTTTAGACACTTATGTTTGAAAT
1 GTTACGTTTTAGTCACTTATATTTGAAAT
*
15926431 GTTATGTTTTAGTCACTTATATTTGAAAT
1 GTTACGTTTTAGTCACTTATATTTGAAAT
15926460 GTTACGTTTTAGTCACTTA
1 GTTACGTTTTAGTCACTTA
15926479 CGTTATCGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.48
Consensus pattern (29 bp):
GTTACGTTTTAGTCACTTATATTTGAAAT
Found at i:15929291 original size:22 final size:23
Alignment explanation
Indices: 15929266--15929308 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15929256 TTAAATTTGG
*
15929266 AAATT-TGGAAAATAAAAATATT
1 AAATTCTGAAAAATAAAAATATT
*
15929288 AAATTCTTAAAAATAAAAATA
1 AAATTCTGAAAAATAAAAATA
15929309 AAAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (23 bp):
AAATTCTGAAAAATAAAAATATT
Found at i:15930943 original size:18 final size:18
Alignment explanation
Indices: 15930920--15930957 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15930910 GTTTCTGTCC
15930920 TTATA-TTACATTTAAATT
1 TTATATTTA-ATTTAAATT
*
15930938 TTATATTTAATTTATATT
1 TTATATTTAATTTAAATT
15930956 TT
1 TT
15930958 TAAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATATTTAATTTAAATT
Found at i:15931342 original size:10 final size:10
Alignment explanation
Indices: 15931321--15931368 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
15931311 TTCTTTCAAC
15931321 TCTCTC-AAT
1 TCTCTCAAAT
*
15931330 TCTTTCAAAT
1 TCTCTCAAAT
15931340 TCTCTCAAAT
1 TCTCTCAAAT
* *
15931350 CCTCTC-AAG
1 TCTCTCAAAT
15931359 TCTCTCAAAT
1 TCTCTCAAAT
15931369 ATCTAGTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
9 12 0.39
10 19 0.61
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.40
Consensus pattern (10 bp):
TCTCTCAAAT
Found at i:15931345 original size:19 final size:18
Alignment explanation
Indices: 15931311--15931366 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
15931301 ATTTACATTC
15931311 TTCTTTCAACTCTCTCAA
1 TTCTTTCAACTCTCTCAA
*
15931329 TTCTTTCAAATTCTCTCAAA
1 TTCTTTC-AACTCTCTC-AA
* * *
15931349 TCCTCTCAAGTCTCTCAA
1 TTCTTTCAACTCTCTCAA
15931367 ATATCTAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 9 0.28
19 16 0.50
20 7 0.22
ACGTcount: A:0.25, C:0.32, G:0.02, T:0.41
Consensus pattern (18 bp):
TTCTTTCAACTCTCTCAA
Found at i:15931548 original size:15 final size:15
Alignment explanation
Indices: 15931528--15931579 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
15931518 GGTAAGACCG
15931528 TAATTTAATTTTTTT
1 TAATTTAATTTTTTT
** *
15931543 TAATTTCAATAATGTT
1 TAATTT-AATTTTTTT
*
15931559 AAATTTAATTTTTTT
1 TAATTTAATTTTTTT
15931574 ATAATT
1 -TAATT
15931580 ATGTTTTTGT
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TAATTTAATTTTTTT
Found at i:15934537 original size:3 final size:3
Alignment explanation
Indices: 15934529--15934567 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
15934519 AACCTCTACG
*
15934529 AGA AGA AGA AGA AGA AGA AGA ATA AGA AGA AGAA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AG
15934568 GAAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:15935242 original size:25 final size:27
Alignment explanation
Indices: 15935210--15935276 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 27
15935200 AGATTCTTTG
*
15935210 AAGCTAGTGTTAGCAGAATC-GAACCA
1 AAGCTAGTGTTAGCAGAACCTGAACCA
* *
15935236 AA-CTAGTGTTAGCA-ACCCTGATCCA
1 AAGCTAGTGTTAGCAGAACCTGAACCA
15935261 AAGCTAGTGTTAGCAG
1 AAGCTAGTGTTAGCAG
15935277 CCCGATAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 2 0.06
25 19 0.54
26 14 0.40
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (27 bp):
AAGCTAGTGTTAGCAGAACCTGAACCA
Found at i:15938126 original size:32 final size:32
Alignment explanation
Indices: 15938081--15938146 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
15938071 CTTATATTAT
* *
15938081 TTTTTAATTTTTAA-AATATATATTTATTTTTA
1 TTTTTAATATTTAATAA-ATATATATATTTTTA
* *
15938113 TTTTTAGTATTTAATAAATTTATATATTTTTA
1 TTTTTAATATTTAATAAATATATATATTTTTA
15938145 TT
1 TT
15938147 GATTATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (32 bp):
TTTTTAATATTTAATAAATATATATATTTTTA
Found at i:15941291 original size:32 final size:32
Alignment explanation
Indices: 15941246--15941311 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
15941236 CTTATATTAT
* *
15941246 TTTTTAATTTTTAA-AATATATATTTATTTTTA
1 TTTTTAATATTTAATAA-ATATATATATTTTTA
* *
15941278 TTTTTAGTATTTAATAAATTTATATATTTTTA
1 TTTTTAATATTTAATAAATATATATATTTTTA
15941310 TT
1 TT
15941312 GATTATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (32 bp):
TTTTTAATATTTAATAAATATATATATTTTTA
Found at i:15944748 original size:20 final size:20
Alignment explanation
Indices: 15944723--15944760 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15944713 TACATATTTG
*
15944723 CATATATAATACATAATATA
1 CATATATAATAAATAATATA
15944743 CATATATAATAAATAATA
1 CATATATAATAAATAATA
15944761 AATAATATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
CATATATAATAAATAATATA
Found at i:15944766 original size:27 final size:28
Alignment explanation
Indices: 15944708--15944768 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
15944698 TGTCATAATC
* * * *
15944708 TAATATACATATTTGCATATATAATACA
1 TAATATACATATATGAATAAATAATAAA
15944736 TAATATACATATAT-AATAAATAATAAA
1 TAATATACATATATGAATAAATAATAAA
15944763 TAATAT
1 TAATAT
15944769 CGAATCTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (28 bp):
TAATATACATATATGAATAAATAATAAA
Found at i:15945619 original size:6 final size:6
Alignment explanation
Indices: 15945608--15945632 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15945598 ATAATATATG
15945608 TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA T
15945633 CCATATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:15946801 original size:152 final size:150
Alignment explanation
Indices: 15946600--15946889 Score: 426
Period size: 152 Copynumber: 1.9 Consensus size: 150
15946590 CATGTTTTGC
* *
15946600 CCATTTGTTCGTATTTTTTTCGGATTTTATTATTTTTAAAAAAATATTATTTT-TTAATTTT-TT
1 CCATTTGTTCGTATTTTTTTCGGATTTTATTATTTATAAAAAAATATTATTTTCGT-ATTTTATT
* * * * *
15946663 AATTTTACATTATTTTTGTATATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA-
65 -ATTTTAAATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAAT
15946727 TTAA-AAAAATTCTTATTTCGA
129 TTAATAAAAATTCTTATTTCGA
*
15946748 CCATTTGTTCGTATTTTTTTCCGGATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTT
1 CCATTTGTTCGTATTTTTTT-CGGATTTTATTA-TTT--ATAAAAAAATATTATTTTCGTATTTT
15946813 ATTATTTTAAATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAA
62 ATTATTTTAAATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAA
15946878 ATTTAATAAAAA
127 ATTTAATAAAAA
15946890 CCTTAAAAAA
Statistics
Matches: 126, Mismatches: 8, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
148 20 0.16
149 12 0.10
150 3 0.02
152 79 0.63
153 7 0.06
154 5 0.04
ACGTcount: A:0.32, C:0.06, G:0.07, T:0.54
Consensus pattern (150 bp):
CCATTTGTTCGTATTTTTTTCGGATTTTATTATTTATAAAAAAATATTATTTTCGTATTTTATTA
TTTTAAATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTT
AATAAAAATTCTTATTTCGA
Found at i:15947139 original size:151 final size:150
Alignment explanation
Indices: 15946906--15947677 Score: 1101
Period size: 151 Copynumber: 5.1 Consensus size: 150
15946896 AAAAACCCTT
* * *
15946906 AAAAGTACGAATAAAGGGCCGAAATAAGAGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
1 AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
* *
15946971 ATACATTTTAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTT
66 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAGTATATTTTT
*
15947036 TAAAGTAATAAATTTCGGAGAA
131 TAAAGTAATAAA-CTCGG-GAA
* *
15947058 AAAAATACAAACAAAGGGCCGAAATAAGGGGTTTTTTTTAATTTATTT-AAAAA-ACAGTAAATT
1 AAAAATACGAACAAAGGGCCGAAATAA-GGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATT
*
15947121 AATACATTTCAAACATAATGTAATAAAATAATGTAAAATAATAAAATTAAAAAATAGTATATTTT
65 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAGTATA-TTT
15947186 TTTAAAGTAATAAACTCTGGGAA
129 TTTAAAGTAATAAACTC-GGGAA
* *
15947209 AAAAATACGAATAAAGGGCCAAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
1 AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
*
15947274 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTT
66 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAGTATATTTTT
*
15947339 TAAAGTAATAAACTCTGGGGA
131 TAAAGTAATAAACTC-GGGAA
* * *
15947360 AAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAATACAGTAAACTA
1 AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
* * * * *
15947425 ATACATTTCTAACATGATGTACTAAAATAATTTAAAATAATTAAA-TACAAAAATAATATATTTT
66 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-AAAAATAGTATA-TTT
* *
15947489 TATTGAAAGTAATAAAATC-TGAGA
129 T-TT-AAAGTAATAAACTCGGGA-A
* * *
15947513 AAAAATACAAACAAAGGGCCGAAATAA-GGTTTTTTTTAATTTATTTAAAAAACACACTAAATTA
1 AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
* *
15947577 ATACATTTCAAATC-TAATGTACTAAAATAATGTAAAATAA-AAAAATAAAGAATAGTATATTTT
66 ATACATTTCAAA-CATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAGTATATTTT
*
15947640 TTAAAAGTAATAAAATTC-GGAA
130 TT-AAAGTAAT-AAACTCGGGAA
15947662 AAAAATACGAACAAAG
1 AAAAATACGAACAAAG
15947678 AGCCAAAACA
Statistics
Matches: 561, Mismatches: 46, Indels: 29
0.88 0.07 0.05
Matches are distributed among these distances:
149 26 0.05
150 32 0.06
151 251 0.45
152 192 0.34
153 47 0.08
154 13 0.02
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.31
Consensus pattern (150 bp):
AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAGTATATTTTT
TAAAGTAATAAACTCGGGAA
Found at i:15947463 original size:303 final size:301
Alignment explanation
Indices: 15946906--15947677 Score: 1164
Period size: 303 Copynumber: 2.5 Consensus size: 301
15946896 AAAAACCCTT
* *
15946906 AAAAGTACGAATAAAGGGCCGAAATAAGAGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
1 AAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
*
15946971 ATACATTTTAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTT
66 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTT
* *
15947036 TAAAGTAATAAATTTCGGAGAAAAAAATACAAACAAAGGGCCGAAATAAGGGGTTTTTTTTAATT
131 TAAAGTAATAAA-TT-GG-GAAAAAAATACGAACAAAGGGCCGAAATAAGGGGTTTTTTTAAATT
*
15947101 TATTTAAAAAACAGTAAATTAATACATTTCAAACATAATGTAATAAAATAATGTAAAATAATAAA
193 TATTTAAAAAACAGTAAACTAATACATTTCAAACATAATGTAATAAAATAATGTAAAATAATAAA
* * *
15947166 ATTA-AAAAATAGTATATTTTT-TT-AAAGTAATAAACTCTGGGAA
258 A-TACAAAAATAATATATTTTTATTGAAAGTAATAAAATCTGAG-A
*
15947209 AAAAATACGAATAAAGGGCCAAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
1 AAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
15947274 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTT
66 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTT
* *
15947339 TAAAGTAATAAACTCTGGGGAAAAAATACGAACAAATGGCCGAAATAA-GGGTTTTTTTAAATTT
131 TAAAGTAATAAA-T-TGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGGTTTTTTTAAATTT
* * * * *
15947403 ATTTAAAAAATACAGTAAACTAATACATTTCTAACATGATGTACTAAAATAATTTAAAATAATTA
194 ATTT-AAAAA-ACAGTAAACTAATACATTTCAAACATAATGTAATAAAATAATGTAAAATAATAA
15947468 AATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCTGAGA
257 AATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCTGAGA
* * * *
15947513 AAAAATACAAACAAAGGGCCGAAATAA-GGTTTTTTTTAATTTATTTAAAAAACACACTAAATTA
1 AAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
*
15947577 ATACATTTCAAATC-TAATGTACTAAAATAATGTAAAATAA-AAAAATA-AAGAATAGTATATTT
66 ATACATTTCAAA-CATAATGTACTAAAATAATGTAAAATAATAAAATTAGAA-AATAGTATATTT
*
15947639 TTTAAAAGTAATAAAATTCGGAAAAAAATACGAACAAAG
129 TTT-AAAGTAAT-AAATTGGGAAAAAAATACGAACAAAG
15947678 AGCCAAAACA
Statistics
Matches: 432, Mismatches: 27, Indels: 21
0.90 0.06 0.04
Matches are distributed among these distances:
301 21 0.05
302 74 0.17
303 289 0.67
304 32 0.07
305 16 0.04
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.31
Consensus pattern (301 bp):
AAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTA
ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTT
TAAAGTAATAAATTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGGTTTTTTTAAATTTAT
TTAAAAAACAGTAAACTAATACATTTCAAACATAATGTAATAAAATAATGTAAAATAATAAAATA
CAAAAATAATATATTTTTATTGAAAGTAATAAAATCTGAGA
Found at i:15948926 original size:19 final size:19
Alignment explanation
Indices: 15948902--15948938 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15948892 ATCATATGTT
*
15948902 TGTTATGTGTTAAAATATG
1 TGTTATATGTTAAAATATG
*
15948921 TGTTATATGTTAATATAT
1 TGTTATATGTTAAAATAT
15948939 CATATTATTT
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:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (19 bp):
TGTTATATGTTAAAATATG
Found at i:15949190 original size:14 final size:15
Alignment explanation
Indices: 15949173--15949213 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
15949163 AGAACATGCG
15949173 GTCTTAGG-TTTAAA
1 GTCTTAGGATTTAAA
15949187 GTC-TAGGATTTAAA
1 GTCTTAGGATTTAAA
* *
15949201 GTTTTAGCATTTA
1 GTCTTAGGATTTA
15949214 TTTATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 4 0.17
14 11 0.48
15 8 0.35
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (15 bp):
GTCTTAGGATTTAAA
Found at i:15950370 original size:21 final size:21
Alignment explanation
Indices: 15950290--15950362 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
15950280 CAAAACAACA
*
15950290 GTTTCTCCCCTCGTTCTTGTTG
1 GTTTCT-CCCTCGTTCTTGCTG
*
15950312 GTTTCTCCCTTGTTCTTGCTG
1 GTTTCTCCCTCGTTCTTGCTG
* * *
15950333 GTTTGTCTCTCGTTTTTGCTG
1 GTTTCTCCCTCGTTCTTGCTG
15950354 GTTTCTCCC
1 GTTTCTCCC
15950363 CTCATTTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 37 0.86
22 6 0.14
ACGTcount: A:0.00, C:0.29, G:0.19, T:0.52
Consensus pattern (21 bp):
GTTTCTCCCTCGTTCTTGCTG
Found at i:15953547 original size:19 final size:18
Alignment explanation
Indices: 15953523--15953583 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 18
15953513 TAATGTTTAG
15953523 GGGTTAGGGATTCTGGGT
1 GGGTTAGGGATTCTGGGT
*
15953541 CGGGTTAGGG-TT-T-AG-
1 -GGGTTAGGGATTCTGGGT
*
15953556 GGATTAGGGATTCTGGGTT
1 GGGTTAGGGATTCTGGG-T
15953575 GGGTTAGGG
1 GGGTTAGGG
15953584 TTTAGAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 8 0.24
15 2 0.06
16 2 0.06
17 2 0.06
18 2 0.06
19 17 0.52
ACGTcount: A:0.13, C:0.05, G:0.49, T:0.33
Consensus pattern (18 bp):
GGGTTAGGGATTCTGGGT
Found at i:15953554 original size:33 final size:33
Alignment explanation
Indices: 15953517--15953588 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
15953507 ATTAAATAAT
*
15953517 GTTTAGGGGTTAGGGATTCTGGGTCGGGTTAGG
1 GTTTAGGGATTAGGGATTCTGGGTCGGGTTAGG
*
15953550 GTTTAGGGATTAGGGATTCTGGGTTGGGTTAGG
1 GTTTAGGGATTAGGGATTCTGGGTCGGGTTAGG
15953583 GTTTAG
1 GTTTAG
15953589 AATTTAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.14, C:0.04, G:0.46, T:0.36
Consensus pattern (33 bp):
GTTTAGGGATTAGGGATTCTGGGTCGGGTTAGG
Found at i:15958914 original size:43 final size:43
Alignment explanation
Indices: 15958772--15959162 Score: 514
Period size: 43 Copynumber: 9.1 Consensus size: 43
15958762 TAATTTTTTT
* * * *
15958772 TAAAGGTTAT-GTTTTTAGTGGCGTTT-TTGCGAGAAGCGCTGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTTG-GACAAGCGCCGC
* * * *
15958814 TAAAGG-T-TGATCTATAGCGGCGTTTG-T-GACAAAAAACGTCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTTGGAC---AAGCGCCGC
*
15958856 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGGGGA-AAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGT-TGGACAAGCGCCGC
* *
15958899 TAAAGGTCT-TTGTCTTTAGCGGCGTTTG-TGAGAAAAGCGCCGC
1 TAAAGGT-TATGGTCTTTAGCGGCGTTTGTTG-GACAAGCGCCGC
* * *
15958942 TAATGCTCT-TGGTCTTTAGCGGCGTTTGTTGGAAAAGCGCCGC
1 TAAAGGT-TATGGTCTTTAGCGGCGTTTGTTGGACAAGCGCCGC
15958985 TAAAGGTTATGGTCTTTAGCGGCGTTTGTTGGACAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTTGGACAAGCGCCGC
15959028 TAAAGGTTATGGTCTTTAGCGGCGTTTGTTGGACAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTTGGACAAGCGCCGC
15959071 TAAAGGTTATGGTCTTTAGCGGCGTTTGTTGGACAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTTGGACAAGCGCCGC
15959114 TAAAGGTTATGGTCTTTAGCGGCGTTTGTTGGACAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTTGGACAAGCGCCGC
15959157 TAAAGG
1 TAAAGG
15959163 CCTAAAAAAG
Statistics
Matches: 313, Mismatches: 21, Indels: 29
0.86 0.06 0.08
Matches are distributed among these distances:
39 2 0.01
40 1 0.00
41 15 0.05
42 21 0.07
43 252 0.81
44 20 0.06
47 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.30
Consensus pattern (43 bp):
TAAAGGTTATGGTCTTTAGCGGCGTTTGTTGGACAAGCGCCGC
Found at i:15959973 original size:23 final size:23
Alignment explanation
Indices: 15959947--15959992 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
15959937 CTAATAATAG
*
15959947 ATACCCAAATGATGAAACGAAAA
1 ATACCCAAATGATCAAACGAAAA
15959970 ATACCCAAATGATCAAACGAAAA
1 ATACCCAAATGATCAAACGAAAA
15959993 TGGGAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.20, G:0.11, T:0.13
Consensus pattern (23 bp):
ATACCCAAATGATCAAACGAAAA
Found at i:15963918 original size:21 final size:21
Alignment explanation
Indices: 15963893--15963945 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
15963883 CATTGTTTCC
* *
15963893 AATCTCACCGCTATAGTATCCT
1 AATCTCACCGCTACAGTA-ACT
15963915 -ATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACT
15963935 AATCTCACCGC
1 AATCTCACCGC
15963946 CACCTCTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.28, C:0.36, G:0.09, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACT
Found at i:15990435 original size:13 final size:13
Alignment explanation
Indices: 15990417--15990441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15990407 CAATCAAATG
15990417 CACACAAAATAAA
1 CACACAAAATAAA
15990430 CACACAAAATAA
1 CACACAAAATAA
15990442 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:15990967 original size:164 final size:164
Alignment explanation
Indices: 15990696--15991006 Score: 622
Period size: 164 Copynumber: 1.9 Consensus size: 164
15990686 ATTTCACCGG
15990696 TAGCTGCAGCTTCTTCAAGCTTTCGAACTGTACTTTCTGATTTCCTTGTTGGTAAGTTAATGGGT
1 TAGCTGCAGCTTCTTCAAGCTTTCGAACTGTACTTTCTGATTTCCTTGTTGGTAAGTTAATGGGT
15990761 TCTTCAAGTTTTCTTCTTTTATGATATTATTGGCATAACTGAGTAGTTTTTCCTTGTTGGTAAGT
66 TCTTCAAGTTTTCTTCTTTTATGATATTATTGGCATAACTGAGTAGTTTTTCCTTGTTGGTAAGT
15990826 TAATCCCCTTCAGATTTCCTTGTTGCTGAAGCCT
131 TAATCCCCTTCAGATTTCCTTGTTGCTGAAGCCT
15990860 TAGCTGCAGCTTCTTCAAGCTTTCGAACTGTACTTTCTGATTTCCTTGTTGGTAAGTTAATGGGT
1 TAGCTGCAGCTTCTTCAAGCTTTCGAACTGTACTTTCTGATTTCCTTGTTGGTAAGTTAATGGGT
15990925 TCTTCAAGTTTTCTTCTTTTATGATATTATTGGCATAACTGAGTAGTTTTTCCTTGTTGGTAAGT
66 TCTTCAAGTTTTCTTCTTTTATGATATTATTGGCATAACTGAGTAGTTTTTCCTTGTTGGTAAGT
15990990 TAATCCCCTTCAGATTT
131 TAATCCCCTTCAGATTT
15991007 GTTTCACTCT
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 147 1.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (164 bp):
TAGCTGCAGCTTCTTCAAGCTTTCGAACTGTACTTTCTGATTTCCTTGTTGGTAAGTTAATGGGT
TCTTCAAGTTTTCTTCTTTTATGATATTATTGGCATAACTGAGTAGTTTTTCCTTGTTGGTAAGT
TAATCCCCTTCAGATTTCCTTGTTGCTGAAGCCT
Found at i:15992586 original size:16 final size:17
Alignment explanation
Indices: 15992561--15992593 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15992551 CTTTCCCCCT
*
15992561 ACTTTCTCACTT-TATC
1 ACTTTATCACTTATATC
15992577 ACTTTATCACTTATATC
1 ACTTTATCACTTATATC
15992594 TGAAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.48
Consensus pattern (17 bp):
ACTTTATCACTTATATC
Found at i:15994558 original size:39 final size:40
Alignment explanation
Indices: 15994515--15994619 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
15994505 TTCCATTATG
15994515 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
15994554 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
15994599 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
15994620 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:15994613 original size:45 final size:44
Alignment explanation
Indices: 15994513--15994622 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
15994503 TTTTCCATTA
15994513 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
15994552 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
15994597 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
15994623 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:15994652 original size:16 final size:16
Alignment explanation
Indices: 15994603--15994654 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
15994593 GATTTGCTAT
* *
15994603 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
15994619 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
15994635 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
15994651 TACA
1 TACA
15994655 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:16001098 original size:2 final size:2
Alignment explanation
Indices: 16001093--16001117 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16001083 AAATATATAA
16001093 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
16001118 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:16001505 original size:15 final size:15
Alignment explanation
Indices: 16001485--16001540 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
16001475 AAACAATAAC
16001485 AATAATAATAACATT
1 AATAATAATAACATT
* *
16001500 AATAATAATAGCAAT
1 AATAATAATAACATT
* * *
16001515 AAAAACAATGA-ATT
1 AATAATAATAACATT
16001529 AAATAATAATAA
1 -AATAATAATAA
16001541 TAAAAAGGGA
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
14 2 0.07
15 28 0.93
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (15 bp):
AATAATAATAACATT
Done.