Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 73 of 78
Found at i:15089831 original size:13 final size:13
Alignment explanation
Indices: 15089813--15089844 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15089803 AGTGCAAGTA
15089813 AGATAATCGGTAC
1 AGATAATCGGTAC
*
15089826 AGATAATTGGTAC
1 AGATAATCGGTAC
15089839 AGATAA
1 AGATAA
15089845 AATTGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (13 bp):
AGATAATCGGTAC
Found at i:15097154 original size:10 final size:10
Alignment explanation
Indices: 15097141--15097174 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
15097131 ATAAAAAAAA
15097141 TTCAAAATAT
1 TTCAAAATAT
15097151 TTCAAAATA-
1 TTCAAAATAT
15097160 TTCAAAATAT
1 TTCAAAATAT
*
15097170 CTCAA
1 TTCAA
15097175 GCTTCACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (10 bp):
TTCAAAATAT
Found at i:15097157 original size:19 final size:19
Alignment explanation
Indices: 15097135--15097174 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15097125 GAAGATATAA
*
15097135 AAAAAATTCAAAATATTTC
1 AAAAAATTCAAAATATCTC
*
15097154 AAAATATTCAAAATATCTC
1 AAAAAATTCAAAATATCTC
15097173 AA
1 AA
15097175 GCTTCACCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAAATTCAAAATATCTC
Found at i:15097167 original size:9 final size:9
Alignment explanation
Indices: 15097135--15097174 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
15097125 GAAGATATAA
*
15097135 AAAAAATTC
1 AAAATATTC
15097144 AAAATATTTC
1 AAAATA-TTC
15097154 AAAATATTC
1 AAAATATTC
15097163 AAAATATCTC
1 AAAATAT-TC
15097173 AA
1 AA
15097175 GCTTCACCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 15 0.54
10 13 0.46
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAATATTC
Found at i:15109915 original size:24 final size:24
Alignment explanation
Indices: 15109828--15109905 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
15109818 ATTTTCGATT
* *
15109828 TGAATTCTGTTATGATACCTGACA
1 TGAATTCTGATATGATACTTGACA
* *
15109852 TGGATTCTGATCTGATACTTGACA
1 TGAATTCTGATATGATACTTGACA
* * *
15109876 TGAATTCTAATGTGATACTTGACT
1 TGAATTCTGATATGATACTTGACA
15109900 TGAATT
1 TGAATT
15109906 ATGTTTTGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (24 bp):
TGAATTCTGATATGATACTTGACA
Found at i:15110025 original size:35 final size:35
Alignment explanation
Indices: 15109986--15110085 Score: 119
Period size: 35 Copynumber: 2.9 Consensus size: 35
15109976 ATACTTGGAG
*
15109986 GCTCCTCGGCTTTGTGCTCAGGGCCTTACTTATCA
1 GCTCCTCGGCTTTGTGCTCAGGGCCTTACTTACCA
** * *
15110021 GCTCCTCAACATTGTGCTCAGGGTCTTACTTACCA
1 GCTCCTCGGCTTTGTGCTCAGGGCCTTACTTACCA
* * * *
15110056 GCTCCTCGGATATGTGCTTACGGCCTTACT
1 GCTCCTCGGCTTTGTGCTCAGGGCCTTACT
15110086 GGACTTAACG
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.15, C:0.31, G:0.21, T:0.33
Consensus pattern (35 bp):
GCTCCTCGGCTTTGTGCTCAGGGCCTTACTTACCA
Found at i:15114164 original size:22 final size:22
Alignment explanation
Indices: 15114136--15114914 Score: 986
Period size: 22 Copynumber: 35.6 Consensus size: 22
15114126 ATAATAATAT
15114136 TTTTAAAATAAATCAAGT-CATA
1 TTTTAAAATAAATCAA-TCCATA
15114158 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
15114180 CTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
15114202 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
15114224 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*** *
15114246 TTTTAAAAT-AATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
15114267 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
15114289 TTTTAAAATACATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
15114311 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
*
15114333 ATTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
15114355 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
15114377 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
15114399 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
** *
15114421 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATCCATA
*
15114443 TTTGAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
15114465 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
15114487 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
15114509 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
* *
15114531 TTTTAAAATAAATTAATACATA
1 TTTTAAAATAAATCAATCCATA
** *
15114553 TTTTAAAATAAAT-TTTTCATA
1 TTTTAAAATAAATCAATCCATA
* *
15114574 TTTTAAAATAAATTAATTCATA
1 TTTTAAAATAAATCAATCCATA
** *
15114596 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATCCATA
15114618 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
15114640 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
15114662 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
15114684 TTTTAAAAT-AAT-TTTCCCATA
1 TTTTAAAATAAATCAAT-CCATA
15114705 -TTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
15114726 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
15114748 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
15114770 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
15114792 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATCCATA
***
15114814 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
15114836 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
15114858 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
**
15114880 TTTTAAAATAAATCAATATATA
1 TTTTAAAATAAATCAATCCATA
15114902 TTTTAAAATAAAT
1 TTTTAAAATAAAT
15114915 TTTAAAATAG
Statistics
Matches: 657, Mismatches: 83, Indels: 34
0.85 0.11 0.04
Matches are distributed among these distances:
20 9 0.01
21 73 0.11
22 556 0.85
23 19 0.03
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:15114931 original size:11 final size:12
Alignment explanation
Indices: 15114879--15114928 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
15114869 ATCAATTCAT
15114879 ATTTTAAAATAA
1 ATTTTAAAATAA
* * *
15114891 A--TCAATATAT
1 ATTTTAAAATAA
15114901 ATTTTAAAATAA
1 ATTTTAAAATAA
*
15114913 ATTTTAAAATAG
1 ATTTTAAAATAA
15114925 ATTT
1 ATTT
15114929 AAATGATTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 7 0.24
12 22 0.76
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:15115684 original size:24 final size:24
Alignment explanation
Indices: 15115648--15115731 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
15115638 TATCTAATTT
* *
15115648 CTGACTTGAATTCTGTTATGATAC
1 CTGACATGAATTCTGATATGATAC
* *
15115672 CTGACATGGATTCTAATATGATAC
1 CTGACATGAATTCTGATATGATAC
* * **
15115696 TTGGCATGAATTCTGATGCGATAC
1 CTGACATGAATTCTGATATGATAC
* *
15115720 TTGACCTGAATT
1 CTGACATGAATT
15115732 ATGTTTTGAT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (24 bp):
CTGACATGAATTCTGATATGATAC
Found at i:15117748 original size:3 final size:3
Alignment explanation
Indices: 15117742--15117800 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
15117732 ATTTATTATT
* * * *
15117742 TAA TAA TAA TTA TAA TAA T-A TAA TTA TAG T-A TAA TAA TAA TAA -GA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15117787 TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA
15117801 GGGGACAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
2 6 0.14
3 38 0.86
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:15117753 original size:14 final size:15
Alignment explanation
Indices: 15117736--15117795 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 15
15117726 TAATAAATTT
15117736 ATTAT-TTAATAATA
1 ATTATATTAATAATA
*
15117750 ATTATAATAAT-ATA
1 ATTATATTAATAATA
15117764 ATTATAGTATAATAATA
1 ATTATA-T-TAATAATA
* *
15117781 ATAAGA-TAATAATA
1 ATTATATTAATAATA
15117795 A
1 A
15117796 AATAAGGGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 23 0.61
15 4 0.11
16 4 0.11
17 7 0.18
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
ATTATATTAATAATA
Found at i:15117767 original size:28 final size:30
Alignment explanation
Indices: 15117723--15117782 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 30
15117713 AAATGGGCTC
*
15117723 TTATAATAAATTTATTAT-T-TAATAATAA
1 TTATAATAAATTAATTATATATAATAATAA
15117751 TTATAAT-AATATAATTATAGTATAATAATAA
1 TTATAATAAAT-TAATTATA-TATAATAATAA
15117782 T
1 T
15117783 AAGATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 3 0.11
28 13 0.48
30 1 0.04
31 10 0.37
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
TTATAATAAATTAATTATATATAATAATAA
Found at i:15117789 original size:11 final size:11
Alignment explanation
Indices: 15117742--15117800 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
15117732 ATTTATTATT
*
15117742 TAATAATAATTA
1 TAATAATAA-AA
*
15117754 TAATAATATAA
1 TAATAATAAAA
* * *
15117765 TTATAGTATAA
1 TAATAATAAAA
*
15117776 TAATAATAAGA
1 TAATAATAAAA
15117787 TAATAATAAAA
1 TAATAATAAAA
15117798 TAA
1 TAA
15117801 GGGGACAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
11 30 0.79
12 8 0.21
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:15118554 original size:163 final size:163
Alignment explanation
Indices: 15118043--15118676 Score: 591
Period size: 163 Copynumber: 3.9 Consensus size: 163
15118033 ACTTTATATA
* * * * ** ** * *
15118043 TGCCTCTTTTTCAGGTATTCAGATCAATTTTGGAAGACATGTCTGCTCCACTATTCATTCAAGGG
1 TGCCTCTTCTTCGGGTAGTCAGAACAATTTTTAAAGATGTGTTTGCTCCACTATCCATTCAAGGG
* * ** * ** *
15118108 ATATCACACTCA-ATATGTGCCTCTTTCTACGGTAGTCAGATTAATTTTTTTAAGATGTGTCTGC
66 ATATCAGACT-AGATATGTGCCTCTTTTTTGGGTAGTCAGATCAA-TTTTGAAAGACGTGTCTGC
* * *
15118172 TCCACTATCCATTCAGGGGTTATCAGACTGGATCTG
129 CCCACTATTCATT-AGGGGATATCAGACTGGATCTG
*
15118208 TGCCTCTTCTTCGGGTAGTCAGATA-AATATTTTTAAGATGT-TTCTGCTCCACTATCCATTCAA
1 TGCCTCTTCTTCGGGTAGTCAGA-ACAAT-TTTTAAAGATGTGTT-TGCTCCACTATCCATTCAA
* * * * * * *
15118271 GGGATATCAGATTGGATCTGTGCCTCTTCTTTCGGTAGTCAGATAAATTTTTG-AAGATGTGTCT
63 GGGATATCAGACTAGATATGTGCCTCTTTTTTGGGTAGTCAGATCAA-TTTTGAAAGACGTGTCT
* * * * *
15118335 GCTCTACTATTCATACAGGGGAGATCAGACTTGATCTG
127 GCCCCACTATTCAT-TAGGGGATATCAGACTGGATCTG
* * * * * * * * * *
15118373 CGCCTCTTTTTTGGGTAGTTAGAACAATTTTTGAAGACGTGTTTGC-CACACTTTTCATTTAGGG
1 TGCCTCTTCTTCGGGTAGTCAGAACAATTTTTAAAGATGTGTTTGCTC-CACTATCCATTCAAGG
* * *
15118437 GATATCAAACTAGATATGTGCCTCTTTTTTGGGTA-TACAGGTCAATTTTGAAAGACATGTC-GA
65 GATATCAGACTAGATATGTGCCTCTTTTTTGGGTAGT-CAGATCAATTTTGAAAGACGTGTCTG-
*
15118500 CCCCACTATTCATTAGGGGATATCAGACTGGATTTG
128 CCCCACTATTCATTAGGGGATATCAGACTGGATCTG
* * *
15118536 TGCCTCTTCTTCGGGTAGTCA-AATCAATTTTTAAAGATGTGTTTGCTCCCCTATGCATTCATGG
1 TGCCTCTTCTTCGGGTAGTCAGAA-CAATTTTTAAAGATGTGTTTGCTCCACTATCCATTCAAGG
* * * * *
15118600 GAGATCAGACTTGATTTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTTTAAAGACGTGTCTGCC
65 GATATCAGACTAGATATGTGCCTCTTTTTTGGGTAGTCAGATCAATTTTGAAAGACGTGTCTGCC
*
15118665 CTACTATTCATT
130 CCACTATTCATT
15118677 CAAAGGAGAT
Statistics
Matches: 383, Mismatches: 71, Indels: 32
0.79 0.15 0.07
Matches are distributed among these distances:
162 2 0.01
163 139 0.36
164 83 0.22
165 90 0.23
166 69 0.18
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (163 bp):
TGCCTCTTCTTCGGGTAGTCAGAACAATTTTTAAAGATGTGTTTGCTCCACTATCCATTCAAGGG
ATATCAGACTAGATATGTGCCTCTTTTTTGGGTAGTCAGATCAATTTTGAAAGACGTGTCTGCCC
CACTATTCATTAGGGGATATCAGACTGGATCTG
Found at i:15118694 original size:82 final size:82
Alignment explanation
Indices: 15118009--15118696 Score: 627
Period size: 82 Copynumber: 8.4 Consensus size: 82
15117999 GGGTATGTTT
* * * * * * *
15118009 CACTATTCATTCAAGGAAGATTAGACTTTATATATGCCTCTTTTTCAGGTATTCAGATCAATTTT
1 CACTATTCATTCAAGGGATATCAGACTTGATATGTGCCTCTTTTTCGGGTAGTCAGATCAATTTT
** *
15118074 GGAAGACATGTCTGCTC
66 TAAAGACGTGTCTGCTC
* ** * *
15118091 CACTATTCATTCAAGGGATATCACACTCAATATGTGCCTCTTTCTAC-GGTAGTCAGATTAATTT
1 CACTATTCATTCAAGGGATATCAGACTTGATATGTGCCTCTTT-TTCGGGTAGTCAGATCAA-TT
* *
15118155 TTTTAAGATGTGTCTGCTC
64 TTTAAAGACGTGTCTGCTC
* * * * * * *
15118174 CACTATCCATTCAGGGGTTATCAGACTGGATCTGTGCCTCTTCTTCGGGTAGTCAGATAAATATT
1 CACTATTCATTCAAGGGATATCAGACTTGATATGTGCCTCTTTTTCGGGTAGTCAGATCAAT-TT
* * *
15118239 TTTAAGATGTTTCTGCTC
65 TTAAAGACGTGTCTGCTC
* * *
15118257 CACTATCCATTCAAGGGATATCAGA-TTGGATCTGTGCCTCTTCTTTC-GGTAGTCAGATAAATT
1 CACTATTCATTCAAGGGATATCAGACTT-GATATGTGCCTCTT-TTTCGGGTAGTCAGATCAATT
* *
15118320 TTTGAAGATGTGTCTGCTC
64 TTTAAAGACGTGTCTGCTC
* * * * * * * * *
15118339 TACTATTCATACAGGGGAGATCAGACTTGATCTGCGCCTCTTTTTTGGGTAGTTAGAACAATTTT
1 CACTATTCATTCAAGGGATATCAGACTTGATATGTGCCTCTTTTTCGGGTAGTCAGATCAATTTT
* *
15118404 TGAAGACGTGTTTGC-C
66 TAAAGACGTGTCTGCTC
* * * * * * *
15118420 ACACTTTTCATTTAGGGGATATCAAACTAGATATGTGCCTCTTTTTTGGGTA-TACAGGTCAATT
1 -CACTATTCATTCAAGGGATATCAGACTTGATATGTGCCTCTTTTTCGGGTAGT-CAGATCAATT
* * *
15118484 TTGAAAGACATGTC-GACCC
64 TTTAAAGACGTGTCTG-CTC
* * * * *
15118503 CACTATTCATT-AGGGGATATCAGACTGGATTTGTGCCTCTTCTTCGGGTAGTCAAATCAATTTT
1 CACTATTCATTCAAGGGATATCAGACTTGATATGTGCCTCTTTTTCGGGTAGTCAGATCAATTTT
* *
15118567 TAAAGATGTGTTTGCTC
66 TAAAGACGTGTCTGCTC
* * * * *
15118584 CCCTATGCATTCATGGGAGATCAGACTTGATTTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTT
1 CACTATTCATTCAAGGGATATCAGACTTGATATGTGCCTCTTTTTCGGGTAGTCAGATCAATTTT
15118649 TAAAGACGTGTCTGC-C
66 TAAAGACGTGTCTGCTC
* * *
15118665 CTACTATTCATTCAAAGGAGATCAAACTTGAT
1 C-ACTATTCATTCAAGGGATATCAGACTTGAT
15118697 CTTTAGATAT
Statistics
Matches: 504, Mismatches: 86, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
81 71 0.14
82 289 0.57
83 141 0.28
84 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (82 bp):
CACTATTCATTCAAGGGATATCAGACTTGATATGTGCCTCTTTTTCGGGTAGTCAGATCAATTTT
TAAAGACGTGTCTGCTC
Found at i:15124485 original size:6 final size:6
Alignment explanation
Indices: 15124470--15124512 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
15124460 GTAGGGGTTA
15124470 TTTTTC -TTTTC TTTTTC TTTTTTTC TTCTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC --TTTTTC TT-TTTC TTTTTC TTTTT
15124513 GTTACACCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.15
6 16 0.48
7 6 0.18
8 6 0.18
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:15124486 original size:11 final size:11
Alignment explanation
Indices: 15124470--15124511 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
15124460 GTAGGGGTTA
15124470 TTTTTCTTTTC
1 TTTTTCTTTTC
15124481 TTTTTCTTTT-
1 TTTTTCTTTTC
15124491 TTTCTTC-TTTC
1 TTT-TTCTTTTC
15124502 TTTTTCTTTT
1 TTTTTCTTTT
15124512 TGTTACACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:15124495 original size:14 final size:15
Alignment explanation
Indices: 15124476--15124506 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15124466 GTTATTTTTC
15124476 TTTTCTT-TTTCTTT
1 TTTTCTTCTTTCTTT
15124490 TTTTCTTCTTTCTTT
1 TTTTCTTCTTTCTTT
15124505 TT
1 TT
15124507 CTTTTTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCTTCTTTCTTT
Found at i:15124503 original size:21 final size:19
Alignment explanation
Indices: 15124470--15124512 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 19
15124460 GTAGGGGTTA
15124470 TTTTTCTTTTCTTTTTCTT
1 TTTTTCTTTTCTTTTTCTT
15124489 TTTTTCTTCTTTCTTTTTCTT
1 TTTTTC-T-TTTCTTTTTCTT
15124510 TTT
1 TTT
15124513 GTTACACCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 1 0.05
21 15 0.68
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTCTTTTCTTTTTCTT
Found at i:15129164 original size:85 final size:85
Alignment explanation
Indices: 15129021--15129189 Score: 275
Period size: 85 Copynumber: 2.0 Consensus size: 85
15129011 TGATGAATAA
* * * *
15129021 CCATCTAACCATTTGGCCAAGCATCATTTCCTCTCCTATTTGGCGCCAACTTGAAGGGACACAAG
1 CCATCTAACCATTTGGCCAAGCATCATTTCCTCTCCCATTTGACGACAACTTAAAGGGACACAAG
*
15129086 AGCTATTCGGCCAAGGGTTT
66 AGCTATTCGACCAAGGGTTT
15129106 CCATCTAACCATTTGGCCAAGCATCATTTCCTCTCCCATTTGACGACAACTTAAAGGGACACAAG
1 CCATCTAACCATTTGGCCAAGCATCATTTCCTCTCCCATTTGACGACAACTTAAAGGGACACAAG
* *
15129171 AGTTATTTGACCAAGGGTT
66 AGCTATTCGACCAAGGGTT
15129190 ATTTCCATTC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (85 bp):
CCATCTAACCATTTGGCCAAGCATCATTTCCTCTCCCATTTGACGACAACTTAAAGGGACACAAG
AGCTATTCGACCAAGGGTTT
Found at i:15135495 original size:45 final size:45
Alignment explanation
Indices: 15135444--15135813 Score: 440
Period size: 45 Copynumber: 8.2 Consensus size: 45
15135434 AAATGAATGA
* * * ** *
15135444 ATAAATGAAATCCATAACGATACCTTAACGGCATGAAAGGATTCC
1 ATAAATGAAATGCATAACGATGCATTAACAACATGAAAGGATGCC
* ***
15135489 ATAAATGAAATGCATAACGTTGCATTAACTGTATGAAAGGATGCC
1 ATAAATGAAATGCATAACGATGCATTAACAACATGAAAGGATGCC
15135534 ATAAATGAAATGCATAAC-ATTGCATTAACAACATGAAAGGATGCC
1 ATAAATGAAATGCATAACGA-TGCATTAACAACATGAAAGGATGCC
* *
15135579 ATAAATTAAATGCATAACGGTGCATTAACAACATGAAAGGATGCC
1 ATAAATGAAATGCATAACGATGCATTAACAACATGAAAGGATGCC
*
15135624 ATAAATGAAATCCATAAC-ATTGCATTAACAACATGAAAGGATGCC
1 ATAAATGAAATGCATAACGA-TGCATTAACAACATGAAAGGATGCC
* * *
15135669 ATAAATGAAATGCATAACGGTGCATTAACGATATGAAAGGATGCC
1 ATAAATGAAATGCATAACGATGCATTAACAACATGAAAGGATGCC
* * * *** *
15135714 ATAAATGAAATGTATAATGGTGCATTAACGGTATGAAGGGATGCC
1 ATAAATGAAATGCATAACGATGCATTAACAACATGAAAGGATGCC
* * * **
15135759 ATAAATGAAATGCATAACGGTGCATTATA-AGCATGAAAGGAAGTT
1 ATAAATGAAATGCATAACGATGCATTA-ACAACATGAAAGGATGCC
15135804 ATAAATGAAA
1 ATAAATGAAA
15135814 ATAAAGGATA
Statistics
Matches: 288, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
45 287 1.00
46 1 0.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.24
Consensus pattern (45 bp):
ATAAATGAAATGCATAACGATGCATTAACAACATGAAAGGATGCC
Found at i:15138410 original size:90 final size:90
Alignment explanation
Indices: 15138257--15138434 Score: 297
Period size: 90 Copynumber: 2.0 Consensus size: 90
15138247 CCTAACACAC
* *
15138257 CCTTTTATAGCCAAGTTACCCTAGTCATAGTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATAGTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
15138322 ATTTAATTAATT-AGAATTTAATAAT
66 ATTTAATTAATTGA-AATTTAATAAT
*
15138347 CCTTTTATATCCAAGTTACCCTAATCATA-TCAGGGATTTTATTATTTCAAATTAATTAAATCTA
1 CCTTTTATAGCCAAGTTACCCTAATCATAGT-AGGGATTTTATTATTTCAAATTAATTAAATCTA
15138411 TATTTAATTAATTGAAATTTAATA
65 TATTTAATTAATTGAAATTTAATA
15138435 TTCGGGATTA
Statistics
Matches: 83, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
89 1 0.01
90 81 0.98
91 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATAGTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTTAATAAT
Found at i:15145144 original size:89 final size:89
Alignment explanation
Indices: 15144993--15145166 Score: 278
Period size: 89 Copynumber: 2.0 Consensus size: 89
15144983 CCTAACACAC
* * * *
15144993 CCTTTTATAGCCAGGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
15145058 ATTTAATTAATT-AGAATTAATAAT
66 ATTTAATTAATTGA-AATTAATAAT
* *
15145082 CCTTTTATATCTAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
15145147 ATTTAATTAATTGAAATTAA
66 ATTTAATTAATTGAAATTAA
15145167 ATATTCGGGA
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
89 77 0.99
90 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAATAAT
Found at i:15148475 original size:65 final size:63
Alignment explanation
Indices: 15148406--15148561 Score: 199
Period size: 65 Copynumber: 2.4 Consensus size: 63
15148396 AAATTGAACG
* *
15148406 TCGAATGCATTTCATGCATCGATGCACATACTATGCATCGATGCAGTCAAAG-T-TTTATGAAAA
1 TCGAATGCATTTCATGCATCGATGCACA-ACCATGCATCGATGCACTC-AAGCTATTT-TGAAAA
15148469 CA
63 -A
* * *
15148471 TCGAATGCATTTAATGCATCGATGCACCAGCCATGCATCGATGCACTCAGGCTATTTTGAAAAA
1 TCGAATGCATTTCATGCATCGATGCA-CAACCATGCATCGATGCACTCAAGCTATTTTGAAAAA
*
15148535 TCTAATGCATTTCATGCATCGATGCAC
1 TCGAATGCATTTCATGCATCGATGCAC
15148562 TCTTAGTGCA
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
63 1 0.01
64 27 0.33
65 48 0.59
66 5 0.06
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (63 bp):
TCGAATGCATTTCATGCATCGATGCACAACCATGCATCGATGCACTCAAGCTATTTTGAAAAA
Found at i:15149437 original size:13 final size:13
Alignment explanation
Indices: 15149419--15149446 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15149409 TTATTTATTA
15149419 TAATAATAATAAT
1 TAATAATAATAAT
15149432 TAATAATAATAAT
1 TAATAATAATAAT
15149445 TA
1 TA
15149447 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAATAATAATAAT
Found at i:15149439 original size:16 final size:16
Alignment explanation
Indices: 15149418--15149449 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15149408 TTTATTTATT
15149418 ATAATAATAATAATTA
1 ATAATAATAATAATTA
*
15149434 ATAATAATAATTATTA
1 ATAATAATAATAATTA
15149450 TTATTATACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATAATAATAATTA
Found at i:15153904 original size:25 final size:23
Alignment explanation
Indices: 15153876--15153937 Score: 54
Period size: 25 Copynumber: 2.6 Consensus size: 23
15153866 ACTTAATTCA
15153876 TTTTCTTTATTTTCCCTTTCTCTT
1 TTTTCTTT-TTTTCCCTTTCTCTT
* *
15153900 CTTTT-TTATCTTTTCCTTTTTTCTT
1 -TTTTCTT-T-TTTTCCCTTTCTCTT
*
15153925 TGTTCTTTTTTTC
1 TTTTCTTTTTTTC
15153938 TTTTTGCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 5 0.16
24 6 0.19
25 20 0.65
ACGTcount: A:0.03, C:0.21, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTCTTTTTTTCCCTTTCTCTT
Found at i:15153921 original size:8 final size:7
Alignment explanation
Indices: 15153898--15153949 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
15153888 TCCCTTTCTC
15153898 TTCTTTT
1 TTCTTTT
*
15153905 TTATCTTT
1 TTCT-TTT
*
15153913 TCCTTTT
1 TTCTTTT
*
15153920 TTCTTTG
1 TTCTTTT
15153927 TTCTTTTT
1 TTC-TTTT
15153935 TTCTTTT
1 TTCTTTT
*
15153942 TGCTTTT
1 TTCTTTT
15153949 T
1 T
15153950 GTGTTCTCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
7 25 0.69
8 11 0.31
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (7 bp):
TTCTTTT
Found at i:15153947 original size:15 final size:15
Alignment explanation
Indices: 15153898--15153949 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
15153888 TCCCTTTCTC
15153898 TTCTTTTTTATC-TT-
1 TTCTTTTTT-TCTTTG
*
15153912 TTCCTTTTTTCTTTG
1 TTCTTTTTTTCTTTG
15153927 TTCTTTTTTTCTTT-
1 TTCTTTTTTTCTTTG
15153941 TTGCTTTTT
1 TT-CTTTTT
15153950 GTGTTCTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 2 0.06
14 12 0.36
15 19 0.58
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (15 bp):
TTCTTTTTTTCTTTG
Found at i:15155355 original size:20 final size:20
Alignment explanation
Indices: 15155330--15155374 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
15155320 CTTAATGCGG
*
15155330 TGTCACGTGACTAGGACCAT
1 TGTCACATGACTAGGACCAT
15155350 TGTCACATGACTAGGACCAT
1 TGTCACATGACTAGGACCAT
15155370 TGTCA
1 TGTCA
15155375 TTGAATTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (20 bp):
TGTCACATGACTAGGACCAT
Found at i:15157789 original size:2 final size:2
Alignment explanation
Indices: 15157782--15157827 Score: 67
Period size: 2 Copynumber: 23.0 Consensus size: 2
15157772 CAGACATTTA
*
15157782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AGT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
15157824 AT AT
1 AT AT
15157828 TTTTGTATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 1 0.03
2 38 0.95
3 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15159225 original size:21 final size:21
Alignment explanation
Indices: 15159201--15159244 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
15159191 TGCACGAGCG
15159201 TACCAGCATCCATCCTT-AACA
1 TACCAGCATCCAT-CTTCAACA
*
15159222 TACCAGCATGCATCTTCAACA
1 TACCAGCATCCATCTTCAACA
15159243 TA
1 TA
15159245 TTCCAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.25
Consensus pattern (21 bp):
TACCAGCATCCATCTTCAACA
Found at i:15164660 original size:26 final size:26
Alignment explanation
Indices: 15164624--15164675 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
15164614 TACTATTGGT
15164624 TTTGGGAACTAAGTTCCTTCACGAAA
1 TTTGGGAACTAAGTTCCTTCACGAAA
15164650 TTTGGGAACTAAGTTCCTTCACGAAA
1 TTTGGGAACTAAGTTCCTTCACGAAA
15164676 CCAAATCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (26 bp):
TTTGGGAACTAAGTTCCTTCACGAAA
Found at i:15165432 original size:30 final size:31
Alignment explanation
Indices: 15165361--15165436 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
15165351 TTGGGGCATG
* ** *
15165361 AGAGCCTACCCAAGAAAGTTCTCGGGGCTAC
1 AGAGCTTACCCAAGAAAAATCTCAGGGCTAC
15165392 AGAGGCTTACCCAA-AAAAATCTCAGGGCTGA-
1 AGA-GCTTACCCAAGAAAAATCTCAGGGCT-AC
15165423 AGAGCTTACCCAAG
1 AGAGCTTACCCAAG
15165437 TGTCGCCTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
30 10 0.26
31 18 0.47
32 10 0.26
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (31 bp):
AGAGCTTACCCAAGAAAAATCTCAGGGCTAC
Found at i:15175685 original size:23 final size:25
Alignment explanation
Indices: 15175657--15175707 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
15175647 ATCAGTAAAG
* *
15175657 AAATTG-AATCACTC-AAAAGAAGA
1 AAATTGCAAGCACTCAAAAAGAAAA
15175680 AAATTGCAAGCACTCAAAAAGAAAA
1 AAATTGCAAGCACTCAAAAAGAAAA
15175705 AAA
1 AAA
15175708 GGAAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.25
24 7 0.29
25 11 0.46
ACGTcount: A:0.61, C:0.14, G:0.12, T:0.14
Consensus pattern (25 bp):
AAATTGCAAGCACTCAAAAAGAAAA
Found at i:15175701 original size:22 final size:22
Alignment explanation
Indices: 15175653--15175704 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
15175643 AAAAATCAGT
*
15175653 AAAG-AAATTGAATCACTCAAA
1 AAAGAAAATTGAAGCACTCAAA
15175674 AGAAGAAAATTGCAAGCACTC-AA
1 A-AAGAAAATTG-AAGCACTCAAA
15175697 AAAGAAAA
1 AAAGAAAA
15175705 AAAGGAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 1 0.04
22 10 0.37
23 9 0.33
24 7 0.26
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (22 bp):
AAAGAAAATTGAAGCACTCAAA
Found at i:15175715 original size:14 final size:14
Alignment explanation
Indices: 15175696--15175728 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15175686 CAAGCACTCA
15175696 AAAAGAAAA-AAAGG
1 AAAAGAAAAGAAA-G
15175710 AAAAGAAAAGAAAG
1 AAAAGAAAAGAAAG
15175724 AAAAG
1 AAAAG
15175729 TTGAAAGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Found at i:15194438 original size:17 final size:17
Alignment explanation
Indices: 15194403--15194438 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15194393 TTGCGTCGAC
*
15194403 TATAGAAATGGTTAGGG
1 TATAGAAATGGATAGGG
*
15194420 TATAGAAATGGATATGG
1 TATAGAAATGGATAGGG
15194437 TA
1 TA
15194439 GGATAGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (17 bp):
TATAGAAATGGATAGGG
Found at i:15194743 original size:18 final size:18
Alignment explanation
Indices: 15194720--15194754 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15194710 TGTAGGAGTC
15194720 TTTTTCTT-TTCTTTTTTG
1 TTTTTCTTCTT-TTTTTTG
15194738 TTTTTCTTCTTTTTTTT
1 TTTTTCTTCTTTTTTTT
15194755 ATGCAACACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (18 bp):
TTTTTCTTCTTTTTTTTG
Found at i:15195117 original size:11 final size:11
Alignment explanation
Indices: 15195103--15195136 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
15195093 GGATGATTTT
*
15195103 ATGGTAATGGA
1 ATGGTGATGGA
*
15195114 ATGGTGATAGA
1 ATGGTGATGGA
15195125 ATGGTGATGGA
1 ATGGTGATGGA
15195136 A
1 A
15195137 GTGAAGATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.26
Consensus pattern (11 bp):
ATGGTGATGGA
Found at i:15196821 original size:50 final size:49
Alignment explanation
Indices: 15196767--15196861 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
15196757 GAGAGTTTTG
* *
15196767 GGAGCCAAAATGAACGAGCACAT-CACCATTCGGCCAAGGGAGATGTCTTT
1 GGAGCCAAAATGAACAAG-A-ATGCACCATTCGGCCAAAGGAGATGTCTTT
* *
15196817 GGAGCCAAGATGAACAAGAATGTACCATTCGGCCAAAGGAGATGT
1 GGAGCCAAAATGAACAAGAATGCACCATTCGGCCAAAGGAGATGT
15196862 ATCCTCATCC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
48 2 0.05
49 22 0.55
50 16 0.40
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (49 bp):
GGAGCCAAAATGAACAAGAATGCACCATTCGGCCAAAGGAGATGTCTTT
Found at i:15197352 original size:22 final size:22
Alignment explanation
Indices: 15197325--15197368 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15197315 TTCCATTCAA
*
15197325 CATCAACACCATCAATATCTTC
1 CATCAACACCATCAAAATCTTC
**
15197347 CATCAAGGCCATCAAAATCTTC
1 CATCAACACCATCAAAATCTTC
15197369 ATAATTCCGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.34, G:0.05, T:0.25
Consensus pattern (22 bp):
CATCAACACCATCAAAATCTTC
Found at i:15210748 original size:27 final size:27
Alignment explanation
Indices: 15210689--15210755 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
15210679 CAAAGAAAAA
*
15210689 AAAAATAAGAAAAGAAATTGAAGCACTC
1 AAAAAGAAG-AAAGAAATTGAAGCACTC
* * *
15210717 CAAAAGAAAGAAAGAAATT-CAGCATTC
1 AAAAAG-AAGAAAGAAATTGAAGCACTC
15210744 AAAAAGAAGAAA
1 AAAAAGAAGAAA
15210756 AGCAAAGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 6 0.18
27 11 0.33
28 13 0.39
29 3 0.09
ACGTcount: A:0.63, C:0.10, G:0.15, T:0.12
Consensus pattern (27 bp):
AAAAAGAAGAAAGAAATTGAAGCACTC
Found at i:15210757 original size:27 final size:28
Alignment explanation
Indices: 15210689--15210757 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
15210679 CAAAGAAAAA
*
15210689 AAAAATAAGAAAAGAAATTGAAGCACTC
1 AAAAAGAAGAAAAGAAATTGAAGCACTC
* * *
15210717 CAAAAGAA-AGAAAGAAATT-CAGCATTC
1 AAAAAGAAGA-AAAGAAATTGAAGCACTC
15210744 AAAAAGAAGAAAAG
1 AAAAAGAAGAAAAG
15210758 CAAAGAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
27 18 0.53
28 16 0.47
ACGTcount: A:0.62, C:0.10, G:0.16, T:0.12
Consensus pattern (28 bp):
AAAAAGAAGAAAAGAAATTGAAGCACTC
Found at i:15215090 original size:27 final size:28
Alignment explanation
Indices: 15215029--15215090 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
15215019 AAAGAAAATC
* *
15215029 AGAAAAGAAATTGAAGCACTCCAAAAGA
1 AGAAAAGAAATTCAAGCACTCAAAAAGA
*
15215057 A-AGAAAGAAA-TCCAGCACTCAAAAAGA
1 AGA-AAAGAAATTCAAGCACTCAAAAAGA
15215084 AGAAAAG
1 AGAAAAG
15215091 CAAAGAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.60, C:0.15, G:0.18, T:0.08
Consensus pattern (28 bp):
AGAAAAGAAATTCAAGCACTCAAAAAGA
Found at i:15221410 original size:519 final size:518
Alignment explanation
Indices: 15220429--15221466 Score: 1927
Period size: 519 Copynumber: 2.0 Consensus size: 518
15220419 TTATACTTGT
15220429 GGCATCACCCCTTCTTTTTCATCTTGATACTTCTGGTTCCTAGTTCTTTATAACTAGTGGGTCAA
1 GGCATCACCCCTTCTTTTTCATCTTGATACTTCTGGTTCCTAGTTCTTTATAACTAGTGGGTCAA
15220494 AGTACTTCATACCACCCCTTAAAGAAGCAATATAAATTATGGGTCTTTGCTCTATATAGCATTGG
66 AGTACTTCATACCACCCCTTAAAGAAGCAATATAAATTATGGGTCTTTGCTCTATATAGCATTGG
*
15220559 TTCTTCTTTGAGTCTTCTTTAAGATACTATCCTCATAACCATTCCTTTGTTTCATAACCATAACC
131 TTCTTCTTTGAGTCTTCTTTAAGATACTATCCTCACAACCATTCCTTTGTTTCATAACCATAACC
15220624 ATAGCCATATCAACCATCTTCAGCTTCCATCTCTCATTTAAACAACCCACCTATTCACCCATACC
196 ATAGCCATATCAACCATCTTCAGCTTCCATCTCTCATTTAAACAACCCACCTATTCACCCATACC
*
15220689 TTTTCCACCCTTAACCATTCTGTTTTGAGCCATTCACTTTGTAGGTTGATTTGCTTCCTTCCTAG
261 TTTTCCACCCTTAACCATTCTGTTTTGAGCCATTCACTTTGCAGGTTGATTTGCTTCCTTCCTAG
15220754 ATCCACAATACATTTGTTAAGGCATCAGAAGAGCCCTTACATCAATTCTTATTCTATTCTTGAAT
326 ATCCACAATACATTTGTTAAGGCATCAGAAGAGCCCTTACATCAATTCTTATTCTATTCTTGAAT
15220819 TTTCATTGTTGCAGGATGATGAGAAGAGAACTTCAAGAAACGCTATTCACAAAGGCTTAATGAAC
391 TTTCATTGTTGCAGGATGATGAGAAGAGAACTTCAAGAAACGCTATTCACAAAGGCTTAATGAAC
15220884 ATGACTCTTCAAGAAACTAAGGTTGTGCCTCTTCAATCAAAGGACATGATCCTTGGAAGATAA
456 ATGACTCTTCAAGAAACTAAGGTTGTGCCTCTTCAATCAAAGGACATGATCCTTGGAAGATAA
15220947 GGCATCACCCCTTCTTTTTCATCTTGATACTTCTGGTTCCTAGTTCTTTATAACTAGTGGGTCAA
1 GGCATCACCCCTTCTTTTTCATCTTGATACTTCTGGTTCCTAGTTCTTTATAACTAGTGGGTCAA
15221012 AGTACTTCATACCACCCCTTAAAGAAGCAATATAAATTATGGGTCTTTGCTCTATATAGCATTGG
66 AGTACTTCATACCACCCCTTAAAGAAGCAATATAAATTATGGGTCTTTGCTCTATATAGCATTGG
*
15221077 TTCTTCTTTGAGTCTTCTTTAATATACTATCCTCACAACCATTCCTTTGTTTCATAAACCATAAC
131 TTCTTCTTTGAGTCTTCTTTAAGATACTATCCTCACAACCATTCCTTTGTTTCAT-AACCATAAC
* *
15221142 CATATCCATATCAACCATCTTCAGGTTCCATCTCTCATTTAAACAACCCACCTATTCACCCATAC
195 CATAGCCATATCAACCATCTTCAGCTTCCATCTCTCATTTAAACAACCCACCTATTCACCCATAC
* *
15221207 GTTTTCCACCCTTAACCATTCTGTTTTGAGCCATTCACTTTGCAGGTTG-TTTTCATTCCTTCCT
260 CTTTTCCACCCTTAACCATTCTGTTTTGAGCCATTCACTTTGCAGGTTGATTTGC-TTCCTTCCT
* * *
15221271 ATATCCACAAT-CAATTTGTTAAGGCATCAGAAGAGCCCTTACGTCAATTCTTCTTCTATTCTTG
324 AGATCCACAATAC-ATTTGTTAAGGCATCAGAAGAGCCCTTACATCAATTCTTATTCTATTCTTG
*
15221335 AATTTTCATTGTTGCAGGATGATGAGAAGAGAACTTCAAGAAATGCTATTCACAAAGGCTTAATG
388 AATTTTCATTGTTGCAGGATGATGAGAAGAGAACTTCAAGAAACGCTATTCACAAAGGCTTAATG
*
15221400 AACGTGACTCTTCAAGAAACTAAGGTTGTGCCTCTTCAATCAAAGGACATGATCCTTGGAAGATA
453 AACATGACTCTTCAAGAAACTAAGGTTGTGCCTCTTCAATCAAAGGACATGATCCTTGGAAGATA
15221465 A
518 A
15221466 G
1 G
15221467 AGAATGTGTC
Statistics
Matches: 505, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
518 188 0.37
519 317 0.63
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (518 bp):
GGCATCACCCCTTCTTTTTCATCTTGATACTTCTGGTTCCTAGTTCTTTATAACTAGTGGGTCAA
AGTACTTCATACCACCCCTTAAAGAAGCAATATAAATTATGGGTCTTTGCTCTATATAGCATTGG
TTCTTCTTTGAGTCTTCTTTAAGATACTATCCTCACAACCATTCCTTTGTTTCATAACCATAACC
ATAGCCATATCAACCATCTTCAGCTTCCATCTCTCATTTAAACAACCCACCTATTCACCCATACC
TTTTCCACCCTTAACCATTCTGTTTTGAGCCATTCACTTTGCAGGTTGATTTGCTTCCTTCCTAG
ATCCACAATACATTTGTTAAGGCATCAGAAGAGCCCTTACATCAATTCTTATTCTATTCTTGAAT
TTTCATTGTTGCAGGATGATGAGAAGAGAACTTCAAGAAACGCTATTCACAAAGGCTTAATGAAC
ATGACTCTTCAAGAAACTAAGGTTGTGCCTCTTCAATCAAAGGACATGATCCTTGGAAGATAA
Found at i:15221578 original size:24 final size:24
Alignment explanation
Indices: 15221551--15221599 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
15221541 CTTGGCCATC
15221551 CAAAAGATGTGAACAAGGAGTATA
1 CAAAAGATGTGAACAAGGAGTATA
* *
15221575 CAAAAGATGTGAATAGGGAGTATA
1 CAAAAGATGTGAACAAGGAGTATA
15221599 C
1 C
15221600 TTTTAACCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.08, G:0.27, T:0.18
Consensus pattern (24 bp):
CAAAAGATGTGAACAAGGAGTATA
Found at i:15222908 original size:71 final size:71
Alignment explanation
Indices: 15222778--15222909 Score: 183
Period size: 71 Copynumber: 1.9 Consensus size: 71
15222768 ACATGTTGGG
* * * * * *
15222778 AGCATGACTCACGTTGGCACAAGTTGGTGGAGCATTTGGGAGACATATACAGCTCACAAACAACA
1 AGCATGACTCACGTTGGCACAACTTGGTGGAGCACTTGGAAGACAAAAACAACTCACAAACAACA
15222843 CATTGT
66 CATTGT
* * *
15222849 AGCATGGCTCACGTTGGGACAACTTGGTGGAGCACTTGGAAGACAAAAACAACTGACAAAC
1 AGCATGACTCACGTTGGCACAACTTGGTGGAGCACTTGGAAGACAAAAACAACTCACAAAC
15222910 CACTCAAGCA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 52 1.00
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (71 bp):
AGCATGACTCACGTTGGCACAACTTGGTGGAGCACTTGGAAGACAAAAACAACTCACAAACAACA
CATTGT
Found at i:15226870 original size:27 final size:27
Alignment explanation
Indices: 15226832--15226894 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
15226822 ACACGTATGG
15226832 CACATGGGTGGCTGGTAATGAGGCACT
1 CACATGGGTGGCTGGTAATGAGGCACT
*
15226859 CACATGGGTGGCTGGTCATGAGGCACT
1 CACATGGGTGGCTGGTAATGAGGCACT
*
15226886 CACAAGGGT
1 CACATGGGT
15226895 TGTATAGGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.21, G:0.37, T:0.21
Consensus pattern (27 bp):
CACATGGGTGGCTGGTAATGAGGCACT
Found at i:15231577 original size:23 final size:23
Alignment explanation
Indices: 15231551--15231604 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
15231541 AAAATTAAGA
15231551 TTGCACTCCACTCACGCTCATGT
1 TTGCACTCCACTCACGCTCATGT
* *
15231574 TTGCACTCCACTCATGCTCGTGT
1 TTGCACTCCACTCACGCTCATGT
15231597 TTGCACTC
1 TTGCACTC
15231605 GGGGATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.15, C:0.37, G:0.15, T:0.33
Consensus pattern (23 bp):
TTGCACTCCACTCACGCTCATGT
Found at i:15232095 original size:19 final size:20
Alignment explanation
Indices: 15232067--15232104 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
15232057 TCTTTTCTCT
*
15232067 TTTCTCTTTTGTTTTTGTTA
1 TTTCTCTTTTCTTTTTGTTA
15232087 TTTCT-TTTTCTTTTTGTT
1 TTTCTCTTTTCTTTTTGTT
15232105 GCGTCACTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.03, C:0.11, G:0.08, T:0.79
Consensus pattern (20 bp):
TTTCTCTTTTCTTTTTGTTA
Found at i:15238187 original size:2 final size:2
Alignment explanation
Indices: 15238180--15238212 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15238170 ATAACATTGC
15238180 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15238213 TACATCTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15245802 original size:22 final size:23
Alignment explanation
Indices: 15245772--15245826 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
15245762 ATTTTTTATA
*
15245772 TGAATAGTGATGAACAGTA-ATG
1 TGAACAGTGATGAACAGTACATG
*
15245794 TGAACAGTGATGAACATTACATG
1 TGAACAGTGATGAACAGTACATG
15245817 TGAACAGTGA
1 TGAACAGTGA
15245827 ACATTGTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.25
Consensus pattern (23 bp):
TGAACAGTGATGAACAGTACATG
Found at i:15246301 original size:47 final size:45
Alignment explanation
Indices: 15246226--15246384 Score: 203
Period size: 47 Copynumber: 3.5 Consensus size: 45
15246216 TATAAAATCT
* * *
15246226 CTTACCATTTATCCCATAACCTCATAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
15246271 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * * *
15246318 CTTACCATTTAAATTCCATAGGCTCGTAAGCTTATTTCATCAATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
*
15246365 CTTTCCA-TTATTCCATAAGC
1 CTTACCATTTATTCCATAAGC
15246385 ATATACCATA
Statistics
Matches: 103, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
44 10 0.10
45 10 0.10
46 2 0.02
47 81 0.79
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:15264743 original size:11 final size:11
Alignment explanation
Indices: 15264727--15264751 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15264717 AATATAAAAA
15264727 GAAGTGCAAGT
1 GAAGTGCAAGT
15264738 GAAGTGCAAGT
1 GAAGTGCAAGT
15264749 GAA
1 GAA
15264752 AGAAATCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (11 bp):
GAAGTGCAAGT
Found at i:15283302 original size:19 final size:19
Alignment explanation
Indices: 15283259--15283296 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15283249 TACCTATATG
15283259 TGCAAAGAAAACAAGGTAA
1 TGCAAAGAAAACAAGGTAA
*
15283278 TGCAAATAAAACAAGGTAA
1 TGCAAAGAAAACAAGGTAA
15283297 ATCAAAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.18, T:0.13
Consensus pattern (19 bp):
TGCAAAGAAAACAAGGTAA
Found at i:15285893 original size:39 final size:39
Alignment explanation
Indices: 15285839--15285919 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
15285829 CTCTTTTAGA
*
15285839 ATCATTTCAAGCATTGTAGAGTTTCTTACTAGAATCACG
1 ATCATTTCAAGCATTGCAGAGTTTCTTACTAGAATCACG
* *
15285878 ATCATTTCAAGCATTGCGGAGTTTCTTACTATAATCACG
1 ATCATTTCAAGCATTGCAGAGTTTCTTACTAGAATCACG
15285917 ATC
1 ATC
15285920 GAACAACAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (39 bp):
ATCATTTCAAGCATTGCAGAGTTTCTTACTAGAATCACG
Found at i:15286573 original size:39 final size:39
Alignment explanation
Indices: 15286512--15286593 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
15286502 CCCCTTTCAT
15286512 GATCATTTCAAGCACTACGGAGTTTCTTACTAGAATCAC
1 GATCATTTCAAGCACTACGGAGTTTCTTACTAGAATCAC
* ** *
15286551 GATCATTTCAAGCATTGTGGAGTTTCTTACTATAATCAC
1 GATCATTTCAAGCACTACGGAGTTTCTTACTAGAATCAC
15286590 GATC
1 GATC
15286594 GAACAACAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (39 bp):
GATCATTTCAAGCACTACGGAGTTTCTTACTAGAATCAC
Found at i:15286958 original size:674 final size:668
Alignment explanation
Indices: 15285604--15287227 Score: 2576
Period size: 674 Copynumber: 2.4 Consensus size: 668
15285594 TCAATCATAT
* * * * *
15285604 TATATTGTTGGTTCTTCA-CTATATATAGCTAACGGGTCACAATTCATCCTTTGAATTTCTATCA
1 TATATTATTGGTTCTT-AGCTATATATAGCTAAC-AGTCATATTTCATTCTTTGAATTTCTATCA
*** * * ** **
15285668 TCCACCTCG-CTGACTACAACCATATTTCACCATTTTTGTTACATTTATTCAACCGTTATCACCA
64 TCTTTCTTGAC-GACTACAACTATCCTTCACCATTTTTGTTACATCCATTCAACCGTTATCACCA
* * * * * *
15285732 CCACACTTC-TTCATTTACAAACCACTTCAA-ATCAATCCATACCCTTTTTAAATTTTATTCTTT
128 CCACACTTCTTTCATTTGCAAACCACTTCAACTTC-ATCCACATCC-TTTTCAATTTCATTCTTT
* * * * * * * ***
15285795 ATTT-ATTATCTCATATTCACAACATATATCTTTCCTCTTTTA-GAATCATTTCAAGCATTGTAG
191 -TTTGTTTGTCTCATATTCACAACGTATATATTTCCCCTTTCATG-ATCATTTCAAGCACTACGG
15285858 AGTTTCTTACTAGAATCACGATCATTTCAAGCATTGCGGAGTTTCTTACTATAATCACGATCGAA
254 AGTTTCTTACTAGAATCACGATCATTTCAAGCATTGCGGAGTTTCTTACTATAATCACGATCGAA
* *
15285923 CAACAATGTTTATGACTCGAAACACATAATCAAGTTCATATAATTTGGCATCAGAGCTAGCCAGT
319 CAACAACGTTTATGACTCGAAACACATAATCAAGTTCATATAATTTGGCATCAGAGCTAGCCAAT
*
15285988 TTAGTAAGCGTATCATATCATTTTCTCTCTCCTGGTTAGTAAAAAATCAAAAAAAAAATAAATCA
384 TTAGTAAGCGTATCATATCATTTTCTCTCTCCTGGGTAGTAAAAAATCAAAAAAAAAATAAATCA
* *
15286053 TGAAAAAAGAATGAAGAAGTTCACATCTAAAAGGAAGTCGAGATTGTTTCCTTTTGTATTAAACA
449 GGAAAAAAGAATGAAGAAGTTCACATCTAAAAGGAAGTCGAGATTGTTTCCTTTTGTATCAAACA
15286118 TTGATTTGGGGACAAATCGAATTAAAGAGAGAGGGAATGATGTGATCCTAATTAGCCCTAACTTT
514 TTGATTTGGGGACAAATCGAATTAAAGAGAGAGGGAATGATGTGATCCTAATTAGCCCTAACTTT
*
15286183 TGTCTTGGTCTTATTAAATCATTGAAATTCGCCAAGGCTGATTCAAAGGGAGTTCTACCTTACTT
579 TGTCTTGGTCTTATTAAATCATTGAAATTCGCCAAGGCTGATTCAAAGGGAGTTCTACCTTACAT
15286248 TACCCTCTTCTACCTCGATTCCATC
644 TACCCTCTTCTACCTCGATTCCATC
*
15286273 ATATTATATTATTGGTTCTTAGCTATATATAGCTAACATGTCATATTTCATTTTTTTGAATTTCT
1 ----TATATTATTGGTTCTTAGCTATATATAGCTAACA-GTCATATTTCA-TTCTTTGAATTTCT
15286338 ATCATCTTTCTTGACGACTACAACTATCCTTCACCATTTTTGTTACATCCATTCAACCGTTATCA
60 ATCATCTTTCTTGACGACTACAACTATCCTTCACCATTTTTGTTACATCCATTCAACCGTTATCA
*
15286403 CCACCACACTTCTTTCATTTGCAAACCACTTCAACTTCATCCACATCCTTTTCAATTTCATTATT
125 CCACCACACTTCTTTCATTTGCAAACCACTTCAACTTCATCCACATCCTTTTCAATTTCATTCTT
15286468 TTTTGTTTGTCTCATATTCACAACGTATATATTTCCCCTTTCATGATCATTTCAAGCACTACGGA
190 TTTTGTTTGTCTCATATTCACAACGTATATATTTCCCCTTTCATGATCATTTCAAGCACTACGGA
*
15286533 GTTTCTTACTAGAATCACGATCATTTCAAGCATTGTGGAGTTTCTTACTATAATCACGATCGAAC
255 GTTTCTTACTAGAATCACGATCATTTCAAGCATTGCGGAGTTTCTTACTATAATCACGATCGAAC
*
15286598 AACAACGTTTATGACTCGAAACATATAATCAAGTTCATATAATTTGGCATCAGAGCTAGCCAATT
320 AACAACGTTTATGACTCGAAACACATAATCAAGTTCATATAATTTGGCATCAGAGCTAGCCAATT
*
15286663 TAGTAAGCGTATCGTATCATTTTCTCTCTCCTGGGTAGTAAAAAATCAAAAAAATAAATAAATAA
385 TAGTAAGCGTATCATATCATTTTCTCTCTCCTGGGTAGTAAAAAATC---AAAA-AAA-AAATAA
15286728 ATCAGGAAAAAAGAATGAAGAAGTTCACATCTAAAAGGAAGTCGAGATTGTTTCCTTTTGTATCA
445 ATCAGGAAAAAAGAATGAAGAAGTTCACATCTAAAAGGAAGTCGAGATTGTTTCCTTTTGTATCA
* * * *
15286793 GACATTGATTTGGGGACAAATTGAATTAAAGAGGGAGGGAATGATGTGGTCCTAATTAGCCCTAA
510 AACATTGATTTGGGGACAAATCGAATTAAAGAGAGAGGGAATGATGTGATCCTAATTAGCCCTAA
15286858 CTTTTGTCTTGGTCTTATTAAATCATTGAAATTCGCCAAGGCTGATTCAAAGGGAGTTCTACCTT
575 CTTTTGTCTTGGTCTTATTAAATCATTGAAATTCGCCAAGGCTGATTCAAAGGGAGTTCTACCTT
15286923 ACATTACCCTCTTCTACCTCGATTCCATC
640 ACATTACCCTCTTCTACCTCGATTCCATC
15286952 ATATTATATTATTGGTTCTTAGCTATATATAGCTAACAGTTCATATTTCATTCTTTGAATTTCTA
1 ----TATATTATTGGTTCTTAGCTATATATAGCTAACAG-TCATATTTCATTCTTTGAATTTCTA
*
15287017 TCATCTTTCTTGACGACTACAACTATCCTTCACCATTTTTGTTACATCCATTCATCCGTTATCAC
61 TCATCTTTCTTGACGACTACAACTATCCTTCACCATTTTTGTTACATCCATTCAACCGTTATCAC
15287082 CACCACACTTCTTTCATTTGCAAACCACTTCAACTTCATCCACATCCTTTTCAATTTCATTCTTT
126 CACCACACTTCTTTCATTTGCAAACCACTTCAACTTCATCCACATCCTTTTCAATTTCATTCTTT
*
15287147 TTTGTTTGTCTCATATTCACAACGTATATATTTCCCCTTTCATAATCATTTCAAGCACTACGGAG
191 TTTGTTTGTCTCATATTCACAACGTATATATTTCCCCTTTCATGATCATTTCAAGCACTACGGAG
15287212 TTTCTTACTAGAATCA
256 TTTCTTACTAGAATCA
15287228 TAATTAAGTA
Statistics
Matches: 888, Mismatches: 49, Indels: 23
0.93 0.05 0.02
Matches are distributed among these distances:
672 1 0.00
673 42 0.05
674 312 0.35
675 30 0.03
676 2 0.00
677 4 0.00
678 226 0.25
679 271 0.31
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (668 bp):
TATATTATTGGTTCTTAGCTATATATAGCTAACAGTCATATTTCATTCTTTGAATTTCTATCATC
TTTCTTGACGACTACAACTATCCTTCACCATTTTTGTTACATCCATTCAACCGTTATCACCACCA
CACTTCTTTCATTTGCAAACCACTTCAACTTCATCCACATCCTTTTCAATTTCATTCTTTTTTGT
TTGTCTCATATTCACAACGTATATATTTCCCCTTTCATGATCATTTCAAGCACTACGGAGTTTCT
TACTAGAATCACGATCATTTCAAGCATTGCGGAGTTTCTTACTATAATCACGATCGAACAACAAC
GTTTATGACTCGAAACACATAATCAAGTTCATATAATTTGGCATCAGAGCTAGCCAATTTAGTAA
GCGTATCATATCATTTTCTCTCTCCTGGGTAGTAAAAAATCAAAAAAAAAATAAATCAGGAAAAA
AGAATGAAGAAGTTCACATCTAAAAGGAAGTCGAGATTGTTTCCTTTTGTATCAAACATTGATTT
GGGGACAAATCGAATTAAAGAGAGAGGGAATGATGTGATCCTAATTAGCCCTAACTTTTGTCTTG
GTCTTATTAAATCATTGAAATTCGCCAAGGCTGATTCAAAGGGAGTTCTACCTTACATTACCCTC
TTCTACCTCGATTCCATC
Found at i:15290440 original size:24 final size:24
Alignment explanation
Indices: 15290400--15290446 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
15290390 ATAGTTATGC
*
15290400 CACTTGAAGTTCAAAAAGATGTGT
1 CACTTGAAGTGCAAAAAGATGTGT
* *
15290424 CACTTGAAGTGCTAAAAGTTGTG
1 CACTTGAAGTGCAAAAAGATGTG
15290447 ATCATTCAGG
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:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (24 bp):
CACTTGAAGTGCAAAAAGATGTGT
Found at i:15296525 original size:47 final size:47
Alignment explanation
Indices: 15296456--15296560 Score: 140
Period size: 47 Copynumber: 2.2 Consensus size: 47
15296446 ACTATAATAT
* *
15296456 TCTCCACTAAACAGCCCATGTGTGT-ACCAACAAAAGCAAGATGTTTG
1 TCTCCACTAAACAACCCATGTGTGTGACCAAC-AAAGCAAGATGCTTG
** * *
15296503 TCTCCACTGTACAACCCATGTGTGTGACCAGCAAAGCAAGGTGCTTG
1 TCTCCACTAAACAACCCATGTGTGTGACCAACAAAGCAAGATGCTTG
15296550 TCTCCACTAAA
1 TCTCCACTAAA
15296561 GTACCAACTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 44 0.90
48 5 0.10
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (47 bp):
TCTCCACTAAACAACCCATGTGTGTGACCAACAAAGCAAGATGCTTG
Found at i:15297724 original size:16 final size:18
Alignment explanation
Indices: 15297696--15297730 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
15297686 GCACCTGATT
15297696 TTTAAAGTTATTTC-TTA
1 TTTAAAGTTATTTCATTA
15297713 TTTAAA-TTATTTCATTA
1 TTTAAAGTTATTTCATTA
15297730 T
1 T
15297731 AGAGAGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTAAAGTTATTTCATTA
Found at i:15309216 original size:11 final size:11
Alignment explanation
Indices: 15309200--15309238 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
15309190 TCGATACATA
15309200 GCTACAGTACT
1 GCTACAGTACT
* *
15309211 GCTACATTAAT
1 GCTACAGTACT
15309222 GCTACAGTACT
1 GCTACAGTACT
15309233 GCTACA
1 GCTACA
15309239 ATATTCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (11 bp):
GCTACAGTACT
Found at i:15309890 original size:59 final size:58
Alignment explanation
Indices: 15309718--15309897 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 58
15309708 TCAAAAATTT
* * * * *
15309718 ATACCATTAGTATGATTTTGTTACCATTTTAGCACATAAAATTCCCTATGTGAAAATCC
1 ATACCATCAGTATGATTTTCTTACCATTTTAGCACAT-AAATGCCCTATATGGAAATCC
* * * * * ** *
15309777 ATACCATTAGTATGATTTTCTTATCC-TTATAGCACCCTTAGTGCTTTATCTGGAAATCC
1 ATACCATCAGTATGATTTTCTTA-CCATTTTAGCA-CATAAATGCCCTATATGGAAATCC
*
15309836 ATA-CACTCAGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTATATGGAAATCC
1 ATACCA-TCAGTATGATTTTCTTACCATTTTAGCACATAA-ATGCCCTATATGGAAATCC
15309895 ATA
1 ATA
15309898 TTTTTAATAA
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
58 7 0.07
59 86 0.89
60 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (58 bp):
ATACCATCAGTATGATTTTCTTACCATTTTAGCACATAAATGCCCTATATGGAAATCC
Found at i:15309912 original size:118 final size:117
Alignment explanation
Indices: 15309726--15309988 Score: 278
Period size: 118 Copynumber: 2.2 Consensus size: 117
15309716 TTATACCATT
** * * * *
15309726 AGTATGATTTTGTTACCATTTTAGCACATAAAATTCCCTATGTGAAAATCCATACCATTAGTATG
1 AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATATGAAAATCCATACCATTAATAAG
* ** * ** * *
15309791 ATTT-TCTTATCCTTATAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTC
66 ATTTCT-TTATCATT-TAGCAAACTAAGTGCTCCATATGAAAATCCATACACTC
* * ***
15309844 AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTATATGGAAATCCATATTTTTAATAAG
1 AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATATGAAAATCCATACCATTAATAAG
*
15309909 ATTTCTTTATCATTTAGCAAACTAAGTGCTCCATATGAAAATCTATACACTC
66 ATTTCTTTATCATTTAGCAAACTAAGTGCTCCATATGAAAATCCATACACTC
* * *
15309961 AGTAT-AGTTTCCATATCGTTTTAGCACA
1 AGTATGA-TTTCCTTACCATTTTAGCACA
15309989 CAAAGTGCTC
Statistics
Matches: 120, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
116 1 0.01
117 53 0.44
118 65 0.54
119 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (117 bp):
AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATATGAAAATCCATACCATTAATAAG
ATTTCTTTATCATTTAGCAAACTAAGTGCTCCATATGAAAATCCATACACTC
Found at i:15310399 original size:63 final size:62
Alignment explanation
Indices: 15310330--15310490 Score: 182
Period size: 63 Copynumber: 2.5 Consensus size: 62
15310320 TTCTCTCACA
*
15310330 GATGCATCGGTGCACAACCTATGCATCGATGCATATATTACATTCGATG-TT-TTCATCTTAAGG
1 GATGCATCGGTGCACAACCTATGCATCGATGCATA-ACTACATTCGATGTTTATTCAT-TTAA-G
* * * * *
15310393 GATGCATCGATGCACTACCTGTGCATCGATGCACTAACTACCTTCGATGTTTATTTATTTAAG
1 GATGCATCGGTGCACAACCTATGCATCGATGCA-TAACTACATTCGATGTTTATTCATTTAAG
* * *
15310456 TATGCATCGGTGCACTCACTTATGCATCGATGCAT
1 GATGCATCGGTGCAC-AACCTATGCATCGATGCAT
15310491 CTTGCCCATA
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
63 56 0.67
64 23 0.28
65 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (62 bp):
GATGCATCGGTGCACAACCTATGCATCGATGCATAACTACATTCGATGTTTATTCATTTAAG
Found at i:15313793 original size:25 final size:27
Alignment explanation
Indices: 15313754--15313811 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 27
15313744 TTTTCTATTC
15313754 TTTCTTCGTTTTGAGTGCTTG-AATTT
1 TTTCTTCGTTTTGAGTGCTTGTAATTT
*
15313780 TTTCTTC-TTTTGAGTGCTTGTACTTT
1 TTTCTTCGTTTTGAGTGCTTGTAATTT
15313806 TTTCTT
1 TTTCTT
15313812 TGCTGAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.09, C:0.14, G:0.16, T:0.62
Consensus pattern (27 bp):
TTTCTTCGTTTTGAGTGCTTGTAATTT
Found at i:15320159 original size:6 final size:6
Alignment explanation
Indices: 15320143--15320187 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
15320133 GTGTTGCAAC
*
15320143 AAAAAG CAAAAG AAAAAAG AAAAAG AAAAAG AGAAAAG AAAAAG A
1 AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG A-AAAAG AAAAAG A
15320188 CTCCTACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 24 0.69
7 11 0.31
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:15320161 original size:13 final size:12
Alignment explanation
Indices: 15320143--15320185 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 12
15320133 GTGTTGCAAC
15320143 AAAAAGCAAAAGA
1 AAAAAG-AAAAGA
15320156 AAAAAGAAAAAGA
1 AAAAAG-AAAAGA
15320169 AAAAGAGAAAAGA
1 AAAA-AGAAAAGA
15320182 AAAA
1 AAAA
15320186 GACTCCTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 26 0.93
14 2 0.07
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:15320167 original size:19 final size:19
Alignment explanation
Indices: 15320143--15320187 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
15320133 GTGTTGCAAC
*
15320143 AAAAAGCAAAAGAAAAAAG
1 AAAAAGAAAAAGAAAAAAG
*
15320162 AAAAAGAAAAAGAGAAAAG
1 AAAAAGAAAAAGAAAAAAG
15320181 AAAAAGA
1 AAAAAGA
15320188 CTCCTACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAAAAG
Found at i:15320186 original size:13 final size:14
Alignment explanation
Indices: 15320150--15320187 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
15320140 AACAAAAAGC
15320150 AAAAGAAAAA-AGA
1 AAAAGAAAAAGAGA
15320163 AAAAGAAAAAGAG-
1 AAAAGAAAAAGAGA
15320176 AAAAGAAAAAGA
1 AAAAGAAAAAGA
15320188 CTCCTACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 22 0.92
14 2 0.08
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGAGA
Found at i:15322320 original size:21 final size:21
Alignment explanation
Indices: 15322291--15322330 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15322281 GAATGTAATG
*
15322291 AAACAAATATAAATGAATATA
1 AAACAAATATAAATCAATATA
* *
15322312 AAACTAATATGAATCAATA
1 AAACAAATATAAATCAATA
15322331 ACATACTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (21 bp):
AAACAAATATAAATCAATATA
Found at i:15330024 original size:19 final size:19
Alignment explanation
Indices: 15330000--15330036 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15329990 ACATGATTTT
15330000 TTTTAATGAAAATACATGA
1 TTTTAATGAAAATACATGA
*
15330019 TTTTAATGAAGATACATG
1 TTTTAATGAAAATACATG
15330037 CTCTTGGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (19 bp):
TTTTAATGAAAATACATGA
Found at i:15335165 original size:25 final size:26
Alignment explanation
Indices: 15335109--15335167 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
15335099 TGAGTTGTAA
15335109 CTTATCTTCATTTTCTCTTTATTTTAT
1 CTTAT-TTCATTTTCTCTTTATTTTAT
* *
15335136 TTTATTTCCTTTTCT-TTTATTCTT-T
1 CTTATTTCATTTTCTCTTTATT-TTAT
15335161 CTTATTT
1 CTTATTT
15335168 TTTACCTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 13 0.46
26 11 0.39
27 4 0.14
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (26 bp):
CTTATTTCATTTTCTCTTTATTTTAT
Found at i:15336482 original size:13 final size:14
Alignment explanation
Indices: 15336464--15336524 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 14
15336454 AATATAAAAT
15336464 AAGAAATGGAA-GA
1 AAGAAATGGAATGA
15336477 AAGAAATGGAATGA
1 AAGAAATGGAATGA
* *
15336491 AAAAAAAGGAAATGGA
1 AAGAAATGG-AAT-GA
15336507 AATGAAA-GGAATTGA
1 AA-GAAATGGAA-TGA
15336522 AAG
1 AAG
15336525 TGATAGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
13 11 0.28
14 10 0.25
15 9 0.22
16 7 0.17
17 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.28, T:0.11
Consensus pattern (14 bp):
AAGAAATGGAATGA
Found at i:15344195 original size:18 final size:17
Alignment explanation
Indices: 15344165--15344198 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15344155 TCTTTTTCTT
15344165 TTCTTTTTGTGTTTTTC
1 TTCTTTTTGTGTTTTTC
*
15344182 TTCTTTCTTTTGTTTTT
1 TTCTTT-TTGTGTTTTT
15344199 TTTGCAGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (17 bp):
TTCTTTTTGTGTTTTTC
Found at i:15352460 original size:1 final size:1
Alignment explanation
Indices: 15352456--15352502 Score: 58
Period size: 1 Copynumber: 47.0 Consensus size: 1
15352446 AAATTTTGAC
* * * *
15352456 TTTTTTGTTTTTTTTTTTTTGTTTTTTTTGTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15352503 AAATAGCAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:15352468 original size:9 final size:9
Alignment explanation
Indices: 15352463--15352502 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
15352453 GACTTTTTTG
15352463 TTTTT-TTT
1 TTTTTGTTT
15352471 TTTTTGTTT
1 TTTTTGTTT
15352480 TTTTTGTTT
1 TTTTTGTTT
15352489 TTTTTGTTT
1 TTTTTGTTT
15352498 TTTTT
1 TTTTT
15352503 AAATAGCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 5 0.16
9 26 0.84
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:15352475 original size:23 final size:24
Alignment explanation
Indices: 15352449--15352499 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
15352439 TTTTTTGAAA
15352449 TTTTGACTTTTTTGTTTTTTTT-T
1 TTTTGACTTTTTTGTTTTTTTTGT
**
15352472 TTTTGTTTTTTTTGTTTTTTTTGT
1 TTTTGACTTTTTTGTTTTTTTTGT
15352496 TTTT
1 TTTT
15352500 TTTAAATAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (24 bp):
TTTTGACTTTTTTGTTTTTTTTGT
Found at i:15355752 original size:23 final size:23
Alignment explanation
Indices: 15355706--15355757 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
15355696 TTTATACATA
* *
15355706 AATATACTTATTTCATATGTTAT
1 AATATAATTATTTCATATGATAT
15355729 AATATAATTATTATCATAT-ATAT
1 AATATAATTATT-TCATATGATAT
*
15355752 ATTATA
1 AATATA
15355758 TCTATAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (23 bp):
AATATAATTATTTCATATGATAT
Found at i:15360974 original size:23 final size:22
Alignment explanation
Indices: 15360948--15360993 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
15360938 ATTTCTTATC
*
15360948 TTTATTATTCCAT-TTATTCTTCT
1 TTTATTAAT-CATATTATT-TTCT
15360971 TTTATTAATCATATTATTTTCT
1 TTTATTAATCATATTATTTTCT
15360993 T
1 T
15360994 ATCTTTGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTATTAATCATATTATTTTCT
Found at i:15362514 original size:19 final size:20
Alignment explanation
Indices: 15362475--15362521 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
15362465 AAAATTCCTT
*
15362475 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATCTTTAA
15362495 TGAAAATACATGA-CTTTAA
1 TGAAAATACATGATCTTTAA
15362514 TGAAAATA
1 TGAAAATA
15362522 TATGCTCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (20 bp):
TGAAAATACATGATCTTTAA
Found at i:15365019 original size:13 final size:13
Alignment explanation
Indices: 15365001--15365058 Score: 89
Period size: 13 Copynumber: 4.5 Consensus size: 13
15364991 TACGTCATAA
*
15365001 ATTTATGACGCGC
1 ATTTATGACACGC
*
15365014 ATTTATGACACGA
1 ATTTATGACACGC
15365027 ATTTATGACACGC
1 ATTTATGACACGC
*
15365040 ATTTATGACGCGC
1 ATTTATGACACGC
15365053 ATTTAT
1 ATTTAT
15365059 AACTTACATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (13 bp):
ATTTATGACACGC
Found at i:15365232 original size:2 final size:2
Alignment explanation
Indices: 15365225--15365289 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
15365215 TTTCGTGAAC
15365225 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15365267 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
15365290 TGTAGATTGA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15369519 original size:14 final size:14
Alignment explanation
Indices: 15369500--15369537 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
15369490 AGATTTTTTA
15369500 TGAACAGTGAA-AGG
1 TGAACAGTGAATA-G
*
15369514 TGAACACTGAATAG
1 TGAACAGTGAATAG
15369528 TGAACAGTGA
1 TGAACAGTGA
15369538 GTGAATCGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (14 bp):
TGAACAGTGAATAG
Found at i:15372818 original size:20 final size:19
Alignment explanation
Indices: 15372779--15372818 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15372769 GTGAACAGTG
*
15372779 GGGGAATCGGTTCCTGTAA
1 GGGGAATCGGTCCCTGTAA
*
15372798 GGGGAATCGGTACCCTTTAA
1 GGGGAATCGGT-CCCTGTAA
15372818 G
1 G
15372819 CAATCTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.25
Consensus pattern (19 bp):
GGGGAATCGGTCCCTGTAA
Found at i:15373560 original size:14 final size:14
Alignment explanation
Indices: 15373541--15373578 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
15373531 AGATTTTTTA
15373541 TGAACAGTGAA-AGG
1 TGAACAGTGAATA-G
*
15373555 TGAACACTGAATAG
1 TGAACAGTGAATAG
15373569 TGAACAGTGA
1 TGAACAGTGA
15373579 GTGAATCGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (14 bp):
TGAACAGTGAATAG
Found at i:15373990 original size:799 final size:789
Alignment explanation
Indices: 15372463--15374037 Score: 2558
Period size: 799 Copynumber: 2.0 Consensus size: 789
15372453 TATCAGTAAC
* *
15372463 TTTTGACATCCTAGTAGCATGTATACACTTTTTAACTCAAAACAACCTCGGTTTAGTCCTAGACT
1 TTTTGACATCCTAGTAGCATGTATACACTTTTTAACTCAAAACAACCTCGGTTTAGTCATAGAAT
* *
15372528 CGGCTAAACCTGTAGCTCTGATGCCAATAAATGTAACACACATAACCCGTACAATTATACCTATA
66 CGGCTAAACATGTAGCTCTGATGCCAATAAAGGTAACACACATAACCCGTACAATTATACCTATA
* *
15372593 CAGATTATAGATGTTATCCAAATTTCTAAACACGTTTTCCAATTCAAAAGCAATTTAAATTTTAT
131 CAGATTATAGATGTTACCCAAATTTCTAAACACGTTTTCCAATTCAAAAGCAATTTAAAATTTAT
* * *
15372658 TTTCTTTAAAAAATGGTAACTGATATTATAAAAATATCAGAACATATGAATTATAATTCGTTATA
196 TTTCTTAAAAAAATGGTAACTGATATTATAAAAATATCAGAACATATGAATAATAATTCATTATA
* * *
15372723 AAAAATTTCATTCAAAATATTTTTTATGAATAGTGAATAATGAACAGTGAACAGTGGGGGAATCG
261 AAAAATTTCATTCAAAAGATTTTTTATGAACAGTGAATAATGAACAGTGAACAGTGAGGGAATCG
*
15372788 GTTCCTGTAAGGGGAATCGGTACCCTTTAAGCAATCTGGAATTTTTCATAAAACGTAGGTATTGT
326 GTTCCTGTAAGGGCAATCGGTACCCTTTAAGCAATCTGGAATTTTTCATAAAACGTAGGTATTGT
* * * * *
15372853 TCATTGCTACAGTATCTTTCGAAAATACATAAAAATTCATAAAAATTTCATTTTGTTTCCAATTT
391 TCACTGCTACAATAACTTTCGAAAATACATAAAAATACATAAAAATTCCATTTTGTTTCCAATTT
* *
15372918 TGTTCAACAAAACAAATTGAACATTAATGAATATATGCCACTCATAAAATCAACATTACACCATA
456 TGTTCAACAAAACAAATTGAACATTAATGAATACATACCACTCATAAAATCAACATTACACCATA
*
15372983 GGATGTCTTACTGATATTGAAATATACTCCTCGATGCTTGATGTCATTCCGAACTCTTTATTCTA
521 CGATGTCTTACTGATATTGAAATATACTCCTCGATGCTTGATGTCATTCCGAACTCTTTATTCTA
15373048 CTACTGGCTTTTTACCTACACGTGAAAATCATCACACGCTAAGTATATACTTAGTGAGGCAATGA
586 CTACTGGCTTTTTACCTACACGTGAAAATCATCACACGCTAAGTATATACTTAGTGAGGCAATGA
*
15373113 AAACAATAGACAGTGCAACACAATTAATGCATGAATTTCCATGTCAAAATCAAATCAACATAATA
651 AAACAATAGACAATGCAACACAATTAATGCATGAATTTCCATGTCAAAATCAAATCAACATAATA
15373178 TAAATAAAATCATTTTTATTTCACTACAATTGACCACAATTCTCAATCTATGAGGAACCCGGTAT
716 TAAATAAAATCATTTTTATTTCACTACAATTGACCACAATTCTCAATCTATGAGGAACCCGGTAT
15373243 ATCATAAAT
781 ATCATAAAT
* * *
15373252 TTTTGACATCCTAGTGGTATGTATACACTTTTTGACTCAAAACAACCTCGGTTTAGTCATAGAAT
1 TTTTGACATCCTAGTAGCATGTATACACTTTTTAACTCAAAACAACCTCGGTTTAGTCATAGAAT
* * * *
15373317 CGTCTAAACATGTAGCTCTGATGGCAATAAAGGTAACACCCATAACCCGTACAGTTATACCTATA
66 CGGCTAAACATGTAGCTCTGATGCCAATAAAGGTAACACACATAACCCGTACAATTATACCTATA
* * * **
15373382 CAGATTATAGATGTTACCCGAATTTCTAATCTCGTTTTCCAATTCAAAAGTGATTTAAAAAATTT
131 CAGATTATAGATGTTACCCAAATTTCTAAACACGTTTTCCAATTCAAAAGCAATTT--AAAATTT
* *
15373447 ATTTTCATTAAAAAAATTGTAACTGGTATTATAAAAATATCAGAACATATGAATAATAATTCATT
194 ATTTTC-TTAAAAAAATGGTAACTGATATTATAAAAATATCAGAACATATGAATAATAATTCATT
* * *
15373512 ATAACAAATTTGATTCAAAAGATTTTTTATGAACAGTGAAAGGTGAACACTGAATAGTGAACAGT
258 ATAAAAAATTTCATTCAAAAGATTTTTTATGAACAGTG-AA--T--A-A-TGAACAGTGAACAGT
* * *
15373577 GAGTGAATCGGTTCCTGTATGGGCAATCGGTA-CCTGTTAAGCAATCTGGAATTTTTCTTAAAAC
316 GAGGGAATCGGTTCCTGTAAGGGCAATCGGTACCCT-TTAAGCAATCTGGAATTTTTCATAAAAC
* * *
15373641 GTGGGTATTGTTCACTGCTACAATAACTTTTGAAAATACATATAAATACATAAAAATTCCATTTT
380 GTAGGTATTGTTCACTGCTACAATAACTTTCGAAAATACATAAAAATACATAAAAATTCCATTTT
15373706 GTTTCCAATTTTGTTCAACAAAACAAATTGAACATTAATGAATACATACCACTCATAAAATCAAC
445 GTTTCCAATTTTGTTCAACAAAACAAATTGAACATTAATGAATACATACCACTCATAAAATCAAC
*
15373771 ATTTCACCATACGATGTCTTACTGATATTGAAATATACTCCTCGATGCTTGATGTCATTCCGAAC
510 ATTACACCATACGATGTCTTACTGATATTGAAATATACTCCTCGATGCTTGATGTCATTCCGAAC
15373836 TCTTTATTCTACTACTGGCTTTTTACCTACACGTGAAAATCATCACACGCTAAGTATATACTTAG
575 TCTTTATTCTACTACTGGCTTTTTACCTACACGTGAAAATCATCACACGCTAAGTATATACTTAG
* * * * *
15373901 TGAGGCAATGAAAACAATGGATAATGCAACATAATTCATGCATGAATTTCCATGTCAATATCAAA
640 TGAGGCAATGAAAACAATAGACAATGCAACACAATTAATGCATGAATTTCCATGTCAAAATCAAA
* **
15373966 TCAACATAATATAAATAAAATCATTTTTATTTCACTACTATTTCCCACAATTCTCAATCTATGAG
705 TCAACATAATATAAATAAAATCATTTTTATTTCACTACAATTGACCACAATTCTCAATCTATGAG
15374031 GAACCCG
770 GAACCCG
15374038 ATTTATGAGT
Statistics
Matches: 721, Mismatches: 54, Indels: 12
0.92 0.07 0.02
Matches are distributed among these distances:
789 169 0.23
791 12 0.02
792 87 0.12
793 2 0.00
795 1 0.00
797 1 0.00
798 4 0.01
799 445 0.62
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (789 bp):
TTTTGACATCCTAGTAGCATGTATACACTTTTTAACTCAAAACAACCTCGGTTTAGTCATAGAAT
CGGCTAAACATGTAGCTCTGATGCCAATAAAGGTAACACACATAACCCGTACAATTATACCTATA
CAGATTATAGATGTTACCCAAATTTCTAAACACGTTTTCCAATTCAAAAGCAATTTAAAATTTAT
TTTCTTAAAAAAATGGTAACTGATATTATAAAAATATCAGAACATATGAATAATAATTCATTATA
AAAAATTTCATTCAAAAGATTTTTTATGAACAGTGAATAATGAACAGTGAACAGTGAGGGAATCG
GTTCCTGTAAGGGCAATCGGTACCCTTTAAGCAATCTGGAATTTTTCATAAAACGTAGGTATTGT
TCACTGCTACAATAACTTTCGAAAATACATAAAAATACATAAAAATTCCATTTTGTTTCCAATTT
TGTTCAACAAAACAAATTGAACATTAATGAATACATACCACTCATAAAATCAACATTACACCATA
CGATGTCTTACTGATATTGAAATATACTCCTCGATGCTTGATGTCATTCCGAACTCTTTATTCTA
CTACTGGCTTTTTACCTACACGTGAAAATCATCACACGCTAAGTATATACTTAGTGAGGCAATGA
AAACAATAGACAATGCAACACAATTAATGCATGAATTTCCATGTCAAAATCAAATCAACATAATA
TAAATAAAATCATTTTTATTTCACTACAATTGACCACAATTCTCAATCTATGAGGAACCCGGTAT
ATCATAAAT
Found at i:15384047 original size:14 final size:14
Alignment explanation
Indices: 15384024--15384063 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
15384014 AGATTTTTTT
*
15384024 ATGAATAGTGAATA
1 ATGAACAGTGAATA
*
15384038 ATGAACAGTGAATG
1 ATGAACAGTGAATA
*
15384052 GTGAACAGTGAA
1 ATGAACAGTGAA
15384064 CAGTGGGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.28, T:0.23
Consensus pattern (14 bp):
ATGAACAGTGAATA
Found at i:15384055 original size:21 final size:21
Alignment explanation
Indices: 15384025--15384068 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
15384015 GATTTTTTTA
*
15384025 TGAATAGTGAATAATGAACAG
1 TGAATAGTGAACAATGAACAG
* *
15384046 TGAATGGTGAACAGTGAACAG
1 TGAATAGTGAACAATGAACAG
15384067 TG
1 TG
15384069 GGGGAATCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.23
Consensus pattern (21 bp):
TGAATAGTGAACAATGAACAG
Found at i:15386441 original size:21 final size:20
Alignment explanation
Indices: 15386408--15386453 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
15386398 TTTGCATATC
15386408 ATTTACATATCATGTCAGCAT
1 ATTTACATATCATGTCA-CAT
15386429 ATTTATCAT-TCATGTCACAT
1 ATTTA-CATATCATGTCACAT
*
15386449 CTTTA
1 ATTTA
15386454 ATTAACTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 13 0.57
22 3 0.13
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (20 bp):
ATTTACATATCATGTCACAT
Found at i:15386928 original size:11 final size:11
Alignment explanation
Indices: 15386912--15386936 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15386902 TTGGGAGACG
15386912 CAAACAGCTCA
1 CAAACAGCTCA
15386923 CAAACAGCTCA
1 CAAACAGCTCA
15386934 CAA
1 CAA
15386937 GGAATCTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.36, G:0.08, T:0.08
Consensus pattern (11 bp):
CAAACAGCTCA
Found at i:15406978 original size:23 final size:23
Alignment explanation
Indices: 15406940--15406984 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15406930 TTTTTGGCTT
15406940 TAAAATGGTTTGAAA-TATTTTG
1 TAAAATGGTTTGAAATTATTTTG
*
15406962 TAAAATCGTTTTGAAATTATTTT
1 TAAAAT-GGTTTGAAATTATTTT
15406985 TAAGATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 8 0.40
24 6 0.30
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (23 bp):
TAAAATGGTTTGAAATTATTTTG
Found at i:15411103 original size:22 final size:22
Alignment explanation
Indices: 15411077--15411126 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
15411067 CTTCAATTTG
*
15411077 TCTAGATTCATCTCCAAAATGA
1 TCTAGATTCATCTACAAAATGA
15411099 TCTAGATTCATCTACAAAATGA
1 TCTAGATTCATCTACAAAATGA
15411121 TCTAGA
1 TCTAGA
15411127 ATATTCATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (22 bp):
TCTAGATTCATCTACAAAATGA
Found at i:15414493 original size:51 final size:51
Alignment explanation
Indices: 15414409--15414534 Score: 225
Period size: 51 Copynumber: 2.5 Consensus size: 51
15414399 AATTAGAAAA
* * *
15414409 CATATACCTCTTAGTGGAGCACTTGGAAGACATATCAAGTACATAGTGGAG
1 CATATACATCTTAGTGGAGCACTTGAAAAACATATCAAGTACATAGTGGAG
15414460 CATATACATCTTAGTGGAGCACTTGAAAAACATATCAAGTACATAGTGGAG
1 CATATACATCTTAGTGGAGCACTTGAAAAACATATCAAGTACATAGTGGAG
15414511 CATATACATCTTAGTGGAGCACTT
1 CATATACATCTTAGTGGAGCACTT
15414535 TTAAGACACG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 72 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (51 bp):
CATATACATCTTAGTGGAGCACTTGAAAAACATATCAAGTACATAGTGGAG
Found at i:15417993 original size:21 final size:19
Alignment explanation
Indices: 15417949--15417993 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
15417939 CATATCAAGT
* *
15417949 ACATAGTGGAGCATATACA
1 ACATAGTGGAGCATAAAAA
15417968 ACATAGTGGAGCACTTAAAAA
1 ACATAGTGGAGCA--TAAAAA
15417989 ACATA
1 ACATA
15417994 TCAAGTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.20
Consensus pattern (19 bp):
ACATAGTGGAGCATAAAAA
Found at i:15417993 original size:51 final size:51
Alignment explanation
Indices: 15417907--15418035 Score: 177
Period size: 51 Copynumber: 2.5 Consensus size: 51
15417897 GCAATTATAA
* ** * * *
15417907 AACATATACATCTTAGTGGAGTACTTGGAAGACATATCAAGTACATAGTGG
1 AACATATACATCTTAGTGGAGCACTTAAAAAACATATCAAGTACATAATAG
* * *
15417958 AGCATATACAACATAGTGGAGCACTTAAAAAACATATCAAGTACATAATAG
1 AACATATACATCTTAGTGGAGCACTTAAAAAACATATCAAGTACATAATAG
15418009 AACATATACATCTTAGTGGAGCACTTA
1 AACATATACATCTTAGTGGAGCACTTA
15418036 GAAGACGCAC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.26
Consensus pattern (51 bp):
AACATATACATCTTAGTGGAGCACTTAAAAAACATATCAAGTACATAATAG
Found at i:15418683 original size:22 final size:21
Alignment explanation
Indices: 15418649--15418689 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
15418639 CTGCGGAAAT
15418649 TGATGGTCCTGATGGATGAAGA
1 TGATGGTCCTGAT-GATGAAGA
**
15418671 TGATGGTTTTGATGATGAA
1 TGATGGTCCTGATGATGAA
15418690 ATGGAGAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.27, C:0.05, G:0.34, T:0.34
Consensus pattern (21 bp):
TGATGGTCCTGATGATGAAGA
Found at i:15423192 original size:22 final size:21
Alignment explanation
Indices: 15423158--15423198 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
15423148 CTGCGGCAAT
15423158 TGATGGTCCTGATGGATGAAGA
1 TGATGGTCCTGAT-GATGAAGA
**
15423180 TGATGGTTTTGATGATGAA
1 TGATGGTCCTGATGATGAA
15423199 ATGGAGATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.27, C:0.05, G:0.34, T:0.34
Consensus pattern (21 bp):
TGATGGTCCTGATGATGAAGA
Found at i:15427446 original size:51 final size:51
Alignment explanation
Indices: 15427365--15427483 Score: 202
Period size: 51 Copynumber: 2.3 Consensus size: 51
15427355 AATTAGAAAA
* *
15427365 CATATACATCTTAGTGGAGCGCTTGGAAGACATATCAAGTACATAGTGGAG
1 CATATACATCTTAGTGGAGCACTTGAAAGACATATCAAGTACATAGTGGAG
*
15427416 CATATACATCTTAGTGGAGCACTTGAAAGACATATCAAGTACATAGTGTAG
1 CATATACATCTTAGTGGAGCACTTGAAAGACATATCAAGTACATAGTGGAG
*
15427467 CATATACATCATAGTGG
1 CATATACATCTTAGTGG
15427484 TGAACTTAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (51 bp):
CATATACATCTTAGTGGAGCACTTGAAAGACATATCAAGTACATAGTGGAG
Found at i:15427497 original size:51 final size:50
Alignment explanation
Indices: 15427365--15427497 Score: 194
Period size: 51 Copynumber: 2.6 Consensus size: 50
15427355 AATTAGAAAA
*
15427365 CATATACATCTTAGTGGAGCGCTTGGAAGACATATCAAGTACATAGTGGAG
1 CATATACATCTTAGTGGAGCACTT-GAAGACATATCAAGTACATAGTGGAG
*
15427416 CATATACATCTTAGTGGAGCACTTGAAAGACATATCAAGTACATAGTGTAG
1 CATATACATCTTAGTGGAGCACTTG-AAGACATATCAAGTACATAGTGGAG
* * *
15427467 CATATACATCATAGTGGTGAACTTAGAAGAC
1 CATATACATCTTAGTGGAGCACTT-GAAGAC
15427498 CTACACAGCT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 1 0.01
51 73 0.97
52 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
CATATACATCTTAGTGGAGCACTTGAAGACATATCAAGTACATAGTGGAG
Found at i:15429089 original size:28 final size:28
Alignment explanation
Indices: 15429051--15429105 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
15429041 ATCAAACTAT
15429051 TATAAATTAAATACAACATAGAAAGGTA
1 TATAAATTAAATACAACATAGAAAGGTA
*
15429079 TATAAATTAAATATAACATAGAAAGGT
1 TATAAATTAAATACAACATAGAAAGGT
15429106 TCAAGAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.56, C:0.05, G:0.11, T:0.27
Consensus pattern (28 bp):
TATAAATTAAATACAACATAGAAAGGTA
Found at i:15442603 original size:19 final size:21
Alignment explanation
Indices: 15442579--15442630 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
15442569 CGGCCAATAG
*
15442579 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
15442598 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
15442619 CATGTATTTTCA
1 CATGTATTTTCA
15442631 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:15446504 original size:19 final size:21
Alignment explanation
Indices: 15446480--15446526 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
15446470 CGGCCAAGAG
15446480 CATGTATCATCA-TT-AAAAT
1 CATGTATCATCATTTAAAAAT
**
15446499 CATGTATTTTCATTTAAAAAT
1 CATGTATCATCATTTAAAAAT
15446520 CATGTAT
1 CATGTAT
15446527 TTTCAAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.42
20 2 0.08
21 12 0.50
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (21 bp):
CATGTATCATCATTTAAAAAT
Found at i:15453232 original size:12 final size:12
Alignment explanation
Indices: 15453215--15453240 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15453205 ATCTGATGAT
15453215 AGCCACTTTTCA
1 AGCCACTTTTCA
15453227 AGCCACTTTTCA
1 AGCCACTTTTCA
15453239 AG
1 AG
15453241 TCAATTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (12 bp):
AGCCACTTTTCA
Found at i:15457061 original size:19 final size:19
Alignment explanation
Indices: 15457037--15457088 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
15457027 GAAGAATAAA
15457037 TGAGAGTTGAAAA-AGACAT
1 TGAGAGTTGAAAAGAGA-AT
15457056 TGAGAGCATTGAAAAGAGAAT
1 TGAGAG--TTGAAAAGAGAAT
*
15457077 TTAGAG-TGAAAA
1 TGAGAGTTGAAAA
15457089 TGAGCACACT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.21
19 6 0.21
21 14 0.48
22 3 0.10
ACGTcount: A:0.48, C:0.04, G:0.27, T:0.21
Consensus pattern (19 bp):
TGAGAGTTGAAAAGAGAAT
Found at i:15463779 original size:19 final size:20
Alignment explanation
Indices: 15463755--15463797 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15463745 AGCATTTATC
*
15463755 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
15463774 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
15463794 TTCA
1 TTCA
15463798 AAGGGGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:15464229 original size:19 final size:20
Alignment explanation
Indices: 15464205--15464253 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
15464195 TATATTTTCT
15464205 TTATTTTATTTCATT-CTTA
1 TTATTTTATTTCATTACTTA
15464224 TTA-TTTATTTTCATTACTTA
1 TTATTTTA-TTTCATTACTTA
15464244 -TATTATTATT
1 TTATT-TTATT
15464254 CCCTTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 7 0.27
21 3 0.12
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTTATTTCATTACTTA
Found at i:15469506 original size:22 final size:22
Alignment explanation
Indices: 15469464--15469519 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
15469454 TTTCCTTTCT
*
15469464 TTTCTTTTTTGAGTGCTTTCAA
1 TTTCTTTTTTGAGTGCGTTCAA
15469486 TTTCTTCTTTTGAGTG-GTTCAA
1 TTTCTT-TTTTGAGTGCGTTCAA
*
15469508 TTTCTTTGTTGA
1 TTTCTTTTTTGA
15469520 TTTTCATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 5 0.16
22 17 0.55
23 9 0.29
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.59
Consensus pattern (22 bp):
TTTCTTTTTTGAGTGCGTTCAA
Found at i:15472071 original size:13 final size:13
Alignment explanation
Indices: 15472053--15472085 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15472043 TATAGTTGAA
15472053 CAGTCTTCATATG
1 CAGTCTTCATATG
15472066 CAGTCTTCATATG
1 CAGTCTTCATATG
15472079 CACGTCT
1 CA-GTCT
15472086 GTAATAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.36
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:15477624 original size:13 final size:13
Alignment explanation
Indices: 15477606--15477686 Score: 117
Period size: 13 Copynumber: 6.2 Consensus size: 13
15477596 TGTGTCATAA
* *
15477606 ATTTATGACGCGC
1 ATTTATGACACAC
15477619 ATTTATGACACAC
1 ATTTATGACACAC
15477632 ATTTATGACACAC
1 ATTTATGACACAC
15477645 ATTTATGACACAC
1 ATTTATGACACAC
**
15477658 ATTTATGATGCAC
1 ATTTATGACACAC
*
15477671 ATTTATGACACGC
1 ATTTATGACACAC
15477684 ATT
1 ATT
15477687 GCGTGTCATT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 61 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (13 bp):
ATTTATGACACAC
Found at i:15481568 original size:18 final size:18
Alignment explanation
Indices: 15481526--15481588 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
15481516 TTCTTCTTCG
* * *
15481526 TCATCTCCATCTCCATCC
1 TCATCTTCATTTCCATCA
15481544 TCATCTTCATTTCCATCA
1 TCATCTTCATTTCCATCA
*
15481562 TCATCTTCATATT-CATCT
1 TCATCTTCAT-TTCCATCA
15481580 TCATCTTCA
1 TCATCTTCA
15481589 CCATCGTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 38 0.95
19 2 0.05
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.43
Consensus pattern (18 bp):
TCATCTTCATTTCCATCA
Found at i:15481585 original size:6 final size:6
Alignment explanation
Indices: 15481526--15481588 Score: 65
Period size: 6 Copynumber: 10.5 Consensus size: 6
15481516 TTCTTCTTCG
* * * * *
15481526 TCATCT CCATCT CCATCC TCATCT TCAT-T TCCATCA TCATCT TCATAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT T-CATCT TCATCT TCATCT
15481574 TCATCT TCATCT TCA
1 TCATCT TCATCT TCA
15481589 CCATCGTCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
5 2 0.04
6 44 0.94
7 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.43
Consensus pattern (6 bp):
TCATCT
Found at i:15484694 original size:18 final size:19
Alignment explanation
Indices: 15484671--15484710 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
15484661 ATCCATTTCC
15484671 TTTTCTTATCAT-TT-TATT
1 TTTTCTT-TCATATTCTATT
15484689 TTTTCTTTCATATTCTATT
1 TTTTCTTTCATATTCTATT
15484708 TTT
1 TTT
15484711 AATCATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 9 0.45
19 7 0.35
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTCTTTCATATTCTATT
Found at i:15484916 original size:24 final size:24
Alignment explanation
Indices: 15484889--15484939 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
15484879 TTCTGCAACA
*
15484889 AAAGCAACAAAAAGAGAAA-AAAAG
1 AAAG-AACAAAAAGAAAAAGAAAAG
*
15484913 AAAGAAGAAAAAGAAAAAGAAAAG
1 AAAGAACAAAAAGAAAAAGAAAAG
15484937 AAA
1 AAA
15484940 AAGACTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (24 bp):
AAAGAACAAAAAGAAAAAGAAAAG
Found at i:15484920 original size:17 final size:16
Alignment explanation
Indices: 15484900--15484941 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
15484890 AAGCAACAAA
15484900 AAGAGAAAAAAAGAAAG
1 AAGAGAAAAAAA-AAAG
*
15484917 AAGA-AAAAGAAAAAG
1 AAGAGAAAAAAAAAAG
*
15484932 AAAAGAAAAA
1 AAGAGAAAAA
15484942 GACTCATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 7 0.33
16 10 0.48
17 4 0.19
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAGAGAAAAAAAAAAG
Found at i:15484923 original size:12 final size:11
Alignment explanation
Indices: 15484898--15484943 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
15484888 AAAAGCAACA
*
15484898 AAAAGAGAAA-
1 AAAAGAAAAAG
15484908 AAAAGAAAGAAG
1 AAAAGAAA-AAG
15484920 AAAAAGAAAAAG
1 -AAAAGAAAAAG
15484932 AAAAGAAAAAG
1 AAAAGAAAAAG
15484943 A
1 A
15484944 CTCATATATC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
10 7 0.22
11 14 0.44
12 3 0.09
13 8 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:15484924 original size:23 final size:23
Alignment explanation
Indices: 15484897--15484943 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
15484887 CAAAAGCAAC
*
15484897 AAAAAGAGAAA-AAAAGAAAGAAG
1 AAAAAGAAAAAGAAAAGAAA-AAG
15484920 AAAAAGAAAAAGAAAAGAAAAAG
1 AAAAAGAAAAAGAAAAGAAAAAG
15484943 A
1 A
15484944 CTCATATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAGAAAAGAAAAAG
Found at i:15484928 original size:6 final size:6
Alignment explanation
Indices: 15484907--15484943 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
15484897 AAAAAGAGAA
15484907 AAAAAG AAAGAAG AAAAAG AAAAAG -AAAAG AAAAAG A
1 AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG A
15484944 CTCATATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
7 6 0.21
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:15486204 original size:13 final size:13
Alignment explanation
Indices: 15486186--15486210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15486176 AAATTGCCAA
15486186 TACCTTAGAATTG
1 TACCTTAGAATTG
15486199 TACCTTAGAATT
1 TACCTTAGAATT
15486211 ATATCATTAC
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:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
TACCTTAGAATTG
Done.