Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 36 of 120
Found at i:9833360 original size:45 final size:45
Alignment explanation
Indices: 9833221--9833408 Score: 159
Period size: 45 Copynumber: 4.2 Consensus size: 45
9833211 AATAATAACA
* * * * *
9833221 GATACACGGTGG-ATCAACACATAGC-ACCACCCTTATAGTCAAT
1 GATACCCGGTGGAATCAACACACAACAACCACCTTTATAATCAAT
** * * * **
9833264 GATACTTGGTGGAATCAACACATAACAACC-GCTTTCCTAAGAAAT
1 GATACCCGGTGGAATCAACACACAACAACCACCTTT-ATAATCAAT
9833309 -AGTACCCGGTGGAATCAACACACAACAACCACCTTTATAATCAAT
1 GA-TACCCGGTGGAATCAACACACAACAACCACCTTTATAATCAAT
* ** * *
9833354 GATACCCGGTGGAATCAGCACACAGTAGCCACATTTATAATCAAT
1 GATACCCGGTGGAATCAACACACAACAACCACCTTTATAATCAAT
* *
9833399 GGTTCCCGGT
1 GATACCCGGT
9833409 ACACATAGTA
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
43 10 0.09
44 16 0.14
45 85 0.73
46 5 0.04
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.22
Consensus pattern (45 bp):
GATACCCGGTGGAATCAACACACAACAACCACCTTTATAATCAAT
Found at i:9834828 original size:6 final size:6
Alignment explanation
Indices: 9834817--9834855 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
9834807 TGGTTTTTTC
*
9834817 AAAATG AAAATG AAAACG AAAATG AAAATG AGAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AA
9834856 TTCATTTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.67, C:0.03, G:0.18, T:0.13
Consensus pattern (6 bp):
AAAATG
Found at i:9836281 original size:163 final size:163
Alignment explanation
Indices: 9836011--9836310 Score: 433
Period size: 163 Copynumber: 1.8 Consensus size: 163
9836001 ATTGTTTAAT
**
9836011 TCTTATTGGTTCTTTAGTTGTGCTCTTTCGAACCCAAGTTCCTTGACCCTCAGTTAAAAAATCGA
1 TCTTATTGGTTCTTTAGTTGTGCTCTTTCGAACCCAAGTTCCTCAACCCTCAGTTAAAAAATCGA
* * *
9836076 TGATCTCTTCATACTTCACCTCTTTTTCATGTAAGTTTTCATAAAAATCCAGGTTATACCAAGGT
66 TGATCTCATCATAATTCACCTCTTCTTCATGTAAGTTTTCATAAAAATCCAGGTTATACCAAGGT
*
9836141 TTCTTATGGACGGCTTCGATCACAATTAAAGAA
131 GTCTTATGGACGGCTTCGATCACAATTAAAGAA
* * * * *
9836174 TCTTATTGGTTTTTTAGTTACG-GCT-TTTCGAACCTAATTTTCTCAACCTTCAGTTAAAAAATC
1 TCTTATTGGTTCTTTAGTT--GTGCTCTTTCGAACCCAAGTTCCTCAACCCTCAGTTAAAAAATC
** **
9836237 GATGATCTCATCATAATTTTCCTCTTCTTCATGTAAGTTTTCATAAAAATCTGGGTTATACCAAG
64 GATGATCTCATCATAATTCACCTCTTCTTCATGTAAGTTTTCATAAAAATCCAGGTTATACCAAG
9836302 GTGTCTTAT
129 GTGTCTTAT
9836311 TGATATCTTT
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
163 116 0.97
164 3 0.03
165 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (163 bp):
TCTTATTGGTTCTTTAGTTGTGCTCTTTCGAACCCAAGTTCCTCAACCCTCAGTTAAAAAATCGA
TGATCTCATCATAATTCACCTCTTCTTCATGTAAGTTTTCATAAAAATCCAGGTTATACCAAGGT
GTCTTATGGACGGCTTCGATCACAATTAAAGAA
Found at i:9850937 original size:193 final size:186
Alignment explanation
Indices: 9850583--9850951 Score: 542
Period size: 193 Copynumber: 1.9 Consensus size: 186
9850573 ACAAAGAGAT
9850583 CAAAGGCATACTCGAGAAGGTAGTTTGCCCGAACCGACGAGATTGATCCAAAAGACTGGATGATG
1 CAAAGGCATACTCGAGAAGGTAGTTTGCCCGAACCGACGAGATTGATCCAAAAGACTGGATGATG
* * * * *
9850648 CTTTATTGTCCTATAGGATAGCGTACAAGACACCTTTAGGGATGTCACCCTATAGGTTGGTCTTT
66 CTTTATTGGCCTATAGGATAGCATACAAGACACCTTAAGGGATATCACCCTAGAGGTTGGTCTTT
*
9850713 GGGAAAGCCTGTCATCTGCCCTTAGAGTTAGAACACAAATCTTACTTGGCTCAGAA
131 GGGAAAGCCTGTCATCTGCCCTTAAAGTTAGAACACAAATCTTACTTGGCTCAGAA
** * *
9850769 CAAAGGCATACTCGAGAAGGTAGTTTGCTTGAACCGACGAGATTGGTCCAAAAGATTGG-TGATG
1 CAAAGGCATACTCGAGAAGGTAGTTTGCCCGAACCGACGAGATTGATCCAAAAGACTGGATGATG
* *
9850833 CTTTATGGGCTTATGGGCTTATAGGATAGCATACAAGCCACCTTAAGGGATATCACCCTAGAGGT
66 CTTTA------T-T-GGCCTATAGGATAGCATACAAGACACCTTAAGGGATATCACCCTAGAGGT
*
9850898 TGGTCTTTGGGAAAGCCTGTCATCTGCCTTTAAAGTTAGAACACAAATCTTACT
123 TGGTCTTTGGGAAAGCCTGTCATCTGCCCTTAAAGTTAGAACACAAATCTTACT
9850952 AGGTTCTCCA
Statistics
Matches: 162, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
185 10 0.06
186 55 0.34
191 1 0.01
192 1 0.01
193 95 0.59
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (186 bp):
CAAAGGCATACTCGAGAAGGTAGTTTGCCCGAACCGACGAGATTGATCCAAAAGACTGGATGATG
CTTTATTGGCCTATAGGATAGCATACAAGACACCTTAAGGGATATCACCCTAGAGGTTGGTCTTT
GGGAAAGCCTGTCATCTGCCCTTAAAGTTAGAACACAAATCTTACTTGGCTCAGAA
Found at i:9852743 original size:3 final size:3
Alignment explanation
Indices: 9852735--9852760 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9852725 CGAGGATCCC
9852735 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
9852761 TCCCACAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:9856327 original size:5 final size:5
Alignment explanation
Indices: 9856317--9856341 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9856307 GCATTGGAAC
9856317 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
9856342 CTTTGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:9859702 original size:3 final size:3
Alignment explanation
Indices: 9859677--9859741 Score: 85
Period size: 3 Copynumber: 20.3 Consensus size: 3
9859667 AAACAACCAA
*
9859677 AAT AAC AAT AATT AAT AATT AAT AAT AAT AATT AAT AAT AAT AAT AATT
1 AAT AAT AAT AA-T AAT AA-T AAT AAT AAT AA-T AAT AAT AAT AAT AA-T
9859726 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
9859742 GCATTAGATT
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
3 44 0.79
4 12 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:9859705 original size:13 final size:12
Alignment explanation
Indices: 9859677--9859741 Score: 85
Period size: 13 Copynumber: 5.1 Consensus size: 12
9859667 AAACAACCAA
*
9859677 AATAACAATAATT
1 AATAATAATAA-T
9859690 AATAATTAATAAT
1 AATAA-TAATAAT
9859703 AATAATTAATAAT
1 AATAA-TAATAAT
9859716 AATAATAATTAAT
1 AATAATAA-TAAT
9859729 AATAATAATAAT
1 AATAATAATAAT
9859741 A
1 A
9859742 GCATTAGATT
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
12 8 0.16
13 36 0.73
14 5 0.10
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (12 bp):
AATAATAATAAT
Found at i:9859715 original size:16 final size:16
Alignment explanation
Indices: 9859677--9859740 Score: 94
Period size: 16 Copynumber: 3.9 Consensus size: 16
9859667 AAACAACCAA
*
9859677 AATAACAATAATTAA-T
1 AATAATAATAA-TAATT
9859693 AATTAATAATAATAATT
1 AA-TAATAATAATAATT
9859710 AATAATAATAATAATT
1 AATAATAATAATAATT
9859726 AATAATAATAATAAT
1 AATAATAATAATAAT
9859741 AGCATTAGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
16 34 0.76
17 11 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATAATAATAATT
Found at i:9861460 original size:44 final size:42
Alignment explanation
Indices: 9861412--9861869 Score: 225
Period size: 44 Copynumber: 10.7 Consensus size: 42
9861402 ATTTTAATCC
*
9861412 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GT-GCTTCAGTCT
* * *
9861456 GCTCCACTGCAACTTCA-GGAGATAAGACTG-GATGC-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGTGCTTCAG-TCT
* * * * * * *
9861496 GCTCTACTGCCACTTCAGAGAGATAAGATATGTAGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGT-GCTTCAGTCT
* * * *
9861540 GCTCCACTGAAACTTCAGGGAGATAGGATTGATTTCTTTC-GTAT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTG--TGC-TTCAGTCT
* * * *
9861584 GCTCCACTACAACTTCAGGGAGATAAGACTG-GATGTGA-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGTGCT-TCAGTCT
* ** * * * * *
9861625 GCTCTACTAAAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGT-GCTTCAGTCT
* * * *
9861669 GCTCCACTGTAACTTCAGGAAGATAGGATTGATTTCTTTC-GTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTG--TGC-TTCAGTCT
* * *
9861713 GCTCCACTGCAACTTCAGGGAGATAAGACTG-GATGTGA-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGTGCT-TCAGTCT
* * * * * * *
9861754 GCTCTACTGTAACTTCAGAGAGATAAGATCTGTGTTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGTG-CTTCAGTCT
* * * * *
9861798 ACTCCACTGTAACTTCAGGAAGATAGGATTGATTTCTTTC-GTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTG--TGC-TTCAGTCT
* * *
9861842 GCTCCACTGTAACCTCAGGAAGATAAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGA
9861870 CCTAATGCGA
Statistics
Matches: 310, Mismatches: 77, Indels: 54
0.70 0.17 0.12
Matches are distributed among these distances:
39 1 0.00
40 23 0.07
41 66 0.21
42 7 0.02
43 21 0.07
44 183 0.59
45 9 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (42 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGTGCTTCAGTCT
Found at i:9861667 original size:129 final size:129
Alignment explanation
Indices: 9861403--9861951 Score: 767
Period size: 129 Copynumber: 4.3 Consensus size: 129
9861393 TGATTTATCA
* **
9861403 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-AGTAGC-TTCAGTCTGCTCCACTGC
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGA-TTTCTTTC-GTCTGCTCCACTGC
** *
9861466 AACTTCA-GGAGATAAGACTGGATGCGATCTGCTCTACTGCCACTTCAGAGAGATAAGATATGTA
64 AACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTA
9861530 G
129 G
* * *
9861531 TTTTAATCCGCTCCACTGAAACTTCAGGGAGATAGGATTGATTTCTTTCGTATGCTCCACTACAA
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAA
* ** *
9861596 CTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTAAAACTTCAGAGAGATAAGATCTGTGG
66 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTAG
*
9861660 TTTTAATCCGCTCCACTGTAACTTCAGGAAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAA
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAA
*
9861725 CTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGT-G
66 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTAG
* * *
9861788 TTTTTAATCCACTCCACTGTAACTTCAGGAAGATAGGATTGATTTCTTTCGTCTGCTCCACTGTA
1 -TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCA
* * * *
9861853 ACCTCAGGAAGATAAGACCT-AATGCGATCTACTCTACTGTAACTTC--AGAG---AGATCTGTA
65 ACTTCAGGGAGATAAGA-CTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTA
*
9861912 A
129 G
* *
9861913 TTTTAATCCACTCCACTGTAACTTCAGGGAGACAGGATT
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATT
9861952 ATCGGCTTCA
Statistics
Matches: 388, Mismatches: 27, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
124 45 0.12
127 4 0.01
128 60 0.15
129 277 0.71
130 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (129 bp):
TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAA
CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTAG
Found at i:9861804 original size:85 final size:84
Alignment explanation
Indices: 9861412--9861822 Score: 278
Period size: 85 Copynumber: 4.8 Consensus size: 84
9861402 ATTTTAATCC
* * * * * * *
9861412 GCTCCACTGCAACTTCAGGGAGATAGGAT-TAGTAGCTTCAGTCTGCTCCACTGCAACTTCA-GG
1 GCTCCACTGCAACTTCAGAGAGATAAGATCT-GT-GTTTTAATCCGCTCCACTGAAACTTCAGGG
*
9861475 AGATAAGACTGGATGCGATCT
64 AGATAAGACTGGATGTGATCT
* * *
9861496 GCTCTACTGCCACTTCAGAGAGATAAGATATGTAGTTTTAATCCGCTCCACTGAAACTTCAGGGA
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGT-GTTTTAATCCGCTCCACTGAAACTTCAGGGA
* * * **
9861561 GATAGGA-TTGATTTCTTTCGTAT
65 GATAAGACTGGATGT-GATC---T
* * * * * * * * *
9861584 GCTCCACTACAACTTCAGGGAGATAAGA-CTG-GATGTGATCTGCTCTACTAAAACTTCAGAGAG
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTAATCCGCTCCACTGAAACTTCAGGGAG
* * * *
9861647 ATAAGATCTGTGGTTTTAATCC
66 ATAAGA-C--TGGATGTGATCT
* * * ** * *
9861669 GCTCCACTGTAACTTCAG-GAAGATAGGAT-TGATTTCTTTCGTCTGCTCCACTGCAACTTCAGG
1 GCTCCACTGCAACTTCAGAG-AGATAAGATCTG-TGT-TTTAATCCGCTCCACTGAAACTTCAGG
9861732 GAGATAAGACTGGATGTGATCT
63 GAGATAAGACTGGATGTGATCT
* * * * *
9861754 GCTCTACTGTAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCACTCCACTGTAACTTCAGGAA
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTG-TTTTAATCCGCTCCACTGAAACTTCAGGGA
9861819 GATA
65 GATA
9861823 GGATTGATTT
Statistics
Matches: 251, Mismatches: 58, Indels: 35
0.73 0.17 0.10
Matches are distributed among these distances:
84 55 0.22
85 128 0.51
86 4 0.02
87 3 0.01
88 56 0.22
89 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (84 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTAATCCGCTCCACTGAAACTTCAGGGAG
ATAAGACTGGATGTGATCT
Found at i:9861995 original size:222 final size:224
Alignment explanation
Indices: 9861744--9862177 Score: 702
Period size: 222 Copynumber: 1.9 Consensus size: 224
9861734 GATAAGACTG
*
9861744 GATGTGATCTGCTCTACTGTAACTTCAGAGAGATAAGAT-CTGTGT-TTTTAATCCACTCCACTG
1 GATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-T-TATTTTAATCCACTCCACTG
9861807 TAACTTCAG-GAAGATAGGATTGA-TTTCTTTCGTCTGCTCCACTGTAACCTC-AGGAAGATAAG
64 TAACTTCAGAG-AGATAGGATT-ACTTTCTTTCGTCTGCTCCACTGTAACCTCAAGG-AGATAAG
9861869 ACCTAATGCGATCTACTCTACTGTAACTTC-AGAG-AGATCTGTAATTTTAATCCACTCCACTGT
126 ACCTAATGCGATCTACTCTACTGTAACTTCAAGAGAAGATCTGTAATTTTAATCCACTCCACTGT
9861932 AACTTCAGGGAGACAGGATTATCGGCTTCAACCT
191 AACTTCAGGGAGACAGGATTATCGGCTTCAACCT
9861966 GATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTA
1 GATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTA
* *
9862031 ACTTCAGAGAGATAGGATTACTTTCTTTCTTCTGCTCCACTGTAACCTCAAGGAGATAAGACCTG
66 ACTTCAGAGAGATAGGATTACTTTCTTTCGTCTGCTCCACTGTAACCTCAAGGAGATAAGACCTA
*
9862096 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAA
131 ATGCGATCTACTCTACTGTAACTTCA-AGAG--AAGATCTGTAATTTTAATCCACTCCACTGTAA
*
9862161 CTTCAGGGAGATAGGAT
193 CTTCAGGGAGACAGGAT
9862178 AGTGTCTTTG
Statistics
Matches: 197, Mismatches: 5, Indels: 15
0.91 0.02 0.07
Matches are distributed among these distances:
221 2 0.01
222 139 0.71
223 6 0.03
224 4 0.02
227 46 0.23
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (224 bp):
GATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTA
ACTTCAGAGAGATAGGATTACTTTCTTTCGTCTGCTCCACTGTAACCTCAAGGAGATAAGACCTA
ATGCGATCTACTCTACTGTAACTTCAAGAGAAGATCTGTAATTTTAATCCACTCCACTGTAACTT
CAGGGAGACAGGATTATCGGCTTCAACCT
Found at i:9862044 original size:44 final size:44
Alignment explanation
Indices: 9861972--9862528 Score: 310
Period size: 44 Copynumber: 12.8 Consensus size: 44
9861962 ACCTGATGTG
* * *
9861972 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGATTTTA
* * * * *
9862016 ATCCACTCCACTGTAACTTCAGAGAGATAGGATTACTT--TCTTTC
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGA-TCCTTGAT-TTTA
* * * * ***
9862060 TTCTGCTCCACTGTAACCTCAAGGAGATAAGA-CC-TGA-TGCG
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGATTTTA
* *
9862101 ATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTGTGATTTTA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCT-TGATTTTA
* * ** *
9862145 ATCCACTCCACTGTAACTTCAGGGAGATAGGAT-AGTG-TCTTTG
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGAT-TTTA
* * ** *
9862188 ATCTACCCCGCTGTAA-TCTCAGGGAGATAAGATCC-TGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGGGAGATAAGATCCTTGATTTTA
* * * *
9862231 ATCTGCTCCACTGTAACCTCAGGGAGACAAGAT-C-TGAAATTCTTCG
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTG--ATT-TT-A
* *
9862277 GTCTACTCCACTGTAACCTCAGGGAGATAAGAT--TTGAAATTCTTCA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTG--ATT-TT-A
* * ***
9862323 GTCTACTCCACTGTAACCTCAGGGAGATAAGA-CC-TGA-TGCG
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGATTTTA
* * * *
9862364 ATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGATTTTA
** * * ** *
9862408 ATCCGCTCCACCGTAACTTCAGGGAGATAGGAT-AGTG-TCTTCA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGAT-TTTA
* * ** *
9862451 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTCTGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGGGAGATAAGATCCT-TGATTTTA
* * *
9862495 ATTTACTCCACTGTGACCTCAGGGAGATAAGATC
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATC
9862529 TGAAATATTC
Statistics
Matches: 396, Mismatches: 88, Indels: 57
0.73 0.16 0.11
Matches are distributed among these distances:
41 56 0.14
42 10 0.03
43 101 0.26
44 149 0.38
45 5 0.01
46 75 0.19
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGATTTTA
Found at i:9862048 original size:98 final size:93
Alignment explanation
Indices: 9861869--9862050 Score: 258
Period size: 98 Copynumber: 1.9 Consensus size: 93
9861859 GGAAGATAAG
9861869 ACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATCTGTAATTTTAATCCACTCCACTGTAA
1 ACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATCTGTAATTTTAATCCACTCCACTGTAA
*
9861934 CTTCAGGGAGACAGGATTATCGGCTTCA
66 CTTCAGAGAGACAGGATTATCGGCTTCA
* * *
9861962 ACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTAATCCACTCCA
1 ACCTAATGCGATCTACTCTACTGTAACTTC--AGAG---AGAT-CTGTAATTTTAATCCACTCCA
*
9862026 CTGTAACTTCAGAGAGATAGGATTA
60 CTGTAACTTCAGAGAGACAGGATTA
9862051 CTTTCTTTCT
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
93 28 0.36
95 4 0.05
98 44 0.56
99 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (93 bp):
ACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATCTGTAATTTTAATCCACTCCACTGTAA
CTTCAGAGAGACAGGATTATCGGCTTCA
Found at i:9862216 original size:87 final size:86
Alignment explanation
Indices: 9862065--9862527 Score: 357
Period size: 87 Copynumber: 5.3 Consensus size: 86
9862055 CTTTCTTCTG
* * * * * *
9862065 CTCCACTGTAACCTCAAGGAGATAAGA-CCTG-ATGCGATCTACTCTACTGTAACTTCAGAGAGA
1 CTCCACTGTAACCTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAAC-TCAGGGAGA
*
9862128 TAAGATCTGTGATTTTAATCCA
65 TAAGATCTGTGATTTTAATCTA
* * * * * *
9862150 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTTGATCTACCCCGCTGTAATCTCAGGGAGA
1 CTCCACTGTAACCTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAA-CTCAGGGAGA
* * *
9862215 TAAGATCCTG-G-CTTCAATCTG
65 TAAGAT-CTGTGATTTTAATCTA
* *
9862236 CTCCACTGTAACCTCAGGGAGACAAGAT-CTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGG
1 CTCCACTGTAACCTCAGGGAGATAAGATACTG----TCTTCGATCTACTCCACTGTAA-CTCAGG
* ** *
9862300 GAGATAAGATTTGAAATTCTTCAGTCTA
61 GAGATAAGATCTGTGATT-TT-AATCTA
* * * * * *
9862328 CTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTACTCTATTGTAACTTCAGAGAGA
1 CTCCACTGTAACCTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAAC-TCAGGGAGA
* **
9862391 TAAGATCCT-TTATTTTAATCCG
65 TAAGAT-CTGTGATTTTAATCTA
* * * * * * *
9862413 CTCCACCGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
1 CTCCACTGTAACCTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAA-CTCAGGGAGA
* ** * *
9862478 TAAGATCTCTGGCTTCAATTTA
65 TAAGATCTGTGATTTTAATCTA
*
9862500 CTCCACTGTGACCTCAGGGAGATAAGAT
1 CTCCACTGTAACCTCAGGGAGATAAGAT
9862528 CTGAAATATT
Statistics
Matches: 291, Mismatches: 68, Indels: 36
0.74 0.17 0.09
Matches are distributed among these distances:
85 53 0.18
86 40 0.14
87 121 0.42
88 8 0.03
89 34 0.12
90 1 0.00
91 1 0.00
92 33 0.11
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (86 bp):
CTCCACTGTAACCTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAACTCAGGGAGAT
AAGATCTGTGATTTTAATCTA
Found at i:9862330 original size:351 final size:347
Alignment explanation
Indices: 9861620--9862354 Score: 844
Period size: 351 Copynumber: 2.1 Consensus size: 347
9861610 GACTGGATGT
* ** * *
9861620 GATCTGCTCTACTAAAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAACTTC
* * *
9861685 AGGAAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTG
66 AGGAAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAACCTCAAGGAGATAAGACTGGATGCG
* *
9861750 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCACTCCACTGTAACTTCA
131 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAACTTCA
* * * * *
9861815 GGAAGATAGGATTGATTTCTTTCGTCTGCTCCACTGTAACCTCAGGAAGATAAGACCTAATGCGA
196 GGAAGATAGGATAGATGTCTTTCGTCTACCCCACTGTAACCTCAGGAAGATAAGACCTAATGCAA
* * * *
9861880 TCTACTCTACTGTAACTTCAGAGAGATCTGTAATTTTAATCCACTCCACTGTAACTTCAGGGAGA
261 TCTACTCCACTGTAACCTCAGAGAGATCTGAAATTTTAATCCACTCCACTGTAACCTCAGGGAGA
* * **
9861945 CAGGATTATCGGCTTCAACCTGATGT
326 CAAGATTATC-G--TAAACCT-ATCA
*
9861971 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTAATCCACTCCACTGTAACTT
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTGTGATTTTAATCCACTCCACTGTAACTT
* *
9862035 CA-GAGAGATAGGATT-ACTTTCTTTCTTCTGCTCCACTGTAACCTCAAGGAGATAAGACCT-GA
65 CAGGA-AGATAGGATTGA-TTTCTTTCGTCTGCTCCACTGCAACCTCAAGGAGATAAGA-CTGGA
9862097 TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAAC
127 TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAAC
* * * *
9862162 TTCAGGGAGATAGGATAG-TGTCTTT-GATCTACCCCGCTGTAATCTCAGGGAGATAAGATCCTG
192 TTCAGGAAGATAGGATAGATGTCTTTCG-TCTACCCCACTGTAACCTCAGGAAGATAAGA-CCT-
** * * ** *
9862225 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGACAAGATCTGAAATTCTTCGGTCTACTCCACTG
254 AATGCAATCTACTCCACTGTAACCTCA--GAG---AGATCTGAAATT-TT-AATCCACTCCACTG
* *
9862290 TAACCTCAGGGAGATAAGATT-T-G-AAATTCT-TCA
312 TAACCTCAGGGAGACAAGATTATCGTAAA-CCTATCA
* * *
9862323 G-TCTACTCCACTGTAACCTCAGGGAGATAAGA
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGA
9862355 CCTGATGCGA
Statistics
Matches: 327, Mismatches: 42, Indels: 30
0.82 0.11 0.08
Matches are distributed among these distances:
349 1 0.00
350 35 0.11
351 214 0.65
352 26 0.08
353 2 0.01
354 5 0.02
356 1 0.00
357 11 0.03
358 3 0.01
359 29 0.09
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (347 bp):
GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAACTTC
AGGAAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAACCTCAAGGAGATAAGACTGGATGCG
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAACTTCA
GGAAGATAGGATAGATGTCTTTCGTCTACCCCACTGTAACCTCAGGAAGATAAGACCTAATGCAA
TCTACTCCACTGTAACCTCAGAGAGATCTGAAATTTTAATCCACTCCACTGTAACCTCAGGGAGA
CAAGATTATCGTAAACCTATCA
Found at i:9863775 original size:13 final size:14
Alignment explanation
Indices: 9863757--9863785 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9863747 AGCCTCTCCT
9863757 TTTTTCATTT-TCA
1 TTTTTCATTTCTCA
9863770 TTTTTCATTTCTCA
1 TTTTTCATTTCTCA
9863784 TT
1 TT
9863786 CTCTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTCATTTCTCA
Found at i:9864729 original size:16 final size:16
Alignment explanation
Indices: 9864708--9864740 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9864698 TTTTCTTCTA
9864708 TTTTTTACTTTGATTT
1 TTTTTTACTTTGATTT
*
9864724 TTTTTTATTTTGATTT
1 TTTTTTACTTTGATTT
9864740 T
1 T
9864741 CCTCTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTTTTACTTTGATTT
Found at i:9864740 original size:28 final size:28
Alignment explanation
Indices: 9864710--9864762 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
9864700 TTCTTCTATT
*
9864710 TTTTACT-TTGATTTTTTTTTATTTTGA
1 TTTTACTCTTGATTTTGTTTTATTTTGA
* *
9864737 TTTTCCTCTTGATTTTGTTTTGTTTT
1 TTTTACTCTTGATTTTGTTTTATTTT
9864763 TTTTGTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.09, C:0.08, G:0.09, T:0.74
Consensus pattern (28 bp):
TTTTACTCTTGATTTTGTTTTATTTTGA
Found at i:9864768 original size:14 final size:14
Alignment explanation
Indices: 9864749--9864781 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9864739 TTCCTCTTGA
9864749 TTTTGTT-TTGTTTT
1 TTTTGTTGTT-TTTT
9864763 TTTTGTTGTTTTTT
1 TTTTGTTGTTTTTT
9864777 TTTTG
1 TTTTG
9864782 AATTGGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTTGTTGTTTTTT
Found at i:9869156 original size:2 final size:2
Alignment explanation
Indices: 9869149--9869183 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9869139 AAAATGTACG
9869149 TA 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 TA T
9869184 TAGCAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9869219 original size:25 final size:25
Alignment explanation
Indices: 9869166--9869229 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
9869156 ATATATATAT
9869166 ATATATATATATATATATTAGCAAA
1 ATATATATATATATATATTAGCAAA
* *
9869191 ATATGTGTATATATAT-TGTAG-AAA
1 ATATATATATATATATAT-TAGCAAA
9869215 CATATATATATATAT
1 -ATATATATATATAT
9869230 TTAATGTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (25 bp):
ATATATATATATATATATTAGCAAA
Found at i:9869224 original size:23 final size:23
Alignment explanation
Indices: 9869170--9869230 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
9869160 ATATATATAT
*
9869170 ATATATATATATATTAGCAAAAT
1 ATATATATATATATTAGCAAAAC
* * *
9869193 ATGTGTATATATATT-GTAGAAAC
1 ATATATATATATATTAGCA-AAAC
9869216 ATATATATATATATT
1 ATATATATATATATT
9869231 TAATGTACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 2 0.06
23 29 0.94
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (23 bp):
ATATATATATATATTAGCAAAAC
Found at i:9869289 original size:3 final size:3
Alignment explanation
Indices: 9869274--9869314 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
9869264 GTTATGAGTA
*
9869274 AAT AAT AAC AAT AAT AATT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT A
9869315 GCATTAGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9874644 original size:20 final size:20
Alignment explanation
Indices: 9874610--9874647 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9874600 TGAAATTGTA
**
9874610 GCAAAACAATGACAAAAAGT
1 GCAAAACAACAACAAAAAGT
9874630 GCAAAACAACAACAAAAA
1 GCAAAACAACAACAAAAA
9874648 TAGCAGTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.18, G:0.11, T:0.05
Consensus pattern (20 bp):
GCAAAACAACAACAAAAAGT
Found at i:9875127 original size:73 final size:73
Alignment explanation
Indices: 9875040--9875186 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
9875030 ATAGATTTCA
*
9875040 TTTATAGTCTAGGTAGGGGGTGAGTATTATTTTAAACCTATCGGCACAGCAAATTAAAAGAATGA
1 TTTATAGGCTAGGTAGGGGGTGAGTATTATTTTAAACCTATCGGCACAGCAAATTAAAAGAATGA
9875105 TATAGTGG
66 TATAGTGG
* *
9875113 TTTATAGGCTAGGTAGGGGGTGAGTATTATTTTAAACCTATTGGCACAGCAAATTAAACGAATGA
1 TTTATAGGCTAGGTAGGGGGTGAGTATTATTTTAAACCTATCGGCACAGCAAATTAAAAGAATGA
9875178 TATAGTGG
66 TATAGTGG
9875186 T
1 T
9875187 AGCTGCTTCA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (73 bp):
TTTATAGGCTAGGTAGGGGGTGAGTATTATTTTAAACCTATCGGCACAGCAAATTAAAAGAATGA
TATAGTGG
Found at i:9878417 original size:21 final size:22
Alignment explanation
Indices: 9878381--9878422 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
9878371 ATTTAACATC
9878381 TTGGGTTTAAAAGTTTAGGGTA
1 TTGGGTTTAAAAGTTTAGGGTA
* *
9878403 TTGGG-TTAAAGGTTTGGGGT
1 TTGGGTTTAAAAGTTTAGGGT
9878423 CTAAGATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.40
Consensus pattern (22 bp):
TTGGGTTTAAAAGTTTAGGGTA
Found at i:9878678 original size:21 final size:21
Alignment explanation
Indices: 9878649--9878691 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9878639 CTATTTTAAC
*
9878649 ATTAGTATTTATTTATAATTA
1 ATTAGTATTTAATTATAATTA
* *
9878670 ATTATTATTTAATTATATTTA
1 ATTAGTATTTAATTATAATTA
9878691 A
1 A
9878692 ATAAAGTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTAGTATTTAATTATAATTA
Found at i:9878683 original size:11 final size:10
Alignment explanation
Indices: 9878649--9878691 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
9878639 CTATTTTAAC
9878649 ATTAGTATTTA
1 ATTA-TATTTA
* *
9878660 TTTATAATTA
1 ATTATATTTA
9878670 ATTATTATTTA
1 ATTA-TATTTA
9878681 ATTATATTTA
1 ATTATATTTA
9878691 A
1 A
9878692 ATAAAGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 15 0.56
11 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
ATTATATTTA
Found at i:9878856 original size:222 final size:223
Alignment explanation
Indices: 9878455--9878871 Score: 586
Period size: 222 Copynumber: 1.9 Consensus size: 223
9878445 TTATTTCTAA
* ** * *
9878455 TTAATCATGTTTAAATAAAGTTGTTAGTATTTATTTATAAGTCTCCCAATGTTTTTTGTTTTATT
1 TTAATCATATTTAAATAAAGTAATTAGTATTTATTTATAAATCTCCCAATATTTTTTGTTTTATT
* * * * * * *
9878520 TAATGATAAAATGTCATGCTATTATTCATCGATTATGTGTGAGACTTATACACTAATAGTGCATC
66 TAATGATAAAATGCCATGCTATTATTCATCGATGATGCGTGAGACTTATACACCAACAATGAATC
* *
9878585 AAATATTTTCTCATATTTAAAACTTAAAAAATTAAATAAATGAGACATTTGTCACTATTTTAACA
131 AAATATTTTCTCAAATTTAAAACTTAAAAAATTAAATAAATGAGACATTTATCACTATTTTAACA
9878650 TTAGTATTTATTTATAATTAATTATTAT
196 TTAGTATTTATTTATAATTAATTATTAT
* * *
9878678 TTAATTATATTTAAATAAAGTAATTAGTATTTATTTATAAATCTCTCACTATTTTTTGTTTT-TT
1 TTAATCATATTTAAATAAAGTAATTAGTATTTATTTATAAATCTCCCAATATTTTTTGTTTTATT
* * * * *
9878742 TAACT-ATGAGATGCCATGTTATTATTTATCGATGGTGCGTGAGACTTATACACCAACAATGAAT
66 TAA-TGATAAAATGCCATGCTATTATTCATCGATGATGCGTGAGACTTATACACCAACAATGAAT
* * *
9878806 CGAATATTTTCTCAAATTTAAAAGTTAAAAAATTAAATAAATGGGACATTTATCACTATTTTAAC
130 CAAATATTTTCTCAAATTTAAAACTTAAAAAATTAAATAAATGAGACATTTATCACTATTTTAAC
9878871 A
195 A
9878872 CTTTGAAGTG
Statistics
Matches: 168, Mismatches: 25, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
222 113 0.67
223 55 0.33
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (223 bp):
TTAATCATATTTAAATAAAGTAATTAGTATTTATTTATAAATCTCCCAATATTTTTTGTTTTATT
TAATGATAAAATGCCATGCTATTATTCATCGATGATGCGTGAGACTTATACACCAACAATGAATC
AAATATTTTCTCAAATTTAAAACTTAAAAAATTAAATAAATGAGACATTTATCACTATTTTAACA
TTAGTATTTATTTATAATTAATTATTAT
Found at i:9879143 original size:25 final size:25
Alignment explanation
Indices: 9879115--9879163 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9879105 AATATGTTGT
* *
9879115 TTTTGAAAAATAATTAAGAAAATAA
1 TTTTGAAAAAAAAATAAGAAAATAA
* *
9879140 TTTTTAAAAAAAAATAGGAAAATA
1 TTTTGAAAAAAAAATAAGAAAATA
9879164 GGTCATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (25 bp):
TTTTGAAAAAAAAATAAGAAAATAA
Found at i:9883564 original size:18 final size:18
Alignment explanation
Indices: 9883524--9883566 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9883514 AAGGTAACGT
9883524 TGGAGATAAAGATGGAAA
1 TGGAGATAAAGATGGAAA
* * *
9883542 CGGAGATAGAGATGGAGA
1 TGGAGATAAAGATGGAAA
9883560 TGGAGAT
1 TGGAGAT
9883567 GATGATAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.40, T:0.16
Consensus pattern (18 bp):
TGGAGATAAAGATGGAAA
Found at i:9884900 original size:41 final size:41
Alignment explanation
Indices: 9884844--9885077 Score: 387
Period size: 41 Copynumber: 5.7 Consensus size: 41
9884834 TTAAATAAAT
* * *
9884844 TCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
* * *
9884885 TCACCGGCGCTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
*
9884926 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
9884967 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
9885008 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
**
9885049 TCACCGGTGCTTAGCCTGCTAGGCTTATA
1 TCACCGGCACTTAGCCTGCTAGGCTTATA
9885078 GCCTGATAAT
Statistics
Matches: 182, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 182 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
Found at i:9885320 original size:64 final size:63
Alignment explanation
Indices: 9885196--9885376 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
9885186 GCAAACAAAC
* *
9885196 ATTCGAACCACATATGTA-T-AATTTACA-ACATTAAAATTCAGTTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTATTAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
9885257 T
63 T
9885258 ATTCGAACCACATATGTATGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
*
9885322 ATTTGAACCACATATGTATATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAGAACTTT
9885377 AAATATATAT
Statistics
Matches: 110, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
62 18 0.16
63 5 0.05
64 78 0.71
65 9 0.08
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (63 bp):
ATTCGAACCACATATGTATTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:9885411 original size:2 final size:2
Alignment explanation
Indices: 9885404--9885434 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9885394 CCATATGTGC
9885404 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9885435 TAAGTTCAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9889270 original size:18 final size:18
Alignment explanation
Indices: 9889234--9889292 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
9889224 ATCATTGGTT
* **
9889234 TCAACTTTCTCTTTGTTC
1 TCAACTTCCTCTTCATTC
*
9889252 TCAGCTTCCTCTTCATTC
1 TCAACTTCCTCTTCATTC
* *
9889270 TCAACTTCCTTTTCATTA
1 TCAACTTCCTCTTCATTC
9889288 TCAAC
1 TCAAC
9889293 CCTAGTTGCG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.32, G:0.03, T:0.47
Consensus pattern (18 bp):
TCAACTTCCTCTTCATTC
Found at i:9893349 original size:27 final size:28
Alignment explanation
Indices: 9893319--9893374 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
9893309 GTTATAAAGT
** *
9893319 TATTAAATTTTAATAAAA-ATATAAAAA
1 TATTAAAACTTAAAAAAATATATAAAAA
9893346 TATTAAAACTTAAAAAAATATATAAAAA
1 TATTAAAACTTAAAAAAATATATAAAAA
9893374 T
1 T
9893375 CGTAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (28 bp):
TATTAAAACTTAAAAAAATATATAAAAA
Found at i:9893372 original size:10 final size:10
Alignment explanation
Indices: 9893333--9893424 Score: 52
Period size: 10 Copynumber: 9.4 Consensus size: 10
9893323 AAATTTTAAT
9893333 AAAA-ATATA
1 AAAATATATA
9893342 AAAATAT-TA
1 AAAATATATA
* *
9893351 AAACT-TAAA
1 AAAATATATA
9893360 AAAATATATA
1 AAAATATATA
*
9893370 AAAATCGTA-A
1 AAAAT-ATATA
9893380 AAAAT-TATA
1 AAAATATATA
*
9893389 AAAA-ATTGTA
1 AAAATA-TATA
*
9893399 AAAAGTTTATA
1 AAAA-TATATA
*
9893410 AAAAAATCATA
1 AAAATAT-ATA
9893421 AAAA
1 AAAA
9893425 GGCCATTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
8 3 0.05
9 20 0.32
10 24 0.38
11 16 0.25
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (10 bp):
AAAATATATA
Found at i:9893373 original size:20 final size:20
Alignment explanation
Indices: 9893358--9893413 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
9893348 TTAAAACTTA
9893358 AAAAAATATATAAAAATCGT
1 AAAAAATATATAAAAATCGT
*
9893378 AAAAAAT-TATAAAAAATTGT
1 AAAAAATATAT-AAAAATCGT
* *
9893398 AAAAAGTTTATAAAAA
1 AAAAAATATATAAAAA
9893414 AATCATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAAATATATAAAAATCGT
Found at i:9893380 original size:28 final size:27
Alignment explanation
Indices: 9893328--9893381 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
9893318 TTATTAAATT
* *
9893328 TTAATAAAAATATAAAAATATTAAAAC
1 TTAAAAAAAATATAAAAATAGTAAAAC
*
9893355 TTAAAAAAATATATAAAAATCGTAAAA
1 TTAAAAAAA-ATATAAAAATAGTAAAA
9893382 AATTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (27 bp):
TTAAAAAAAATATAAAAATAGTAAAAC
Found at i:9893392 original size:11 final size:11
Alignment explanation
Indices: 9893356--9893424 Score: 54
Period size: 10 Copynumber: 6.5 Consensus size: 11
9893346 TATTAAAACT
9893356 TAAAAAAA-TA
1 TAAAAAAATTA
* **
9893366 TATAAAAATCG
1 TAAAAAAATTA
9893377 T-AAAAAATTA
1 TAAAAAAATTA
*
9893387 T-AAAAAATTG
1 TAAAAAAATTA
**
9893397 TAAAAAGTTTA
1 TAAAAAAATTA
*
9893408 TAAAAAAATCA
1 TAAAAAAATTA
9893419 TAAAAA
1 TAAAAA
9893425 GGCCATTTAA
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
10 23 0.52
11 21 0.48
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (11 bp):
TAAAAAAATTA
Found at i:9893408 original size:21 final size:20
Alignment explanation
Indices: 9893356--9893424 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
9893346 TATTAAAACT
*
9893356 TAAAAAAATATATAAAAATCG
1 TAAAAAATTATA-AAAAATCG
*
9893377 TAAAAAATTATAAAAAATTG
1 TAAAAAATTATAAAAAATCG
* *
9893397 TAAAAAGTTTATAAAAAAATCA
1 TAAAAA-ATTAT-AAAAAATCG
9893419 TAAAAA
1 TAAAAA
9893425 GGCCATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 13 0.32
21 15 0.37
22 13 0.32
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (20 bp):
TAAAAAATTATAAAAAATCG
Found at i:9893661 original size:21 final size:19
Alignment explanation
Indices: 9893600--9893648 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
9893590 GGTATGATAA
*
9893600 TTTTTATAACTT-TTTACAA
1 TTTTTATAA-TTCTTTACAT
* *
9893619 CTTTTATAATTCTTTACTT
1 TTTTTATAATTCTTTACAT
9893638 TTTTTATAATT
1 TTTTTATAATT
9893649 TTCTTACGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTATAATTCTTTACAT
Found at i:9893715 original size:27 final size:26
Alignment explanation
Indices: 9893670--9893763 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
9893660 TTATAAAAAA
* **
9893670 AAATTTCTATATTACTAT-ATATTTT
1 AAATTTTTATATTTTTATAATATTTT
*
9893695 AGTAATTTTTCA-ATTTTTATAAAATTTT
1 A--AATTTTT-ATATTTTTATAATATTTT
* *
9893723 AAAATTTTTATATTTTTATGATTTTTT
1 -AAATTTTTATATTTTTATAATATTTT
9893750 AAATTTTTAATATT
1 AAATTTTT-ATATT
9893764 ACATATATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
25 1 0.02
26 9 0.16
27 37 0.67
28 7 0.13
29 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (26 bp):
AAATTTTTATATTTTTATAATATTTT
Found at i:9893776 original size:27 final size:26
Alignment explanation
Indices: 9893670--9893777 Score: 62
Period size: 27 Copynumber: 4.0 Consensus size: 26
9893660 TTATAAAAAA
*
9893670 AAATTTCTATATTAC-TATATATTTT
1 AAATTTTTATATTACATATATATTTT
** *
9893695 AGTAATTTTTCA-ATT-TTTATAAAATTTT
1 A--AATTTTT-ATATTACATAT-ATATTTT
** *
9893723 AAAATTTTTATATT-TTTATGATTTTTT
1 -AAATTTTTATATTACATAT-ATATTTT
9893750 AAATTTTTAATATTACATATATATTTT
1 AAATTTTT-ATATTACATATATATTTT
9893777 A
1 A
9893778 TTAAAATGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
25 1 0.02
26 9 0.14
27 44 0.68
28 10 0.15
29 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (26 bp):
AAATTTTTATATTACATATATATTTT
Found at i:9906064 original size:2 final size:2
Alignment explanation
Indices: 9906057--9906094 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9906047 TGGTATTATA
9906057 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
9906095 TAATGGTGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:9907479 original size:27 final size:27
Alignment explanation
Indices: 9907408--9907491 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
9907398 CATTGTAGAT
* *
9907408 GTCCGATGGGACATTAAACACGAGATA
1 GTCCAATGGGACATTAAACACGGGATA
* *
9907435 TTCCAATGGGACAATAAACACGGGATA
1 GTCCAATGGGACATTAAACACGGGATA
* ** *
9907462 GTCCAATGTGATGTTAAATACGGGATA
1 GTCCAATGGGACATTAAACACGGGATA
9907489 GTC
1 GTC
9907492 TGACAGGACG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (27 bp):
GTCCAATGGGACATTAAACACGGGATA
Found at i:9907504 original size:27 final size:26
Alignment explanation
Indices: 9907474--9907546 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
9907464 CCAATGTGAT
9907474 GTTAAATACGGGATAGTCTGACAGGAC
1 GTTAAATA-GGGATAGTCTGACAGGAC
* * *
9907501 GTTAAACATGGGATAGTTTGATAGGAC
1 GTTAAATA-GGGATAGTCTGACAGGAC
9907528 GTTGAACATAGGGA-AGTCT
1 GTT-AA-ATAGGGATAGTCT
9907547 ATCAAGACGG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 30 0.79
28 6 0.16
29 2 0.05
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (26 bp):
GTTAAATAGGGATAGTCTGACAGGAC
Found at i:9910392 original size:45 final size:45
Alignment explanation
Indices: 9910315--9910405 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
9910305 AGATACTCGT
* *
9910315 TGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
* *
9910360 TGGAATCAGCACATAGCAACCACTTTACTAATCAATGATGTTCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
9910405 T
1 T
9910406 TCACATAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
Found at i:9910487 original size:51 final size:50
Alignment explanation
Indices: 9910407--9910545 Score: 152
Period size: 51 Copynumber: 2.7 Consensus size: 50
9910397 ATGTTCGGTT
* * * *
9910407 CACATAGTAGCCTGCATATAGTACTACACATGTGACCATTACCATTATATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCA-AACCATCAGATA
* * * * * * *
9910458 CACGTAGTATCCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCAAACCATCAGATA
*
9910509 CGCATAGTAGCCTGCACATAGTACTACACATGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACC
9910546 TTTCATTCCT
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
50 1 0.01
51 68 0.96
52 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCAAACCATCAGATA
Found at i:9924299 original size:31 final size:31
Alignment explanation
Indices: 9924261--9924328 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
9924251 TCATCGCAGG
* *
9924261 TTGCCCAGCAAC-ATTGTCCTGCCACCCTAGA
1 TTGCCCAGCAACGA-TGGCCTACCACCCTAGA
*
9924292 TTGCCCAGCAACGATGGCTTACCACCCTAGA
1 TTGCCCAGCAACGATGGCCTACCACCCTAGA
9924323 TTGCCC
1 TTGCCC
9924329 GAAAATGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.22, C:0.38, G:0.18, T:0.22
Consensus pattern (31 bp):
TTGCCCAGCAACGATGGCCTACCACCCTAGA
Found at i:9926486 original size:26 final size:25
Alignment explanation
Indices: 9926457--9926538 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 25
9926447 CTTCGATCAC
9926457 ATGTGTAGTATTATGTGCAGGCTACT
1 ATGTGTAGTA-TATGTGCAGGCTACT
*
9926483 ATGTGTATCGGATA-GTG-ATGG-TCAC-
1 ATGTGTA--GTATATGTGCA-GGCT-ACT
9926508 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTA-TATGTGCAGGCTACT
9926534 ATGTG
1 ATGTG
9926539 AACCGGTATC
Statistics
Matches: 45, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 16 0.36
26 21 0.47
27 2 0.04
28 2 0.04
ACGTcount: A:0.23, C:0.12, G:0.29, T:0.35
Consensus pattern (25 bp):
ATGTGTAGTATATGTGCAGGCTACT
Found at i:9926536 original size:102 final size:101
Alignment explanation
Indices: 9926352--9926536 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
9926342 AAAGTGATGG
* *
9926352 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCCCATGTGTAGTAC
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
9926417 TATGTGCAGGCTACTATGCGTATCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTATCGGATAGCTTCGA
* * * *
9926453 TCACATGTGTAGTATTATGTGCAGGCTACTATGTGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGT
9926517 ACTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
9926537 TGAACCGGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 37 0.49
102 35 0.46
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTATCGGATAGCTTCGA
Found at i:9926537 original size:51 final size:52
Alignment explanation
Indices: 9926344--9926538 Score: 258
Period size: 51 Copynumber: 3.8 Consensus size: 52
9926334 TGAAAGTGAA
* * * *
9926344 AGTGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAT
* *
9926394 A-TGATAGGTCCCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAT
* * *
9926445 AGCT--TCGATCACATGTGTAGTATTATGTGCAGGCTACTATGTGTATCGGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAT
9926496 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
9926539 AACCGGTATC
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
49 4 0.03
50 40 0.32
51 80 0.63
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAT
Found at i:9926613 original size:46 final size:43
Alignment explanation
Indices: 9926540--9926624 Score: 107
Period size: 46 Copynumber: 1.9 Consensus size: 43
9926530 TACTATGTGA
*
9926540 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTGATCCT
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCT
* * *
9926583 ACCGGATATCATTGATTACAAAGGGTGGTTGTTGTGTGCTGA
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGA
9926625 ATCCGCCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 5 0.14
44 11 0.31
45 2 0.06
46 17 0.49
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCT
Found at i:9926783 original size:16 final size:16
Alignment explanation
Indices: 9926762--9926793 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9926752 TGATTGAAAG
*
9926762 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
9926778 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
9926794 GCAACAAAAT
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:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:9944795 original size:18 final size:19
Alignment explanation
Indices: 9944783--9944821 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
9944773 CATAAATATT
9944783 TTTAAAAATATAATAATAAA
1 TTTAAAAATAT-ATAATAAA
9944803 TTTAAAAATATATAA-AAA
1 TTTAAAAATATATAATAAA
9944821 T
1 T
9944822 AAAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 4 0.21
20 11 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTTAAAAATATATAATAAA
Found at i:9944811 original size:8 final size:10
Alignment explanation
Indices: 9944759--9944870 Score: 56
Period size: 10 Copynumber: 11.5 Consensus size: 10
9944749 AAATTAAAAG
9944759 AAATATATAA
1 AAATATATAA
*
9944769 AAA-ACATAA
1 AAATATATAA
* * *
9944778 ATATTTTTAA
1 AAATATATAA
9944788 AAATATAATAA
1 AAATAT-ATAA
9944799 TAAAT-T-TAA
1 -AAATATATAA
9944808 AAATATATAA
1 AAATATATAA
*
9944818 AAATA-AAAA
1 AAATATATAA
* *
9944827 ATAATCT-TGA
1 A-AATATATAA
* * *
9944837 CAAGAAATAA
1 AAATATATAA
*
9944847 TAATATAT-A
1 AAATATATAA
9944856 AAATATATAA
1 AAATATATAA
9944866 AAATA
1 AAATA
9944871 AATATTTTCA
Statistics
Matches: 72, Mismatches: 21, Indels: 18
0.65 0.19 0.16
Matches are distributed among these distances:
8 4 0.06
9 25 0.35
10 35 0.49
11 4 0.06
12 4 0.06
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (10 bp):
AAATATATAA
Found at i:9944883 original size:25 final size:24
Alignment explanation
Indices: 9944855--9944902 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
9944845 AATAATATAT
*
9944855 AAAATATATAAAAATAAATATTTTC
1 AAAAAATATAAAAATAAAT-TTTTC
*
9944880 AAAAAATATAATAATAAATTTTT
1 AAAAAATATAAAAATAAATTTTT
9944903 ATATTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAAATATAAAAATAAATTTTTC
Found at i:9944891 original size:41 final size:39
Alignment explanation
Indices: 9944809--9944897 Score: 101
Period size: 41 Copynumber: 2.3 Consensus size: 39
9944799 TAAATTTAAA
* *
9944809 AATATATAAAAATAAAAAATAATCTTGACAAGAAATAAT
1 AATATATAAAAATAAAAAATAATATTGACAAAAAATAAT
**
9944848 AATATATAAAATATATAAAAATAAATATTTTCAAAAAAT-AT
1 AATATATAAAA-ATA-AAAAAT-AATATTGACAAAAAATAAT
9944889 AATA-ATAAA
1 AATATATAAA
9944898 TTTTTATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
39 11 0.26
40 8 0.19
41 12 0.28
42 12 0.28
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.29
Consensus pattern (39 bp):
AATATATAAAAATAAAAAATAATATTGACAAAAAATAAT
Found at i:9944934 original size:25 final size:24
Alignment explanation
Indices: 9944901--9944949 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
9944891 TAATAAATTT
9944901 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAATAAA-ATAA
*
9944926 TTATCTTAATATTAAATAAAATAA
1 TTATATTAATATTAAATAAAATAA
9944950 AATAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:9945954 original size:31 final size:32
Alignment explanation
Indices: 9945863--9945941 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 32
9945853 CACTTAACTA
* * * *
9945863 AAAAAATTCTAATTTAATC-ATTAAATTATTC
1 AAAAAATTTTCATTTAAGCTATTAAACTATTC
*
9945894 -GAAAATTTTCATTTAAGCTATTAAACTATTC
1 AAAAAATTTTCATTTAAGCTATTAAACTATTC
9945925 AAAAAATTTT-ATTTAAG
1 AAAAAATTTTCATTTAAG
9945942 TCATTGGACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 14 0.35
31 18 0.45
32 8 0.20
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.42
Consensus pattern (32 bp):
AAAAAATTTTCATTTAAGCTATTAAACTATTC
Found at i:9953080 original size:15 final size:17
Alignment explanation
Indices: 9953060--9953092 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
9953050 GAGCAAGTAC
9953060 TGGAATC-GGA-AGAGA
1 TGGAATCTGGAGAGAGA
9953075 TGGAATCTGGAGAGAGA
1 TGGAATCTGGAGAGAGA
9953092 T
1 T
9953093 AAGGAGGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.39, T:0.18
Consensus pattern (17 bp):
TGGAATCTGGAGAGAGA
Found at i:9965450 original size:15 final size:15
Alignment explanation
Indices: 9965401--9965451 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
9965391 TTACCCCAGT
9965401 TTACATTTTAGTCAC
1 TTACATTTTAGTCAC
** * **
9965416 TTATGTTTTAAT-TG
1 TTACATTTTAGTCAC
9965430 TTACATTTTAGTCAC
1 TTACATTTTAGTCAC
9965445 TTACATT
1 TTACATT
9965452 ATCTTATCGC
Statistics
Matches: 25, Mismatches: 10, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (15 bp):
TTACATTTTAGTCAC
Found at i:9966229 original size:2 final size:2
Alignment explanation
Indices: 9966222--9966248 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9966212 ATAAAATTGG
9966222 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
9966249 TTTACTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9966381 original size:16 final size:16
Alignment explanation
Indices: 9966362--9966397 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
9966352 ATAAAGTAAG
9966362 AATTAAATTAT-AAATT
1 AATTAAA-TATCAAATT
9966378 AATTAAATATCAAATT
1 AATTAAATATCAAATT
9966394 AATT
1 AATT
9966398 TAACTAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAAATATCAAATT
Found at i:9969878 original size:61 final size:61
Alignment explanation
Indices: 9969803--9969924 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
9969793 TGGTTCAATG
* *
9969803 GTAAATATTAGAAAATATAAGCATTTTGGATATAGGGACTAAAATGAATAAAATACAAATT
1 GTAAATATCAGAAAATATAAGCATTTTGGATATAGGGACTAAAATGAATAAAATAAAAATT
*
9969864 GTAAATATCAGAAAATATGAGCATTTTGGATATAGGGACTAAAATGAATAAAATAAAAATT
1 GTAAATATCAGAAAATATAAGCATTTTGGATATAGGGACTAAAATGAATAAAATAAAAATT
9969925 ATATTAAATT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.29
Consensus pattern (61 bp):
GTAAATATCAGAAAATATAAGCATTTTGGATATAGGGACTAAAATGAATAAAATAAAAATT
Found at i:9971789 original size:18 final size:17
Alignment explanation
Indices: 9971766--9971806 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
9971756 CCAAAAATCT
9971766 CACACGCCCGTGTGGGCC
1 CACACGCCCGTGT-GGCC
**
9971784 CACACGCTTGTGTGGCC
1 CACACGCCCGTGTGGCC
9971801 CACACG
1 CACACG
9971807 ACCCAATTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.15, C:0.41, G:0.29, T:0.15
Consensus pattern (17 bp):
CACACGCCCGTGTGGCC
Found at i:9977312 original size:25 final size:25
Alignment explanation
Indices: 9977284--9977331 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9977274 ACAGTTTATC
* *
9977284 TATAGTAGTCTCAGTATATACTACA
1 TATAGCAGTCTCAGGATATACTACA
*
9977309 TATAGCAGTTTCAGGATATACTA
1 TATAGCAGTCTCAGGATATACTA
9977332 TCAAAAACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (25 bp):
TATAGCAGTCTCAGGATATACTACA
Found at i:9978640 original size:18 final size:17
Alignment explanation
Indices: 9978617--9978652 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9978607 CATGATATTC
9978617 GCCCGTATGGGCCCACAT
1 GCCCGTAT-GGCCCACAT
*
9978635 GCCCGTGTGGCCCACAT
1 GCCCGTATGGCCCACAT
9978652 G
1 G
9978653 GCCTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.14, C:0.39, G:0.31, T:0.17
Consensus pattern (17 bp):
GCCCGTATGGCCCACAT
Found at i:9986119 original size:57 final size:59
Alignment explanation
Indices: 9986007--9986154 Score: 185
Period size: 57 Copynumber: 2.5 Consensus size: 59
9985997 AATTGACGGT
9986007 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCAAAGAATATGTG-G
* *
9986070 AAAAAGATCTAGCCCGGACTGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCAAAGAATATGTGG
* * *
9986126 AAAATGGATTTAGCCCGGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
9986155 CGACAATACT
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
56 5 0.06
57 44 0.57
58 1 0.01
59 1 0.01
61 1 0.01
62 20 0.26
63 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCAAAGAATATGTGG
Found at i:9986288 original size:67 final size:67
Alignment explanation
Indices: 9986180--9986311 Score: 219
Period size: 67 Copynumber: 2.0 Consensus size: 67
9986170 GTTTATATTA
* **
9986180 CAGGGGATTTAGCCTGGACTGGTAATCTTGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTGGACTGGCAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCT
9986245 TG
66 TG
* *
9986247 CAGGGGATTTAGCCTGGACTGGCAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTTCTCTCT
1 CAGGGGATTTAGCCTGGACTGGCAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCT
9986312 GAATTGGAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (67 bp):
CAGGGGATTTAGCCTGGACTGGCAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCT
TG
Found at i:9995256 original size:12 final size:12
Alignment explanation
Indices: 9995239--9995278 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
9995229 GTGGAGAAAG
9995239 AAAAGAAAGAGA
1 AAAAGAAAGAGA
9995251 AAAAGAAAAGAGA
1 AAAAG-AAAGAGA
9995264 AAAGAGAAAG-GA
1 AAA-AGAAAGAGA
9995276 AAA
1 AAA
9995279 GAGAGAGACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 10 0.38
13 14 0.54
14 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (12 bp):
AAAAGAAAGAGA
Found at i:9995264 original size:19 final size:19
Alignment explanation
Indices: 9995235--9995282 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
9995225 AAAGGTGGAG
*
9995235 AAAGAAAAGA-AAGAGA-A
1 AAAGAAAAGAGAAAAGAGA
9995252 AAAGAAAAGAGAAAAGAGA
1 AAAGAAAAGAGAAAAGAGA
*
9995271 AAGGAAAAGAGA
1 AAAGAAAAGAGA
9995283 GAGACGACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 10 0.37
18 5 0.19
19 12 0.44
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAGAAAAGAGA
Found at i:9995266 original size:7 final size:7
Alignment explanation
Indices: 9995244--9995282 Score: 57
Period size: 6 Copynumber: 6.0 Consensus size: 7
9995234 GAAAGAAAAG
9995244 AAAGAGA
1 AAAGAGA
9995251 AAA-AGA
1 AAAGAGA
9995257 AAAGAGA
1 AAAGAGA
9995264 AAAGAG-
1 AAAGAGA
9995270 AAAG-GA
1 AAAGAGA
9995276 AAAGAGA
1 AAAGAGA
9995283 GAGACGACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 1 0.03
6 14 0.48
7 14 0.48
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAAGAGA
Found at i:9995279 original size:12 final size:12
Alignment explanation
Indices: 9995232--9995282 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
9995222 AGGAAAGGTG
9995232 GAGAAA-GAAAA
1 GAGAAAGGAAAA
*
9995243 GA-AAGAGAAAAA
1 GAGAA-AGGAAAA
9995255 GA-AAAGAGAAAA
1 GAGAAAG-GAAAA
9995267 GAGAAAGGAAAA
1 GAGAAAGGAAAA
9995279 GAGA
1 GAGA
9995283 GAGACGACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
10 2 0.06
11 5 0.15
12 23 0.68
13 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
GAGAAAGGAAAA
Found at i:9998354 original size:12 final size:12
Alignment explanation
Indices: 9998337--9998366 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9998327 AGCCACACGT
9998337 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
9998349 CCGTGTGCTAGG
1 CCGTGTGCCAGG
9998361 CCGTGT
1 CCGTGT
9998367 AACTGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:10010041 original size:16 final size:17
Alignment explanation
Indices: 10010020--10010052 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
10010010 GCCATGTCAG
10010020 AATTTTTTTA-ATTTTA
1 AATTTTTTTATATTTTA
10010036 AATTTTTTTATATTTTA
1 AATTTTTTTATATTTTA
10010053 TACTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
AATTTTTTTATATTTTA
Found at i:10010393 original size:27 final size:27
Alignment explanation
Indices: 10010363--10010416 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
10010353 CACTTAATTG
*
10010363 TTTTCTAAAAAAGTTAAAACATAGTTA
1 TTTTCTAAAAAACTTAAAACATAGTTA
* ** *
10010390 TTTTTTAGTACACTTAAAACATAGTTA
1 TTTTCTAAAAAACTTAAAACATAGTTA
10010417 ATTAAATAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (27 bp):
TTTTCTAAAAAACTTAAAACATAGTTA
Found at i:10010591 original size:11 final size:12
Alignment explanation
Indices: 10010575--10010605 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10010565 TCCATTTGAT
10010575 TTATTTATA-TA
1 TTATTTATATTA
10010586 TTATTTATATTA
1 TTATTTATATTA
10010598 TTATTTAT
1 TTATTTAT
10010606 TTTAAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:10016905 original size:2 final size:2
Alignment explanation
Indices: 10016900--10016938 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10016890 TCTCTCTTTC
10016900 TA TA TA 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 TA TA TA T
10016939 TTAGCTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10017217 original size:2 final size:2
Alignment explanation
Indices: 10017210--10017240 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10017200 CAATATTTAC
10017210 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10017241 ACCAAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10019099 original size:2 final size:2
Alignment explanation
Indices: 10019092--10019117 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10019082 TAAAATAGAC
10019092 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10019118 TATTTTAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10019550 original size:15 final size:15
Alignment explanation
Indices: 10019526--10019555 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10019516 AAATTATATA
10019526 TGTTTATTTATTATT
1 TGTTTATTTATTATT
*
10019541 TGTTTGTTTATTATT
1 TGTTTATTTATTATT
10019556 CATGAACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTTTATTTATTATT
Found at i:10020600 original size:108 final size:108
Alignment explanation
Indices: 10020240--10020646 Score: 667
Period size: 108 Copynumber: 3.8 Consensus size: 108
10020230 AATTTGGCTA
* * * * *
10020240 AACGTGAAATC-AAACCCAGCACCTTAGGGCACGTTTCTCAAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
* *
10020304 TTATTTTTGAAAAGTTTTTTGAAAAGGATATTTAG-CTATTTGGTCG
66 TTA-TTTTGAAAA--TTTTTGAAAAGGATATTAAGTC-ATTTGGTGG
* *
10020350 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
10020415 TTATTTTGAAAATTTTTGAAAAGG-TATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGG
10020457 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
10020522 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGG
10020565 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
10020630 TTATTTTGAAATATTTT
66 TTATTTTGAAA-ATTTT
10020647 CCTTTTAAAA
Statistics
Matches: 282, Mismatches: 11, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
107 101 0.36
108 107 0.38
109 5 0.02
110 19 0.07
111 50 0.18
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGG
Found at i:10020625 original size:215 final size:217
Alignment explanation
Indices: 10020240--10020646 Score: 678
Period size: 215 Copynumber: 1.9 Consensus size: 217
10020230 AATTTGGCTA
* *
10020240 AACGTGAAATCAAACCCAGCACCTTAGGGCACGTTTCTCAAATTTCCAAACGCAAAACATTGCCT
1 AACGAGAAATCAAACCCAGCACCTTAGGGCACGTTCCTCAAATTTCCAAACGCAAAACATTGCCT
*
10020305 TATTTTTGAAAAGTTTTTTGAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAG
66 TATTTTTGAAAAG-TTTTTGAAAAGGATATTAAGCTATTTGGTCGAACGAGAAATCGAAACCCAG
*
10020370 TACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCCTTATTTTGAAA-ATTTTTGA
130 TACCTTAGGGCACATTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATATTTTTGA
10020434 AAAGGTATTAAGTCATTTGGTGG
195 AAAGGTATTAAGTCATTTGGTGG
* * *
10020457 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATC-AAACCCAGCACCTTAGGGCACGTTCCTCAAATTTCCAAACGCAAAACATTGCC
*
10020522 TTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAG-TCATTTGGTGGAACGAGAAATCGAAACCCA
65 TTATTTTTGAAAAGTTTTTGAAAAGGATATTAAGCT-ATTTGGTCGAACGAGAAATCGAAACCCA
*
10020584 GTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATATTTT
129 GTACCTTAGGGCACATTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATATTTT
10020647 CCTTTTAAAA
Statistics
Matches: 178, Mismatches: 9, Indels: 7
0.92 0.05 0.04
Matches are distributed among these distances:
214 1 0.01
215 101 0.57
216 5 0.03
217 19 0.11
218 52 0.29
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (217 bp):
AACGAGAAATCAAACCCAGCACCTTAGGGCACGTTCCTCAAATTTCCAAACGCAAAACATTGCCT
TATTTTTGAAAAGTTTTTGAAAAGGATATTAAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
ACCTTAGGGCACATTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATATTTTTGAA
AAGGTATTAAGTCATTTGGTGG
Found at i:10022886 original size:25 final size:25
Alignment explanation
Indices: 10022858--10022906 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
10022848 ACACTCATAG
10022858 ATCCCTCACATTTTATTACATCACC
1 ATCCCTCACATTTTATTACATCACC
10022883 ATCCCTCACATTTTATTACATCAC
1 ATCCCTCACATTTTATTACATCAC
10022907 TCATACTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.37
Consensus pattern (25 bp):
ATCCCTCACATTTTATTACATCACC
Found at i:10025849 original size:4 final size:4
Alignment explanation
Indices: 10025840--10025885 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
10025830 ATCTTTTACG
10025840 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
10025886 AGATTTTCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:10033701 original size:2 final size:2
Alignment explanation
Indices: 10033696--10033721 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10033686 TATTCTTTAA
10033696 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10033722 TAAAGAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10034301 original size:13 final size:13
Alignment explanation
Indices: 10034283--10034323 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
10034273 CGGCCTGCCC
*
10034283 ATATTACTTTTTT
1 ATATTATTTTTTT
10034296 ATATTATTATTTTT
1 ATATTATT-TTTTT
*
10034310 ATATAATTTTTTT
1 ATATTATTTTTTT
10034323 A
1 A
10034324 AGAAATACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTATTTTTTT
Found at i:10034310 original size:14 final size:13
Alignment explanation
Indices: 10034290--10034323 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
10034280 CCCATATTAC
*
10034290 TTTTTTATATTAT
1 TTTTTTATATAAT
10034303 TATTTTTATATAAT
1 T-TTTTTATATAAT
10034317 TTTTTTA
1 TTTTTTA
10034324 AGAAATACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTATATAAT
Found at i:10037284 original size:57 final size:58
Alignment explanation
Indices: 10037188--10037306 Score: 186
Period size: 57 Copynumber: 2.1 Consensus size: 58
10037178 ATAAAAATTG
* ** *
10037188 TGAAAATGGAAAAATGGAAAACATTTGGAAATGAGTGTGGTTTTTTCCAAAATGACAA
1 TGAAAATGGAAAAATGGAAAACATTTGGAAATGAATGTGGTTTTCCCCAAAATGAAAA
*
10037246 TGAAAATGGAGAAATGG-AAACATTTGGAAATGAATGTGGTTTTCCCCAAAATGAAAA
1 TGAAAATGGAAAAATGGAAAACATTTGGAAATGAATGTGGTTTTCCCCAAAATGAAAA
10037303 TGAA
1 TGAA
10037307 CTGGAAATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 40 0.71
58 16 0.29
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (58 bp):
TGAAAATGGAAAAATGGAAAACATTTGGAAATGAATGTGGTTTTCCCCAAAATGAAAA
Found at i:10038834 original size:2 final size:2
Alignment explanation
Indices: 10038829--10038880 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
10038819 TATATATATA
**
10038829 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG CA TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10038871 TG TG TG TG TG
1 TG TG TG TG TG
10038881 AATCTGGTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.02, C:0.02, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:10040164 original size:184 final size:184
Alignment explanation
Indices: 10039855--10040222 Score: 664
Period size: 184 Copynumber: 2.0 Consensus size: 184
10039845 CGCCAATAGG
*
10039855 GCTAAACATAAAACTTTAAGATATTTTTACTCTGCTTGAAAATAGTGAGAGCTTATTATCAAGTA
1 GCTAAACATAAAACTTTAAGATATTGTTACTCTGCTTGAAAATAGTGAGAGCTTATTATCAAGTA
*
10039920 TTAAATCTATTTTTCGGAATAACAACTCTATTGATTTCTATTGAGAAGAGATTTTCACTTTTACA
66 TTAAATCTATTTTTCGGAATAACAACTCTATTGATTTCTATTGAGAAGAGATTTTCACTTTCACA
* *
10039985 CTAAAAGTAGAGAAAACTATTTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
131 CTAAAACTAGAGAAAACTATCTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
10040039 GCTAAACATAAAACTTTAAGATATTGTTACTCTGCTTGAAAATAGTGAGAGCTTATTATCAAGTA
1 GCTAAACATAAAACTTTAAGATATTGTTACTCTGCTTGAAAATAGTGAGAGCTTATTATCAAGTA
* * *
10040104 TTAAATCTATTTTTTGGAATAACAACTTTGTTGATTTCTATTGAGAAGAGATTTTCACTTTCACA
66 TTAAATCTATTTTTCGGAATAACAACTCTATTGATTTCTATTGAGAAGAGATTTTCACTTTCACA
*
10040169 TTAAAACTAGAGAAAACTATCTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
131 CTAAAACTAGAGAAAACTATCTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
10040223 CCACAATTGA
Statistics
Matches: 176, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
184 176 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (184 bp):
GCTAAACATAAAACTTTAAGATATTGTTACTCTGCTTGAAAATAGTGAGAGCTTATTATCAAGTA
TTAAATCTATTTTTCGGAATAACAACTCTATTGATTTCTATTGAGAAGAGATTTTCACTTTCACA
CTAAAACTAGAGAAAACTATCTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
Found at i:10046010 original size:64 final size:64
Alignment explanation
Indices: 10045909--10046031 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 64
10045899 CATGAAGAGC
* * * * *
10045909 CATATATCAGGACGCTCATAAAGAGCTGCGGTATGTCCGCAATACATGCAGGATCAATATCGAT
1 CATATAACAGGACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATGCAAGATCAATATCGAT
*
10045973 CATATAACAGGACGCTCACAAAGAGTTGCAGTATGTCCGCAACACATGCAAGATCAATA
1 CATATAACAGGACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATGCAAGATCAATA
10046032 CTAATCGGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (64 bp):
CATATAACAGGACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATGCAAGATCAATATCGAT
Found at i:10048942 original size:82 final size:82
Alignment explanation
Indices: 10048841--10049003 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 82
10048831 CAATGTTTTG
10048841 AATGCAAAATATGTCAATATTCAGTCAAAATATGCCAATACTAAGAAGAAATAGAGGCCCTTAGT
1 AATGCAAAATATGTCAATATTCAGTCAAAATATGCCAATACTAAGAAGAAATAGAGGCCCTTAGT
10048906 TGTAACCTTGAGTGATA
66 TGTAACCTTGAGTGATA
*
10048923 AATGCAAAGTATGTCAATATTCAGTCAAAATATGCCAATACTAAGAAGAAATAGAGGCCCTTAGT
1 AATGCAAAATATGTCAATATTCAGTCAAAATATGCCAATACTAAGAAGAAATAGAGGCCCTTAGT
10048988 TGTAACCTTGAGTGAT
66 TGTAACCTTGAGTGAT
10049004 GATAAGGATA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (82 bp):
AATGCAAAATATGTCAATATTCAGTCAAAATATGCCAATACTAAGAAGAAATAGAGGCCCTTAGT
TGTAACCTTGAGTGATA
Found at i:10050492 original size:22 final size:23
Alignment explanation
Indices: 10050467--10050516 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
10050457 ATTAAATAAA
10050467 ATTTATAAA-T-TAAGTTATAATT
1 ATTTATAAAGTGTAA-TTATAATT
*
10050489 ATTTTTAAATGTGTAATTATAATT
1 ATTTATAAA-GTGTAATTATAATT
10050513 ATTT
1 ATTT
10050517 CTATAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.33
24 13 0.54
25 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (23 bp):
ATTTATAAAGTGTAATTATAATT
Found at i:10051400 original size:13 final size:13
Alignment explanation
Indices: 10051378--10051415 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
10051368 TTTAGCAATG
*
10051378 CTTTTAAAAAGTA
1 CTTTTGAAAAGTA
*
10051391 CTTTTGAAAAGTG
1 CTTTTGAAAAGTA
10051404 CTTTTGAAAAGT
1 CTTTTGAAAAGT
10051416 TTGGTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:10056742 original size:24 final size:24
Alignment explanation
Indices: 10056708--10056758 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
10056698 TGATTAGAAG
*
10056708 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGTATAATAT
*
10056732 ATTTAGCATTTATTAGTATAATAT
1 ATTTAGCATTTATGAGTATAATAT
10056756 ATT
1 ATT
10056759 CGACTTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (24 bp):
ATTTAGCATTTATGAGTATAATAT
Found at i:10059224 original size:13 final size:14
Alignment explanation
Indices: 10059206--10059246 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
10059196 TTTTCAAAGA
10059206 TATGGTTTAGGA-T
1 TATGGTTTAGGACT
*
10059219 TATGGTTTATGACT
1 TATGGTTTAGGACT
*
10059233 TACGGTTTA-GACT
1 TATGGTTTAGGACT
10059246 T
1 T
10059247 TAGGGGTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (14 bp):
TATGGTTTAGGACT
Found at i:10059337 original size:25 final size:26
Alignment explanation
Indices: 10059303--10059354 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
10059293 TTGTTTGTGG
** *
10059303 TTTACGGGTTTAATTTTTATGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
10059329 TTTA-GGGTTTAAGATTTACGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
10059354 T
1 T
10059355 GCGTACTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.50
Consensus pattern (26 bp):
TTTACGGGTTTAAGATTTACGGTTAA
Found at i:10060232 original size:34 final size:35
Alignment explanation
Indices: 10060172--10060238 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
10060162 CAAACACCAG
*
10060172 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* * *
10060207 AAAACATTTTCCCG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
10060239 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:10061311 original size:16 final size:16
Alignment explanation
Indices: 10061290--10061321 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10061280 ACTTAGTAAT
10061290 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
10061306 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
10061322 GAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
TAAAAGATACAGTTAA
Found at i:10062392 original size:47 final size:47
Alignment explanation
Indices: 10062323--10062416 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
10062313 TGCTTCGATT
*
10062323 CCCCTTCCAAAAGATAATTTAGGGCTTGATTAATGCATATGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
* * * * *
10062370 CCCCTTCTAAAATATAATTTAGGATTTGATTAATGCATGTGGTGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
10062417 GTCTAGCGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (47 bp):
CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
Found at i:10063006 original size:9 final size:9
Alignment explanation
Indices: 10062992--10063373 Score: 146
Period size: 9 Copynumber: 41.6 Consensus size: 9
10062982 ATTAATATTA
*
10062992 TACATAAAT
1 TACATAACT
10063001 TACATAACT
1 TACATAACT
10063010 TA-ATTAA-T
1 TACA-TAACT
*
10063018 TA-AT-ATT
1 TACATAACT
10063025 ATACATAACT
1 -TACATAACT
10063035 TACATAACT
1 TACATAACT
10063044 TAC--AACT
1 TACATAACT
10063051 TACATAACT
1 TACATAACT
*
10063060 TACATTAATATT
1 TACA-T-A-ACT
*
10063072 ATACATAAAT
1 -TACATAACT
10063082 TACATAACT
1 TACATAACT
*
10063091 TACATTAATATT
1 TACA-T-A-ACT
*
10063103 ATACATAAAT
1 -TACATAACT
10063113 TACATAACT
1 TACATAACT
10063122 TA-ATTAA-T
1 TACA-TAACT
*
10063130 TA-AT-ATT
1 TACATAACT
10063137 ATACATAACT
1 -TACATAACT
10063147 TAC--AACT
1 TACATAACT
10063154 TACATAACT
1 TACATAACT
*
10063163 TACATTAATAT
1 TACA-TAA-CT
*
10063174 TACACATAAAT
1 T--ACATAACT
10063185 TACATAACT
1 TACATAACT
*
10063194 TACATTAATATT
1 TACA-T-A-ACT
10063206 ATACATAACT
1 -TACATAACT
*
10063216 TACCTAACT
1 TACATAACT
10063225 TA-ATTAA-T
1 TACA-TAACT
*
10063233 TA-AT-ATT
1 TACATAACT
10063240 ATACATAACT
1 -TACATAACT
10063250 TAC--AACT
1 TACATAACT
10063257 TACATAACT
1 TACATAACT
*
10063266 TACATTAATAT
1 TACA-TAA-CT
*
10063277 TACACATAAAT
1 T--ACATAACT
10063288 TACATAACT
1 TACATAACT
*
10063297 TACATTAATATT
1 TACA-T-A-ACT
*
10063309 ATACATAAAT
1 -TACATAACT
10063319 TACATAACT
1 TACATAACT
10063328 TA-ATTAA-T
1 TACA-TAACT
*
10063336 TA-AT-ATT
1 TACATAACT
10063343 ATACATAACT
1 -TACATAACT
10063353 TAC--AACT
1 TACATAACT
*
10063360 TACCTAACT
1 TACATAACT
10063369 TACAT
1 TACAT
10063374 TAATATTACA
Statistics
Matches: 298, Mismatches: 23, Indels: 104
0.70 0.05 0.24
Matches are distributed among these distances:
6 4 0.01
7 36 0.12
8 27 0.09
9 147 0.49
10 26 0.09
11 18 0.06
12 18 0.06
13 22 0.07
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (9 bp):
TACATAACT
Found at i:10063052 original size:16 final size:16
Alignment explanation
Indices: 10063031--10063063 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10063021 TATTATACAT
10063031 AACTTACATAACTTAC
1 AACTTACATAACTTAC
10063047 AACTTACATAACTTAC
1 AACTTACATAACTTAC
10063063 A
1 A
10063064 TTAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:10063085 original size:31 final size:31
Alignment explanation
Indices: 10063080--10063356 Score: 275
Period size: 31 Copynumber: 8.2 Consensus size: 31
10063070 TTATACATAA
10063080 ATTACATAACTTACATTAATATTATACATAA
1 ATTACATAACTTACATTAATATTATACATAA
*
10063111 ATTACATAACTTAATTAATTAATATTATACATAACTTACA
1 ATTACATAACTT-A--CATTAATATTATAC---A--TA-A
*
10063151 ACTTACATAACTTACATTAATATTACACATAA
1 A-TTACATAACTTACATTAATATTATACATAA
10063183 ATTACATAACTTACATTAATATTATACATAA
1 ATTACATAACTTACATTAATATTATACATAA
* * *
10063214 CTTACCTAACTTAATTAATTAATATTATACATAACTTACA
1 ATTACATAACTT-A--CATTAATATTATAC---A--TA-A
*
10063254 ACTTACATAACTTACATTAATATTACACATAA
1 A-TTACATAACTTACATTAATATTATACATAA
10063286 ATTACATAACTTACATTAATATTATACATAA
1 ATTACATAACTTACATTAATATTATACATAA
*
10063317 ATTACATAACTTAATTAATTAATATTATACATAA
1 ATTACATAACTT-A--CATTAATATTATACATAA
*
10063351 CTTACA
1 ATTACA
10063357 ACTTACCTAA
Statistics
Matches: 209, Mismatches: 14, Indels: 43
0.79 0.05 0.16
Matches are distributed among these distances:
31 92 0.44
32 7 0.03
33 4 0.02
34 48 0.23
35 2 0.01
37 2 0.01
38 24 0.11
39 4 0.02
40 5 0.02
41 21 0.10
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (31 bp):
ATTACATAACTTACATTAATATTATACATAA
Found at i:10063181 original size:103 final size:103
Alignment explanation
Indices: 10062980--10063394 Score: 704
Period size: 103 Copynumber: 3.9 Consensus size: 103
10062970 CGTAGAAGCC
10062980 ACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATAACTT
1 ACATTAATATTATACATAAATTACATAACTTAATTAATT-A-A-TAT---T-A--TACATAACTT
*
10063045 ACAACTTACATAACTTACATTAATATTATACATAAATTACATAACTT
57 ACAACTTACATAACTTACATTAATATTACACATAAATTACATAACTT
10063092 ACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAACTTAC
1 ACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAACTTAC
10063157 ATAACTTACATTAATATTACACATAAATTACATAACTT
66 ATAACTTACATTAATATTACACATAAATTACATAACTT
* *
10063195 ACATTAATATTATACATAACTTACCTAACTTAATTAATTAATATTATACATAACTTACAACTTAC
1 ACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAACTTAC
10063260 ATAACTTACATTAATATTACACATAAATTACATAACTT
66 ATAACTTACATTAATATTACACATAAATTACATAACTT
10063298 ACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAACTTAC
1 ACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAACTTAC
* *
10063363 CTAACTTACATTAATATTACACATAACTTACA
66 ATAACTTACATTAATATTACACATAAATTACA
10063395 NNNNNNNNNN
Statistics
Matches: 296, Mismatches: 7, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
103 250 0.84
105 1 0.00
106 1 0.00
109 3 0.01
110 1 0.00
111 1 0.00
112 39 0.13
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (103 bp):
ACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAACTTAC
ATAACTTACATTAATATTACACATAAATTACATAACTT
Found at i:10063187 original size:72 final size:71
Alignment explanation
Indices: 10063081--10063394 Score: 391
Period size: 72 Copynumber: 4.5 Consensus size: 71
10063071 TATACATAAA
10063081 TTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAC
1 TTACATAACTTACATTAATATTATACATAAATTACATAACTTAA-TAATTAATATTATACATAAC
10063146 TTACAAC
65 TTACAAC
* *
10063153 TTACATAACTTACATTAATATTACACATAAATTACATAACTT-A-CATTAATATTATACATAACT
1 TTACATAACTTACATTAATATTATACATAAATTACATAACTTAATAATTAATATTATACATAACT
10063216 TAC--C
66 TACAAC
* * * * *
10063220 TAACTTAA-TTA-ATTAATATTATACATAACTTAC--AACTTACATAACTTACAT-TAATA-TTA
1 TTACATAACTTACATTAATATTATACATAAATTACATAACTTA-ATAA-TTA-ATATTATACATA
*
10063279 CACATA-AA-
63 -ACTTACAAC
10063287 TTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAC
1 TTACATAACTTACATTAATATTATACATAAATTACATAACTTAA-TAATTAATATTATACATAAC
10063352 TTACAAC
65 TTACAAC
* * *
10063359 TTACCTAACTTACATTAATATTACACATAACTTACA
1 TTACATAACTTACATTAATATTATACATAAATTACA
10063395 NNNNNNNNNN
Statistics
Matches: 206, Mismatches: 19, Indels: 34
0.80 0.07 0.13
Matches are distributed among these distances:
63 5 0.02
65 21 0.10
66 6 0.03
67 24 0.12
68 5 0.02
69 45 0.22
70 12 0.06
71 14 0.07
72 74 0.36
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (71 bp):
TTACATAACTTACATTAATATTATACATAAATTACATAACTTAATAATTAATATTATACATAACT
TACAAC
Found at i:10069165 original size:87 final size:87
Alignment explanation
Indices: 10069059--10069256 Score: 267
Period size: 87 Copynumber: 2.3 Consensus size: 87
10069049 ACACAACTTA
* * *
10069059 AAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTTCAGCTA-CAAC
1 AAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAG-TAGCAAC
*
10069122 TTAAAGCAGATGCGGCAGCGAGAG
64 TTAAAGCAGATGCGACAGCGAGAG
* * * *
10069146 AAGTAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGTAGCAGCTT
1 AAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGTAGCAACTT
10069211 AAAGCAGATGCGACAGCGAGAG
66 AAAGCAGATGCGACAGCGAGAG
*
10069233 AAGCAGAGGCTAA-AGCGAGGGAAG
1 AAGCAGAGGC-AACAGCGAGAGAAG
10069257 TAGAGGCTGC
Statistics
Matches: 97, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
86 2 0.02
87 90 0.93
88 5 0.05
ACGTcount: A:0.39, C:0.17, G:0.32, T:0.12
Consensus pattern (87 bp):
AAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGTAGCAACTT
AAAGCAGATGCGACAGCGAGAG
Found at i:10069249 original size:21 final size:21
Alignment explanation
Indices: 10069225--10069264 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10069215 CAGATGCGAC
10069225 AGCGAGAGAAGCAGAGGCTAA
1 AGCGAGAGAAGCAGAGGCTAA
* *
10069246 AGCGAGGGAAGTAGAGGCT
1 AGCGAGAGAAGCAGAGGCT
10069265 GCGGCGAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.42, T:0.07
Consensus pattern (21 bp):
AGCGAGAGAAGCAGAGGCTAA
Found at i:10071930 original size:39 final size:39
Alignment explanation
Indices: 10071849--10071995 Score: 165
Period size: 39 Copynumber: 3.6 Consensus size: 39
10071839 ATTTGTTGGC
* * * *
10071849 TTACTGATTAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
10071887 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
10071926 TTACTG-TTACCGACTCAGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATT--CG-----GCACTTTGTGTGTCGAATACTGTTACTG
10071971 TTA-TCGATTCGGCACTTTGTGTGTC
1 TTACT-GATTCGGCACTTTGTGTGTC
10071996 NNNNNNNNNN
Statistics
Matches: 95, Mismatches: 4, Indels: 19
0.81 0.03 0.16
Matches are distributed among these distances:
38 16 0.17
39 40 0.42
40 2 0.02
44 3 0.03
45 32 0.34
46 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.39
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:10071947 original size:45 final size:45
Alignment explanation
Indices: 10071876--10071973 Score: 169
Period size: 45 Copynumber: 2.2 Consensus size: 45
10071866 ATGTGCCGAC
* * *
10071876 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGACTCAGCACTTTGTGTGTCGAATACTGT
10071921 TACTGTTACTGTTACCGACTCAGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGACTCAGCACTTTGTGTGTCGAATACTGT
10071966 TACTGTTA
1 TACTGTTA
10071974 TCGATTCGGC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACCGACTCAGCACTTTGTGTGTCGAATACTGT
Found at i:10073385 original size:43 final size:42
Alignment explanation
Indices: 10073336--10073659 Score: 420
Period size: 43 Copynumber: 7.6 Consensus size: 42
10073326 ACAAGCACCA
*
10073336 CTAAAGACCATGGTCTATAGTGGCGTTTTTTTCCTAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTTTTTTT-GTAAGCGCCG
** *
10073379 GGAAAGACCATGGTCTATAGTGGCG-TTTTTCGCCTAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTTTTTTTG--TAAGCGCCG
* *
10073422 CTAAAGACCATGGTCTATAGTGGCGTTTGTTGGTTAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTTTTTTTG-TAAGCGCCG
* *
10073465 CTAAAGACCATGGTCTATAGTGGCGTTATTTGGTTAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTTTTTTTG-TAAGCGCCG
* *
10073508 CTAAAGACCATGGTCTATAGTGGCGTTATTTGGTAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTTTTTTTGTAAGCGCCG
* *
10073550 CTAAAGACCACGGTCTATAGTGGCATTTTTTT-TAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTTTTTTTGTAAGCGCCG
* *
10073591 CTAAAGACCACGGTCTATAGTGGTGTTTTTATT-TAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTTTTT-TTGTAAGCGCCG
* * *
10073633 ATAAAGACCATGGACTATAGCGGCGTT
1 CTAAAGACCATGGTCTATAGTGGCGTT
10073660 GTAAAAAAAA
Statistics
Matches: 255, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
41 37 0.15
42 75 0.29
43 138 0.54
44 5 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (42 bp):
CTAAAGACCATGGTCTATAGTGGCGTTTTTTTGTAAGCGCCG
Found at i:10074636 original size:2 final size:2
Alignment explanation
Indices: 10074629--10074658 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10074619 TCTTTCATGC
10074629 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10074659 GAATGAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10075214 original size:16 final size:17
Alignment explanation
Indices: 10075193--10075237 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
10075183 ATAAAATTAT
*
10075193 ATAAAAATATT-TTAAA
1 ATAAAAATATTATAAAA
10075209 ATAAAAA-ATTATAAAA
1 ATAAAAATATTATAAAA
10075225 ATTAAAAATATTA
1 A-TAAAAATATTA
10075238 AAATTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 3 0.12
16 12 0.48
17 6 0.24
18 4 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAAAATATTATAAAA
Found at i:10075226 original size:9 final size:9
Alignment explanation
Indices: 10075181--10075689 Score: 132
Period size: 9 Copynumber: 54.9 Consensus size: 9
10075171 TTAATATTTT
*
10075181 TTATAAAAT
1 TTATAAAAA
10075190 TATATAAAAA
1 T-TATAAAAA
* *
10075200 TATTTTAAAA
1 T-TATAAAAA
10075210 -TA-AAAAA
1 TTATAAAAA
10075217 TTATAAAAA
1 TTATAAAAA
10075226 -T-TAAAAA
1 TTATAAAAA
*
10075233 -TATTAAAAT
1 TTA-TAAAAA
*
10075242 TTATATAAAC
1 TTATA-AAAA
10075252 TTATAAAACA
1 TTATAAAA-A
*
10075262 TTATAAATA
1 TTATAAAAA
*
10075271 TTATAAATA
1 TTATAAAAA
10075280 TTATAAAAA
1 TTATAAAAA
10075289 -TATAAAAA
1 TTATAAAAA
*
10075297 TCTA-ATAAA
1 T-TATAAAAA
10075306 TTATAAAAA
1 TTATAAAAA
*
10075315 -AAGTATAAAA
1 TTA-TA-AAAA
*
10075325 TTAATATTGACATA
1 TT-ATA---A-AAA
10075339 TT-T-AAAA
1 TTATAAAAA
*
10075346 TGT-TAAAATT
1 T-TATAAAA-A
10075356 TTATAAAAA
1 TTATAAAAA
10075365 GTTAT-AAAA
1 -TTATAAAAA
* * *
10075374 TTCTTAGAA
1 TTATAAAAA
*
10075383 TAAATAAAAA
1 T-TATAAAAA
* *
10075393 TCATATAAA
1 TTATAAAAA
*
10075402 TATAAAAAAA
1 T-TATAAAAA
10075412 TTATCAAAAA
1 TTAT-AAAAA
* *
10075422 TCAT-TAAA
1 TTATAAAAA
*
10075430 TTAT-TAAA
1 TTATAAAAA
*
10075438 TTAT-TAAA
1 TTATAAAAA
*
10075446 -TATTAAAAT
1 TTA-TAAAAA
*
10075455 TTATATAAAC
1 TTATA-AAAA
*
10075465 TTATAAAAT
1 TTATAAAAA
10075474 TTATACAAGAAA
1 TTAT--AA-AAA
*
10075486 TGA-AAAAA
1 TTATAAAAA
* *
10075494 TCATTAAAAC
1 TTA-TAAAAA
*
10075504 TTATAAATA
1 TTATAAAAA
10075513 TTATAAAAA
1 TTATAAAAA
10075522 -TATTAAAAA
1 TTA-TAAAAA
*
10075531 TCTA-ATAAA
1 T-TATAAAAA
10075540 TTATCAAAAA
1 TTAT-AAAAA
*
10075550 TTAT-CAAA
1 TTATAAAAA
10075558 TATATATAAAA
1 T-TATA-AAAA
10075569 TTAATAAAATA
1 TT-ATAAAA-A
*
10075580 TGTTTAAAATA
1 T-TATAAAA-A
**
10075591 TT-TAAACTT
1 TTATAAA-AA
10075600 TTATAAAAA
1 TTATAAAAA
10075609 TTCATAAAAA
1 TT-ATAAAAA
*
10075619 TTGTAAACAA
1 TTATAAA-AA
*
10075629 -TGTAAAAA
1 TTATAAAAA
10075637 TTATAATAAA
1 TTATAA-AAA
*
10075647 TTTTAAAAA
1 TTATAAAAA
* *
10075656 ATAAAAACATA
1 TTATAAA-A-A
10075667 TTA-AAAAA
1 TTATAAAAA
10075675 TT-TAAAAA
1 TTATAAAAA
10075683 TTA-AAAA
1 TTATAAAA
10075690 TGATATAAAA
Statistics
Matches: 381, Mismatches: 62, Indels: 115
0.68 0.11 0.21
Matches are distributed among these distances:
7 16 0.04
8 69 0.18
9 135 0.35
10 123 0.32
11 26 0.07
12 7 0.02
13 1 0.00
14 4 0.01
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:10075240 original size:15 final size:15
Alignment explanation
Indices: 10075194--10075242 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
10075184 TAAAATTATA
10075194 TAAAAATATTTTAAAAT
1 TAAAAATA--TTAAAAT
* *
10075211 AAAAAATTATAAAAAT
1 TAAAAA-TATTAAAAT
10075227 TAAAAATATTAAAAT
1 TAAAAATATTAAAAT
10075242 T
1 T
10075243 TATATAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 9 0.33
16 11 0.41
17 5 0.19
18 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAAATATTAAAAT
Found at i:10075315 original size:28 final size:27
Alignment explanation
Indices: 10075228--10075330 Score: 86
Period size: 28 Copynumber: 3.7 Consensus size: 27
10075218 TATAAAAATT
*
10075228 AAAAATATTAAAATTTATATAAACTTATAA
1 AAAAATA-TAAAAATTA-ATAAA-TTATAA
* * * *
10075258 AACATTATAAATATT-ATAAA-TATTAT
1 AAAAATATAAAAATTAATAAATTA-TAA
10075284 AAAAATATAAAAATCTAATAAATTATAA
1 AAAAATATAAAAAT-TAATAAATTATAA
10075312 AAAAAGTAT-AAAATTAATA
1 AAAAA-TATAAAAATTAATA
10075331 TTGACATATT
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
25 2 0.03
26 13 0.22
27 11 0.19
28 17 0.29
29 11 0.19
30 5 0.08
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (27 bp):
AAAAATATAAAAATTAATAAATTATAA
Done.