Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 55 of 433
Found at i:15468306 original size:47 final size:47
Alignment explanation
Indices: 15468197--15468308 Score: 129
Period size: 47 Copynumber: 2.4 Consensus size: 47
15468187 CCGGGATAAG
* * *
15468197 CACATAGTGCTTCATCGAAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGAAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
15468244 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGAAACAAATCCGAAACTTTAACAGTA-TAGTA
15468291 CACATAGTG-TCTCATCGA
1 CACATAGTGCT-TCATCGA
15468309 CTCAATGTCG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGAAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:15473080 original size:27 final size:27
Alignment explanation
Indices: 15473050--15473109 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
15473040 TAAGTGACAT
15473050 AAACTCTTCACTATACTTATTACTTAA
1 AAACTCTTCACTATACTTATTACTTAA
*
15473077 AAACTCTTCACTATACTTATTAGTTAA
1 AAACTCTTCACTATACTTATTACTTAA
*
15473104 GAACTC
1 AAACTC
15473110 AATATGTCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (27 bp):
AAACTCTTCACTATACTTATTACTTAA
Found at i:15474000 original size:18 final size:20
Alignment explanation
Indices: 15473969--15474005 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
15473959 TTCATAATTT
15473969 TGTTAATATAATAAATTTGG
1 TGTTAATATAATAAATTTGG
15473989 TGTTAAT-T-ATAAATTTG
1 TGTTAATATAATAAATTTG
15474006 TTTAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.49
Consensus pattern (20 bp):
TGTTAATATAATAAATTTGG
Found at i:15474152 original size:24 final size:23
Alignment explanation
Indices: 15474116--15474164 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
15474106 AATAAAACAC
* *
15474116 TAAAAACTTAAATATTATTACTTT
1 TAAAAACTAAAATA-TATAACTTT
*
15474140 TAAATACTAAAATATATAACTTT
1 TAAAAACTAAAATATATAACTTT
15474163 TA
1 TA
15474165 TTCATATTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAAAACTAAAATATATAACTTT
Found at i:15475297 original size:24 final size:23
Alignment explanation
Indices: 15475270--15475333 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
15475260 TTATTAACAT
15475270 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTA-A
* * **
15475294 TGTTCATGAGCATGTTCGTTTAA
1 TGTTCGTGAACATGTTCAATTAA
*
15475317 TGTTTGTGAACATGTTC
1 TGTTCGTGAACATGTTC
15475334 GACTAAGTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
23 15 0.45
24 18 0.55
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.44
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCAATTAA
Found at i:15475419 original size:27 final size:27
Alignment explanation
Indices: 15475366--15475424 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
15475356 CGGTGAACAC
* * *
15475366 TAAACAAACGAAAATAAACACATATTT
1 TAAATAAACGAAAATAAACAAAAATTT
* *
15475393 TAAATAAACGAACATGAACAAAAATTT
1 TAAATAAACGAAAATAAACAAAAATTT
*
15475420 AAAAT
1 TAAAT
15475425 TCTAAATGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (27 bp):
TAAATAAACGAAAATAAACAAAAATTT
Found at i:15476798 original size:17 final size:17
Alignment explanation
Indices: 15476762--15476820 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
15476752 CAAAACAAAT
*
15476762 AAAAGAAA-AAGAATAGA
1 AAAAGAAACAA-AGTAGA
15476779 AAAAGAAACAAAGTTA-A
1 AAAAGAAACAAAG-TAGA
* *
15476796 AAATGAAACAGAGTAGA
1 AAAAGAAACAAAGTAGA
15476813 AAAAGAAA
1 AAAAGAAA
15476821 GAAAAGAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 2 0.06
17 29 0.83
18 4 0.11
ACGTcount: A:0.71, C:0.03, G:0.17, T:0.08
Consensus pattern (17 bp):
AAAAGAAACAAAGTAGA
Found at i:15476832 original size:34 final size:33
Alignment explanation
Indices: 15476762--15476833 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
15476752 CAAAACAAAT
*
15476762 AAAAGAAAAAGAATAGAAAAAGAAACAAAGTTAA
1 AAAAGAAAAAGAATAGAAAAAGAAAAAAAG-TAA
* * *
15476796 AAATGAAACAGAGTAGAAAAAGAAAGAAAAG-AA
1 AAAAGAAAAAGAATAGAAAAAGAAA-AAAAGTAA
15476829 AAAAG
1 AAAAG
15476834 GAAAGAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
33 6 0.19
34 22 0.69
35 4 0.12
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.07
Consensus pattern (33 bp):
AAAAGAAAAAGAATAGAAAAAGAAAAAAAGTAA
Found at i:15486752 original size:11 final size:11
Alignment explanation
Indices: 15486736--15486769 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
15486726 ATGTCAAATC
*
15486736 ATCAAGAATAA
1 ATCAAGAACAA
15486747 ATCAAGAACAA
1 ATCAAGAACAA
15486758 ATCAAGAACAA
1 ATCAAGAACAA
15486769 A
1 A
15486770 ACTAGATGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.65, C:0.15, G:0.09, T:0.12
Consensus pattern (11 bp):
ATCAAGAACAA
Found at i:15498238 original size:13 final size:13
Alignment explanation
Indices: 15498220--15498246 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15498210 TTTTGCTCCA
15498220 AGGAAGATAGAGG
1 AGGAAGATAGAGG
15498233 AGGAAGATAGAGG
1 AGGAAGATAGAGG
15498246 A
1 A
15498247 CACACAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.44, T:0.07
Consensus pattern (13 bp):
AGGAAGATAGAGG
Found at i:15499512 original size:50 final size:50
Alignment explanation
Indices: 15499452--15499641 Score: 188
Period size: 50 Copynumber: 3.8 Consensus size: 50
15499442 GGGAGATATA
* * *
15499452 AGAGCTAGTGTAAGACCATGTCTGGGACATGACATCAACACCGATAGATG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATG
* * * * *
15499502 AGAGCCAGTGTAATACCATATCTGGGACATGGCATTGGC-CTCGATATATG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAC-CGATAGATG
** * * ***
15499552 AGAGTTAGTGTAAGACCATGCCTGGGACATGGCATTGACTTTGAT-G-TG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATG
* * *
15499600 TGAGCCAGTGTAAGACCATGTCCGAGACATGGCATCGACACC
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACC
15499642 TTACCCTATG
Statistics
Matches: 111, Mismatches: 27, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
48 34 0.31
49 1 0.01
50 76 0.68
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGATAGATG
Found at i:15499629 original size:98 final size:100
Alignment explanation
Indices: 15499447--15499634 Score: 236
Period size: 100 Copynumber: 1.9 Consensus size: 100
15499437 TGCTAGGGAG
*
15499447 ATATAAGAGCTAGTGTAAGACCATGTCTGGGACATGACATCAACACCGATAGATGAGAGCCAGTG
1 ATATAAGAGCTAGTGTAAGACCATGCCTGGGACATGACATCAACACCGATAGATGAGAGCCAGTG
* * *
15499512 TAATACCATATCTGGGACATGGCATTGGCCTCGAT
66 TAAGACCATATCCGAGACATGGCATTGGCCTCGAT
* * * ** *** *
15499547 ATATGAGAGTTAGTGTAAGACCATGCCTGGGACATGGCATTGACTTTGAT-G-TGTGAGCCAGTG
1 ATATAAGAGCTAGTGTAAGACCATGCCTGGGACATGACATCAACACCGATAGATGAGAGCCAGTG
*
15499610 TAAGACCATGTCCGAGACATGGCAT
66 TAAGACCATATCCGAGACATGGCAT
15499635 CGACACCTTA
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
98 32 0.43
99 1 0.01
100 41 0.55
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (100 bp):
ATATAAGAGCTAGTGTAAGACCATGCCTGGGACATGACATCAACACCGATAGATGAGAGCCAGTG
TAAGACCATATCCGAGACATGGCATTGGCCTCGAT
Found at i:15511427 original size:11 final size:11
Alignment explanation
Indices: 15511411--15511436 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15511401 AATTTTCGCA
15511411 GTTTGTAAAGG
1 GTTTGTAAAGG
15511422 GTTTGTAAAGG
1 GTTTGTAAAGG
15511433 GTTT
1 GTTT
15511437 CTCAATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (11 bp):
GTTTGTAAAGG
Found at i:15515596 original size:40 final size:40
Alignment explanation
Indices: 15515506--15515711 Score: 299
Period size: 40 Copynumber: 5.2 Consensus size: 40
15515496 TATTCGGATG
**
15515506 ATATCCGGGCTAAGTCCCGAAGGCA-CGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
15515545 ATATCCGGGCTAAGTCCCAAAGGCATTTGTTCTACTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
15515585 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
15515625 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
15515665 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
15515705 ATATCCG
1 ATATCCG
15515712 ACTGAATCCC
Statistics
Matches: 149, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 24 0.16
40 123 0.83
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:15527013 original size:24 final size:24
Alignment explanation
Indices: 15526981--15527030 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
15526971 CTTGTGTCAC
15526981 ATTTTAATAGAAACAAAAATAATA
1 ATTTTAATAGAAACAAAAATAATA
15527005 ATTTTAATAGAAACAAAAATAATA
1 ATTTTAATAGAAACAAAAATAATA
15527029 AT
1 AT
15527031 CATTTAGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (24 bp):
ATTTTAATAGAAACAAAAATAATA
Found at i:15529258 original size:73 final size:73
Alignment explanation
Indices: 15529181--15529318 Score: 172
Period size: 73 Copynumber: 1.9 Consensus size: 73
15529171 AGCTCATAAA
* * *
15529181 AGCCAT-AATCGGGAAGCTCATGCGAGCCAATAAT-AGGTAGCTCCAAAGAGCCATTAAACAGGA
1 AGCCATGAATCGGGAAGCTCAAGCAAGCC-AT-ATCAGGAAGCTCCAAAGAGCCATTAAACAGGA
15529244 AGCTCTGGAT
64 AGCTCTGGAT
* * * * *
15529254 AGCCATGTATCGGGAAGTTCAAGCAAGCCATATCGGGAAGCTCCGAAGAGCCATTAATCAGGAAG
1 AGCCATGAATCGGGAAGCTCAAGCAAGCCATATCAGGAAGCTCCAAAGAGCCATTAAACAGGAAG
15529319 GTCACAAAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
72 2 0.04
73 35 0.64
74 18 0.33
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (73 bp):
AGCCATGAATCGGGAAGCTCAAGCAAGCCATATCAGGAAGCTCCAAAGAGCCATTAAACAGGAAG
CTCTGGAT
Found at i:15529855 original size:10 final size:10
Alignment explanation
Indices: 15529840--15529866 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
15529830 TATACGAGTA
15529840 AATTTAACTC
1 AATTTAACTC
15529850 AATTTAACTC
1 AATTTAACTC
15529860 AATTTAA
1 AATTTAA
15529867 TACAATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTTAACTC
Found at i:15532294 original size:50 final size:50
Alignment explanation
Indices: 15532214--15532319 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
15532204 AAATTGTAAA
15532214 AAAGTAAAACTTTCTTTCTTTCTCTCTTCTTCTCACGTTAGTTTGCATGGG
1 AAAG-AAAACTTTCTTTCTTTCTCTCTTCTTCTCACGTTAGTTTGCATGGG
15532265 AAAGAAAACTTTCTTTCTTTCTCTCTTCTTCTCACGTTAGTTTGCATGGG
1 AAAGAAAACTTTCTTTCTTTCTCTCTTCTTCTCACGTTAGTTTGCATGGG
15532315 AAAGA
1 AAAGA
15532320 TAATTGATGG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 51 0.93
51 4 0.07
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (50 bp):
AAAGAAAACTTTCTTTCTTTCTCTCTTCTTCTCACGTTAGTTTGCATGGG
Found at i:15532450 original size:30 final size:31
Alignment explanation
Indices: 15532383--15532451 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
15532373 TATAGACTAA
* *
15532383 ATAAAATAATAAAATATCTTATTAAAATATT
1 ATAAAATAATAAAATATCTAATTAAAATACT
* *
15532414 AAAAAATAAT-AATTATCTAATT-AAATAACT
1 ATAAAATAATAAAATATCTAATTAAAAT-ACT
15532444 ATAAAATA
1 ATAAAATA
15532452 TCACTAACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 4 0.12
30 19 0.59
31 9 0.28
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
ATAAAATAATAAAATATCTAATTAAAATACT
Found at i:15534537 original size:2 final size:2
Alignment explanation
Indices: 15534530--15534566 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15534520 ATTTCTTTCT
15534530 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 T
15534567 TCAGTACGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15534699 original size:23 final size:24
Alignment explanation
Indices: 15534653--15534699 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15534643 ATACACGGAT
*
15534653 TCCAACCCAAACACACCAGTAATA
1 TCCAACCAAAACACACCAGTAATA
*
15534677 TCCAACCAAAACACATCAG-AATA
1 TCCAACCAAAACACACCAGTAATA
15534700 ATCATGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.49, C:0.34, G:0.04, T:0.13
Consensus pattern (24 bp):
TCCAACCAAAACACACCAGTAATA
Found at i:15535235 original size:46 final size:46
Alignment explanation
Indices: 15535185--15535342 Score: 246
Period size: 46 Copynumber: 3.4 Consensus size: 46
15535175 TGCCATAATG
* * * * *
15535185 TCTTTCAACTATGGTCTTACTCATTTTC-TGTTAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTA
*
15535231 TCTTTCAACCATGGTCTTCCACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
15535277 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
15535323 TCTTTCAACCATGGTCTTAC
1 TCTTTCAACCATGGTCTTAC
15535343 TCGTCTGAAT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 4 0.04
46 100 0.96
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
Found at i:15535455 original size:33 final size:33
Alignment explanation
Indices: 15535403--15535558 Score: 104
Period size: 33 Copynumber: 4.7 Consensus size: 33
15535393 TCTGGTATGA
* * *
15535403 TGCCATAGTCCAACTATGGTCTTACACGTGTAT
1 TGCCATAGCCCAGCCATGGTCTTACACGTGTAT
* * **
15535436 TGCCATGGCCTAGCCATGGTCTTACAC-TCGTGG
1 TGCCATAGCCCAGCCATGGTCTTACACGT-GTAT
* **
15535469 TGCCATATCCCAGATATGGTCTTATCATCAG-G-A-
1 TGCCATAGCCCAGCCATGGTCTTA-CA-C-GTGTAT
* * * * *
15535502 TGCCATAGCCTAGCTATAGTCTTACACATATAT
1 TGCCATAGCCCAGCCATGGTCTTACACGTGTAT
*
15535535 TGCCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAGCCATGGTCTTA
15535559 TCCGTCAATT
Statistics
Matches: 92, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
31 1 0.01
32 4 0.04
33 83 0.90
34 2 0.02
35 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (33 bp):
TGCCATAGCCCAGCCATGGTCTTACACGTGTAT
Found at i:15538336 original size:8 final size:8
Alignment explanation
Indices: 15538294--15538318 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15538284 ATATAGACTA
15538294 AATAAAAT
1 AATAAAAT
15538302 AATAAAAT
1 AATAAAAT
15538310 AATAAAAT
1 AATAAAAT
15538318 A
1 A
15538319 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:15538342 original size:29 final size:31
Alignment explanation
Indices: 15538291--15538359 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
15538281 TATATATAGA
*
15538291 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
15538320 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
15538351 CTAATTAAA
1 CTAATTAAA
15538360 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:15538629 original size:29 final size:30
Alignment explanation
Indices: 15538572--15538639 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
15538562 CACCCTTAAA
* * * * *
15538572 ATATTTGCACTATTAGTCCTTCAACTTTTT
1 ATATTTACACTATTAATCCCTCAAATTTTG
15538602 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTG
15538631 AGTATTTAC
1 A-TATTTAC
15538640 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTG
Found at i:15552042 original size:39 final size:43
Alignment explanation
Indices: 15551995--15552103 Score: 118
Period size: 46 Copynumber: 2.5 Consensus size: 43
15551985 GTGTCGATAC
* *
15551995 CATGTCCCA-A-A-CTTACACTGAC-ACATCTCGTAGCTGATG
1 CATGTCCCAGACATCTTACACTGACTACATCTCGAAGCCGATG
*
15552034 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATG
1 CATGTCCCAGACA--TCTTACACTGAC-TACATCTCGAAGCCGATG
15552080 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACA--TCTTACACT
15552104 AGCTCTCATC
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
39 9 0.15
40 1 0.02
41 1 0.02
44 10 0.17
46 39 0.65
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (43 bp):
CATGTCCCAGACATCTTACACTGACTACATCTCGAAGCCGATG
Found at i:15552080 original size:46 final size:47
Alignment explanation
Indices: 15552017--15552182 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 47
15552007 TTACACTGAC
* *
15552017 ACATCTCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT-T
1 ACATCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
*
15552063 ACATCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
1 ACATCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
**
15552110 -CATCTC-AATATCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
1 ACATCTCGAA-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT
* **
15552158 -CATAAT-GTGGCCGATGCATGTCCCA
1 ACAT-CTCGAAGCCGATGCATGTCCCA
15552183 AACTTGTTTT
Statistics
Matches: 103, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
45 2 0.02
46 53 0.51
47 24 0.23
48 23 0.22
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
ACATCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
Found at i:15559221 original size:40 final size:40
Alignment explanation
Indices: 15559094--15559223 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
15559084 TTGCTGGAAA
* *
15559094 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * * **
15559134 CTACATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
15559174 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
15559214 TTATATCCGG
1 TTATATCCGG
15559224 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 4 0.05
40 70 0.95
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:15562874 original size:48 final size:48
Alignment explanation
Indices: 15562455--15562873 Score: 477
Period size: 48 Copynumber: 8.7 Consensus size: 48
15562445 TAAAGTACCA
* * ** *
15562455 ATGCCATGTCCCCGACATGGTCTTACATGAATC-CACATATCATCATCG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACACATATCATCACCG
* *
15562503 ATGCCAAGTCCCAGACATGGTCTTACACTGGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* **
15562551 ATGCCATGTCCCAAACATGGTCTTACATTGGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* ** ** *
15562599 ATGCCATGTCCCCA-ACATGGTCTTACATGAATC-CACATATCATCGTCA
1 ATGCCATGT-CCCAGACATGGTCTTACA-CAGGCACACATATCATCACCG
* * ** *
15562647 ATGCCATATCCCATACATGGTCTTACATTGGCACACATATCTTC-CCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACC-G
* * *
15562695 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* * **
15562743 ATGCCATGTCCCAGACATGGTTTTACACAGGCACATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* * * *
15562791 ATGCCATGTCCAAGACATGGTTTTACACAGGCACATATATCATCATCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
*
15562839 ATGCCATGTCCTAGACATGGTCTTACACAGGCACA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACA
15562874 TTTAGCACGG
Statistics
Matches: 325, Mismatches: 39, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
47 7 0.02
48 311 0.96
49 7 0.02
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
Found at i:15562874 original size:144 final size:144
Alignment explanation
Indices: 15562451--15562874 Score: 575
Period size: 144 Copynumber: 2.9 Consensus size: 144
15562441 CAATTAAAGT
* * *
15562451 ACCAATGCCATGTCCCCGACATGGTCTTACATGAATCCACATATCATCATCGATGCCAAGTCCCA
1 ACCAATGCCATGTCCCAGACATGGTCTTACATGAATCCACATATCATCGTCGATGCCATGTCCCA
* **
15562516 GACATGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACATTG
66 GACATGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAG
*
15562581 GCACACATATCATC
131 GCACATATATCATC
* * *
15562595 ACCGATGCCATGTCCCCA-ACATGGTCTTACATGAATCCACATATCATCGTCAATGCCATATCCC
1 ACCAATGCCATGT-CCCAGACATGGTCTTACATGAATCCACATATCATCGTCGATGCCATGTCCC
* * *
15562659 ATACATGGTCTTACATTGGCACACATATCTTC-CCTGATGCCATGTCCCAGACATGGTCTTACAC
65 AGACATGGTCTTACACTGGCACACATATCATCACC-GATGCCATGTCCCAGACATGGTCTTACAC
15562723 AGGCACATATATCATC
129 AGGCACATATATCATC
* * * ** * *
15562739 GCCAATGCCATGTCCCAGACATGGTTTTACA-CAGGCACATATATCATCGTCGATGCCATGTCCA
1 ACCAATGCCATGTCCCAGACATGGTCTTACATGAATC-CACATATCATCGTCGATGCCATGTCCC
* * * * *
15562803 AGACATGGTTTTACACAGGCACATATATCATCATCGATGCCATGTCCTAGACATGGTCTTACACA
65 AGACATGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACA
15562868 GGCACAT
130 GGCACAT
15562875 TTAGCACGGT
Statistics
Matches: 244, Mismatches: 31, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
143 8 0.03
144 232 0.95
145 4 0.02
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (144 bp):
ACCAATGCCATGTCCCAGACATGGTCTTACATGAATCCACATATCATCGTCGATGCCATGTCCCA
GACATGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAG
GCACATATATCATC
Found at i:15563598 original size:71 final size:71
Alignment explanation
Indices: 15563482--15563624 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
15563472 CTTCCATTAG
15563482 ACATCAAAGCACGAGCATGTCATTCATGGGTATGTTTTTGAACATGAACCCTAGCTCAAATTAAA
1 ACATCAAAGCACGAGCATGTCATTCATGGGTATGTTTTTGAACATGAACCCTAGCTCAAATTAAA
15563547 GGTAGA
66 GGTAGA
15563553 ACATCAAAGCACGAGCATGTCATTCATGGGTATGTTTTTGAACATGAACCCTAGCTCAAATTAAA
1 ACATCAAAGCACGAGCATGTCATTCATGGGTATGTTTTTGAACATGAACCCTAGCTCAAATTAAA
15563618 GGTAGA
66 GGTAGA
15563624 A
1 A
15563625 ATAGCCAAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (71 bp):
ACATCAAAGCACGAGCATGTCATTCATGGGTATGTTTTTGAACATGAACCCTAGCTCAAATTAAA
GGTAGA
Found at i:15570517 original size:48 final size:47
Alignment explanation
Indices: 15570446--15570664 Score: 215
Period size: 48 Copynumber: 4.6 Consensus size: 47
15570436 ATTAAAGTAC
* ** *
15570446 CAATGCAATGTCCCCGACATGGTCTTACAT-GAATCCACATATCATCGT
1 CAATGCCATGTCCCAAACATGGTCTTACATGGCA--CACATATCATCGT
*
15570494 CAATGTCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGT
1 CAATGCCATGTCCCAAACATGGTCTTACA-TGGCACACATATCATCGT
* * * * *
15570542 CGATGCCATGTTCCAAACATGGTCTTACATAGGCACATAAATCATCAT
1 CAATGCCATGTCCCAAACATGGTCTTACAT-GGCACACATATCATCGT
* * * * * **
15570590 CGATGCCATGTCCCAGACATGGTTTTACACAGGCACATATATCATCAC
1 CAATGCCATGTCCCAAACATGGTCTTACA-TGGCACACATATCATCGT
* *
15570638 CGATGCCATGTCCCAGACATGGTCTTA
1 CAATGCCATGTCCCAAACATGGTCTTA
15570665 TACAGGTACA
Statistics
Matches: 149, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
47 1 0.01
48 145 0.97
49 1 0.01
50 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (47 bp):
CAATGCCATGTCCCAAACATGGTCTTACATGGCACACATATCATCGT
Found at i:15570670 original size:48 final size:48
Alignment explanation
Indices: 15570484--15570675 Score: 249
Period size: 48 Copynumber: 4.0 Consensus size: 48
15570474 ATGAATCCAC
* * * * *
15570484 ATATCATCGTCAATGTCATGTCCCAAACATGGTCTTACACTGGCACAC
1 ATATCATCATCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
* * *
15570532 ATATCATCGTCGATGCCATGTTCCAAACATGGTCTTACATAGGCACAT
1 ATATCATCATCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
* * *
15570580 AAATCATCATCGATGCCATGTCCCAGACATGGTTTTACACAGGCACAT
1 ATATCATCATCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
* * * *
15570628 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTATACAGGTACAT
1 ATATCATCATCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
15570676 TTAGCACGGT
Statistics
Matches: 127, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 127 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (48 bp):
ATATCATCATCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
Found at i:15578456 original size:44 final size:42
Alignment explanation
Indices: 15578382--15578463 Score: 110
Period size: 44 Copynumber: 1.9 Consensus size: 42
15578372 TATTCTATTT
* * *
15578382 AACCAAATAATTAATATTATTACTTGTCTATTCCATTCAACC
1 AACCAAACAATTAATATTATTACCTCTCTATTCCATTCAACC
*
15578424 AACCAAACAATGTAATATTTATTACCTCTCTATTTCATTC
1 AACCAAACAAT-TAATA-TTATTACCTCTCTATTCCATTC
15578464 CCATCGAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 10 0.29
43 5 0.15
44 19 0.56
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (42 bp):
AACCAAACAATTAATATTATTACCTCTCTATTCCATTCAACC
Found at i:15579982 original size:13 final size:14
Alignment explanation
Indices: 15579959--15580001 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
15579949 AAGGTTTAAA
15579959 AATATTTAAATATT
1 AATATTTAAATATT
15579973 AATA-TTAAATATT
1 AATATTTAAATATT
* *
15579986 ATTACTTTCAATATT
1 AATA-TTTAAATATT
15580001 A
1 A
15580002 TCACACGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.48
14 4 0.16
15 9 0.36
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:15580306 original size:3 final size:3
Alignment explanation
Indices: 15580295--15580337 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
15580285 TGTTTTTTTC
15580295 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
15580338 TCTCCTTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:15581609 original size:7 final size:6
Alignment explanation
Indices: 15581592--15581662 Score: 54
Period size: 6 Copynumber: 11.3 Consensus size: 6
15581582 AAGTACGACC
* ** *
15581592 AGAAAA AGAAAA AGGAAAA TAGAAATA CG-ACC AGAAAA AGAAAA AGGAAA
1 AGAAAA AGAAAA A-GAAAA -AGAAA-A AGAAAA AGAAAA AGAAAA AGAAAA
*
15581642 AGAAAA AAAGAAA AGAAAA AG
1 AGAAAA AGA-AAA AGAAAA AG
15581663 GGAAGAAAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
5 1 0.02
6 32 0.64
7 15 0.30
8 2 0.04
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.03
Consensus pattern (6 bp):
AGAAAA
Found at i:15581621 original size:32 final size:32
Alignment explanation
Indices: 15581579--15581642 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
15581569 AGATGAAGCG
*
15581579 TAGAAGTACGACCAGAAAAAGAAAAAGGAAAA
1 TAGAAATACGACCAGAAAAAGAAAAAGGAAAA
15581611 TAGAAATACGACCAGAAAAAGAAAAAGGAAAA
1 TAGAAATACGACCAGAAAAAGAAAAAGGAAAA
15581643 GAAAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.64, C:0.09, G:0.20, T:0.06
Consensus pattern (32 bp):
TAGAAATACGACCAGAAAAAGAAAAAGGAAAA
Found at i:15581648 original size:13 final size:13
Alignment explanation
Indices: 15581627--15581666 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
15581617 TACGACCAGA
15581627 AAAAG-AAAAAGG
1 AAAAGAAAAAAGG
*
15581639 AAAAGAAAAAAAG
1 AAAAGAAAAAAGG
*
15581652 AAAAGAAAAAGGG
1 AAAAGAAAAAAGG
15581665 AA
1 AA
15581667 GAAAATGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAGG
Found at i:15581966 original size:31 final size:32
Alignment explanation
Indices: 15581898--15581970 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
15581888 TTAACCTTAC
*
15581898 AATAAATTATTAATATTATATATTGTTTTAAT
1 AATAAATTATTAATATTACATATTGTTTTAAT
15581930 -A-AAATTATCTAATATTACAT-TT-TTTTAAT
1 AATAAATTAT-TAATATTACATATTGTTTTAAT
15581959 AATAAATT-TTAA
1 AATAAATTATTAA
15581971 CTTTGACCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
29 10 0.27
30 11 0.30
31 16 0.43
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (32 bp):
AATAAATTATTAATATTACATATTGTTTTAAT
Found at i:15584408 original size:27 final size:26
Alignment explanation
Indices: 15584368--15584418 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
15584358 GCTTGGATCA
15584368 ATGAAATGTGGGAATAGATGAACTTT
1 ATGAAATGTGGGAATAGATGAACTTT
*
15584394 ATGAATATGTTGGAATAGATGAACT
1 ATGAA-ATGTGGGAATAGATGAACT
15584419 AAAATTCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.31
Consensus pattern (26 bp):
ATGAAATGTGGGAATAGATGAACTTT
Found at i:15586622 original size:2 final size:2
Alignment explanation
Indices: 15586615--15586647 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15586605 AATTACCAAC
15586615 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15586648 TTTAAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15587771 original size:2 final size:2
Alignment explanation
Indices: 15587759--15587788 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15587749 TTCTTGGATA
*
15587759 CT CT CT GT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15587789 GACATATGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15589478 original size:30 final size:30
Alignment explanation
Indices: 15589444--15589517 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
15589434 CTTAGGAGGA
15589444 CATTTAGGAACTTGAGAAGACCCGATATCT
1 CATTTAGGAACTTGAGAAGACCCGATATCT
* * *
15589474 CATTTA-GAAGCTTGGGAAGTCTCGATATCT
1 CATTTAGGAA-CTTGAGAAGACCCGATATCT
* *
15589504 CATTCAGGATCTTG
1 CATTTAGGAACTTG
15589518 GGATTGAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 3 0.08
30 32 0.86
31 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (30 bp):
CATTTAGGAACTTGAGAAGACCCGATATCT
Found at i:15589565 original size:66 final size:65
Alignment explanation
Indices: 15589455--15589633 Score: 182
Period size: 66 Copynumber: 2.7 Consensus size: 65
15589445 ATTTAGGAAC
* * * * * * *
15589455 TTGAGAAGACCCGATATCTCATT-TAGAAGCTTGGGAAGTCTCGATATCTCATTCAGGAT-CTTG
1 TTGAGAAGACCTGATACCTCGTTCAAG-AGCTTGGGAAG-ATCGATATCGCATTCAGG-TGCTTA
15589518 GGA
63 GGA
* *
15589521 TTGAGAAGACCTGATACCTTGTTCAAGAGCTTGGGAAGAATCGATATCGCATTTAGGTGCTTAGG
1 TTGAGAAGACCTGATACCTCGTTCAAGAGCTTGGGAAG-ATCGATATCGCATTCAGGTGCTTAGG
15589586 A
65 A
* * * *
15589587 TTGAGAAGACTTGATATCTCGTTTAGGAGCTTGGGAAGATCAGATAT
1 TTGAGAAGACCTGATACCTCGTTCAAGAGCTTGGGAAGATC-GATAT
15589634 TTGATTTTTC
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
65 4 0.04
66 89 0.94
67 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (65 bp):
TTGAGAAGACCTGATACCTCGTTCAAGAGCTTGGGAAGATCGATATCGCATTCAGGTGCTTAGGA
Found at i:15601418 original size:47 final size:46
Alignment explanation
Indices: 15601222--15601578 Score: 241
Period size: 47 Copynumber: 7.6 Consensus size: 46
15601212 ATATATTGCC
* * *
15601222 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGTGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCT-C-TGTGCT
* * * *
15601272 GATGCATGTCCAAGACATGTCTTATACTAGCA--CAACTCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGT-GCT
* * * *
15601316 GATGCGTGTCCCAGACACGCCTTACACT-G-GCT-ATCTCTGTCGAGACT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGT---G-CT
*
15601363 GATGCATGTCCTAGACATGTCTTACACTAGCACTCATCTCTGTGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCT
* * * * *
15601409 GATGACATGTCTCAAACATGGTCTTACACTGGCTA-TCATAGTATG-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCAT-CTCTGTGCT
* * * *
15601457 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTC-GATACC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTG-TGCT
* * * *
15601503 GATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATAATATG-G-T
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCAT-CTCTGTGCT
*
15601550 CGAAGCATGTCCCAGACATGTCTTACACT
1 -GATGCATGTCCCAGACATGTCTTACACT
15601579 GGCGCACAAA
Statistics
Matches: 241, Mismatches: 44, Indels: 48
0.72 0.13 0.14
Matches are distributed among these distances:
43 7 0.03
44 28 0.12
45 2 0.01
46 41 0.17
47 75 0.31
48 55 0.23
49 20 0.08
50 13 0.05
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGTGCT
Found at i:15601475 original size:94 final size:94
Alignment explanation
Indices: 15601218--15601578 Score: 373
Period size: 94 Copynumber: 3.9 Consensus size: 94
15601208 TCGGATATAT
*
15601218 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGTGTGCTGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCTGATGCATGTC
* * *
15601282 CAAGACATGTCTTATACTAGCA--CAACTCT-
63 CCAGACATGTCTTACACTAGCACTCATCTCTG
* * * * *
15601311 TAGCCGATG-CGTGTCCCAGACA-CGCCTTACACTGGCTATC-TCTGTCGA-GACTGATGCATGT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCTGATGCATGT
*
15601372 CCTAGACATGTCTTACACTAGCACTCATCTCTG
62 CCCAGACATGTCTTACACTAGCACTCATCTCTG
* * * *
15601405 TGCTGATGACATGTCTCAAACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCA
* *
15601470 GACATGTCTTACACTAGCCCTCGTCTC-G
66 GACATGTCTTACACTAGCACTCATCTCTG
* * * * * *
15601498 ATACCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATAATATGG-TCGAAGCATGTCC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCT-GATGCATGTCC
15601562 CAGACATGTCTTACACT
64 CAGACATGTCTTACACT
15601579 GGCGCACAAA
Statistics
Matches: 224, Mismatches: 30, Indels: 27
0.80 0.11 0.10
Matches are distributed among these distances:
91 33 0.15
92 16 0.07
93 29 0.13
94 126 0.56
95 19 0.08
96 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTCTG
Found at i:15606111 original size:6 final size:6
Alignment explanation
Indices: 15606080--15606120 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
15606070 ATTTATTTTA
* *
15606080 TAATA- TAATAT CAAT-T TAATAA TAATAT TAATAT TAATAT T
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT T
15606121 TACTTAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (6 bp):
TAATAT
Found at i:15606334 original size:15 final size:16
Alignment explanation
Indices: 15606313--15606351 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
15606303 TAATTAATCT
*
15606313 TAATTAATCTAAATTC
1 TAATTAATCTAAACTC
15606329 -AATTAAT-TAAACTC
1 TAATTAATCTAAACTC
15606343 TAATTAATC
1 TAATTAATC
15606352 ACTCAATTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATTAATCTAAACTC
Found at i:15620337 original size:16 final size:17
Alignment explanation
Indices: 15620315--15620349 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15620305 AGTAAAGGGA
*
15620315 CTAAAAAAACAATTAAG
1 CTAAAAAAGCAATTAAG
15620332 CTAAAAAAGCAATTAAG
1 CTAAAAAAGCAATTAAG
15620349 C
1 C
15620350 CTTAATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.60, C:0.14, G:0.09, T:0.17
Consensus pattern (17 bp):
CTAAAAAAGCAATTAAG
Found at i:15620476 original size:39 final size:39
Alignment explanation
Indices: 15620389--15620477 Score: 92
Period size: 39 Copynumber: 2.3 Consensus size: 39
15620379 ATAAAGTGTA
*
15620389 AAAATAAAATATATATAATAATATATGTATACTTAATATT
1 AAAAT-AAATATATATAATAATATATGTATACTTAATAAT
* * * *
15620429 TAAGTAAATATATATTATATTATAT-TATA-TTATTATAAT
1 AAAATAAATATATATAATAATATATGTATACTTA--ATAAT
15620468 AAAATAAATA
1 AAAATAAATA
15620478 AGTAAATGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
37 3 0.08
38 4 0.10
39 30 0.75
40 3 0.08
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (39 bp):
AAAATAAATATATATAATAATATATGTATACTTAATAAT
Found at i:15620491 original size:17 final size:16
Alignment explanation
Indices: 15620469--15620504 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
15620459 TATTATAATA
*
15620469 AAATAAATAAGTAAATG
1 AAATAAATAAATAAA-G
15620486 AAATAAATAAATAAAG
1 AAATAAATAAATAAAG
15620502 AAA
1 AAA
15620505 AATAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (16 bp):
AAATAAATAAATAAAG
Found at i:15623450 original size:32 final size:32
Alignment explanation
Indices: 15623413--15623482 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
15623403 TTTGGTTCAA
* *
15623413 TGTAATGGAATAGGGCTGTAATGGAATAGAAC
1 TGTAATGGAATAGAGCTGTAATAGAATAGAAC
*
15623445 TGTAATGGAATAGAGTTGTAATAGAATAGAAC
1 TGTAATGGAATAGAGCTGTAATAGAATAGAAC
15623477 TGTAAT
1 TGTAAT
15623483 AGCAATTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.40, C:0.04, G:0.27, T:0.29
Consensus pattern (32 bp):
TGTAATGGAATAGAGCTGTAATAGAATAGAAC
Found at i:15623484 original size:16 final size:16
Alignment explanation
Indices: 15623413--15623482 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
15623403 TTTGGTTCAA
**
15623413 TGTAATGGAATAGGGC
1 TGTAATGGAATAGAAC
15623429 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAAC
**
15623445 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAAC
*
15623461 TGTAATAGAATAGAAC
1 TGTAATGGAATAGAAC
15623477 TGTAAT
1 TGTAAT
15623483 AGCAATTCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.40, C:0.04, G:0.27, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAGAAC
Found at i:15623554 original size:44 final size:44
Alignment explanation
Indices: 15623469--15623555 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 44
15623459 GTTGTAATAG
15623469 AATAGAACTGTAATAGCAATTCAATTGTTTTGTTGAATGGAATGT
1 AATAGAACTGTAATAGCAATT-AATTGTTTTGTTGAATGGAATGT
*
15623514 AATAGAACTGTAATAG-TATT-ATTGTGTTTGGTTGAATGGAAT
1 AATAGAACTGTAATAGCAATTAATTGT-TTT-GTTGAATGGAAT
15623556 AGAGTTGTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
42 5 0.13
43 3 0.08
44 15 0.38
45 16 0.41
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (44 bp):
AATAGAACTGTAATAGCAATTAATTGTTTTGTTGAATGGAATGT
Found at i:15623743 original size:21 final size:21
Alignment explanation
Indices: 15623718--15623762 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
15623708 TAATAAATTT
15623718 ATAATTAA-ATACAATTTAACA
1 ATAA-TAATATACAATTTAACA
* *
15623739 ATAATAATATATAATTTAATA
1 ATAATAATATACAATTTAACA
15623760 ATA
1 ATA
15623763 TTCTTAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATAATATACAATTTAACA
Found at i:15623964 original size:12 final size:12
Alignment explanation
Indices: 15623934--15623968 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
15623924 TCTATGTTAC
15623934 TTAAAGAATAAT
1 TTAAAGAATAAT
*
15623946 TTAAAAGAGTAAT
1 TT-AAAGAATAAT
15623959 TTAAAGAATA
1 TTAAAGAATA
15623969 TCTTGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:15624045 original size:4 final size:4
Alignment explanation
Indices: 15624036--15624090 Score: 74
Period size: 4 Copynumber: 13.8 Consensus size: 4
15624026 TGTTATGCCG
* * * *
15624036 TATA TATA TATA TATA TATA TATA TATA TATA TATT TATT TATT TATT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
15624084 TATA TAT
1 TATA TAT
15624091 TTAACATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (4 bp):
TATA
Found at i:15627429 original size:40 final size:40
Alignment explanation
Indices: 15627302--15627431 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
15627292 ATGCTGGAAA
* * *
15627302 TTATATCTGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
15627342 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
15627382 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
15627422 TTATATCCGG
1 TTATATCCGG
15627432 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.05
40 71 0.95
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:15633283 original size:14 final size:14
Alignment explanation
Indices: 15633254--15633294 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
15633244 AAGCCCTGAC
15633254 CCTCAAACCC-AAA
1 CCTCAAACCCTAAA
15633267 CCTCAAACCCTAAA
1 CCTCAAACCCTAAA
* *
15633281 CCTTAAACCTTAAA
1 CCTCAAACCCTAAA
15633295 TCTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (14 bp):
CCTCAAACCCTAAA
Found at i:15633378 original size:27 final size:25
Alignment explanation
Indices: 15633342--15633403 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
15633332 GAGGTTTGGG
*
15633342 GTTTATGGTTCAAGGTTCAAATTAAGA
1 GTTTAGGGTTCAAGGTTCAAATT-A-A
* **
15633369 GTTTAGGGTTTAAGGTTCATGTTAA
1 GTTTAGGGTTCAAGGTTCAAATTAA
15633394 GTTTAGGGTT
1 GTTTAGGGTT
15633404 TATGGTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 11 0.35
26 1 0.03
27 19 0.61
ACGTcount: A:0.26, C:0.05, G:0.27, T:0.42
Consensus pattern (25 bp):
GTTTAGGGTTCAAGGTTCAAATTAA
Found at i:15633440 original size:21 final size:21
Alignment explanation
Indices: 15633416--15633460 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
15633406 TGGTTTATTA
* *
15633416 TTTGAAGTTCGAGGTTTC-GGG
1 TTTGAAATTC-AGGGTTCTGGG
15633437 TTTGAAATTCAGGGTTCTGGG
1 TTTGAAATTCAGGGTTCTGGG
15633458 TTT
1 TTT
15633461 AGGTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.16, C:0.09, G:0.33, T:0.42
Consensus pattern (21 bp):
TTTGAAATTCAGGGTTCTGGG
Found at i:15640599 original size:70 final size:70
Alignment explanation
Indices: 15640525--15640778 Score: 231
Period size: 70 Copynumber: 3.6 Consensus size: 70
15640515 ACGAGTCAAA
* * * * * *
15640525 AAATTATTGTGCCAAGTGCTAGCCGGATAATCGACGATAGTTGTGCCTAGCATTAGTCCAACGAA
1 AAATTATTGTGCCAAGCGCTAGTCAGATAAACGACGATAGTTGTGCCTAACATTAGTCGAACGAA
* *
15640590 CCGAT
66 TCGAC
** * * * * * * *
15640595 AAATTATTGCCCCCAA-CGCTAATCAGATAAACAACGGTAGTTGTGCCCATCACTAGTTGAACGA
1 AAATTATTG-TGCCAAGCGCTAGTCAGATAAACGACGATAGTTGTGCCTAACATTAGTCGAACGA
15640659 ATCGAC
65 ATCGAC
* * * *
15640665 AAATTATTATGCCCAGCGCTAGTCAAATAACCGACGATAGTTGTGCCTAACATTAGTCGAACGAA
1 AAATTATTGTGCCAAGCGCTAGTCAGATAAACGACGATAGTTGTGCCTAACATTAGTCGAACGAA
15640730 TCGAC
66 TCGAC
* ** * * * * *
15640735 AAATTGTTACGCCTAGCGCTGGTCGGATAACCTACGATAGTTGT
1 AAATTATTGTGCCAAGCGCTAGTCAGATAAACGACGATAGTTGT
15640779 CATCCGCAAT
Statistics
Matches: 146, Mismatches: 36, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
69 3 0.02
70 139 0.95
71 4 0.03
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (70 bp):
AAATTATTGTGCCAAGCGCTAGTCAGATAAACGACGATAGTTGTGCCTAACATTAGTCGAACGAA
TCGAC
Found at i:15646359 original size:58 final size:58
Alignment explanation
Indices: 15646282--15646405 Score: 239
Period size: 58 Copynumber: 2.1 Consensus size: 58
15646272 AATTAAATTT
15646282 TGTTAAACGGCGGGATTAAATCATGAAACAAAATTATATCATTAAATCAAATAAAATC
1 TGTTAAACGGCGGGATTAAATCATGAAACAAAATTATATCATTAAATCAAATAAAATC
15646340 TGTTAAACGGCGGGATTAAATCATGAAACAAAATTATATCATTAAATCAAATAAAATC
1 TGTTAAACGGCGGGATTAAATCATGAAACAAAATTATATCATTAAATCAAATAAAATC
*
15646398 TATTAAAC
1 TGTTAAAC
15646406 AACAGGAATA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 65 1.00
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.28
Consensus pattern (58 bp):
TGTTAAACGGCGGGATTAAATCATGAAACAAAATTATATCATTAAATCAAATAAAATC
Found at i:15646418 original size:58 final size:58
Alignment explanation
Indices: 15646298--15646424 Score: 202
Period size: 58 Copynumber: 2.2 Consensus size: 58
15646288 ACGGCGGGAT
* ** * *
15646298 TAAATCATGAAACAAAATTATATCATTAAATCAAATAAAATCTGTTAAACGGCGGGAT
1 TAAATCATGAAACAAAATTATATCATTAAATCAAATAAAATCTATTAAACAACAGGAA
15646356 TAAATCATGAAACAAAATTATATCATTAAATCAAATAAAATCTATTAAACAACAGGAA
1 TAAATCATGAAACAAAATTATATCATTAAATCAAATAAAATCTATTAAACAACAGGAA
15646414 TAAATC-TGAAA
1 TAAATCATGAAA
15646425 TAGAATTGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
57 5 0.08
58 59 0.92
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.27
Consensus pattern (58 bp):
TAAATCATGAAACAAAATTATATCATTAAATCAAATAAAATCTATTAAACAACAGGAA
Found at i:15646617 original size:78 final size:78
Alignment explanation
Indices: 15646531--15646991 Score: 506
Period size: 78 Copynumber: 5.8 Consensus size: 78
15646521 TTAATTTCTT
* *
15646531 GTTTTTGGAAATAAACCAAATTTGGAATGAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
15646596 TTTTATTTTACTC
66 TTTTATTTTACTC
* * * *
15646609 ATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAATGGCTA-GAATCAATCTCGAAATGA
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGC-AGGAATCAATCCCGAAACGA
*
15646673 TTTTTATATTACTC
65 TTTTTATTTTACTC
* * *
15646687 GTTTTTTGAAATAAAACAAATTTGGAATAAAATCATTGAACGGC-GAGAATCGATCCCGAAACGA
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAG-GAATCAATCCCGAAACGA
15646751 -TTTT-TTTTACTC
65 TTTTTATTTTACTC
* * ** * * * *
15646763 GTTTTTGGAAATAGAATAAATTTGGAATAAAATCGCCGAACGGCAGAAATCAAACCTGAAAC-AA
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
15646827 TTTTATTTTACTC
66 TTTTATTTTACTC
* * * *
15646840 GTTTTTGGAAATAAAACAATTTTGGAATAAAATCGTTGAATGG-TGAGAATCAATCCGGAAACGA
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAG-GAATCAATCCCGAAACGA
15646904 TTTTTATTTTACTTTTAAC
65 TTTTTATTTTAC---T--C
*
15646923 -TTCCCATTTGGAAATAAAATCAAATTAATGGAATAAAATCCGTTGAATGGC-GAGAATCAATCC
1 GTT----TTTGGAAATAAAA-CAAATT--TGGAATAAAAT-CGTTGAACGGCAG-GAATCAATCC
15646986 CGAAAC
57 CGAAAC
15646992 AAATTTTACC
Statistics
Matches: 323, Mismatches: 38, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
75 1 0.00
76 62 0.19
77 63 0.20
78 136 0.42
79 1 0.00
81 1 0.00
82 2 0.01
83 1 0.00
86 13 0.04
87 5 0.02
89 11 0.03
90 27 0.08
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (78 bp):
GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
TTTTATTTTACTC
Found at i:15649019 original size:46 final size:43
Alignment explanation
Indices: 15648969--15649065 Score: 99
Period size: 46 Copynumber: 2.2 Consensus size: 43
15648959 TTTTAACTTT
* *
15648969 ATATATTTTTTAGAATTTTTTTTGAAAT-TTTTATAATTTTTTTAAA
1 ATATATTTTTTAGAA-TTTTTAT-AAATATTTT-TAA-TTTTTGAAA
** *
15649015 ATATAAATTTTGGAATTTTTATAAATATTTTTAATTTTTGAAA
1 ATATATTTTTTAGAATTTTTATAAATATTTTTAATTTTTGAAA
15649058 AT-TATTTT
1 ATATATTTT
15649066 GAATTATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
42 4 0.09
43 10 0.23
44 7 0.16
45 10 0.23
46 12 0.28
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (43 bp):
ATATATTTTTTAGAATTTTTATAAATATTTTTAATTTTTGAAA
Found at i:15649053 original size:20 final size:20
Alignment explanation
Indices: 15649006--15649075 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
15648996 TTTTTATAAT
15649006 TTTTTTAAAATATAAATTTTGGAA
1 TTTTTTAAAAT-T--ATTTT-GAA
*
15649030 -TTTTTATAAA-TATTTTTAA
1 TTTTTTA-AAATTATTTTGAA
*
15649049 TTTTTGAAAATTATTTTGAA
1 TTTTTTAAAATTATTTTGAA
15649069 TTATTTT
1 TT-TTTT
15649076 GTAATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
19 5 0.13
20 20 0.53
21 3 0.08
22 1 0.03
23 6 0.16
24 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
TTTTTTAAAATTATTTTGAA
Found at i:15649059 original size:19 final size:20
Alignment explanation
Indices: 15649021--15649070 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
15649011 TAAAATATAA
15649021 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTATAAATT
*
15649041 ATTTTTAATTTTTGA-AAATT
1 ATTTTGAATTTTT-ATAAATT
15649061 ATTTTGAATT
1 ATTTTGAATT
15649071 ATTTTGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:15649788 original size:4 final size:4
Alignment explanation
Indices: 15649779--15649821 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
15649769 TTCAATGATT
15649779 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
15649822 GCATCCATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:15655710 original size:22 final size:24
Alignment explanation
Indices: 15655685--15655741 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
15655675 AAAAATTAAA
15655685 ATTAAAATAATAT-AATT-TTTTT
1 ATTAAAATAATATAAATTATTTTT
* *
15655707 ATTATAATACACATAAATTATTTTT
1 ATTAAAATA-ATATAAATTATTTTT
*
15655732 A-TAATATAAT
1 ATTAAAATAAT
15655742 TTTTTAGGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
22 8 0.30
23 4 0.15
24 9 0.33
25 6 0.22
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTAAAATAATATAAATTATTTTT
Found at i:15656719 original size:16 final size:16
Alignment explanation
Indices: 15656660--15656720 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
15656650 ACTGAAATGA
*
15656660 AATAGAGTTATAATAG
1 AATAGAATTATAATAG
* * *
15656676 AATATAACTGTAATAG
1 AATAGAATTATAATAG
*
15656692 AATA-AATTATAATAT
1 AATAGAATTATAATAG
*
15656707 AATAGAGTTATAAT
1 AATAGAATTATAAT
15656721 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
15 12 0.33
16 24 0.67
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.34
Consensus pattern (16 bp):
AATAGAATTATAATAG
Found at i:15656965 original size:15 final size:15
Alignment explanation
Indices: 15656945--15656973 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15656935 TTATTATTAA
15656945 ATATAATTTAATAAT
1 ATATAATTTAATAAT
15656960 ATATAATTTAATAA
1 ATATAATTTAATAA
15656974 CATTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAATTTAATAAT
Found at i:15660169 original size:35 final size:35
Alignment explanation
Indices: 15660123--15660192 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
15660113 GTTACAGAGC
15660123 TCCAAATTAAGATCTGTAAATTTCCCCTGAAACTA
1 TCCAAATTAAGATCTGTAAATTTCCCCTGAAACTA
15660158 TCCAAATTAAGATCTGTAAATTTCCCCTGAAACTA
1 TCCAAATTAAGATCTGTAAATTTCCCCTGAAACTA
15660193 GACTCACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (35 bp):
TCCAAATTAAGATCTGTAAATTTCCCCTGAAACTA
Found at i:15661872 original size:30 final size:30
Alignment explanation
Indices: 15661838--15661898 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15661828 TCATTAACTC
15661838 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
15661868 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
15661898 A
1 A
15661899 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:15664138 original size:14 final size:17
Alignment explanation
Indices: 15664104--15664141 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
15664094 TTGTAAAAAA
15664104 ATGATAAATTGATTATG
1 ATGATAAATTGATTATG
15664121 ATGATAAATTGATTATG
1 ATGATAAATTGATTATG
15664138 ATGA
1 ATGA
15664142 ATTGCAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (17 bp):
ATGATAAATTGATTATG
Found at i:15664962 original size:21 final size:21
Alignment explanation
Indices: 15664929--15664968 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15664919 TGATTATAAG
* *
15664929 TGAATTAGATTATTATATGTT
1 TGAATTACATTATGATATGTT
*
15664950 TGAATTACTTTATGATATG
1 TGAATTACATTATGATATG
15664969 GTTATATATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.50
Consensus pattern (21 bp):
TGAATTACATTATGATATGTT
Found at i:15666541 original size:12 final size:12
Alignment explanation
Indices: 15666523--15666572 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
15666513 TAGGTTTTCA
15666523 AAAATGGAAATG
1 AAAATGGAAATG
*
15666535 GAAATGGAAATG
1 AAAATGGAAATG
*
15666547 AAAAT-GAATATA
1 AAAATGGAA-ATG
15666559 AAAATGAGAAATG
1 AAAATG-GAAATG
15666572 A
1 A
15666573 TTCATTTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
11 3 0.10
12 22 0.71
13 3 0.10
14 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.22, T:0.18
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:15668305 original size:352 final size:352
Alignment explanation
Indices: 15667661--15668719 Score: 2046
Period size: 352 Copynumber: 3.0 Consensus size: 352
15667651 AATGACTTAG
15667661 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
1 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
15667726 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCGAACCATTTGA
66 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCGAACCATTTGA
*
15667791 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTAAAATTGGTATAAAATGACTT
131 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
*
15667856 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCATTGCTATCAGCTTTGGG
196 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
15667921 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
261 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
*
15667986 CGACAAGGAAATCCTTATGCCGTGACA
326 CGACGAGGAAATCCTTATGCCGTGACA
15668013 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
1 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
15668078 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCGAACCATTTGA
66 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCGAACCATTTGA
*
15668143 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATAACTT
131 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
*
15668208 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATTAGCTTTGGG
196 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
15668273 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
261 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
15668338 CGACGAGGAAATCCTTATGCCGTGACA
326 CGACGAGGAAATCCTTATGCCGTGACA
15668365 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
1 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
*
15668430 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
66 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCGAACCATTTGA
15668495 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
131 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
**
15668560 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTCACTATCAGCTTTGGG
196 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
15668625 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
261 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
15668690 CGACGAGGAAATCCTTATGCCGTGACA
326 CGACGAGGAAATCCTTATGCCGTGACA
15668717 TTG
1 TTG
15668720 ACCCAAAATT
Statistics
Matches: 697, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
352 697 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (352 bp):
TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCGAACCATTTGA
AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
CGACGAGGAAATCCTTATGCCGTGACA
Found at i:15671878 original size:18 final size:19
Alignment explanation
Indices: 15671852--15671890 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
15671842 AGTTAATGCG
* *
15671852 ATAATAGAAGTTTTAATTA
1 ATAATAGAAATTTCAATTA
15671871 ATAA-AGAAATTTCAATTA
1 ATAATAGAAATTTCAATTA
15671889 AT
1 AT
15671891 CAACCTAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (19 bp):
ATAATAGAAATTTCAATTA
Found at i:15691330 original size:61 final size:58
Alignment explanation
Indices: 15691265--15691376 Score: 143
Period size: 61 Copynumber: 1.9 Consensus size: 58
15691255 TGTGATTATC
* *
15691265 TTAATATTAAATTAAATAAAATATTTATTTTGTAGATAAGTATTCTATTAATTTGATAGAT
1 TTAATATTAAATTAAATAAAATATTT-GTCT-T-GATAAGTATTCTATTAATTTGATAGAT
* ** *
15691326 TTAATATTAAATTTAATCTAATATTTGTCTTGATAAGTATTTTATTAATTT
1 TTAATATTAAATTAAATAAAATATTTGTCTTGATAAGTATTCTATTAATTT
15691377 AATATTAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 19 0.42
59 1 0.02
60 2 0.04
61 23 0.51
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (58 bp):
TTAATATTAAATTAAATAAAATATTTGTCTTGATAAGTATTCTATTAATTTGATAGAT
Found at i:15696182 original size:5 final size:5
Alignment explanation
Indices: 15696169--15696198 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
15696159 GATTCTGACC
*
15696169 ATAAA ATAAT ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
15696199 TTTTTATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:15696668 original size:2 final size:2
Alignment explanation
Indices: 15696663--15696691 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15696653 TTTCTTAATG
15696663 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 T
15696692 CAATCCCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15697108 original size:15 final size:16
Alignment explanation
Indices: 15697079--15697111 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15697069 ACTTGTTCCA
15697079 AACATGAGTTATTCTC
1 AACATGAGTTATTCTC
*
15697095 AACAT-AGTTGTTCTC
1 AACATGAGTTATTCTC
15697110 AA
1 AA
15697112 TGTAGAGGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (16 bp):
AACATGAGTTATTCTC
Found at i:15702845 original size:21 final size:21
Alignment explanation
Indices: 15702820--15702862 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15702810 GTGGAGTTAT
15702820 CCAAAAGAAAAAGAAAAAGAA
1 CCAAAAGAAAAAGAAAAAGAA
** *
15702841 CCAAAAGAGGAAGAAGAAGAA
1 CCAAAAGAAAAAGAAAAAGAA
15702862 C
1 C
15702863 AGATGTTCCC
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:0.67, C:0.12, G:0.21, T:0.00
Consensus pattern (21 bp):
CCAAAAGAAAAAGAAAAAGAA
Found at i:15705704 original size:35 final size:35
Alignment explanation
Indices: 15705634--15705759 Score: 148
Period size: 35 Copynumber: 3.6 Consensus size: 35
15705624 CATGGCAAAG
* *
15705634 TGTGAAATGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
*
15705669 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
** **
15705704 TAAG-AACGTAGGTATGACATT-TCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTAT-CCATACCGAGT
* *
15705738 TGTGAAATGTAGATATGGTATT
1 TGTGAAACGTAGGTATGGTATT
15705760 TCAATAAGGA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
33 1 0.01
34 27 0.36
35 47 0.63
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
Found at i:15710457 original size:42 final size:42
Alignment explanation
Indices: 15710411--15710519 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 42
15710401 TCACATCGAA
* * *
15710411 GCCATATCCCAGATATGGTCTTATACGAAATCTCATTTCAAT
1 GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCAAC
* * **
15710453 GCCATGTCCCAAACGTGGTCTTACACGAAATCTCATATCAAC
1 GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCAAC
*
15710495 ACCATATCCCAGATATGGTCTTACA
1 GCCATATCCCAGATATGGTCTTACA
15710520 TGATAACATA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCAAC
Found at i:15714391 original size:15 final size:15
Alignment explanation
Indices: 15714371--15714399 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15714361 CCTGGAACTC
15714371 GATTAATGCTGAATA
1 GATTAATGCTGAATA
15714386 GATTAATGCTGAAT
1 GATTAATGCTGAAT
15714400 TCCACTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (15 bp):
GATTAATGCTGAATA
Found at i:15716760 original size:30 final size:30
Alignment explanation
Indices: 15716701--15716761 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
15716691 ATTTTATTGT
* *
15716701 TAATTTTTTTATTATTTTAAAGACGTTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
* *
15716731 TAATTTTGTTATTATTTTAGAGGCATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
15716761 T
1 T
15716762 TGTTAAAGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.13, T:0.56
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGACATTTGC
Found at i:15716904 original size:12 final size:12
Alignment explanation
Indices: 15716883--15716916 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15716873 TATATATTTT
*
15716883 AAAATTATATAA
1 AAAATAATATAA
15716895 AAAATAATATAA
1 AAAATAATATAA
*
15716907 AAATTAATAT
1 AAAATAATAT
15716917 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:15719720 original size:26 final size:26
Alignment explanation
Indices: 15719687--15719796 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
15719677 TGATACAAAT
15719687 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * * *
15719713 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
15719739 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
15719765 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
15719791 TGATAA
1 TGATAA
15719797 GAATTTCATG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:15721458 original size:27 final size:27
Alignment explanation
Indices: 15721417--15721529 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
15721407 GAGGAAGCGT
*
15721417 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
15721444 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
15721471 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
15721499 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
15721525 TCTGG
1 TCTGG
15721530 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:15721522 original size:54 final size:54
Alignment explanation
Indices: 15721415--15721529 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
15721405 TGGAGGAAGC
*
15721415 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
15721469 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
15721523 GTTCTGG
1 GTTCTGG
15721530 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:15724970 original size:2 final size:2
Alignment explanation
Indices: 15724963--15724994 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15724953 ATGTGCAAAC
*
15724963 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15724995 GTGCAAGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15732152 original size:39 final size:40
Alignment explanation
Indices: 15732099--15732242 Score: 184
Period size: 39 Copynumber: 3.6 Consensus size: 40
15732089 CTCGCCCAAG
* * *
15732099 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
15732139 GCCTTC-GGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
15732178 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
15732219 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
15732243 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 38 0.42
40 22 0.24
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:15735171 original size:42 final size:42
Alignment explanation
Indices: 15735125--15735235 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
15735115 TTTCACATCG
* * * * *
15735125 ATGCCATATCCTAGATATGGTATTATACGAAATCTCATTTCA
1 ATGCCATATCCCAAATATGGTATTACACGAAATATCATATCA
* * ** *
15735167 ATGCCATGTCCCACACGTGGTCTTACACGAAATATCATATCA
1 ATGCCATATCCCAAATATGGTATTACACGAAATATCATATCA
*
15735209 ATGCCATATCCCAAATATGGTCTTACA
1 ATGCCATATCCCAAATATGGTATTACA
15735236 TGATAACATA
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTATTACACGAAATATCATATCA
Found at i:15735253 original size:42 final size:42
Alignment explanation
Indices: 15735125--15735254 Score: 102
Period size: 42 Copynumber: 3.1 Consensus size: 42
15735115 TTTCACATCG
* * * * * **
15735125 ATGCCATATCCTAGATATGGTATTATACGAAATC-TCATTTCA
1 ATGCCATATCCCAAACATGGTCTTACACGAAA-CATCATACCA
* * * * *
15735167 ATGCCATGTCCCACACGTGGTCTTACACGAAATATCATATCA
1 ATGCCATATCCCAAACATGGTCTTACACGAAACATCATACCA
* *
15735209 ATGCCATATCCCAAATATGGTCTTACATGATAACAT-ATACCA
1 ATGCCATATCCCAAACATGGTCTTACACGA-AACATCATACCA
15735251 ATGC
1 ATGC
15735255 TGGTGCCATA
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
42 66 0.94
43 4 0.06
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAAACATGGTCTTACACGAAACATCATACCA
Found at i:15738618 original size:12 final size:12
Alignment explanation
Indices: 15738601--15738630 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
15738591 ATAGTGAGTT
15738601 ACACGGCCTACC
1 ACACGGCCTACC
15738613 ACACGGCCTACC
1 ACACGGCCTACC
15738625 ACACGG
1 ACACGG
15738631 TCATGTGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.47, G:0.20, T:0.07
Consensus pattern (12 bp):
ACACGGCCTACC
Found at i:15740825 original size:20 final size:21
Alignment explanation
Indices: 15740793--15740846 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
15740783 TTACAAAATT
15740793 TAAATTAAATGAT-T-ATATAA
1 TAAATT-AATGATGTAATATAA
15740813 -AATATTTAATGATGTAATATAA
1 TAA-A-TTAATGATGTAATATAA
15740835 TAAATTAATGAT
1 TAAATTAATGAT
15740847 ATGAAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 2 0.07
20 7 0.24
21 11 0.38
22 7 0.24
23 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
TAAATTAATGATGTAATATAA
Found at i:15741977 original size:16 final size:18
Alignment explanation
Indices: 15741949--15741984 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
15741939 GTTTATGAAT
15741949 AAAATTTTCATTTA-TTA
1 AAAATTTTCATTTAGTTA
15741966 AAAATTTT-ATTTAGTTA
1 AAAATTTTCATTTAGTTA
15741983 AA
1 AA
15741985 GATTAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
AAAATTTTCATTTAGTTA
Found at i:15749645 original size:6 final size:6
Alignment explanation
Indices: 15749634--15749671 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
15749624 AGTTCATTCT
*
15749634 TTTTTC TTTTTC TTTTT- TTTTTC CTTTT- TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
15749672 AATCGATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 9 0.32
6 19 0.68
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTC
Found at i:15749654 original size:11 final size:11
Alignment explanation
Indices: 15749634--15749671 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
15749624 AGTTCATTCT
15749634 TTTTTCTTTTTC
1 TTTTT-TTTTTC
15749646 TTTTTTTTTTC
1 TTTTTTTTTTC
*
15749657 CTTTTTTTTTC
1 TTTTTTTTTTC
15749668 TTTT
1 TTTT
15749672 AATCGATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:15749655 original size:12 final size:12
Alignment explanation
Indices: 15749630--15749666 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
15749620 CAATAGTTCA
15749630 TTCTTTTTTCTTT
1 TTCTTTTTT-TTT
15749643 TTCTTTTTTTTT
1 TTCTTTTTTTTT
*
15749655 TCCTTTTTTTTT
1 TTCTTTTTTTTT
15749667 CTTTTAATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:15756460 original size:13 final size:13
Alignment explanation
Indices: 15756442--15756468 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15756432 GCTCGACAGG
15756442 GACACGCCCGTGT
1 GACACGCCCGTGT
15756455 GACACGCCCGTGT
1 GACACGCCCGTGT
15756468 G
1 G
15756469 CGATTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:15770298 original size:14 final size:14
Alignment explanation
Indices: 15770279--15770308 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15770269 TAATATCGAG
15770279 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
15770293 ACCAATCCAATTCA
1 ACCAATCCAAATCA
15770307 AC
1 AC
15770309 ATATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:15770352 original size:23 final size:23
Alignment explanation
Indices: 15770308--15770352 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15770298 TCCAATTCAA
* * *
15770308 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAAATAAAGTCATG
*
15770331 CATATTTATAAAATAACGTCAT
1 CATATTTATAAAATAAAGTCAT
15770353 CACATACCCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (23 bp):
CATATTTATAAAATAAAGTCATG
Found at i:15774390 original size:442 final size:442
Alignment explanation
Indices: 15773564--15774466 Score: 1581
Period size: 442 Copynumber: 2.0 Consensus size: 442
15773554 GGCACGGGAT
* * *
15773564 TGTGTTCTGCTCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGTGTGGGCTGCCCG
1 TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGAGTGGGATGCCCG
* * *
15773629 TGTGAGGAAGTCAAGGCCGTATTGATTTCGTACTTTGGCCTATTTTCTCCGTTTTCGACCCGTTT
66 TGTGAGGAAGTCAAGGCCGTATTGATTTCGTACTTTGACCCATTTTCTCCGTTTTCGACCCATTT
15773694 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
131 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
*
15773759 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATACGTTTAACATGGGGTAAAAATATGTA
196 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATACATTTAACATGGGGTAAAAATATGTA
* * *
15773824 TAAATTACGGTTTATCAAGCTTTCACCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
261 TAAATTACGGTTTATCAAGCTTTCACCCCTCACTTCTATTAAGAGTTTTGTACTATTCACGAAGG
*
15773889 GAGAGTGCCTTATTTAATGAACAAGATAGGTATATTACAAGTCTTCAATTTTGAGTCTTACAGGT
326 GAGAGTGCCTTATTTAATGAACAAGATAGGTATATTACAAGTCTTCAATTTTAAGTCTTACAGGT
* *
15773954 TGAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGACGGGCG
391 TGAGGTACTCTCTGTGAACTGTACACAACTAGCAGTGAAGATGGGACGGGCA
* * *
15774006 TGTGTTCTGCCCATGTGAGTCGTGCTTCGATTCTGCCAAATTGACATGGCCGAGTGGGATGTCCG
1 TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGAGTGGGATGCCCG
* * * *
15774071 TGTGAGGAAGTCCAGGTCGTGTTGATTTCGTACTTTGACCCATTTTCTCCGTTTTTGACCCATTT
66 TGTGAGGAAGTCAAGGCCGTATTGATTTCGTACTTTGACCCATTTTCTCCGTTTTCGACCCATTT
15774136 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
131 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
*
15774201 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCATTTAACATGGGGTAAAAATATGTA
196 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATACATTTAACATGGGGTAAAAATATGTA
* * *
15774266 TAAATTATGGTTTATCAAGGTTTCATCCCTCACTTCTATTAAGAGTTTTGTACTATTCACGAAGG
261 TAAATTACGGTTTATCAAGCTTTCACCCCTCACTTCTATTAAGAGTTTTGTACTATTCACGAAGG
*
15774331 GAGAGTGCCTTATTTAATGAGCAAGATAGGTATATTACAAGTCTTCAATTTTAAGTCTTACAGGT
326 GAGAGTGCCTTATTTAATGAACAAGATAGGTATATTACAAGTCTTCAATTTTAAGTCTTACAGGT
15774396 TGAGGTACTCTCTGTGAACTGTACACAACTAGCAGTGAAGATGGGACGGGCA
391 TGAGGTACTCTCTGTGAACTGTACACAACTAGCAGTGAAGATGGGACGGGCA
15774448 TGTGTTCTGCCCGTGTGAG
1 TGTGTTCTGCCCGTGTGAG
15774467 GAAGTCCAGG
Statistics
Matches: 435, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
442 435 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (442 bp):
TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGAGTGGGATGCCCG
TGTGAGGAAGTCAAGGCCGTATTGATTTCGTACTTTGACCCATTTTCTCCGTTTTCGACCCATTT
CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATACATTTAACATGGGGTAAAAATATGTA
TAAATTACGGTTTATCAAGCTTTCACCCCTCACTTCTATTAAGAGTTTTGTACTATTCACGAAGG
GAGAGTGCCTTATTTAATGAACAAGATAGGTATATTACAAGTCTTCAATTTTAAGTCTTACAGGT
TGAGGTACTCTCTGTGAACTGTACACAACTAGCAGTGAAGATGGGACGGGCA
Found at i:15775223 original size:5 final size:5
Alignment explanation
Indices: 15775213--15775240 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15775203 TTATGTGTTC
15775213 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
15775241 CACAAATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:15776290 original size:16 final size:17
Alignment explanation
Indices: 15776269--15776322 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 17
15776259 GAATTTACTT
15776269 ATTATAT-AAGTAAATA
1 ATTATATAAAGTAAATA
*
15776285 ATTATATAAAGTAAATT
1 ATTATATAAAGTAAATA
* *
15776302 A-TAT-TAAATTATATA
1 ATTATATAAAGTAAATA
15776317 ATTATA
1 ATTATA
15776323 ATATATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 9 0.29
16 13 0.42
17 9 0.29
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
ATTATATAAAGTAAATA
Found at i:15778279 original size:41 final size:42
Alignment explanation
Indices: 15778221--15778312 Score: 159
Period size: 41 Copynumber: 2.2 Consensus size: 42
15778211 AAGACATGGC
*
15778221 CGTGTGTCTTGGTCGTGTGAAGGACATGGGTTTCAAGCACGG
1 CGTGTGTCTTGGCCGTGTGAAGGACATGGGTTTCAAGCACGG
15778263 -GTGTGTCTTGGCCGTGTGAAGGACATGGGTTTCAAGCACGG
1 CGTGTGTCTTGGCCGTGTGAAGGACATGGGTTTCAAGCACGG
15778304 TCGTGTGTC
1 -CGTGTGTC
15778313 AAAAACATGT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
41 40 0.85
43 7 0.15
ACGTcount: A:0.15, C:0.17, G:0.38, T:0.29
Consensus pattern (42 bp):
CGTGTGTCTTGGCCGTGTGAAGGACATGGGTTTCAAGCACGG
Found at i:15782334 original size:2 final size:2
Alignment explanation
Indices: 15782329--15782354 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15782319 TTCACACATT
15782329 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
15782355 TATATATATA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15783161 original size:2 final size:2
Alignment explanation
Indices: 15783154--15783207 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
15783144 TTATTTGCTT
15783154 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15783196 TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA
15783208 ATAACTTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 48 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15785496 original size:16 final size:18
Alignment explanation
Indices: 15785462--15785497 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15785452 ATCTTTATTT
15785462 AAATAAAATATAGAAGTA
1 AAATAAAATATAGAAGTA
15785480 AAATAAAATA-A-AAGTA
1 AAATAAAATATAGAAGTA
15785496 AA
1 AA
15785498 TAAGGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (18 bp):
AAATAAAATATAGAAGTA
Found at i:15787824 original size:40 final size:39
Alignment explanation
Indices: 15787701--15787845 Score: 114
Period size: 40 Copynumber: 3.7 Consensus size: 39
15787691 CCTTTAGTGG
* * * *
15787701 CTTTACCGGCGCTTTTTG-AAAACGCCGTTAAAGATCGAGT
1 CTTTAGCGGCGCTTTTTGAAAAACGCCGCTAATG-TAGA-T
* * * * * *
15787741 -ATTAGCGGCGCTTTTTTAAAAACACCGGTATATGTACAC
1 CTTTAGCGGCGCTTTTTGAAAAACGCCGCTA-ATGTAGAT
*
15787780 CTTTAGCGGCGCTTTTTGAAAAACGCCGCTAATGCTTGAT
1 CTTTAGCGGCGCTTTTTGAAAAACGCCGCTAATG-TAGAT
* **
15787820 CTTTAGCCGCATTTTTTGAAAAACGC
1 CTTTAGCGGCGCTTTTTGAAAAACGC
15787846 TGCAAAAGAA
Statistics
Matches: 82, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
39 17 0.21
40 63 0.77
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (39 bp):
CTTTAGCGGCGCTTTTTGAAAAACGCCGCTAATGTAGAT
Found at i:15788237 original size:21 final size:21
Alignment explanation
Indices: 15788226--15788273 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
15788216 TTTAAGGGTT
15788226 GGGGTTAATGGTTAGGGATTA
1 GGGGTTAATGGTTAGGGATTA
*
15788247 GGGGTTAAGTGTTTAGGGA-TA
1 GGGGTTAA-TGGTTAGGGATTA
15788268 GGGGTT
1 GGGGTT
15788274 TAAGGGGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (21 bp):
GGGGTTAATGGTTAGGGATTA
Found at i:15788326 original size:21 final size:22
Alignment explanation
Indices: 15788273--15788335 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
15788263 GGATAGGGGT
*
15788273 TTAAGGGGATAAGGGTTAGGCG
1 TTAAGGGGACAAGGGTTAGGCG
15788295 TTAAGGGGACAAGGGTTAGGCG
1 TTAAGGGGACAAGGGTTAGGCG
*
15788317 TTAA-GGGACATGGGTTAGG
1 TTAAGGGGACAAGGGTTAGG
15788336 GGTTTATGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 14 0.36
22 25 0.64
ACGTcount: A:0.27, C:0.06, G:0.44, T:0.22
Consensus pattern (22 bp):
TTAAGGGGACAAGGGTTAGGCG
Found at i:15788384 original size:14 final size:14
Alignment explanation
Indices: 15788365--15788415 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
15788355 AATATTTTAA
*
15788365 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
15788379 GGTTTAGGGATTAT
1 GGTTTAGGGATTAT
* * *
15788393 -GTGTTGGGGTTTAA
1 GGT-TTAGGGATTAT
15788407 GGTTTAGGG
1 GGTTTAGGG
15788416 GTTAAGTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 2 0.07
14 26 0.87
15 2 0.07
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:15788975 original size:18 final size:19
Alignment explanation
Indices: 15788932--15788975 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
15788922 CCTAAAATAG
* *
15788932 ATTT-CCCTAATTCTCTAC
1 ATTTCCCCTAATTCCCTAA
15788950 ATTTCCCCTAA-TCCCTAA
1 ATTTCCCCTAATTCCCTAA
15788968 ATTTCCCC
1 ATTTCCCC
15788976 CAAAATCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.23, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTCCCCTAATTCCCTAA
Found at i:15791815 original size:28 final size:28
Alignment explanation
Indices: 15791783--15791837 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
15791773 GTATCAAATA
*
15791783 TTTGATTTCGT-TTTGTCGAAAAAAAAAG
1 TTTGATTTCGTATTGGT-GAAAAAAAAAG
*
15791811 TTTGATTTTGTATTGGTGAAAAAAAAA
1 TTTGATTTCGTATTGGTGAAAAAAAAA
15791838 TTAAGCGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (28 bp):
TTTGATTTCGTATTGGTGAAAAAAAAAG
Done.