Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 209 of 214
Found at i:61510464 original size:23 final size:23
Alignment explanation
Indices: 61510382--61510469 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 23
61510372 ACCTGATCAG
*
61510382 TATACGACACA-TAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
*
61510404 -A-ACGACACACGAGGTGCCTG-
1 TATACGACACACGAAGTGCCTGA
*
61510424 -ATACGACACACGAGGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
**
61510446 TATACGACACATAAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
61510469 T
1 T
61510470 CGACAAAACC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.16
21 28 0.49
23 20 0.35
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (23 bp):
TATACGACACACGAAGTGCCTGA
Found at i:61511801 original size:17 final size:17
Alignment explanation
Indices: 61511779--61511830 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
61511769 TATTTAAAAT
61511779 ATAATAATAATAA-TT-
1 ATAATAATAATAATTTA
*
61511794 -TAATAATACTAATTTA
1 ATAATAATAATAATTTA
61511810 ATAATAATAATAATTTA
1 ATAATAATAATAATTTA
61511827 ATAA
1 ATAA
61511831 CATTTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 11 0.34
15 2 0.06
17 19 0.59
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAATAATAATAATTTA
Found at i:61511830 original size:14 final size:14
Alignment explanation
Indices: 61511780--61511820 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
61511770 ATTTAAAATA
61511780 TAATAATAATAATT
1 TAATAATAATAATT
*
61511794 TAATAATACTAATT
1 TAATAATAATAATT
61511808 TAATAATAATAAT
1 TAATAATAATAAT
61511821 AATTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAATAATAATT
Found at i:61514050 original size:51 final size:51
Alignment explanation
Indices: 61513972--61514153 Score: 310
Period size: 51 Copynumber: 3.6 Consensus size: 51
61513962 CGGATCACAT
* *
61513972 TTATCACTTGTCACTTGTCCCTAATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
61514023 TTATCACTTGTTACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
61514074 TTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACTAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
61514125 TTATCACTTGTCACTTGTCACTGATCAGA
1 TTATCACTTGTCACTTGTCACTGATCAGA
61514154 AATACTCAAA
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 122 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:61525002 original size:18 final size:18
Alignment explanation
Indices: 61524981--61525015 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
61524971 ATTATTTTAT
61524981 TTTTCTTTTTAAAAATTA
1 TTTTCTTTTTAAAAATTA
*
61524999 TTTTCTTTTTTAAAATT
1 TTTTCTTTTTAAAAATT
61525016 TAATGAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTCTTTTTAAAAATTA
Found at i:61525009 original size:25 final size:25
Alignment explanation
Indices: 61524962--61525008 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
61524952 TTTCAATAAA
61524962 TTTTAAAATATTATTTTATTTTTCT
1 TTTTAAAATATTATTTTATTTTTCT
*
61524987 TTTTAAAA-ATTATTTTCTTTTT
1 TTTTAAAATATTATTTTATTTTT
61525009 TAAAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTAAAATATTATTTTATTTTTCT
Found at i:61528920 original size:24 final size:23
Alignment explanation
Indices: 61528871--61528925 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
61528861 GTTAAGTCTG
**
61528871 AAAAAAATGCCAAACTAACAAAC
1 AAAAAAAAACCAAACTAACAAAC
*
61528894 AAACAAAAAACCAAACT-ACAATGC
1 AAA-AAAAAACCAAACTAACAA-AC
61528918 AAAAAAAA
1 AAAAAAAA
61528926 GTGACGGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.69, C:0.20, G:0.04, T:0.07
Consensus pattern (23 bp):
AAAAAAAAACCAAACTAACAAAC
Found at i:61548984 original size:41 final size:42
Alignment explanation
Indices: 61548923--61549002 Score: 135
Period size: 41 Copynumber: 1.9 Consensus size: 42
61548913 CCGAATATAA
*
61548923 TAAATATATTTTTTATTTTTATTTTTTAATTTTAAAATACTT
1 TAAAAATATTTTTTATTTTTATTTTTTAATTTTAAAATACTT
*
61548965 TAAAAATA-TTTTTATTTTTATTTTTTATTTTTAAAATA
1 TAAAAATATTTTTTATTTTTATTTTTTAATTTTAAAATA
61549003 TTTTTTTGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 29 0.81
42 7 0.19
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (42 bp):
TAAAAATATTTTTTATTTTTATTTTTTAATTTTAAAATACTT
Found at i:61548991 original size:13 final size:13
Alignment explanation
Indices: 61548973--61548997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61548963 TTTAAAAATA
61548973 TTTTTATTTTTAT
1 TTTTTATTTTTAT
61548986 TTTTTATTTTTA
1 TTTTTATTTTTA
61548998 AAATATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:61565769 original size:6 final size:6
Alignment explanation
Indices: 61565758--61565782 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
61565748 TTATTTGAAA
61565758 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
61565783 TATAATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:61573416 original size:7 final size:7
Alignment explanation
Indices: 61573404--61573428 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61573394 AATTTGGTAG
61573404 TTATTTA
1 TTATTTA
61573411 TTATTTA
1 TTATTTA
61573418 TTATTTA
1 TTATTTA
61573425 TTAT
1 TTAT
61573429 ATTGTAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:61575863 original size:30 final size:30
Alignment explanation
Indices: 61575808--61575865 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
61575798 TAAATTATTA
*
61575808 ATTTTTAAAGAATTAAATTAAAATTTTATC
1 ATTTTTAAAGAATTAAATGAAAATTTTATC
*
61575838 ATTTTTAAAGAGTTAAA-GAATAATTTTA
1 ATTTTTAAAGAATTAAATGAA-AATTTTA
61575866 CCTTTACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (30 bp):
ATTTTTAAAGAATTAAATGAAAATTTTATC
Found at i:61589228 original size:21 final size:20
Alignment explanation
Indices: 61589202--61589246 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
61589192 AAATTGCTTT
*
61589202 TTTTTTGCTATTTTCTTGGTA
1 TTTTTTACTATTTT-TTGGTA
*
61589223 TTTTTTACTATTTTTTGTTA
1 TTTTTTACTATTTTTTGGTA
61589243 TTTT
1 TTTT
61589247 CTTTTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.11, C:0.07, G:0.09, T:0.73
Consensus pattern (20 bp):
TTTTTTACTATTTTTTGGTA
Found at i:61589234 original size:10 final size:10
Alignment explanation
Indices: 61589202--61589246 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
61589192 AAATTGCTTT
61589202 TTTTTTGCTA
1 TTTTTTGCTA
*
61589212 TTTTCTTGGTA
1 TTTT-TTGCTA
*
61589223 TTTTTTACTA
1 TTTTTTGCTA
*
61589233 TTTTTTGTTA
1 TTTTTTGCTA
61589243 TTTT
1 TTTT
61589247 CTTTTTTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 20 0.69
11 9 0.31
ACGTcount: A:0.11, C:0.07, G:0.09, T:0.73
Consensus pattern (10 bp):
TTTTTTGCTA
Found at i:61594343 original size:16 final size:15
Alignment explanation
Indices: 61594295--61594345 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
61594285 AATTATTTTC
61594295 CTATTATTTATTATA
1 CTATTATTTATTATA
*
61594310 CTATT-TTT-TTACA
1 CTATTATTTATTATA
61594323 CTATTATTTATTATA
1 CTATTATTTATTATA
61594338 CTTATTAT
1 C-TATTAT
61594346 ATCATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 9 0.29
14 6 0.19
15 10 0.32
16 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
CTATTATTTATTATA
Found at i:61596458 original size:62 final size:62
Alignment explanation
Indices: 61596392--61596574 Score: 305
Period size: 61 Copynumber: 3.0 Consensus size: 62
61596382 CACGTATCTC
*
61596392 TTCATTCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
* *
61596454 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATTC-AAAATACGCG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
* * *
61596515 TTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAGTACG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACG
61596575 TCGAGTTTAG
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
61 57 0.51
62 55 0.49
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (62 bp):
TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
Found at i:61597834 original size:11 final size:11
Alignment explanation
Indices: 61597811--61597863 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
61597801 AGGCCAAAAA
61597811 AAAAGAACAAAT
1 AAAA-AACAAAT
*
61597823 AAAAACCAAAT
1 AAAAAACAAAT
61597834 AAAAAACAAA-
1 AAAAAACAAAT
*
61597844 AGCAAAAACAAAA
1 A--AAAAACAAAT
61597857 AAAAAAC
1 AAAAAAC
61597864 TCTACCAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
10 1 0.03
11 21 0.58
12 13 0.36
13 1 0.03
ACGTcount: A:0.79, C:0.13, G:0.04, T:0.04
Consensus pattern (11 bp):
AAAAAACAAAT
Found at i:61598853 original size:106 final size:107
Alignment explanation
Indices: 61598648--61598841 Score: 241
Period size: 106 Copynumber: 1.8 Consensus size: 107
61598638 TTTGTATTCT
* * *
61598648 AGCAACATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAGCAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTG---AATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
* * *
61598713 ATCCGTTGTGATAATATTTTTTTCATCTTATTCATCTCGTATCTC
63 ATCCATTGTGATAATATCTTTTTCAGCTTATTCATCTCGTATCTC
** * *
61598758 AGCAAAATTTGCTATCTTG-ATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTCATTTTGTC
1 AGCAAAATTTGCTATCTTGAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTTATC
*
61598822 CATTTTGAT-A-ATCTTTTTCA
66 CATTGTGATAATATCTTTTTCA
61598842 AGCATTTTTC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
104 9 0.12
105 1 0.01
106 46 0.62
110 18 0.24
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (107 bp):
AGCAAAATTTGCTATCTTGAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTTATC
CATTGTGATAATATCTTTTTCAGCTTATTCATCTCGTATCTC
Found at i:61599367 original size:44 final size:44
Alignment explanation
Indices: 61599300--61599691 Score: 378
Period size: 44 Copynumber: 8.9 Consensus size: 44
61599290 AAGTCACGAA
* * * * *
61599300 AGCAGATCTTCTCTTCATGTATTGGCATGAAGTAGATCGAGGAT
1 AGCAGATCTTGTCTTCCTATATTGGCAGGAAGTAGATCGAAGAT
* * * *
61599344 AGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGCAGGAAGTAGATCGAAGAT
* ** *
61599388 -GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGCAG-GAAGTAGATCGAAGAT
* * *
61599432 AGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAGGT
1 AGCAGATCTTGTCTTCCTATATTGGCAG-GAAGTAGATCGAAGAT
* * * * *
61599476 AGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGCAGGAAGTAGATCGAAGAT
* ** *
61599520 -GCAGATCTTGTCTTCCAATATTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGCAG-GAAGTAGATCGAAGAT
* * *
61599564 AGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAGGT
1 AGCAGATCTTGTCTTCCTATATTGGCAG-GAAGTAGATCGAAGAT
* * * *
61599608 AGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGCAGGAAGTAGATCGAAGAT
* * * *
61599652 TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATC
1 AGCAGATCTTGTCTTCCTATA-TTGGCAG-GAAGTAGATC
61599692 AAAAGATGAT
Statistics
Matches: 282, Mismatches: 58, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
43 46 0.16
44 178 0.63
45 50 0.18
46 8 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCCTATATTGGCAGGAAGTAGATCGAAGAT
Found at i:61599534 original size:132 final size:132
Alignment explanation
Indices: 61599297--61599668 Score: 674
Period size: 132 Copynumber: 2.8 Consensus size: 132
61599287 TTGAAGTCAC
* *
61599297 GAAAGCAGATCTTCTCTTCATGTATTGGCATGAAGTAGATCG-AGGATAGCAGATCCTATCTTCC
1 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGG-TAGCAGATCCTATCTTCC
*
61599361 TATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
65 TATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCAATATTGGTGGCGAAGTAGATC
61599426 GAA
130 GAA
61599429 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCT
1 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCT
*
61599494 ATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCAATATTGGTGGCGAAGTAGATCG
66 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCAATATTGGTGGCGAAGTAGATCG
61599559 AA
131 AA
61599561 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCT
1 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCT
*
61599626 ATATTGGTAGGAAGTGGATCGAAGATTGCAGATCTTGCCTTCC
66 ATATTGGTAGGAAGTGGATCGAAGA-TGCAGATCTTGTCTTCC
61599669 TGTATTTGGC
Statistics
Matches: 232, Mismatches: 6, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
132 213 0.92
133 19 0.08
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCT
ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCAATATTGGTGGCGAAGTAGATCG
AA
Found at i:61599815 original size:46 final size:46
Alignment explanation
Indices: 61599753--61601280 Score: 389
Period size: 46 Copynumber: 33.7 Consensus size: 46
61599743 ATAACTCTAT
*
61599753 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
61599799 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGAT-TGAAGATTGCAGATCTTAC
* * * * * * ** * * *
61599846 CTCCATGTGA-CT-ACAATGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGT-ATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
61599890 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
61599936 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGAT-TGAAGATTGCAGATCTTAC
*** * * ** * * *
61599983 CTCCCTG-A--CCACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
61600025 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
61600071 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * ** * *
61600117 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAAT-TCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCA-GATCT-TAC
*
61600159 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
61600205 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * ** * *
61600251 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAAT-TCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCA-GATCT-TAC
*
61600293 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * * ** * *
61600339 CTTCCTGTATTTGGCAGCGAAACAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * * ** * *
61600385 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAAT-TCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCA-GATCT-TAC
* *
61600427 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
61600473 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATAGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * * ** * * *
61600519 CTCCTTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
* *
61600561 CTCCCTGCATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT------T-GCAGATCTTAC
* * * * ** * * *
61600614 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
* *
61600656 CTCCCTGCATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT------T-GCAGATCTTAC
* * * * ** * * *
61600709 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
* *
61600751 CTCCCTGCATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT------T-GCAGATCTTAC
* * * * ** * *
61600804 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAAT-TCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCA-GATCT-TAC
*
61600846 CTCCCTGTATTTGGCAGTGGAATAGA-TGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * ** * *
61600891 CTTCCTGTATTTGGCAGT-GAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * ** ** * *
61600937 CTCCCTG-A-CT-ACAGTGGAGTACCTTGAAG-CCG-ATAAT-TCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCA-GATCT-TAC
*
61600979 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * * ** *
61601025 CTTCTTGTATTTGGCAG-CGAAGCAGATCAAAGA-TGCCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTG-CAGATCTTAC
* * * * ** * *
61601071 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAAT-TCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCA-GATCT-TAC
*
61601113 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
61601159 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * ** * * *
61601205 CTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
61601247 CTCCCTGCATTTGGCAGTGGAATAGATTGAAGAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
61601281 CAAAGATGGC
Statistics
Matches: 1013, Mismatches: 344, Indels: 250
0.63 0.21 0.16
Matches are distributed among these distances:
41 27 0.03
42 120 0.12
43 84 0.08
44 54 0.05
45 242 0.24
46 331 0.33
47 61 0.06
48 1 0.00
50 48 0.05
51 3 0.00
52 3 0.00
53 30 0.03
54 9 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:61600179 original size:45 final size:45
Alignment explanation
Indices: 61600128--61600324 Score: 118
Period size: 45 Copynumber: 4.4 Consensus size: 45
61600118 TCCCTGACTA
*
61600128 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
* ** * *
61600173 CAGTGGAATAGATTGAAGATTGCA-GA-TCT-TGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAG-CCG-ATAATTCTAT--CTCCCTGTATTTGG
* * * ** ** ** * * * *
61600219 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGCCGATA-ATTCTATCTCCCTGTATTTGG
*
61600262 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
*
61600307 CAGTGGAATAGATTGAAG
1 CAGTGGAGTAGATTGAAG
61600325 ATTGCAGATC
Statistics
Matches: 105, Mismatches: 36, Indels: 22
0.64 0.22 0.13
Matches are distributed among these distances:
42 12 0.11
43 15 0.14
44 3 0.03
45 38 0.36
46 34 0.32
47 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (45 bp):
CAGTGGAGTAGATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
Found at i:61600192 original size:88 final size:91
Alignment explanation
Indices: 61600074--61600482 Score: 225
Period size: 88 Copynumber: 4.6 Consensus size: 91
61600064 ATCTTGCCTT
* * *
61600074 CCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-ACAGTGGA
1 CCTGTATTTGGCAGTGGAA-TAGATTAAAGATGGCAGATTTTACCTCCCTGTATCTGACAGTGGA
61600135 GTACATTGAAGCCGATAATTCTATCTC
65 GTACATTGAAGCCGATAATTCTATCTC
* * * * * * * * *
61600162 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAG
1 CCTGTATTTGGCAGTGGAATAGATTAAAGATGGCAGATTTTACCTCCCTGTATCTGACAGTGGAG
* * ** ** ** * *
61600227 CAGATCAAAGATGGCAGATTTTACCTC
66 TACATTGAAGCCGATA-ATTCTATCTC
* * * * * ** ** * * * * *
61600254 CCTG-A-CT-ACAGTGGAGTACATTGAAGCCGATA-ATTCTATCTCCCTGTATTTGGCAGTGGAA
1 CCTGTATTTGGCAGTGGAATAGATTAAAGATGGCAGATTTTACCTCCCTGTATCTGACAGTGGAG
* ** * *
61600315 TAGATTGAAGATTGCA-GA-TCT-TGCCTT
66 TACATTGAAG-CCG-ATAATTCTAT--CTC
* * * *
61600342 CCTGTATTTGGCAGCGAAACAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-ACAGTGGAG
1 CCTGTATTTGGCAGTGGAATAGATTAAAGATGGCAGATTTTACCTCCCTGTATCTGACAGTGGAG
61600404 TACATTGAAGCCGATAATTCTATCTC
66 TACATTGAAGCCGATAATTCTATCTC
* * * *
61600430 CCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGTAT
1 CCTGTATTTGGCAGTGGAATAGATTAAAGATGGCAGATTTTACCTCCCTGTAT
61600483 TTGGCAGCGA
Statistics
Matches: 224, Mismatches: 79, Indels: 34
0.66 0.23 0.10
Matches are distributed among these distances:
87 3 0.01
88 119 0.53
89 44 0.20
90 5 0.02
91 29 0.13
92 24 0.11
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (91 bp):
CCTGTATTTGGCAGTGGAATAGATTAAAGATGGCAGATTTTACCTCCCTGTATCTGACAGTGGAG
TACATTGAAGCCGATAATTCTATCTC
Found at i:61600205 original size:134 final size:134
Alignment explanation
Indices: 61599646--61601280 Score: 2374
Period size: 134 Copynumber: 12.0 Consensus size: 134
61599636 GAAGTGGATC
**
61599646 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAAGATGATAGATTTTAC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATC-AAAGATGGCAGATTTTAC
*
61599711 CTCCCTGA-TCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
65 CTCCCTGACT-ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
61599775 TAGATT
129 TAGATT
61599781 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAAGATGGCAGATTTTAC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATC-AAAGATGGCAGATTTTAC
* * *
61599846 CTCCATGTGACTACAATGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
65 CTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGA
61599911 ATAGATT
128 ATAGATT
61599918 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAAGATGGCAGATTTTAC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATC-AAAGATGGCAGATTTTAC
* *
61599983 CTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAAT
65 CTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAAT
61600048 AGATT
130 AGATT
61600053 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
61600118 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
66 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
61600183 GATT
131 GATT
61600187 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
61600252 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
66 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
61600317 GATT
131 GATT
*
61600321 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAACAGATCAAAGATGGCAGATTTTACC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
61600386 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
66 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
61600451 GATT
131 GATT
* *
61600455 AAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATAGCAGATTTTACC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
* * *
61600520 TCCTTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATA
66 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
61600585 GATT
131 GATT
* * * * * * * * * ** ** **
61600589 GAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-ACAGTGGAGTACATTGAAGCCGATA-A
1 GAAGAT------T-GCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGA
* * * * * * * * * *
61600650 CTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCT
59 TTTTACCTCCCTG-A-CT-ACAGTGGAGTACATTGAAG--C--CGAT---A-ATTCTATCTCCCT
* * * *
61600715 G-A-CT-ACAGTGGAGTACATT
113 GTATTTGGCAGTGGAATAGATT
** * * ** * * * *
61600734 GAAG-CCG-ATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAG
1 GAAGATTGCAGATCT-TGCCTTCCTGTATTTGGCAG-CG---A-A--GCAGATCAAAGATGGCAG
61600797 ATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCA
58 ATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCA
61600862 GTGGAATAGA-T
123 GTGGAATAGATT
*
61600873 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGTGAAGCAGATCAAAGATGGCAGATTTTACC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
*
61600938 TCCCTGACTACAGTGGAGTACCTTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
66 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
61601003 GATT
131 GATT
* *
61601007 GAAGATTGCAGATCTTGCCTTCTTGTATTTGGCAGCGAAGCAGATCAAAGATGCCAGATTTTACC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
61601072 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
66 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
61601137 GATT
131 GATT
61601141 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
* *
61601206 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATA
66 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
61601271 GATT
131 GATT
61601275 GAAGAT
1 GAAGAT
61601281 CAAAGATGGC
Statistics
Matches: 1361, Mismatches: 100, Indels: 79
0.88 0.06 0.05
Matches are distributed among these distances:
133 91 0.07
134 753 0.55
135 177 0.13
136 4 0.00
137 163 0.12
138 18 0.01
139 10 0.01
140 48 0.04
141 23 0.02
142 1 0.00
143 1 0.00
144 3 0.00
145 33 0.02
146 2 0.00
147 12 0.01
148 22 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (134 bp):
GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
GATT
Found at i:61600607 original size:95 final size:95
Alignment explanation
Indices: 61600496--61600878 Score: 723
Period size: 95 Copynumber: 4.0 Consensus size: 95
61600486 GCAGCGAAGC
* *
61600496 AGATCAAAGATAGCAGATTTTACCTCCTTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
61600561 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
61600591 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
61600656 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
61600686 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
61600751 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
*
61600781 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
61600846 CTCCCTGTATTTGGCAGTGGAATAGA-TGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
61600875 AGAT
1 AGAT
61600879 TGCAGATCTT
Statistics
Matches: 284, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
94 7 0.02
95 277 0.98
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGCATTTGGCAGTGGAATAGATTGA
Found at i:61600640 original size:50 final size:50
Alignment explanation
Indices: 61600575--61600832 Score: 188
Period size: 50 Copynumber: 5.4 Consensus size: 50
61600565 CTGCATTTGG
*
61600575 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
1 CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
* * * * * * *
61600625 CAGTGGAGTACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGCATTTGG
1 CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
*
61600670 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
1 CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
* * * * * * *
61600720 CAGTGGAGTACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGCATTTGG
1 CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
*
61600765 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
1 CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
*
61600815 CAGTGGAGTACATTGAAG
1 CAGTGGAATACATTGAAG
61600833 CCGATAATTC
Statistics
Matches: 152, Mismatches: 34, Indels: 44
0.66 0.15 0.19
Matches are distributed among these distances:
42 22 0.14
43 4 0.03
44 2 0.01
45 32 0.21
46 6 0.04
47 2 0.01
48 2 0.01
49 6 0.04
50 48 0.32
51 2 0.01
52 4 0.03
53 22 0.14
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (50 bp):
CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
Found at i:61600676 original size:45 final size:44
Alignment explanation
Indices: 61600625--61600866 Score: 141
Period size: 45 Copynumber: 5.2 Consensus size: 44
61600615 TCCCTGACTA
*
61600625 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGG
1 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTG-ATTTGG
* * * * * * *
61600670 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGA-CT-A
1 CAGTGGAGTACATTGAAG--C--CGAT---A-ATTCTATCTCCCTGATTTGG
*
61600720 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGG
1 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTG-ATTTGG
* * * * * * *
61600765 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGA-CT-A
1 CAGTGGAGTACATTGAAG--C--CGAT---A-ATTCTATCTCCCTGATTTGG
61600815 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTG-ATTTGG
61600860 CAGTGGA
1 CAGTGGA
61600867 ATAGATGAAG
Statistics
Matches: 144, Mismatches: 31, Indels: 44
0.66 0.14 0.20
Matches are distributed among these distances:
42 23 0.16
43 4 0.03
44 2 0.01
45 39 0.27
46 6 0.04
47 2 0.01
48 2 0.01
49 6 0.04
50 32 0.22
51 2 0.01
52 4 0.03
53 22 0.15
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGATTTGG
Found at i:61601004 original size:686 final size:687
Alignment explanation
Indices: 61599646--61601565 Score: 3005
Period size: 686 Copynumber: 2.8 Consensus size: 687
61599636 GAAGTGGATC
*
61599646 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAAGATGATAGATTTTAC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATC-AAAGATGACAGATTTTAC
*
61599711 CTCCCTGA-TCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
65 CTCCCTGACT-ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
61599775 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAAGATGGCAGA
129 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATC-AAAGATGGCAGA
* *
61599840 TTTTACCTCCATGTGACTACAATGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGC
193 TTTTACCTCC-T-TGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGC
* * * * * * * *
61599905 AGTGGAATAGATTGAAGAT------T-GCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGAT
256 AGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-ACAGTGGAGCACAT
** ** ** * * * *** * * *
61599963 CAAAAGATGGCAGATTTTACCTCCCTG-A--CCACAGTGGAGTACATTGAAG--C--CGAT---A
318 -TGAAGCCGATA-ACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCA
* * * * * * * ** * * ** * *
61600018 -ACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TGCCTTCCTGTAT
381 GATTTTACCTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-CCG-ATAACTCTATCTCCCTGCAT
* *
61600081 TTGGCAG-CG---A-A--GCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTAC
441 TTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTAC
61600139 ATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTG
506 ATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTG
61600204 CCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGA
571 CCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGA
61600269 GTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATT
636 GTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATT
* *
61600321 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAACAGATCAAAGATGGCAGATTTTACC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGACAGATTTTACC
61600386 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
66 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
* *
61600451 GATTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATAGCAGATTT
131 GATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTT
61600516 TACCTCCTTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGG
196 TACCTCCTTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGG
*
61600581 AATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCG
261 AATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGCACATTGAAGCCG
61600646 ATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCT
326 ATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCT
61600711 CCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAG
391 CCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAG
61600776 ATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAAT
456 ATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAAT
61600841 TCTATCTCCCTGTATTTGGCAGTGGAATAGA-TGAAGATTGCAGATCTTGCCTTCCTGTATTTGG
521 TCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGG
* *
61600905 CAGTGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACCTTGAAGCCGA
586 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGA
61600970 TAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATT
651 TAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATT
* *
61601007 GAAGATTGCAGATCTTGCCTTCTTGTATTTGGCAGCGAAGCAGATCAAAGATGCCAGATTTTACC
1 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGACAGATTTTACC
61601072 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
66 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
61601137 GATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTT
131 GATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTT
*
61601202 TACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGG
196 TACCTCCTTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGG
61601267 AATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGCACATTGAAGCCG
261 AATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGCACATTGAAGCCG
61601332 ATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCT
326 ATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCT
61601397 CCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAG
391 CCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAG
*
61601462 ATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAAC
456 ATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAAT
*
61601527 TCTATCTCCTTGTATTTGGCAGTGGAATAGATTGAAGAT
521 TCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
61601566 CGAAGATGGC
Statistics
Matches: 1157, Mismatches: 60, Indels: 44
0.92 0.05 0.03
Matches are distributed among these distances:
671 69 0.06
672 1 0.00
673 32 0.03
674 134 0.12
675 55 0.05
676 17 0.01
677 2 0.00
678 16 0.01
679 4 0.00
680 20 0.02
681 17 0.01
682 1 0.00
683 2 0.00
684 12 0.01
685 1 0.00
686 675 0.58
687 99 0.09
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (687 bp):
GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGACAGATTTTACC
TCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATA
GATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTT
TACCTCCTTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGG
AATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGCACATTGAAGCCG
ATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCT
CCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAG
ATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAAT
TCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGG
CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGA
TAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATT
Found at i:61601290 original size:95 final size:95
Alignment explanation
Indices: 61601182--61601662 Score: 881
Period size: 95 Copynumber: 5.0 Consensus size: 95
61601172 GCAGCGAAGC
61601182 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
61601247 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
*
61601277 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGCACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
61601342 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
61601372 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
61601437 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
61601467 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
61601532 CTCCTTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
* * *
61601562 AGATCGAAGATGGCAGATTTTACCTCCATGTGACTACAATGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
61601627 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
64 ATCTCCCTGCATTTGGCAGTGGAATAGATTGA
61601659 AGAT
1 AGAT
61601663 TGCAGATCTT
Statistics
Matches: 376, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
95 307 0.82
97 69 0.18
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGCATTTGGCAGTGGAATAGATTGA
Found at i:61601326 original size:50 final size:50
Alignment explanation
Indices: 61601261--61601518 Score: 179
Period size: 50 Copynumber: 5.4 Consensus size: 50
61601251 CTGCATTTGG
* *
61601261 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
1 CAGTGGAGTACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
* * * * * * *
61601311 CAGTGGAGCACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGCATTTGG
1 CAGTGGAGTACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
* *
61601356 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
1 CAGTGGAGTACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
* * * * * *
61601406 CAGTGGAGTACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGCATTTGG
1 CAGTGGAGTACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
* *
61601451 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
1 CAGTGGAGTACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
61601501 CAGTGGAGTACATTGAAG
1 CAGTGGAGTACATTGAAG
61601519 CCGATAACTC
Statistics
Matches: 150, Mismatches: 36, Indels: 44
0.65 0.16 0.19
Matches are distributed among these distances:
42 22 0.15
43 4 0.03
44 2 0.01
45 31 0.21
46 6 0.04
47 2 0.01
48 2 0.01
49 6 0.04
50 47 0.31
51 2 0.01
52 4 0.03
53 22 0.15
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (50 bp):
CAGTGGAGTACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
Found at i:61601754 original size:233 final size:231
Alignment explanation
Indices: 61601467--61602134 Score: 1214
Period size: 233 Copynumber: 2.9 Consensus size: 231
61601457 AATAGATTGA
61601467 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
61601532 CTCCTTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACT
*
61601597 ACAATGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
131 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
61601662 TTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGC
196 TTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGC
*
61601698 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
* *
61601763 ATCTCCCTGTATTTGGTAGTGGAATAGATTGAAGATCGAAGATGACAGATTTTACCTCCATGTGA
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGA
61601828 CTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAA
129 CTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAA
61601893 GATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGC
194 GATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGC
*
61601931 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
61601996 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGAGTTTACCTCC--CTGACT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACT
*
61602059 ACAGTGGAGTATATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
131 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
*
61602124 TTACAGATCTT
196 TTGCAGATCTT
61602135 ATCTCCCTAA
Statistics
Matches: 422, Mismatches: 13, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
229 79 0.19
231 117 0.28
233 226 0.54
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (231 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCATGTGACT
ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
TTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGC
Found at i:61601812 original size:97 final size:97
Alignment explanation
Indices: 61601698--61601895 Score: 369
Period size: 97 Copynumber: 2.0 Consensus size: 97
61601688 GCAGCGAAGC
*
61601698 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGACAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
61601763 ATCTCCCTGTATTTGGTAGTGGAATAGATTGA
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
*
61601795 AGATCGAAGATGACAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGACAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
61601860 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
66 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
61601892 AGAT
1 AGAT
61601896 TGCAGATCTT
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 98 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (97 bp):
AGATCAAAGATGACAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:61602029 original size:88 final size:88
Alignment explanation
Indices: 61601911--61602142 Score: 286
Period size: 95 Copynumber: 2.6 Consensus size: 88
61601901 ATCTTGCCTT
* * **
61601911 CCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTA
1 CCTGTATTTGGCAGTGGAA-TAGATTGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTA
61601975 CATTAAAGCCGATAACTCTATCTC
65 CATTAAAGCCGATAACTCTATCTC
*
61601999 CCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGAGTTTACCTCCCTGACTACAGT
1 CCTGTATTTGGCAGTGGAATAGA-T-----T-GAAGATGGCAGATTTTACCTCCCTGACTACAGT
* *
61602064 GGAGTATATTGAAGCCGATAACTCTATCTC
59 GGAGTACATTAAAGCCGATAACTCTATCTC
** * *
61602094 CCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCT
61602143 AAGCAATAGT
Statistics
Matches: 124, Mismatches: 12, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
88 36 0.29
89 5 0.04
94 1 0.01
95 82 0.66
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (88 bp):
CCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTAC
ATTAAAGCCGATAACTCTATCTC
Found at i:61602048 original size:95 final size:95
Alignment explanation
Indices: 61601931--61602124 Score: 352
Period size: 95 Copynumber: 2.0 Consensus size: 95
61601921 GCAGCGAAGC
*
61601931 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGAGTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
61601996 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* * *
61602026 AGATCGAAGATGGCAGAGTTTACCTCCCTGACTACAGTGGAGTATATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGAGTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
61602091 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
61602121 AGAT
1 AGAT
61602125 TACAGATCTT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGAGTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:61602167 original size:44 final size:44
Alignment explanation
Indices: 61602114--61602297 Score: 104
Period size: 44 Copynumber: 4.2 Consensus size: 44
61602104 GCAGTGGAAT
* *
61602114 AGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGC
1 AGATCGAAGATGACAGATCTTATCTCCCTAAGCAATAGTGGAGC
* * * * * * * ** *
61602158 AGGTCGAAGACGGCGGATTTTACCTCCCTGATTACA-A-TGGAGT
1 AGATCGAAGATGACAGATCTTATCTCCCTAAGCA-ATAGTGGAGC
* * * ** * ** * **
61602201 ACATTGAAGCTGGTAGTTC-TATCTCCCTGGGCAACAGTGGAAT
1 AGATCGAAGATGACAGATCTTATCTCCCTAAGCAATAGTGGAGC
* *
61602244 AGATCGAAGATTACAGATCTTATCTCTCTAAGCAATAGTGGAGC
1 AGATCGAAGATGACAGATCTTATCTCCCTAAGCAATAGTGGAGC
*
61602288 AGGTCGAAGA
1 AGATCGAAGA
61602298 CGGCGGATTT
Statistics
Matches: 96, Mismatches: 40, Indels: 8
0.67 0.28 0.06
Matches are distributed among these distances:
41 1 0.01
42 11 0.11
43 32 0.33
44 51 0.53
45 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
AGATCGAAGATGACAGATCTTATCTCCCTAAGCAATAGTGGAGC
Found at i:61602283 original size:130 final size:130
Alignment explanation
Indices: 61602029--61602383 Score: 530
Period size: 130 Copynumber: 2.7 Consensus size: 130
61602019 AGATTGAAGA
* * * * * * * * **
61602029 TCGAAGATGGCAGAGTTTACCTCCCTGACTACAGTGGAGTATATTGAAGCCGATAACTCTATCTC
1 TCGAAGACGGCGGATTTTACCTCCCTGATTACAATGGAGTACATTGAAGCTGGTAGTTCTATCTC
* *** *
61602094 CCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
66 CCTGGA--CAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCA
61602159 GG
129 GG
61602161 TCGAAGACGGCGGATTTTACCTCCCTGATTACAATGGAGTACATTGAAGCTGGTAGTTCTATCTC
1 TCGAAGACGGCGGATTTTACCTCCCTGATTACAATGGAGTACATTGAAGCTGGTAGTTCTATCTC
* *
61602226 CCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCTCTAAGCAATAGTGGAGCAGG
66 CCTGGACAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
*
61602291 TCGAAGACGGCGGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTC
1 TCGAAGACGGCGGATTTTACCTCCCTGATTACAATGGAGTACATTGAAGCTGGTAGTTCTATCTC
61602356 CCTGGACAACAGTGGAATAGATCGAAGA
66 CCTGGACAACAGTGGAATAGATCGAAGA
61602384 AAACAACATT
Statistics
Matches: 204, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
130 145 0.71
132 59 0.29
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (130 bp):
TCGAAGACGGCGGATTTTACCTCCCTGATTACAATGGAGTACATTGAAGCTGGTAGTTCTATCTC
CCTGGACAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGG
Found at i:61604026 original size:16 final size:15
Alignment explanation
Indices: 61603978--61604028 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
61603968 AATTATTTTC
61603978 CTATTATTTATTATA
1 CTATTATTTATTATA
*
61603993 CTATT-TTT-TTACA
1 CTATTATTTATTATA
61604006 CTATTATTTATTATA
1 CTATTATTTATTATA
61604021 CTTATTAT
1 C-TATTAT
61604029 ATCATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 9 0.29
14 6 0.19
15 10 0.32
16 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
CTATTATTTATTATA
Found at i:61605611 original size:12 final size:12
Alignment explanation
Indices: 61605594--61605621 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
61605584 CAGTTTTCGC
61605594 ACGGCCTAGCAT
1 ACGGCCTAGCAT
61605606 ACGGCCTAGCAT
1 ACGGCCTAGCAT
61605618 ACGG
1 ACGG
61605622 GCGTGAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.32, G:0.29, T:0.14
Consensus pattern (12 bp):
ACGGCCTAGCAT
Found at i:61607310 original size:12 final size:12
Alignment explanation
Indices: 61607288--61607317 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
61607278 AGCCATGGGT
61607288 TCTTGTTTCTTTC
1 TCTT-TTTCTTTC
61607301 TCTTTTTCTTTC
1 TCTTTTTCTTTC
61607313 TCTTT
1 TCTTT
61607318 CTTTCCGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.73
Consensus pattern (12 bp):
TCTTTTTCTTTC
Found at i:61607360 original size:22 final size:21
Alignment explanation
Indices: 61607287--61607361 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
61607277 AAGCCATGGG
*
61607287 TTCTTGTTTCTTTCTCTTTTTCT
1 TTCTT-TTTCTTTCT-TTTTTTT
* **
61607310 TTCTCTTTCTTTCCGTTTGGTTT
1 TTCTTTTTCTTT-C-TTTTTTTT
*
61607333 TGCTTTTGTCTTTCTTTTTTTT
1 TTCTTTT-TCTTTCTTTTTTTT
61607355 TTCTTTT
1 TTCTTTT
61607362 ATTACTGTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
22 19 0.47
23 15 0.38
24 6 0.15
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (21 bp):
TTCTTTTTCTTTCTTTTTTTT
Found at i:61610342 original size:37 final size:36
Alignment explanation
Indices: 61610241--61610375 Score: 92
Period size: 39 Copynumber: 3.5 Consensus size: 36
61610231 CGACCTTGAG
61610241 TCGATGAGACACTGGGTGTCATACTGTTACTTCGGATAGAT
1 TCGATGAGACACTGGGTGTCA-AC--TTACTTCGGAT--AT
** ** *
61610282 TCGATGAGTTACTGGGTACCAACTTACTTCGGCT-T
1 TCGATGAGACACTGGGTGTCAACTTACTTCGGATAT
* *
61610317 TGCCGATGAGACACTGGGTGTCAACTATTGCTTCGAACTAT
1 T--CGATGAGACACTGGGTGTCAAC--TTACTTCGGA-TAT
* *
61610358 CCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
61610376 CCGTACTAGT
Statistics
Matches: 74, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
35 2 0.03
37 18 0.24
38 10 0.14
39 23 0.31
40 3 0.04
41 18 0.24
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (36 bp):
TCGATGAGACACTGGGTGTCAACTTACTTCGGATAT
Found at i:61616361 original size:320 final size:320
Alignment explanation
Indices: 61615779--61616421 Score: 1277
Period size: 320 Copynumber: 2.0 Consensus size: 320
61615769 ATTTGAGTAT
61615779 TAAACAATAGACATGTGTCAGTAAGGAAGTCGTGCACATTGTTAACAAAAGAAAATTAAAATTTT
1 TAAACAATAGACATGTGTCAGTAAGGAAGTCGTGCACATTGTTAACAAAAGAAAATTAAAATTTT
61615844 GGATATTTTGTTAATAAACTAGACTACTCTTTAAAGTTCATTATCATAATTTATACCTTAAGCTT
66 GGATATTTTGTTAATAAACTAGACTACTCTTTAAAGTTCATTATCATAATTTATACCTTAAGCTT
*
61615909 TACTGCACATGCATATTGTACCTTCACCCACGCGGGTTTTCTGTTTGTGCCTTACACCTCAAGCA
131 TACTGCACATGCATATTGTACCTTCACCCACGCGGGTTTTCTGTTTGCGCCTTACACCTCAAGCA
61615974 ATATAAAATTAGAGTGTGCCTTGTGCCTTTAACTTGTATTTCTGCAACTCTTCAGCAGTTCCAGA
196 ATATAAAATTAGAGTGTGCCTTGTGCCTTTAACTTGTATTTCTGCAACTCTTCAGCAGTTCCAGA
61616039 TGTGAAAGTTTATAGCAAATTGAGAAACTGATGTATAAGGTTTAAGCTTAATGGATATGG
261 TGTGAAAGTTTATAGCAAATTGAGAAACTGATGTATAAGGTTTAAGCTTAATGGATATGG
61616099 TAAACAATAGACATGTGTCAGTAAGGAAGTCGTGCACATTGTTAACAAAAGAAAATTAAAATTTT
1 TAAACAATAGACATGTGTCAGTAAGGAAGTCGTGCACATTGTTAACAAAAGAAAATTAAAATTTT
61616164 GGATATTTTGTTAATAAACTAGACTACTCTTTAAAGTTCATTATCATAATTTATACCTTAAGCTT
66 GGATATTTTGTTAATAAACTAGACTACTCTTTAAAGTTCATTATCATAATTTATACCTTAAGCTT
61616229 TACTGCACATGCATATTGTACCTTCACCCACGCGGGTTTTCTGTTTGCGCCTTACACCTCAAGCA
131 TACTGCACATGCATATTGTACCTTCACCCACGCGGGTTTTCTGTTTGCGCCTTACACCTCAAGCA
61616294 ATATAAAATTAGAGTGTGCCTTGTGCCTTTAACTTGTATTTCTGCAACTCTTCAGCAGTTCCAGA
196 ATATAAAATTAGAGTGTGCCTTGTGCCTTTAACTTGTATTTCTGCAACTCTTCAGCAGTTCCAGA
61616359 TGTGAAAGTTTATAGCAAATTGAGAAACTGATGTATAAGGTTTAAGCTTAATGGATATGG
261 TGTGAAAGTTTATAGCAAATTGAGAAACTGATGTATAAGGTTTAAGCTTAATGGATATGG
61616419 TAA
1 TAA
61616422 TTGCAGGCTA
Statistics
Matches: 322, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
320 322 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (320 bp):
TAAACAATAGACATGTGTCAGTAAGGAAGTCGTGCACATTGTTAACAAAAGAAAATTAAAATTTT
GGATATTTTGTTAATAAACTAGACTACTCTTTAAAGTTCATTATCATAATTTATACCTTAAGCTT
TACTGCACATGCATATTGTACCTTCACCCACGCGGGTTTTCTGTTTGCGCCTTACACCTCAAGCA
ATATAAAATTAGAGTGTGCCTTGTGCCTTTAACTTGTATTTCTGCAACTCTTCAGCAGTTCCAGA
TGTGAAAGTTTATAGCAAATTGAGAAACTGATGTATAAGGTTTAAGCTTAATGGATATGG
Found at i:61632761 original size:31 final size:30
Alignment explanation
Indices: 61632726--61632820 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 30
61632716 TCAATATATT
*
61632726 ATTTGGTACCTAAGTTTAGTTTCAATATTCA
1 ATTTGATACCTAAGTTT-GTTTCAATATTCA
** *
61632757 ATTTGATATTTAAGTTT-TTT---TTTCTCA
1 ATTTGATACCTAAGTTTGTTTCAATAT-TCA
* *
61632784 ATTTGATACCTGAGTTTGGTTTCAATGTTCA
1 ATTTGATACCTAAGTTT-GTTTCAATATTCA
61632815 ATTTGA
1 ATTTGA
61632821 AATTCAGACC
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
26 2 0.04
27 17 0.34
29 6 0.12
31 23 0.46
32 2 0.04
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.51
Consensus pattern (30 bp):
ATTTGATACCTAAGTTTGTTTCAATATTCA
Found at i:61633798 original size:48 final size:48
Alignment explanation
Indices: 61633719--61633812 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
61633709 AGGGAATTCT
* *
61633719 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCTTTATCGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
61633767 GTTGAATCCTTTATCGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCTTTATCGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
61633813 AACCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.18, C:0.14, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCTTTATCGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:61641419 original size:11 final size:11
Alignment explanation
Indices: 61641365--61641419 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
61641355 TCTAAGTATT
61641365 TTAA-AATTAA
1 TTAATAATTAA
*
61641375 TTTAATAA-AAA
1 -TTAATAATTAA
*
61641386 TTTATAATTAA
1 TTAATAATTAA
61641397 TTAATAA-T-A
1 TTAATAATTAA
61641406 TTAATAATTAA
1 TTAATAATTAA
61641417 TTA
1 TTA
61641420 TTATGAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 8 0.22
10 8 0.22
11 18 0.50
12 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTAATAATTAA
Found at i:61642397 original size:12 final size:12
Alignment explanation
Indices: 61642380--61642416 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
61642370 TGGATTGAAC
61642380 TTAATTTAAAAT
1 TTAATTTAAAAT
61642392 TTAATTTAAAA-
1 TTAATTTAAAAT
*
61642403 TTAATTTTAAAT
1 TTAATTTAAAAT
61642415 TT
1 TT
61642417 CCTACAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTAATTTAAAAT
Found at i:61642408 original size:11 final size:11
Alignment explanation
Indices: 61642380--61642415 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
61642370 TGGATTGAAC
61642380 TTAATTTAAAA
1 TTAATTTAAAA
61642391 TTTAATTTAAAA
1 -TTAATTTAAAA
*
61642403 TTAATTTTAAA
1 TTAATTTAAAA
61642414 TT
1 TT
61642416 TCCTACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAATTTAAAA
Found at i:61644038 original size:29 final size:29
Alignment explanation
Indices: 61644005--61644064 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
61643995 ATACATTTTA
* *
61644005 ATTTTATTATCCAT-ATTATATCACCTCT
1 ATTTTTTTATCAATAATTATATCACCTCT
* * *
61644033 ATTTTTTTGTGAATAATTATGTCACCTCT
1 ATTTTTTTATCAATAATTATATCACCTCT
61644062 ATT
1 ATT
61644065 ATTTGTATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.52
Consensus pattern (29 bp):
ATTTTTTTATCAATAATTATATCACCTCT
Found at i:61654025 original size:25 final size:24
Alignment explanation
Indices: 61653988--61654046 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
61653978 CTAGTATTTT
* * *
61653988 AAAAATTATTATTATATTTTCTTG
1 AAAAAATATTATTATATATACTTG
* *
61654012 AAAAAATATATATTTTATATACTTT
1 AAAAAATAT-TATTATATATACTTG
61654037 AAAAAATATT
1 AAAAAATATT
61654047 TATGTATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (24 bp):
AAAAAATATTATTATATATACTTG
Found at i:61681464 original size:48 final size:48
Alignment explanation
Indices: 61681410--61681510 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 48
61681400 ATTAATTGCA
* *
61681410 ACATTACAACATTAAAACTTGGAATAAACTTTGTAATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAAAAAACTTTGTAATATAAATTAAAT
* * *
61681458 ACATTACAATATTAAAAATTGGAAAAAACTTTGTAATGTAAATTAGAT
1 ACATTACAACATTAAAAATTGGAAAAAACTTTGTAATATAAATTAAAT
61681506 ACATT
1 ACATT
61681511 GGATTACATA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.34
Consensus pattern (48 bp):
ACATTACAACATTAAAAATTGGAAAAAACTTTGTAATATAAATTAAAT
Found at i:61685638 original size:46 final size:45
Alignment explanation
Indices: 61685567--61685867 Score: 460
Period size: 46 Copynumber: 6.6 Consensus size: 45
61685557 TTTGAGTACT
* *
61685567 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAA-TGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
61685613 TCTAATCAATAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAT-GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
61685659 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAA-TGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
61685705 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAA-TGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
61685751 TCTGATCAAGTGACAATGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAA-TGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
61685797 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAA-TGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
61685843 TCTGATCAAGGAC-AAGTGATAAGTG
1 TCTGATCAATGACAAAGTGATAAGTG
61685868 ATTATACGTA
Statistics
Matches: 241, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
44 12 0.05
45 3 0.01
46 226 0.94
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTGATCAATGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:61685724 original size:92 final size:92
Alignment explanation
Indices: 61685567--61685867 Score: 509
Period size: 92 Copynumber: 3.3 Consensus size: 92
61685557 TTTGAGTACT
* *
61685567 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAA-TAGACAAAG
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGT-GACAAAG
61685631 TGATAAGTGGTAGCTTTAGCTACACTTA
65 TGATAAGTGGTAGCTTTAGCTACACTTA
61685659 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
61685724 GATAAGTGTTAGCTTTAGCTACACTTA
66 GATAAGTGGTAGCTTTAGCTACACTTA
* * *
61685751 TCTGATCAAGTGACAATGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
61685816 GATAAGTGGTAGCCTTAGCTACACTTA
66 GATAAGTGGTAGCTTTAGCTACACTTA
61685843 TCTGATCAAG-GAC-AAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
61685868 ATTATACGTA
Statistics
Matches: 199, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
90 11 0.06
91 3 0.02
92 184 0.92
93 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (92 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGGTAGCTTTAGCTACACTTA
Found at i:61695714 original size:26 final size:26
Alignment explanation
Indices: 61695678--61695729 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
61695668 TCATAGCTGA
* * *
61695678 AATGAATTATATGTATTAATGTTTAT
1 AATGAACTATATGTATAAATGATTAT
61695704 AATGAACTATATGTATAAATGATTAT
1 AATGAACTATATGTATAAATGATTAT
61695730 GAATCTCAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (26 bp):
AATGAACTATATGTATAAATGATTAT
Found at i:61705511 original size:12 final size:12
Alignment explanation
Indices: 61705494--61705518 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61705484 TCGGCAGATC
61705494 AGCAAGTAGAAG
1 AGCAAGTAGAAG
61705506 AGCAAGTAGAAG
1 AGCAAGTAGAAG
61705518 A
1 A
61705519 TGAGTTGGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (12 bp):
AGCAAGTAGAAG
Found at i:61713518 original size:15 final size:13
Alignment explanation
Indices: 61713486--61713510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61713476 TCATCAATTG
61713486 GTAATTTAGTTAT
1 GTAATTTAGTTAT
61713499 GTAATTTAGTTA
1 GTAATTTAGTTA
61713511 AATGTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
GTAATTTAGTTAT
Found at i:61715890 original size:18 final size:19
Alignment explanation
Indices: 61715857--61715897 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
61715847 AAAAACAATT
* *
61715857 CTCTTGCCCCACCCCGTCC
1 CTCTTCCCCCACCCCGACC
61715876 CTCTTCCCCCA-CCCGACC
1 CTCTTCCCCCACCCCGACC
61715894 CTCT
1 CTCT
61715898 CAGAATCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.07, C:0.63, G:0.07, T:0.22
Consensus pattern (19 bp):
CTCTTCCCCCACCCCGACC
Found at i:61723536 original size:15 final size:15
Alignment explanation
Indices: 61723516--61723545 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61723506 AATTTATCAT
*
61723516 ATTTCATTATTTACA
1 ATTTCATTACTTACA
61723531 ATTTCATTACTTACA
1 ATTTCATTACTTACA
61723546 CCGTTTCTTC
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:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTCATTACTTACA
Found at i:61725796 original size:41 final size:41
Alignment explanation
Indices: 61725739--61725823 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
61725729 GCTTTTTAAA
61725739 TTTCTCCAAAAAAAAAAGTACGCTTTTTAAAAGAAATTTAT
1 TTTCTCCAAAAAAAAAAGTACGCTTTTTAAAAGAAATTTAT
61725780 TTTCTCCAAAAAAAAAAGTACGCTTTTTAAAAGAAATTTAT
1 TTTCTCCAAAAAAAAAAGTACGCTTTTTAAAAGAAATTTAT
61725821 TTT
1 TTT
61725824 TAATTATTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (41 bp):
TTTCTCCAAAAAAAAAAGTACGCTTTTTAAAAGAAATTTAT
Found at i:61738994 original size:97 final size:98
Alignment explanation
Indices: 61738882--61739082 Score: 379
Period size: 97 Copynumber: 2.1 Consensus size: 98
61738872 TTGTTTTGAT
61738882 TTTTTTATTTTAATATTTTTTAAATGTGAAAGCCATGCCATATTTTTTTTCCAATTATCTCACTT
1 TTTTTTATTTTAATATTTTTTAAATGTGAAAGCCATGCCATATTTTTTTTCCAATTATCTCACTT
61738947 GTCGTGATT-AATTGGTCATCAAT-TCATGTCA
66 GTCGTGATTCAATTGGTCATCAATATCATGTCA
61738978 TTTTTTATTTTTAATATTTTTTAAATGTGAAAGCCATGCCATATTTTTTTTCCAATTATCTCACT
1 TTTTTTA-TTTTAATATTTTTTAAATGTGAAAGCCATGCCATATTTTTTTTCCAATTATCTCACT
61739043 TGTCGTGATTCAATTGGTCATCAATATCATGTCA
65 TGTCGTGATTCAATTGGTCATCAATATCATGTCA
61739077 TTTTTT
1 TTTTTT
61739083 GATATCGGTT
Statistics
Matches: 102, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
96 7 0.07
97 67 0.66
98 14 0.14
99 14 0.14
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.50
Consensus pattern (98 bp):
TTTTTTATTTTAATATTTTTTAAATGTGAAAGCCATGCCATATTTTTTTTCCAATTATCTCACTT
GTCGTGATTCAATTGGTCATCAATATCATGTCA
Found at i:61754195 original size:95 final size:95
Alignment explanation
Indices: 61754051--61754225 Score: 273
Period size: 95 Copynumber: 1.8 Consensus size: 95
61754041 TTTTTGTTAA
*
61754051 GAAATCTCAATTGAGGAATTTAAACAAGATTCCATCAACTCATACTATTATTCAAATTACAGATT
1 GAAATATCAATTGAGGAATTTAAACAAGATTCCATCAACTCATACTATTATTCAAATTACAGATT
61754116 T-AAAGATGCATTCGTCAATGCAATTTCATT
66 TGAAA-ATGCATTCGTCAATGCAATTTCATT
* * * *
61754146 GAAATATCAATTGAGGAA-TTAAACAATATTTCATCAACTCGTAATTATTATTCAAATTACAGAT
1 GAAATATCAATTGAGGAATTTAAACAAGATTCCATCAACTCAT-ACTATTATTCAAATTACAGAT
61754210 TTGAAAATGCATTCGT
65 TTGAAAATGCATTCGT
61754226 TCATCAACGC
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
94 21 0.29
95 49 0.67
96 3 0.04
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (95 bp):
GAAATATCAATTGAGGAATTTAAACAAGATTCCATCAACTCATACTATTATTCAAATTACAGATT
TGAAAATGCATTCGTCAATGCAATTTCATT
Found at i:61755167 original size:30 final size:31
Alignment explanation
Indices: 61755133--61755193 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
61755123 CTTCATTATA
61755133 AATCCT-AAATTCACTTTCACCTCCATGAAT
1 AATCCTAAAATTCACTTTCACCTCCATGAAT
61755163 AATCCTAAAATTCACTTTCACCTCCATGAAT
1 AATCCTAAAATTCACTTTCACCTCCATGAAT
61755194 GTTACATGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (31 bp):
AATCCTAAAATTCACTTTCACCTCCATGAAT
Found at i:61758947 original size:5 final size:5
Alignment explanation
Indices: 61758937--61758962 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
61758927 AAAATCGAGT
61758937 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
61758963 CAACAAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:61759968 original size:17 final size:17
Alignment explanation
Indices: 61759946--61760008 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
61759936 ATTAAATCAC
61759946 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
61759963 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
61759983 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
61760000 TACATAATT
1 TACATAATT
61760009 CTTGAAATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 22 0.63
20 13 0.37
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:61759981 original size:37 final size:37
Alignment explanation
Indices: 61759940--61760011 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
61759930 ACCAGAATTA
61759940 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
61759977 AATCACTACATAATTAAAAACATTACATAATTCTT
1 AATCACTACATAATTAAAAACATTACATAAGTCTT
61760012 GAAATTAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:61760225 original size:39 final size:39
Alignment explanation
Indices: 61760143--61760251 Score: 202
Period size: 39 Copynumber: 2.8 Consensus size: 39
61760133 TACTTAGAAT
*
61760143 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
61760181 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
61760220 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGT
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGT
61760252 TGGATAATTT
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
38 27 0.39
39 42 0.61
ACGTcount: A:0.17, C:0.03, G:0.28, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:61760231 original size:33 final size:33
Alignment explanation
Indices: 61760153--61760234 Score: 94
Period size: 38 Copynumber: 2.3 Consensus size: 33
61760143 TAGACTTTAG
*
61760153 TTTTATTTTTATTGGGTTGGTAATTGGGTAGAC
1 TTTTAGTTTTATTGGGTTGGTAATTGGGTAGAC
61760186 TTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGGTAGAC
1 -----TTTTAGTTTTATTGGGTT-GGTAATTGGGTAGAC
61760225 -TTTAGTTTTA
1 TTTTAGTTTTA
61760235 GTTTTATTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
33 10 0.24
38 17 0.40
39 15 0.36
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.52
Consensus pattern (33 bp):
TTTTAGTTTTATTGGGTTGGTAATTGGGTAGAC
Found at i:61774165 original size:19 final size:19
Alignment explanation
Indices: 61774143--61774179 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
61774133 TCTCTCAAAT
*
61774143 TTTACACTTTTTATCAATA
1 TTTACACATTTTATCAATA
61774162 TTTACACATTTTATCAAT
1 TTTACACATTTTATCAAT
61774180 TTGATCTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTACACATTTTATCAATA
Found at i:61774217 original size:51 final size:51
Alignment explanation
Indices: 61774157--61774253 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
61774147 CACTTTTTAT
* *
61774157 CAATATTTACACATT-TTATCAATTTGAT-CTTCATTTAACATATTTAGCTTG
1 CAATATTTACACATTCTT-GCAATTTGATCCTT-ATTTAACAAATTTAGCTTG
*
61774208 CAATATTTACATATTCTTGCAATTTGATCCTTATTTAACAAATTTA
1 CAATATTTACACATTCTTGCAATTTGATCCTTATTTAACAAATTTA
61774254 ACCCGCAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
51 36 0.88
52 5 0.12
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.46
Consensus pattern (51 bp):
CAATATTTACACATTCTTGCAATTTGATCCTTATTTAACAAATTTAGCTTG
Found at i:61777706 original size:27 final size:28
Alignment explanation
Indices: 61777653--61777711 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
61777643 TCCTAAACCT
61777653 TAAATCCTAAACTTCAAACTCCAAATC-
1 TAAATCCTAAACTTCAAACTCCAAATCA
* * * **
61777680 TAAATCTTAAACTTGAAATTCGGAATCA
1 TAAATCCTAAACTTCAAACTCCAAATCA
61777708 TAAA
1 TAAA
61777712 CTTTGAACAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (28 bp):
TAAATCCTAAACTTCAAACTCCAAATCA
Found at i:61781688 original size:12 final size:11
Alignment explanation
Indices: 61781660--61781685 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
61781650 AATATATTTA
61781660 TTTTAAAATAT
1 TTTTAAAATAT
61781671 TTTTAAAATAT
1 TTTTAAAATAT
61781682 TTTT
1 TTTT
61781686 TAATTTTTAA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:61781705 original size:20 final size:19
Alignment explanation
Indices: 61781669--61781706 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
61781659 ATTTTAAAAT
*
61781669 ATTTTTAAAATATTTTTTA
1 ATTTTTAAAATAATTTTTA
61781688 ATTTTTAAAATTAATTTTT
1 ATTTTTAAAA-TAATTTTT
61781707 GATATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTAAAATAATTTTTA
Found at i:61781714 original size:20 final size:19
Alignment explanation
Indices: 61781672--61781714 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
61781662 TTAAAATATT
* *
61781672 TTTAAAATATTTTTTAATT
1 TTTAAAATAATTTTTAATA
*
61781691 TTTAAAATTAATTTTTGATA
1 TTTAAAA-TAATTTTTAATA
61781711 TTTA
1 TTTA
61781715 TTTAAAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTAAAATAATTTTTAATA
Found at i:61788814 original size:21 final size:22
Alignment explanation
Indices: 61788785--61788831 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
61788775 CAGAAGGAGT
*
61788785 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
61788807 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
61788828 GAGT
1 GAGT
61788832 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:61794292 original size:11 final size:11
Alignment explanation
Indices: 61794278--61794368 Score: 58
Period size: 11 Copynumber: 9.0 Consensus size: 11
61794268 ATTTTTTTAA
61794278 TTTTAAAATAT
1 TTTTAAAATAT
61794289 TTTTAAAATACT
1 TTTTAAAATA-T
*
61794301 TTTT----TAA
1 TTTTAAAATAT
61794308 TTTTAAAATAT
1 TTTTAAAATAT
*
61794319 TTTAAAAATACT
1 TTTTAAAATA-T
**
61794331 TTTTTTAAT-T
1 TTTTAAAATAT
61794341 TTTT---A-A-
1 TTTTAAAATAT
61794347 TTTTAAAATAT
1 TTTTAAAATAT
61794358 TTTTAAAATAT
1 TTTTAAAATAT
61794369 ATATATTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
6 4 0.06
7 5 0.08
8 2 0.03
9 1 0.02
10 6 0.10
11 32 0.52
12 12 0.19
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:61794335 original size:31 final size:31
Alignment explanation
Indices: 61794269--61794342 Score: 132
Period size: 30 Copynumber: 2.4 Consensus size: 31
61794259 TATTTTTTAA
*
61794269 TTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTAAAATATTTTAAAAATAC
61794300 -TTTTTTAATTTTAAAATATTTTAAAAATAC
1 TTTTTTTAATTTTAAAATATTTTAAAAATAC
61794330 TTTTTTTAATTTT
1 TTTTTTTAATTTT
61794343 TTAATTTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 29 0.71
31 12 0.29
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTTAAAATATTTTAAAAATAC
Found at i:61794343 original size:39 final size:42
Alignment explanation
Indices: 61794300--61794386 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 42
61794290 TTTAAAATAC
61794300 TTTTTTAATTTTAAAATA-TTTTAAAA-ATACT-T-TTTTTAA
1 TTTTTTAATTTTAAAATATTTTTAAAATATA-TATATTTTTAA
61794339 TTTTTTAATTTTAAAATATTTTTAAAATATATATATTTTTAA
1 TTTTTTAATTTTAAAATATTTTTAAAATATATATATTTTTAA
61794381 TTTTTT
1 TTTTTT
61794387 TAAATAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
39 18 0.41
40 9 0.20
41 4 0.09
42 13 0.30
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (42 bp):
TTTTTTAATTTTAAAATATTTTTAAAATATATATATTTTTAA
Found at i:61808972 original size:12 final size:12
Alignment explanation
Indices: 61808955--61808979 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61808945 TCATTAGGAA
61808955 AATAAGATATTG
1 AATAAGATATTG
61808967 AATAAGATATTG
1 AATAAGATATTG
61808979 A
1 A
61808980 GAAAACAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
AATAAGATATTG
Found at i:61812549 original size:27 final size:27
Alignment explanation
Indices: 61812518--61812572 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
61812508 ATGAGTCTTA
61812518 TTTAATATGTAGACCTCCATGAGACAT
1 TTTAATATGTAGACCTCCATGAGACAT
*
61812545 TTTAATTTGTAGACCTCCATGAGACAT
1 TTTAATATGTAGACCTCCATGAGACAT
61812572 T
1 T
61812573 CTTTGTGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (27 bp):
TTTAATATGTAGACCTCCATGAGACAT
Found at i:61821715 original size:15 final size:15
Alignment explanation
Indices: 61821695--61821730 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
61821685 TTTACTTGTA
61821695 TGTTCATGTCAAAGT
1 TGTTCATGTCAAAGT
61821710 TGTTCATGTCAAAGT
1 TGTTCATGTCAAAGT
61821725 TGTTCA
1 TGTTCA
61821731 CTAAATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (15 bp):
TGTTCATGTCAAAGT
Found at i:61823349 original size:29 final size:30
Alignment explanation
Indices: 61823304--61823361 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
61823294 ATCAGAAGTT
61823304 TTGGAAAATGAAGTTGGATGAAACTAGAAC
1 TTGGAAAATGAAGTTGGATGAAACTAGAAC
* *
61823334 TTGG-AAATGAATTTGGGTGAAACTAGAA
1 TTGGAAAATGAAGTTGGATGAAACTAGAA
61823362 TATGAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.41, C:0.05, G:0.28, T:0.26
Consensus pattern (30 bp):
TTGGAAAATGAAGTTGGATGAAACTAGAAC
Found at i:61823370 original size:29 final size:29
Alignment explanation
Indices: 61823307--61823370 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
61823297 AGAAGTTTTG
61823307 GAAAATGAAGTTGGATGAAACTAGAACTT
1 GAAAATGAAGTTGGATGAAACTAGAACTT
* * *
61823336 GGAAATGAATTTGGGTGAAACTAGAA-TAT
1 GAAAATGAAGTTGGATGAAACTAGAACT-T
61823365 GAAAAT
1 GAAAAT
61823371 ATTTCCTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (29 bp):
GAAAATGAAGTTGGATGAAACTAGAACTT
Found at i:61827673 original size:21 final size:18
Alignment explanation
Indices: 61827649--61827692 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 18
61827639 TAAATCATAT
*
61827649 TTAAAATTTTATAATAATGTA
1 TTAAAATATTA-AA-AAT-TA
61827670 TTAAAATATTAAAAATTA
1 TTAAAATATTAAAAATTA
61827688 TTAAA
1 TTAAA
61827693 TTTGATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 3 0.14
20 2 0.09
21 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TTAAAATATTAAAAATTA
Found at i:61831572 original size:37 final size:37
Alignment explanation
Indices: 61831508--61831664 Score: 199
Period size: 37 Copynumber: 4.0 Consensus size: 37
61831498 TACGTATGAT
*
61831508 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
61831544 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
61831581 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
61831624 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
61831664 C
1 C
61831665 GAAGCTATCA
Statistics
Matches: 107, Mismatches: 4, Indels: 19
0.82 0.03 0.15
Matches are distributed among these distances:
36 10 0.09
37 54 0.50
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 30 0.28
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:61831634 original size:46 final size:46
Alignment explanation
Indices: 61831581--61831947 Score: 437
Period size: 46 Copynumber: 7.6 Consensus size: 46
61831571 TAAGTGTAGC
* **
61831581 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
61831627 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
61831673 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
61831725 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
61831777 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
61831823 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
61831869 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
61831921 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
61831948 AGTACTCAAA
Statistics
Matches: 290, Mismatches: 18, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
46 154 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:61831700 original size:52 final size:52
Alignment explanation
Indices: 61831624--61831941 Score: 417
Period size: 52 Copynumber: 6.3 Consensus size: 52
61831614 TAGCTAAAGC
* *
61831624 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
61831677 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
61831729 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
61831781 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
61831827 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
61831873 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
61831925 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
61831942 ATCAGAAGTA
Statistics
Matches: 238, Mismatches: 17, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 83 0.35
47 2 0.01
48 2 0.01
52 133 0.56
53 18 0.08
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:61831889 original size:196 final size:196
Alignment explanation
Indices: 61831581--61831933 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
61831571 TAAGTGTAGC
* * * * * *
61831581 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
*
61831646 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
61831711 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
61831776 T
196 T
*
61831777 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
*
61831842 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
61831907 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
61831934 ATCACTTGAT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:61831937 original size:98 final size:97
Alignment explanation
Indices: 61831581--61831947 Score: 492
Period size: 98 Copynumber: 3.7 Consensus size: 97
61831571 TAAGTGTAGC
* * * *
61831581 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
61831646 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
61831680 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
61831745 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
61831784 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
*
61831844 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
61831876 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
61831941 GATCAGA
65 GATCAGA
61831948 AGTACTCAAA
Statistics
Matches: 238, Mismatches: 17, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
92 39 0.16
94 1 0.00
96 1 0.00
98 148 0.62
99 7 0.03
100 2 0.01
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:61834916 original size:11 final size:11
Alignment explanation
Indices: 61834900--61834925 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
61834890 TAGAAGAGAC
61834900 GAAACAGGGGA
1 GAAACAGGGGA
61834911 GAAACAGGGGA
1 GAAACAGGGGA
61834922 GAAA
1 GAAA
61834926 GAAGAAAAAG
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:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:61835603 original size:6 final size:6
Alignment explanation
Indices: 61835586--61835621 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
61835576 ATGTGAGGTA
* *
61835586 AGTATT AATATT AGTATT AGTATT ATTATT AGTATT
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
61835622 TTTATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (6 bp):
AGTATT
Found at i:61835626 original size:12 final size:12
Alignment explanation
Indices: 61835588--61835635 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
61835578 GTGAGGTAAG
* *
61835588 TATTAATATTAG
1 TATTAGTATTAT
61835600 TATTAGTATTAT
1 TATTAGTATTAT
*
61835612 TATTAGTATTTT
1 TATTAGTATTAT
*
61835624 TATTATTATTAT
1 TATTAGTATTAT
61835636 GAGTGGGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:61835627 original size:6 final size:6
Alignment explanation
Indices: 61835588--61835635 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
61835578 GTGAGGTAAG
* * * * *
61835588 TATTAA TATTAG TATTAG TATTAT TATTAG TATTTT TATTAT TATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
61835636 GAGTGGGAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (6 bp):
TATTAT
Found at i:61835627 original size:18 final size:18
Alignment explanation
Indices: 61835586--61835634 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
61835576 ATGTGAGGTA
*
61835586 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
61835604 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
**
61835622 TTTATTATTATTA
1 AGTATTATTATTA
61835635 TGAGTGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:61835830 original size:24 final size:24
Alignment explanation
Indices: 61835776--61835847 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
61835766 TGTGTGAAGT
*
61835776 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
61835799 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
61835824 TGTGAAAAATTGTAATTGAATTGA
1 TGTGAAAAA-TG--ATTGAATTGA
61835848 GAATATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.22
24 14 0.35
25 7 0.17
27 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:61836050 original size:37 final size:39
Alignment explanation
Indices: 61835991--61836086 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
61835981 CGGATAGATT
* * * *
61835991 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
61836028 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
61836067 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
61836087 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:61837307 original size:27 final size:26
Alignment explanation
Indices: 61837277--61837327 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
61837267 AATAAAATAA
61837277 AATTTATTTTTTAAATATTTTAATAGT
1 AATTTATTTTTTAAAT-TTTTAATAGT
*
61837304 AATTTATTTTTTATATTTTTAATA
1 AATTTATTTTTTAAATTTTTAATA
61837328 TATTTGTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
AATTTATTTTTTAAATTTTTAATAGT
Found at i:61837394 original size:24 final size:24
Alignment explanation
Indices: 61837367--61837422 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
61837357 CATTTAATAA
61837367 AATAAAAGTTGTTTTTA-ATATTTT
1 AATAAAAGTTGTTTTTATAT-TTTT
* *
61837391 AATAGTAATTTGTTTTTATATTTTT
1 AATA-AAAGTTGTTTTTATATTTTT
61837416 AATAAAA
1 AATAAAA
61837423 TAAAAGTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.22
25 19 0.70
26 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (24 bp):
AATAAAAGTTGTTTTTATATTTTT
Found at i:61837461 original size:8 final size:9
Alignment explanation
Indices: 61837445--61837474 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
61837435 TGAATAAGAA
61837445 AATATTTTT
1 AATATTTTT
61837454 AATATTTTT
1 AATATTTTT
61837463 -ATATTTTT
1 AATATTTTT
61837471 AATA
1 AATA
61837475 AAATATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:61838485 original size:25 final size:25
Alignment explanation
Indices: 61838456--61838508 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
61838446 CACTTGTCGT
*
61838456 CGTTCAATGTTAGACTGATATTGCC
1 CGTTCAATGGTAGACTGATATTGCC
61838481 CGTTCAATGGTAGACTGATATTGCC
1 CGTTCAATGGTAGACTGATATTGCC
61838506 CGT
1 CGT
61838509 AGTAGTTGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (25 bp):
CGTTCAATGGTAGACTGATATTGCC
Found at i:61840635 original size:34 final size:34
Alignment explanation
Indices: 61840595--61840660 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
61840585 ACAAAATTAT
61840595 TTTAAAAAACTAAACCAAAATTTAATTAATTTTC
1 TTTAAAAAACTAAACCAAAATTTAATTAATTTTC
** **
61840629 TTTAAAACCCTAAACCCCAATTTAATTAATTT
1 TTTAAAAAACTAAACCAAAATTTAATTAATTT
61840661 AATTAAAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (34 bp):
TTTAAAAAACTAAACCAAAATTTAATTAATTTTC
Found at i:61840716 original size:34 final size:33
Alignment explanation
Indices: 61840604--61840716 Score: 102
Period size: 34 Copynumber: 3.3 Consensus size: 33
61840594 TTTTAAAAAA
** ** *
61840604 CTAAACCAAAATTTAATTAATTTTCTTTAAAACC
1 CTAAACCCTAATTTAATTAA-TTTAATAAAAACC
* *
61840638 CTAAACCCCAATTTAATTAATTTAATTAAAACCC
1 CTAAACCCTAATTTAATTAATTTAA-TAAAAACC
* *
61840672 CAAAAACCTAATTTAATTAAAATTTAA-AAAAACC
1 CTAAACCCTAATTTAATT--AATTTAATAAAAACC
61840706 CTAAACCCTAA
1 CTAAACCCTAA
61840717 ACCTACCAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
33 3 0.05
34 54 0.84
36 7 0.11
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (33 bp):
CTAAACCCTAATTTAATTAATTTAATAAAAACC
Found at i:61844049 original size:79 final size:80
Alignment explanation
Indices: 61843909--61844071 Score: 256
Period size: 79 Copynumber: 2.0 Consensus size: 80
61843899 ACTTTAGGCA
* *
61843909 AGTTCCGTTTTGCAGTTTGAAAGGAATGAGGCAGGAGGGTGGTTGAGGAATGAAGGATATCTTTT
1 AGTTCCGTTTTGCAGTTTGAAAGGAAAGAAGCAGGAGGGTGGTTGAGGAATGAAGGATATCTTTT
* *
61843974 ATTCCTTTCAGTCG-
66 AGTCCTTTCAATCGT
* * *
61843988 AGTTTCGTTTTGCAGTTTGAAAGGAAAGAAGCGGGAGGGTGGTTGAGGAATGAAGGGTATCTTTT
1 AGTTCCGTTTTGCAGTTTGAAAGGAAAGAAGCAGGAGGGTGGTTGAGGAATGAAGGATATCTTTT
61844053 AGTCCTTTCAATCGT
66 AGTCCTTTCAATCGT
61844068 AGTT
1 AGTT
61844072 AGTAATCTCT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
79 72 0.95
80 4 0.05
ACGTcount: A:0.25, C:0.10, G:0.32, T:0.33
Consensus pattern (80 bp):
AGTTCCGTTTTGCAGTTTGAAAGGAAAGAAGCAGGAGGGTGGTTGAGGAATGAAGGATATCTTTT
AGTCCTTTCAATCGT
Found at i:61848287 original size:28 final size:29
Alignment explanation
Indices: 61848255--61848328 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
61848245 TTAACGGTTC
*
61848255 AGTGACTAAAATATTACATGTT-AACATA
1 AGTGACTAAAATATAACATGTTAAACATA
** * *
61848283 AGTGACTAAAACGTAATATTTTAAACATA
1 AGTGACTAAAATATAACATGTTAAACATA
*
61848312 AGTGATTAAAATATAAC
1 AGTGACTAAAATATAAC
61848329 CCAAAATAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 17 0.47
29 19 0.53
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (29 bp):
AGTGACTAAAATATAACATGTTAAACATA
Found at i:61855891 original size:17 final size:19
Alignment explanation
Indices: 61855847--61855897 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
61855837 GGTTTTTTTG
61855847 TTAT-TCAAAAATAAAACA
1 TTATATCAAAAATAAAACA
*
61855865 TTATAT-AAAATTAAAA-A
1 TTATATCAAAAATAAAACA
61855882 TTA-ATCAAAAAATAAA
1 TTATATC-AAAAATAAA
61855898 TGATAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 2 0.07
17 4 0.14
18 21 0.75
19 1 0.04
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (19 bp):
TTATATCAAAAATAAAACA
Found at i:61858553 original size:22 final size:21
Alignment explanation
Indices: 61858518--61858561 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
61858508 TAGTATAAAT
*
61858518 TAAAAATTAAAAATACAATAAC
1 TAAAAATGAAAAAT-CAATAAC
* *
61858540 TAAAAATGATAAATCTATAAC
1 TAAAAATGAAAAATCAATAAC
61858561 T
1 T
61858562 TTGATAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAAATGAAAAATCAATAAC
Found at i:61858917 original size:27 final size:25
Alignment explanation
Indices: 61858885--61858935 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
61858875 ATGTTTTAAA
61858885 ATTTTTTAAAATTCGAAAATAAAAATT
1 ATTTTTTAAAA-T-GAAAATAAAAATT
*
61858912 ATTTTTTAAAATGAAAATATAAAT
1 ATTTTTTAAAATGAAAATAAAAAT
61858936 ATAAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.48
26 1 0.04
27 11 0.48
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (25 bp):
ATTTTTTAAAATGAAAATAAAAATT
Found at i:61860076 original size:15 final size:16
Alignment explanation
Indices: 61860047--61860079 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
61860037 CGAAAATTCT
61860047 ATTTCTTAATATTAAA
1 ATTTCTTAATATTAAA
*
61860063 ATTT-TTAATTTTAAA
1 ATTTCTTAATATTAAA
61860078 AT
1 AT
61860080 ATCAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTCTTAATATTAAA
Found at i:61865786 original size:14 final size:15
Alignment explanation
Indices: 61865767--61865795 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61865757 ACCTATAATG
61865767 AAATTATTTT-AAAA
1 AAATTATTTTGAAAA
61865781 AAATTATTTTGAAAA
1 AAATTATTTTGAAAA
61865796 TTTATAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AAATTATTTTGAAAA
Found at i:61867019 original size:39 final size:33
Alignment explanation
Indices: 61866940--61867019 Score: 88
Period size: 39 Copynumber: 2.2 Consensus size: 33
61866930 AAAAATAAAT
61866940 ATTAATAATTATATTACGAATAAAAAATTTTAA
1 ATTAATAATTATATTACGAATAAAAAATTTTAA
**
61866973 AAAAATAATTATATAATAATCGAACTAAATAAATTTTAA
1 ATTAATAATTATAT--T-A-CGAA-TAAA-AAATTTTAA
61867012 ATTAATAA
1 ATTAATAA
61867020 ATAAGAGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
33 12 0.32
35 1 0.03
36 1 0.03
37 4 0.11
38 4 0.11
39 15 0.41
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (33 bp):
ATTAATAATTATATTACGAATAAAAAATTTTAA
Found at i:61871672 original size:21 final size:19
Alignment explanation
Indices: 61871648--61871687 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
61871638 TTAAAAAGTA
61871648 TATATTAAAATAAATATATTT
1 TATATT-AAA-AAATATATTT
*
61871669 TATATTATAAAATATATTT
1 TATATTAAAAAATATATTT
61871688 AAAATAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATTAAAAAATATATTT
Found at i:61874292 original size:25 final size:24
Alignment explanation
Indices: 61874245--61874297 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
61874235 TCAATCTGGA
*
61874245 TTTTAAAATTTAATGGATATTTGG
1 TTTTAAAATTTAATGCATATTTGG
61874269 TTTTAAAAATTTTAATGCAT-TTTGG
1 TTTT-AAAA-TTTAATGCATATTTGG
61874294 TTTT
1 TTTT
61874298 CAAGAGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 4 0.15
25 13 0.50
26 9 0.35
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (24 bp):
TTTTAAAATTTAATGCATATTTGG
Found at i:61878599 original size:32 final size:32
Alignment explanation
Indices: 61878558--61878622 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
61878548 GTTGGAAGTA
61878558 TGAAATTAGCTTATTATGTCAATAGAAACCTT
1 TGAAATTAGCTTATTATGTCAATAGAAACCTT
61878590 TGAAATTAGCTTATTATGTCAATAGAAACCTT
1 TGAAATTAGCTTATTATGTCAATAGAAACCTT
61878622 T
1 T
61878623 CTATTAAGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
TGAAATTAGCTTATTATGTCAATAGAAACCTT
Found at i:61887871 original size:10 final size:10
Alignment explanation
Indices: 61887856--61887880 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
61887846 CTGCTTGCTT
61887856 GCTGAAAGAC
1 GCTGAAAGAC
61887866 GCTGAAAGAC
1 GCTGAAAGAC
61887876 GCTGA
1 GCTGA
61887881 GACGACAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.20, G:0.32, T:0.12
Consensus pattern (10 bp):
GCTGAAAGAC
Found at i:61907119 original size:31 final size:31
Alignment explanation
Indices: 61907071--61907147 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
61907061 TTTTGAAATC
*
61907071 GAAAAA-ATAGAGACTAAATTTCAATTTTAT
1 GAAAAATATAAAGACTAAATTTCAATTTTAT
*
61907101 GAAAAATATAAGGACTAAATTTCAATTTTAT
1 GAAAAATATAAAGACTAAATTTCAATTTTAT
61907132 GAAAAATATAAAGACT
1 GAAAAATATAAAGACT
61907148 TATTGCATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
30 6 0.14
31 37 0.86
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.31
Consensus pattern (31 bp):
GAAAAATATAAAGACTAAATTTCAATTTTAT
Found at i:61907160 original size:31 final size:31
Alignment explanation
Indices: 61907071--61907161 Score: 114
Period size: 31 Copynumber: 3.0 Consensus size: 31
61907061 TTTTGAAATC
* *
61907071 GAAAAA-ATAGAGACTAAATTTCAATTTTAT
1 GAAAAATATAAAGACTAAATTGCAATTTTAT
* *
61907101 GAAAAATATAAGGACTAAATTTCAATTTTAT
1 GAAAAATATAAAGACTAAATTGCAATTTTAT
*
61907132 GAAAAATATAAAGACT-TATTGCATATTTTA
1 GAAAAATATAAAGACTAAATTGCA-ATTTTA
61907162 ACCTATTTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
30 11 0.20
31 43 0.80
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (31 bp):
GAAAAATATAAAGACTAAATTGCAATTTTAT
Found at i:61907765 original size:11 final size:11
Alignment explanation
Indices: 61907749--61907792 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
61907739 ATTGGCTCTT
61907749 ATTTTAAATTA
1 ATTTTAAATTA
61907760 ATTTTAAATT-
1 ATTTTAAATTA
61907770 ATTTT-AATTA
1 ATTTTAAATTA
61907780 CATTTTTAAATTA
1 -A-TTTTAAATTA
61907793 TCAATATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.14
10 5 0.17
11 11 0.38
12 4 0.14
13 5 0.17
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:61907771 original size:21 final size:22
Alignment explanation
Indices: 61907747--61907793 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
61907737 TTATTGGCTC
61907747 TTATTTTAAATTA-A-TTTTAAA
1 TTATTTT-AATTACATTTTTAAA
61907768 TTATTTTAATTACATTTTTAAA
1 TTATTTTAATTACATTTTTAAA
61907790 TTAT
1 TTAT
61907794 CAATATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 8 0.33
22 11 0.46
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATTTTAATTACATTTTTAAA
Found at i:61909429 original size:24 final size:24
Alignment explanation
Indices: 61909402--61909453 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
61909392 TTAGTAAGTC
*
61909402 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
61909426 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
61909450 AAAT
1 AAAT
61909454 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:61911399 original size:24 final size:24
Alignment explanation
Indices: 61911372--61911423 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
61911362 TTAGTAAGTC
*
61911372 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
61911396 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
61911420 AAAT
1 AAAT
61911424 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:61913167 original size:21 final size:20
Alignment explanation
Indices: 61913129--61913166 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
61913119 AAAATCAAGG
61913129 TTTTTTTTATTTATTTTTGT
1 TTTTTTTTATTTATTTTTGT
61913149 TTTTGTTTTA-TTATTTTT
1 TTTT-TTTTATTTATTTTT
61913167 TATTACACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (20 bp):
TTTTTTTTATTTATTTTTGT
Found at i:61916653 original size:30 final size:33
Alignment explanation
Indices: 61916593--61916653 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
61916583 TCTACTAAAA
*
61916593 AAAATGAGCAAATTAGTTCATGTATGTTACATC
1 AAAATGAGCAAACTAGTTCATGTATGTTACATC
*
61916626 AAAA-GAGCAAACTAG-TCAT-TCTGTTACA
1 AAAATGAGCAAACTAGTTCATGTATGTTACA
61916654 AATTCTATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 4 0.15
32 10 0.38
33 4 0.15
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (33 bp):
AAAATGAGCAAACTAGTTCATGTATGTTACATC
Done.