Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 297 of 378
Found at i:89759197 original size:34 final size:34
Alignment explanation
Indices: 89759154--89759222 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
89759144 AGAACAAGTC
89759154 AAATAACATAGGCTATCTATTAAAAATAAAACAT
1 AAATAACATAGGCTATCTATTAAAAATAAAACAT
89759188 AAATAACATAGGCTATCTATTAAAAATAAAACAT
1 AAATAACATAGGCTATCTATTAAAAATAAAACAT
89759222 A
1 A
89759223 GCTAAGCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.57, C:0.12, G:0.06, T:0.26
Consensus pattern (34 bp):
AAATAACATAGGCTATCTATTAAAAATAAAACAT
Found at i:89769792 original size:26 final size:25
Alignment explanation
Indices: 89769763--89769820 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
89769753 ATAAAACCTA
*
89769763 AAAATGAAATAGTA-TTAAATGAAAAT
1 AAAAT-AAAAAGTACTTAAA-GAAAAT
*
89769789 AAAATAAAAAGTACTTAAAGAAGAT
1 AAAATAAAAAGTACTTAAAGAAAAT
89769814 -AAATAAA
1 AAAATAAA
89769821 GATAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 12 0.41
26 10 0.34
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (25 bp):
AAAATAAAAAGTACTTAAAGAAAAT
Found at i:89769815 original size:25 final size:25
Alignment explanation
Indices: 89769763--89769846 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 25
89769753 ATAAAACCTA
*
89769763 AAAATGAAATAGTATTAAATGAAAAT
1 AAAAT-AAAAAGTATTAAATGAAAAT
*
89769789 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAATGAAAAT
*
89769814 -AAAT--AAAG-ATAAAAGTGAAAAT
1 AAAATAAAAAGTATTAAA-TGAAAAT
89769836 ACAAATAAAAA
1 A-AAATAAAAA
89769847 ATAAAAACTC
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
20 4 0.09
21 1 0.02
22 9 0.19
24 8 0.17
25 12 0.26
26 13 0.28
ACGTcount: A:0.67, C:0.02, G:0.11, T:0.20
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAATGAAAAT
Found at i:89771445 original size:3 final size:3
Alignment explanation
Indices: 89771373--89771437 Score: 78
Period size: 3 Copynumber: 21.0 Consensus size: 3
89771363 AAGATAGAAA
* *
89771373 AAT AAT AAG AAT AAAT AGT AAT -AT AAT GAAT GAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT
89771420 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
89771438 GTAATAATTG
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 2 0.04
3 43 0.78
4 10 0.18
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:89776430 original size:40 final size:40
Alignment explanation
Indices: 89776385--89776514 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
89776375 CGGAATACAA
*
89776385 CCGGATATAACCA-TGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACGAATGCCTTCGGGTCTTAGC
* ** *
89776425 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
89776465 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
89776505 CCGGATATAA
1 CCGGATATAA
89776515 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:89776529 original size:40 final size:40
Alignment explanation
Indices: 89776408--89776548 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
89776398 TGTGCACGAA
* *
89776408 TGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-GCACGAA-
1 TGCCTTCGGGTCTTAGCCCGGATATAATCAC-CAGCAC-AAT
* ** *
89776448 TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACCAGCACAAT
* ** *
89776488 TGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACCAGCACAAT
* *
89776528 TGTCTTCGGGGCTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
89776549 GTATCATTCA
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
39 2 0.02
40 80 0.98
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAATCACCAGCACAAT
Found at i:89786803 original size:26 final size:26
Alignment explanation
Indices: 89786774--89786832 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
89786764 TATCCCCAAC
89786774 AAAATTTTAACGATTTTACCCTT-AGT
1 AAAATTTTAACGATTTTACCCTTGA-T
* * * *
89786800 AAAAATTTGATGATTTTGCCCTTGAT
1 AAAATTTTAACGATTTTACCCTTGAT
89786826 AAAATTT
1 AAAATTT
89786833 CAAGAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (26 bp):
AAAATTTTAACGATTTTACCCTTGAT
Found at i:89788955 original size:20 final size:20
Alignment explanation
Indices: 89788930--89788977 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
89788920 TTAGAACAAT
89788930 TGAAACATGCGAGATATGTA
1 TGAAACATGCGAGATATGTA
89788950 TGAAACATGCGAGATATGTA
1 TGAAACATGCGAGATATGTA
89788970 TGAAACAT
1 TGAAACAT
89788978 AAATTGATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (20 bp):
TGAAACATGCGAGATATGTA
Found at i:89791220 original size:45 final size:45
Alignment explanation
Indices: 89791151--89791241 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
89791141 GCGCTATTCA
*
89791151 TAGTTTTAATATAATCCAAGCACCATGCAACAACAATAATTTTTT
1 TAGTATTAATATAATCCAAGCACCATGCAACAACAATAATTTTTT
89791196 TAGTATTAATATAATCCAAGCACCATGCAACAACAATAATTTTTT
1 TAGTATTAATATAATCCAAGCACCATGCAACAACAATAATTTTTT
89791241 T
1 T
89791242 CTTTTCTTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.35
Consensus pattern (45 bp):
TAGTATTAATATAATCCAAGCACCATGCAACAACAATAATTTTTT
Found at i:89791406 original size:26 final size:26
Alignment explanation
Indices: 89791370--89791422 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
89791360 CAAACAAGAA
89791370 AACTTATATGAGTAGGCCGAGTTCTT
1 AACTTATATGAGTAGGCCGAGTTCTT
89791396 AACTTATATGAGTAGGCCGAGTTCTT
1 AACTTATATGAGTAGGCCGAGTTCTT
89791422 A
1 A
89791423 TTGTTATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (26 bp):
AACTTATATGAGTAGGCCGAGTTCTT
Found at i:89793375 original size:53 final size:53
Alignment explanation
Indices: 89793299--89793403 Score: 120
Period size: 53 Copynumber: 2.0 Consensus size: 53
89793289 ATAAACTATG
* ** * * *
89793299 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGACAATGGTGAGTTC
1 ATAAGGCAAAGATACCACATAAGACCATGCCAAGACACGACAATGGTAAGTTC
* ** *
89793352 ATAAGGCAAGGATACCACATAAGACTGTGTCAAGACACGACAATGGTAAGTT
1 ATAAGGCAAAGATACCACATAAGACCATGCCAAGACACGACAATGGTAAGTT
89793404 TAAAAAGGAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACATAAGACCATGCCAAGACACGACAATGGTAAGTTC
Found at i:89799427 original size:23 final size:23
Alignment explanation
Indices: 89799397--89799443 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
89799387 CACCTGTATT
*
89799397 AGTCCAGCCTGAATCCGGTAAGG
1 AGTCCAGCCTAAATCCGGTAAGG
**
89799420 AGTCCAGCCTAAATTGGGTAAGG
1 AGTCCAGCCTAAATCCGGTAAGG
89799443 A
1 A
89799444 ATATACAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (23 bp):
AGTCCAGCCTAAATCCGGTAAGG
Found at i:89801413 original size:46 final size:46
Alignment explanation
Indices: 89801346--89801566 Score: 239
Period size: 46 Copynumber: 4.8 Consensus size: 46
89801336 TGTAACCCTC
* *
89801346 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
89801392 CCATAAGTGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * * *
89801438 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCAT
* *** * * * * *
89801484 ACATCTCTCGAACTCGGACTCAACTCAACAAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
89801531 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
89801567 ATGCCCAAAT
Statistics
Matches: 144, Mismatches: 26, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
45 1 0.01
46 109 0.76
47 32 0.22
48 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:89805893 original size:40 final size:40
Alignment explanation
Indices: 89805764--89805894 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
89805754 TATGCTGGAA
* * *
89805764 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
89805804 GCTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
89805844 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
*
89805884 ATTAAATCCGG
1 ATTATATCCGG
89805895 TTATATTCCG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:89807629 original size:19 final size:20
Alignment explanation
Indices: 89807594--89807637 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
89807584 AGGGACTAAA
*
89807594 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAGTTCTAAAATTTG
*
89807614 ATGAAAA-TTCTAAAATTTT
1 ATGAAAAGTTCTAAAATTTG
89807633 ATGAA
1 ATGAA
89807638 TACATGTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGAAAAGTTCTAAAATTTG
Found at i:89807995 original size:14 final size:15
Alignment explanation
Indices: 89807978--89808006 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89807968 TGTTGTGTTG
89807978 TATG-TAATGTGATT
1 TATGTTAATGTGATT
89807992 TATGTTAATGTGATT
1 TATGTTAATGTGATT
89808007 CACTTGTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TATGTTAATGTGATT
Found at i:89812165 original size:14 final size:14
Alignment explanation
Indices: 89812157--89812189 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
89812147 TTAAATAAAG
89812157 AGATATAAAGAATA
1 AGATATAAAGAATA
89812171 AGATATAAAGAATA
1 AGATATAAAGAATA
*
89812185 GGATA
1 AGATA
89812190 GAGGAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (14 bp):
AGATATAAAGAATA
Found at i:89820443 original size:47 final size:46
Alignment explanation
Indices: 89820365--89820687 Score: 164
Period size: 47 Copynumber: 6.9 Consensus size: 46
89820355 TTGGGTGATT
89820365 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCAT-CAGA
* * * * *
89820413 TGAGGGCTAGTGTAAGA-CATGTCTGGGACATGCTTCAGCCAT-ATTA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATC-GGCATCA-GA
* *
89820459 TGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCGTCGGCA-CAGAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATC--AGA
* * * ** *
89820507 TGAGTGCCAGAGTAAGA-CGTGTCTAAGACATGCATCGGCCTC-GA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCAGA
* * * * *
89820551 TAGAGATAGCTC-GTGTAAGA-CGTGCCTGGGACACGCATTGGCTAAT-AGT
1 T-GAG--AGC-CAGTGTAAGACCATGTCTGGGACATGCATCGGC--ATCAGA
* * * * * *
89820600 TG-TA-CTAGTGTAAGA-CATGTCTGGGACATGCATTAGCACACACATA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGCA-TCG-GCA-TCAGA
* * * *
89820646 TGAGAGCCAGTGTAAAACCATGTATGAGACATGACAGCGGCA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATG-CATCGGCA
89820688 ACATATCCCA
Statistics
Matches: 205, Mismatches: 46, Indels: 48
0.69 0.15 0.16
Matches are distributed among these distances:
44 27 0.13
45 7 0.03
46 30 0.15
47 74 0.36
48 47 0.23
49 18 0.09
50 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCAGA
Found at i:89820530 original size:94 final size:94
Alignment explanation
Indices: 89820365--89820539 Score: 253
Period size: 94 Copynumber: 1.9 Consensus size: 94
89820355 TTGGGTGATT
* * *
89820365 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGATGAGGGCTAGTGTAAGA
1 TGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATCCAGATGAGGGCCAGAGTAAGA
**
89820430 CATGTCTGGGACATGCTTCAGCCATATTA
66 CATGTCTAAGACATGCTTCAGCCATATTA
* * *
89820459 TGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCGTCGGCA-CAGAGATGAGTGCCAGAGTAAG
1 TGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATC-CAGATGAGGGCCAGAGTAAG
*
89820523 ACGTGTCTAAGACATGC
65 ACATGTCTAAGACATGC
89820540 ATCGGCCTCG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 1 0.01
94 70 0.99
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (94 bp):
TGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATCCAGATGAGGGCCAGAGTAAGA
CATGTCTAAGACATGCTTCAGCCATATTA
Found at i:89828093 original size:94 final size:93
Alignment explanation
Indices: 89827920--89828096 Score: 219
Period size: 94 Copynumber: 1.9 Consensus size: 93
89827910 GACATTGGGT
* * ** * *
89827920 TATTTGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACATCCAGACGAGGGCTAGTGT
1 TATTTGAGAGCCAATGTAAAACCATGTCTAGGACATGGCATCGACAGACAGACGAGGGCCAGAGT
89827985 AAGACATGTCTGGGACATGCTTCATCCA
66 AAGACATGTCTGGGACATGCTTCATCCA
* * * * * *
89828013 TATTATGAGAGCCAATGTAAGACCATGTCTAGGACATGGCGTCGGCAGAGAGATGAGTGCCAGAG
1 TATT-TGAGAGCCAATGTAAAACCATGTCTAGGACATGGCATCGACAGACAGACGAGGGCCAGAG
* *
89828078 TAAGACGTGTTTGGGACAT
65 TAAGACATGTCTGGGACAT
89828097 ACATCGGCCT
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
93 4 0.06
94 65 0.94
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (93 bp):
TATTTGAGAGCCAATGTAAAACCATGTCTAGGACATGGCATCGACAGACAGACGAGGGCCAGAGT
AAGACATGTCTGGGACATGCTTCATCCA
Found at i:89834993 original size:40 final size:40
Alignment explanation
Indices: 89834866--89834995 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
89834856 ATGCTGGAAA
* * * *
89834866 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
89834906 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
* *
89834946 TTCTATCCGGGCTAAGACTCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
89834986 TTATATCCGG
1 TTATATCCGG
89834996 TTATATTCCG
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 2 0.03
40 68 0.97
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:89837313 original size:21 final size:21
Alignment explanation
Indices: 89837289--89837329 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
89837279 TGTGGACAGA
*
89837289 TTACA-AGTAAACTAAACAAAG
1 TTACATAG-AAACAAAACAAAG
89837310 TTACATAGAAACAAAACAAA
1 TTACATAGAAACAAAACAAA
89837330 CAAAATGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.61, C:0.15, G:0.07, T:0.17
Consensus pattern (21 bp):
TTACATAGAAACAAAACAAAG
Found at i:89838471 original size:45 final size:45
Alignment explanation
Indices: 89838226--89838460 Score: 310
Period size: 45 Copynumber: 5.2 Consensus size: 45
89838216 TAGCTGTCCT
* * *
89838226 ACTGCTCGTAGGCTT-AATGAAATGAGAGTTGAATGTACCAGCCCC
1 ACTGCTCGTAAG-TTGAATGAATTGAGAGCTGAATGTACCAGCCCC
* * *
89838271 ACTGCTCCTAAGTTGAAAGAATTGAGAGCTGAATGTACCGGCCCC
1 ACTGCTCGTAAGTTGAATGAATTGAGAGCTGAATGTACCAGCCCC
* * * *
89838316 ACTGCTCGCAGGTTGAATGAATTGAGAGCTGAATGAACCAGCCTC
1 ACTGCTCGTAAGTTGAATGAATTGAGAGCTGAATGTACCAGCCCC
* * *
89838361 ACTGCTTGTAAGTTGAACGAATTGAGAGTTGAATGTACCAGCCCC
1 ACTGCTCGTAAGTTGAATGAATTGAGAGCTGAATGTACCAGCCCC
* * *
89838406 ACTGCTAGTAAGTTGAATGAATTGAGAGCTGAATGTACCTGCTCC
1 ACTGCTCGTAAGTTGAATGAATTGAGAGCTGAATGTACCAGCCCC
89838451 ACTGCTCGTA
1 ACTGCTCGTA
89838461 GTCTTAATGA
Statistics
Matches: 163, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
44 2 0.01
45 161 0.99
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (45 bp):
ACTGCTCGTAAGTTGAATGAATTGAGAGCTGAATGTACCAGCCCC
Found at i:89844217 original size:142 final size:141
Alignment explanation
Indices: 89843917--89844341 Score: 618
Period size: 142 Copynumber: 3.0 Consensus size: 141
89843907 ATAACATAGT
*
89843917 TATAATTAATATATGAGTTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTA
1 TATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTA
* *
89843982 ATATAAAT-TGT-TA-T-ATTAATTAATTTCGGTCAAAATATAAAAGAAAT-GAATTTTAATATT
66 ATATAAATATTTATATTAATTAATTAATTTCGGTCAAAATATAAAA-AAATAGAA-ATTAATATT
89844042 CTTTTGGAAAGAA
129 CTTTTGGAAAGAA
* * *
89844055 TATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATGTTTTACTGAATTTATTA
1 TATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTA
*
89844120 ATATAAATATTTATATTAATTAATTAATTTCGGTCAATATATAAAAAAAGTAGAAATTAATATTC
66 ATATAAATATTTATATTAATTAATTAATTTCGGTCAAAATATAAAAAAA-TAGAAATTAATATTC
*
89844185 TTTTGGAAATAA
130 TTTTGGAAAGAA
89844197 TATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTA
1 TATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTA
* * * * *
89844262 ATATAAACAATTATATTAA-T-A--AATTCCAGTCAAAATAT-AAAAGATATGAAAATTAATATT
66 ATATAAATATTTATATTAATTAATTAATTTCGGTCAAAATATAAAAAAATA-G-AAATTAATATT
89844322 CTTTTGGAAAGAA
129 CTTTTGGAAAGAA
89844335 TATAATT
1 TATAATT
89844342 CTTTTTTTTT
Statistics
Matches: 261, Mismatches: 18, Indels: 16
0.88 0.06 0.05
Matches are distributed among these distances:
136 2 0.01
137 6 0.02
138 113 0.43
139 2 0.01
140 3 0.01
141 5 0.02
142 127 0.49
143 3 0.01
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (141 bp):
TATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTA
ATATAAATATTTATATTAATTAATTAATTTCGGTCAAAATATAAAAAAATAGAAATTAATATTCT
TTTGGAAAGAA
Found at i:89852268 original size:16 final size:16
Alignment explanation
Indices: 89852247--89852290 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
89852237 CGTACAAAAA
89852247 AATAAAAATAAAATAG
1 AATAAAAATAAAATAG
* *
89852263 AATAAAAGTAAAATGG
1 AATAAAAATAAAATAG
89852279 AAT-AAAATAAAA
1 AATAAAAATAAAA
89852291 AGTACAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (16 bp):
AATAAAAATAAAATAG
Found at i:89853609 original size:38 final size:38
Alignment explanation
Indices: 89853558--89853694 Score: 193
Period size: 38 Copynumber: 3.6 Consensus size: 38
89853548 TGAATTATAT
* *
89853558 TGTTATTCGGGCTTTGTGCCTAGTAGGCTTATTGCTGG
1 TGTTATTCAGGCTTCGTGCCTAGTAGGCTTATTGCTGG
* *
89853596 TGTTATTCAGGCTTCGTGCCTAGCAAGCTTATTGCTGG
1 TGTTATTCAGGCTTCGTGCCTAGTAGGCTTATTGCTGG
* * *
89853634 TGTTATTCAGCCTTCGCGCCTAGTAGGCTTATTGCTAG
1 TGTTATTCAGGCTTCGTGCCTAGTAGGCTTATTGCTGG
* *
89853672 TGTTTTTCAGGCTTTGTGCCTAG
1 TGTTATTCAGGCTTCGTGCCTAG
89853695 CAAGCTTAGT
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 86 1.00
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (38 bp):
TGTTATTCAGGCTTCGTGCCTAGTAGGCTTATTGCTGG
Found at i:89853740 original size:28 final size:28
Alignment explanation
Indices: 89853700--89853755 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
89853690 CCTAGCAAGC
*
89853700 TTAGTATCGGTGTATTAAAAGTTAACAT
1 TTAGTATCAGTGTATTAAAAGTTAACAT
89853728 TTAGTATCAGTGTATTAAAAGTTAACAT
1 TTAGTATCAGTGTATTAAAAGTTAACAT
89853756 CCTTTGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (28 bp):
TTAGTATCAGTGTATTAAAAGTTAACAT
Found at i:89868102 original size:36 final size:37
Alignment explanation
Indices: 89868052--89868128 Score: 147
Period size: 36 Copynumber: 2.1 Consensus size: 37
89868042 TATAAAAGAA
89868052 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
89868089 GTCTTA-CCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
89868125 GTCT
1 GTCT
89868129 CGCCCGGAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 34 0.85
37 6 0.15
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:89868291 original size:49 final size:49
Alignment explanation
Indices: 89868231--89868353 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
89868221 CATATATTTT
*
89868231 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
89868280 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
89868329 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
89868354 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:89871501 original size:40 final size:41
Alignment explanation
Indices: 89871457--89871555 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
89871447 TCGATTGTTC
* * **
89871457 TCGGGACATAGCCCGG-TTATAGTGA-TTTGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAACGCCT
89871497 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAACGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAACGCCT
*
89871538 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
89871556 ACCATTCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.38
41 30 0.60
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAACGCCT
Found at i:89872076 original size:29 final size:29
Alignment explanation
Indices: 89872039--89872348 Score: 523
Period size: 29 Copynumber: 10.7 Consensus size: 29
89872029 TGTTGAAAAA
* *
89872039 CTCGTACACACAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
*
89872068 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
*
89872097 TTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
89872126 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
89872155 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
89872184 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
89872213 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
89872242 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
89872271 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* * *
89872300 CTCGCACACATAGTGCCTCGGTTAACGGAAT
1 CTCGCACACACAGTGCCTCGATT-ACTG-AT
*
89872331 -TTGCACACACAGTGCCTC
1 CTCGCACACACAGTGCCTC
89872349 TAATCATTCG
Statistics
Matches: 268, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
29 247 0.92
30 19 0.07
31 2 0.01
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCGATTACTGAT
Found at i:89874412 original size:37 final size:37
Alignment explanation
Indices: 89874362--89874439 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
89874352 TATAAAAGAA
89874362 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
89874399 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
89874436 GTCT
1 GTCT
89874440 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:89874602 original size:49 final size:49
Alignment explanation
Indices: 89874542--89874664 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
89874532 CATATATTTT
*
89874542 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
89874591 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
89874640 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
89874665 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:89879494 original size:13 final size:13
Alignment explanation
Indices: 89879476--89879502 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89879466 ATATGTCTTG
89879476 AACAATATTAGCC
1 AACAATATTAGCC
89879489 AACAATATTAGCC
1 AACAATATTAGCC
89879502 A
1 A
89879503 CTTAATGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (13 bp):
AACAATATTAGCC
Found at i:89880745 original size:71 final size:71
Alignment explanation
Indices: 89880661--89880824 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
89880651 CGATTTGTCT
89880661 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
89880726 CTTTCA
66 CTTTCA
89880732 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
89880797 CTTTCA
66 CTTTCA
89880803 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
89880825 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:89880862 original size:71 final size:70
Alignment explanation
Indices: 89880661--89880858 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
89880651 CGATTTGTCT
* * * *
89880661 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
89880726 CTTTCA
65 CTTTCA
* * * *
89880732 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
89880797 CTTTCA
65 CTTTCA
* *
89880803 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
89880859 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:89887858 original size:71 final size:71
Alignment explanation
Indices: 89887774--89887937 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
89887764 CGATTTGTCT
89887774 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
89887839 CTTTCA
66 CTTTCA
89887845 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
89887910 CTTTCA
66 CTTTCA
89887916 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
89887938 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:89887975 original size:71 final size:70
Alignment explanation
Indices: 89887774--89887971 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
89887764 CGATTTGTCT
* * * *
89887774 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
89887839 CTTTCA
65 CTTTCA
* * * *
89887845 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
89887910 CTTTCA
65 CTTTCA
* *
89887916 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
89887972 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:89892514 original size:49 final size:49
Alignment explanation
Indices: 89892453--89892684 Score: 293
Period size: 49 Copynumber: 4.7 Consensus size: 49
89892443 CTGGTACGCA
* *
89892453 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACACG
* * *
89892502 TAGTAGCTTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACACG
* ** *
89892551 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGATACACG
* * * * * *
89892601 TAGTAGCCTGCACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATTATCCGATACACG
*
89892652 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
89892685 TCACAATAGA
Statistics
Matches: 160, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
49 77 0.48
50 43 0.27
51 39 0.24
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACACG
Found at i:89892685 original size:101 final size:99
Alignment explanation
Indices: 89892440--89892685 Score: 341
Period size: 101 Copynumber: 2.5 Consensus size: 99
89892430 TAGCCAAAGC
* * **
89892440 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
*
89892504 GTAGCTTGCACTTAGTACTACACACGTGACCAAT
66 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * * *
89892538 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
* *
89892603 GTAGCCTGCACTTAGTACTACACATGTGATCACAGT
66 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* *
89892639 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
89892686 CACAATAGAT
Statistics
Matches: 127, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 40 0.31
99 42 0.33
100 1 0.01
101 44 0.35
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
GTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:89895156 original size:24 final size:23
Alignment explanation
Indices: 89895109--89895158 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
89895099 TAAAGTAGGT
*
89895109 TATATATTATTTTTATAATATTA
1 TATATATGATTTTTATAATATTA
89895132 TATATTATGATTTTTATTAAT-TTA
1 TATA-TATGATTTTTA-TAATATTA
89895156 TAT
1 TAT
89895159 TTTAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 16 0.67
25 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TATATATGATTTTTATAATATTA
Found at i:89895172 original size:16 final size:18
Alignment explanation
Indices: 89895133--89895172 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
89895123 ATAATATTAT
*
89895133 ATATTATGATTTTTATTA
1 ATATTATGATTTTTAATA
89895151 AT-TTAT-A-TTTTAATA
1 ATATTATGATTTTTAATA
89895166 ATATTAT
1 ATATTAT
89895173 TAAGAATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 9 0.45
16 5 0.25
17 4 0.20
18 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
ATATTATGATTTTTAATA
Found at i:89895277 original size:61 final size:58
Alignment explanation
Indices: 89895132--89895286 Score: 192
Period size: 61 Copynumber: 2.7 Consensus size: 58
89895122 TATAATATTA
* * * *
89895132 TATATTATGATTTTTATTAATTTATATTTTAATAAT-ATTATTAAGAATGTTATTAAAT
1 TATATTATTATTTTTATTAAATTATA-TTTAATAATAATTATTAAGAATATAATTAAAT
*
89895190 TATA-TATTA-TTTTATTAAATTTTATTTAATAATAATTATGTTAA-AATATAATTAAAT
1 TATATTATTATTTTTATTAAATTATATTTAATAATAATTA--TTAAGAATATAATTAAAT
89895247 TATTCATTATTATTTTTATTAAATTATATTTAATAATAAT
1 TA-T-ATTATTATTTTTATTAAATTATATTTAATAATAAT
89895287 CATCTACTTA
Statistics
Matches: 84, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
55 9 0.11
56 17 0.20
57 17 0.20
58 9 0.11
59 1 0.01
60 5 0.06
61 26 0.31
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (58 bp):
TATATTATTATTTTTATTAAATTATATTTAATAATAATTATTAAGAATATAATTAAAT
Found at i:89895455 original size:16 final size:16
Alignment explanation
Indices: 89895434--89895479 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
89895424 TAAATTATTG
**
89895434 ATTACAACTTTATTTT
1 ATTACAACTTTATTAC
89895450 ATTACAACTTTATTAC
1 ATTACAACTTTATTAC
*
89895466 ATTACAACTCTATT
1 ATTACAACTTTATT
89895480 CAACTCCCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTACAACTTTATTAC
Found at i:89896527 original size:34 final size:34
Alignment explanation
Indices: 89896484--89896552 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
89896474 TTACTAGTTT
*
89896484 AATAATGTAAATATGGTCGGGGTATGCTCTTCTA
1 AATAATGTAAATATGGTAGGGGTATGCTCTTCTA
89896518 AATAATGTAAATATGGTAGGGGTATGCTCTTCTA
1 AATAATGTAAATATGGTAGGGGTATGCTCTTCTA
89896552 A
1 A
89896553 GTGACGACTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (34 bp):
AATAATGTAAATATGGTAGGGGTATGCTCTTCTA
Found at i:89899477 original size:9 final size:9
Alignment explanation
Indices: 89899463--89899491 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
89899453 GAGGTAGATA
89899463 AATTGAAAG
1 AATTGAAAG
89899472 AATTGAAAG
1 AATTGAAAG
89899481 AATTGAAAG
1 AATTGAAAG
89899490 AA
1 AA
89899492 AAGAACTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (9 bp):
AATTGAAAG
Found at i:89906618 original size:40 final size:40
Alignment explanation
Indices: 89906563--89906726 Score: 195
Period size: 40 Copynumber: 4.1 Consensus size: 40
89906553 TTGAATGATA
* *
89906563 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
89906603 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
89906643 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
89906683 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
89906723 CCGG
1 CCGG
89906727 TTAAATTCCG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 100 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:89914636 original size:40 final size:40
Alignment explanation
Indices: 89914581--89914744 Score: 195
Period size: 40 Copynumber: 4.1 Consensus size: 40
89914571 TGAATGATAC
* *
89914581 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
89914621 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
89914661 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
89914701 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
89914741 CCGG
1 CCGG
89914745 TTAAATTCTG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 100 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:89933029 original size:43 final size:43
Alignment explanation
Indices: 89932981--89933133 Score: 173
Period size: 43 Copynumber: 3.6 Consensus size: 43
89932971 TATCGAGATG
89932981 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGATATT
* ** * *
89933023 GAGATTATGTGTAAGACCATGTCTGGGACATTGGTAATGATATT
1 -TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGATATT
* * * * * *
89933067 TGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGATATT
* *
89933110 TGATAACATGTAAGACCATATCTG
1 TGATTACATGTAAGACCATGTCTG
89933134 AGATATGGCG
Statistics
Matches: 90, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
43 86 0.96
44 4 0.04
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGATATT
Found at i:89948395 original size:33 final size:33
Alignment explanation
Indices: 89948353--89948429 Score: 154
Period size: 33 Copynumber: 2.3 Consensus size: 33
89948343 TAAATGATGG
89948353 AAGGGAAATGGGCGGCTACGCAAGGAGAAGGAA
1 AAGGGAAATGGGCGGCTACGCAAGGAGAAGGAA
89948386 AAGGGAAATGGGCGGCTACGCAAGGAGAAGGAA
1 AAGGGAAATGGGCGGCTACGCAAGGAGAAGGAA
89948419 AAGGGAAATGG
1 AAGGGAAATGG
89948430 AATTGGAGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.40, C:0.10, G:0.43, T:0.06
Consensus pattern (33 bp):
AAGGGAAATGGGCGGCTACGCAAGGAGAAGGAA
Found at i:89952100 original size:19 final size:20
Alignment explanation
Indices: 89952078--89952129 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
89952068 TTTTTATGAA
*
89952078 TATTTTGAATTTT-AAAATT
1 TATTTTGAATTTTAAAAAAT
*
89952097 TATTTTGATTTTTTAAAAAAT
1 TATTTTGA-ATTTTAAAAAAT
89952118 TATTTTG-ATTTT
1 TATTTTGAATTTT
89952130 TTTTTGGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 4 0.14
21 12 0.43
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
TATTTTGAATTTTAAAAAAT
Found at i:89952132 original size:22 final size:20
Alignment explanation
Indices: 89952078--89952131 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
89952068 TTTTTATGAA
* *
89952078 TATTTTGA-ATTTTAAAATT
1 TATTTTGATTTTTTAAAAAT
89952097 TATTTTGATTTTTTAAAAAAT
1 TATTTTGATTTTTT-AAAAAT
89952118 TATTTTGATTTTTT
1 TATTTTGATTTTTT
89952132 TTTGGTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.26
20 4 0.13
21 19 0.61
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (20 bp):
TATTTTGATTTTTTAAAAAT
Found at i:89958659 original size:35 final size:35
Alignment explanation
Indices: 89958613--89958679 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
89958603 ATAGATGGTT
*
89958613 TATACATGTTAAATGAATACATGTTGTGAAAATTC
1 TATACATGTTAAATGAAGACATGTTGTGAAAATTC
89958648 TATACATGTTAAATGAAGACATGTTGTGAAAA
1 TATACATGTTAAATGAAGACATGTTGTGAAAA
89958680 GCATATATGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.34
Consensus pattern (35 bp):
TATACATGTTAAATGAAGACATGTTGTGAAAATTC
Found at i:89962265 original size:48 final size:48
Alignment explanation
Indices: 89962194--89963107 Score: 949
Period size: 48 Copynumber: 19.2 Consensus size: 48
89962184 GGTAAAATGT
* * *
89962194 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* *
89962242 CGATGCCATGTCCCAGATATGGTCTTACTCTAGCACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
*
89962290 CGATGCCATGTCCCAGACATGGTCTTACTCTAGCACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* * * * ***
89962338 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCAACGC
* * * *
89962386 TGATGCCATATCCCAAACATGGTCTTACTCTAGCACACATATCAACAG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC-GC
* * * * ***
89962434 CGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCAACGC
** * *
89962482 CGATGCCATGTCTTAGACATGGTCTTACTCTAGCACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* **
89962530 CGATGCCATGTCCCAGACATGGTCTTACTCTAGCACACATATCAATAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* * * ***
89962578 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCAACGC
* * *
89962626 CGATGCCATGTCCCAAACATGGTCTTACTCTAGCACACATATCAACGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
**
89962674 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* ** * *
89962722 CGATGCCATGTCCTAGACATGGTCTTACTGTAGCACACATATTAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* * ** * * * * ** ***
89962770 CAATGTCATGTTGCAGACATGGCCTTACATTGGCTCTTATAAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCAACGC
* * *
89962818 CGATGCCATGTCCGAGACATGGTCTTACACTATCACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* * * ***
89962866 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCAACGC
* **
89962914 CGATGCCATGT------C--GGTCTTACTCTAGCACACATATCAATTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
* * * *
89962954 CGATGTCATGTCCCAGACATGGTCTTACAGTAGCAAACATATCAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
*
89963002 CGATGCCATGTCCCAGACATGGTCTTACTA-TAGCACACATATCAACAC
1 CGATGCCATGTCCCAGACATGGTCTTAC-ACTAGCACACATATCAACGC
* *
89963050 CGATGCCATGTCCCAGATATGGTCTTACACTAGCACACATATCAACGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
89963098 CGATGCCATG
1 CGATGCCATG
89963108 GCATGGATAC
Statistics
Matches: 712, Mismatches: 132, Indels: 44
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.00
40 28 0.04
42 1 0.00
46 1 0.00
47 10 0.01
48 658 0.92
49 12 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGC
Found at i:89969052 original size:39 final size:39
Alignment explanation
Indices: 89968996--89969119 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
89968986 ATTTGATGTG
89968996 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
89969035 TATCCGGACTTAGGGTCCGCAGGCTATGAGTTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
89969074 TATCCAGACTTAAGGTCGGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
89969113 TGTCCGG
1 TATCCGG
89969120 GCTAAAGTCC
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:89969152 original size:78 final size:78
Alignment explanation
Indices: 89968996--89969153 Score: 185
Period size: 78 Copynumber: 2.0 Consensus size: 78
89968986 ATTTGATGTG
* * * ** *
89968996 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTA
1 TATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAAGCTA
*
89969061 TGAGTTGGAATTA
66 TGAGCTGGAATTA
* * *
89969074 TATCCAGACTTAAGGTCGGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAAGCT
1 TATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAAGCT
*
89969138 -TCGAGCTGGTATTA
65 AT-GAGCTGGAATTA
89969152 TA
1 TA
89969154 CCGGGTTTGA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 5 0.07
78 62 0.93
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
TATCCAGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAAGCTA
TGAGCTGGAATTA
Found at i:89981645 original size:45 final size:45
Alignment explanation
Indices: 89981581--89981673 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
89981571 GTCATAAGTA
89981581 CATGTTAGAGTGGAAATTTGATGTTGCCGTAGATAAATAAATGAT
1 CATGTTAGAGTGGAAATTTGATGTTGCCGTAGATAAATAAATGAT
* *
89981626 CATGTTAGAGTGGAAATTTGATGTTGCCGTAGGTAACTAAATGAT
1 CATGTTAGAGTGGAAATTTGATGTTGCCGTAGATAAATAAATGAT
89981671 CAT
1 CAT
89981674 CATGTCATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (45 bp):
CATGTTAGAGTGGAAATTTGATGTTGCCGTAGATAAATAAATGAT
Found at i:89982244 original size:57 final size:53
Alignment explanation
Indices: 89982118--89982310 Score: 145
Period size: 54 Copynumber: 3.5 Consensus size: 53
89982108 AGGGTTTAAG
* * * * * * * *
89982118 GATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCAA-TGATAA-CTTAATAAGGCAAA
* * *
89982172 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTATAATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGAT-AACT-TAATAAGGCAAA
* * * * * * *
89982227 GATCCCCCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGCAAG
1 GAT--ACCATGTAAGACCATGTCAAGACATGGCAATGATAACTTAATAAGGCAAA
* *
89982282 GATACTACGTAAGACCATGTCAAGACATG
1 GATACCATGTAAGACCATGTCAAGACATG
89982311 AAAATGGTAA
Statistics
Matches: 108, Mismatches: 26, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
53 21 0.19
54 29 0.27
55 27 0.25
56 3 0.03
57 28 0.26
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTTAATAAGGCAAA
Found at i:89988134 original size:53 final size:53
Alignment explanation
Indices: 89987957--89988163 Score: 198
Period size: 53 Copynumber: 3.8 Consensus size: 53
89987947 ATTAGGGTTT
* * * * * *
89987957 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * * *
89988011 AAGGAAATCATGTAAGACCATGTCAAGATATGGTATTGATAAACTATGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TCATAAGGC
* * * *
89988066 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
89988119 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
89988164 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 47 0.39
54 34 0.28
55 39 0.32
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:89991875 original size:25 final size:25
Alignment explanation
Indices: 89991838--89991891 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
89991828 AAAGATTACA
89991838 AGAT-TGTCCTGAAATCATTCTCAT
1 AGATATGTCCTGAAATCATTCTCAT
*
89991862 AGATATGTCTTGAAATCATTCTCAT
1 AGATATGTCCTGAAATCATTCTCAT
89991887 AGATA
1 AGATA
89991892 GAACTTACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (25 bp):
AGATATGTCCTGAAATCATTCTCAT
Found at i:89992158 original size:48 final size:48
Alignment explanation
Indices: 89992088--89992527 Score: 436
Period size: 48 Copynumber: 9.2 Consensus size: 48
89992078 GTAAAATGTT
* * * * * *
89992088 GATGCCATAT-CCGGACATGGTCTTACACTGGCTCACATATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
* * * *
89992135 GATGCCATGTCCCAAACATGGTCTTACTCTAGCACACATATCATCACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
* * * * *** *
89992183 GATGTCATGTCCTAGACATGGTCTTACACTAGCTCTCATAGT-GTGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATA-TCAACGCC
* * * *
89992231 GATGCCATGTTCCAAACATGGTCTTTCTCTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
* * *
89992279 GATGCCATATCCCAGACATGGTCTTACACTAGCACACATATCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
* * *
89992327 AATGCCATGTCCCAGACATTGTCTTACTCTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
* ** *
89992375 GTTGCCATGTCCCAGACAAAGTCTTACACTATCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
* * * * * **
89992423 GATGCCATGTGCCAGACATTGTCTTACACTGGCTCTCATAAT-ATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCAACGCC
* * * * *
89992471 AATGCCGTGTACCAGACATGGTCTTACACTAACACACATATCAACGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
*
89992519 AATGCCATG
1 GATGCCATG
89992528 GCATGGATAC
Statistics
Matches: 315, Mismatches: 73, Indels: 9
0.79 0.18 0.02
Matches are distributed among these distances:
47 12 0.04
48 300 0.95
49 3 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
Found at i:89998414 original size:47 final size:47
Alignment explanation
Indices: 89998360--89998691 Score: 513
Period size: 47 Copynumber: 7.1 Consensus size: 47
89998350 TTAGGATTTT
** * *
89998360 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
89998407 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
89998454 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
89998501 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
89998548 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
89998595 ATGTGATGAATGTGAACATGCATATATGTGATAAGGAAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
89998642 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
89998689 ATG
1 ATG
89998692 CGAAACGTGT
Statistics
Matches: 266, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 263 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:89998718 original size:46 final size:46
Alignment explanation
Indices: 89998665--89998755 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
89998655 GGAAGTGTAT
* *
89998665 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
89998711 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
89998756 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:90005326 original size:40 final size:40
Alignment explanation
Indices: 90005260--90005426 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
90005250 AAATTGAATG
* * *
90005260 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
90005299 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
90005339 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
90005379 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
90005419 ATATCCGG
1 ATATCCGG
90005427 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:90018114 original size:24 final size:24
Alignment explanation
Indices: 90018082--90018163 Score: 146
Period size: 24 Copynumber: 3.4 Consensus size: 24
90018072 GTCAGGAGAA
90018082 GATTTAGGAGTTGATAAGGGATAG
1 GATTTAGGAGTTGATAAGGGATAG
90018106 GATTTAGGAGTTGATAAGGGATAG
1 GATTTAGGAGTTGATAAGGGATAG
* *
90018130 GATTTAGGAGCTGATAAGGGAGAG
1 GATTTAGGAGTTGATAAGGGATAG
90018154 GATTTAGGAG
1 GATTTAGGAG
90018164 CTGGTTAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.33, C:0.01, G:0.39, T:0.27
Consensus pattern (24 bp):
GATTTAGGAGTTGATAAGGGATAG
Found at i:90018164 original size:24 final size:24
Alignment explanation
Indices: 90018076--90018176 Score: 139
Period size: 24 Copynumber: 4.2 Consensus size: 24
90018066 AAATCTGTCA
* *
90018076 GGAGAAGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
90018100 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
90018124 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
90018148 GGAGAGGATTTAGGAGCTGGTTAG
1 GGAGAGGATTTAGGAGCTGATAAG
90018172 GGAGA
1 GGAGA
90018177 ACAGTGTTGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.33, C:0.02, G:0.41, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:90019626 original size:26 final size:26
Alignment explanation
Indices: 90019582--90019678 Score: 78
Period size: 26 Copynumber: 3.7 Consensus size: 26
90019572 GTGGCTATGC
*
90019582 CACA-ATTATCTGATT-TGGTGGCTCT
1 CACATATTATCTG-TTCTGGTGACTCT
*
90019607 ACCCATA-TATCTGTTCTGGT-ATCTCTGT
1 -CACATATTATCTGTTCTGGTGA-CTC--T
90019635 CACA-ATTATCTGTTCTGGTGACTCT
1 CACATATTATCTGTTCTGGTGACTCT
**
90019660 GTCATATTATCTGTTCTGG
1 CACATATTATCTGTTCTGG
90019679 CAGCCATGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
25 5 0.09
26 31 0.53
27 20 0.34
28 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (26 bp):
CACATATTATCTGTTCTGGTGACTCT
Found at i:90019648 original size:27 final size:26
Alignment explanation
Indices: 90019614--90019678 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 26
90019604 TCTACCCATA
90019614 TATCTGTTCTGGT-ATCTCTGTCACAAT
1 TATCTGTTCTGGTGA-CTCTGTCA-AAT
*
90019641 TATCTGTTCTGGTGACTCTGTCATAT
1 TATCTGTTCTGGTGACTCTGTCAAAT
90019667 TATCTGTTCTGG
1 TATCTGTTCTGG
90019679 CAGCCATGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
26 14 0.39
27 21 0.58
28 1 0.03
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.46
Consensus pattern (26 bp):
TATCTGTTCTGGTGACTCTGTCAAAT
Found at i:90021483 original size:43 final size:43
Alignment explanation
Indices: 90021406--90021685 Score: 293
Period size: 42 Copynumber: 6.6 Consensus size: 43
90021396 TAATTTTTTA
* * ** **
90021406 AAAGGTCATGATTTTTAGTAGCGTTTGTAAGAAAAGCGCCGCT
1 AAAGGTCGTGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
*
90021449 AAAGATCGTGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
1 AAAGGTCGTGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* * * * *
90021492 AAAGGTCGT-TTCTTTTAAC-GCATTTTTTGGG-GAAGCACCGCT
1 AAAGGTCGTGTT-TTTTAGCGGC-GTTTGTGGGAAAAGCGCCGCT
*
90021534 AAAGGTCGTGTTTTTTAGCGGCGTTTGTGGGAACAGCGCCGCT
1 AAAGGTCGTGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* *
90021577 AAA-GTCGTATTTTTTAGCGGCGTTTTTGGG-AAAGCGCCGCT
1 AAAGGTCGTGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* * *
90021618 AAAGGTCATGATCTTTAGCGGCGTTTGTGGGAAAA-CGCCGCT
1 AAAGGTCGTGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
** * **
90021660 AAAAATCATGACTTTTAGCGGCGTTT
1 AAAGGTCGTGTTTTTTAGCGGCGTTT
90021686 TTTTCATAAA
Statistics
Matches: 199, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
41 13 0.07
42 111 0.56
43 75 0.38
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
AAAGGTCGTGTTTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
Found at i:90024224 original size:6 final size:6
Alignment explanation
Indices: 90024194--90024299 Score: 83
Period size: 6 Copynumber: 17.3 Consensus size: 6
90024184 AAGAAACATT
* * *
90024194 ATCAGA A-CTAGA ATCAAA ATTAGA ATCAGA ATCAGA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
90024241 GTGACAGA ATCAGA ATCAGA ATCAGT ATCAGT ATCAGGTA A-CAGA ATCAAA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
90024292 ATCAGA AT
1 ATCAGA AT
90024300 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
5 4 0.05
6 68 0.85
7 6 0.08
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:90024258 original size:37 final size:37
Alignment explanation
Indices: 90024215--90024299 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
90024205 AATCAAAATT
* *
90024215 AGAATCAGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
* *
90024252 AGAATCAGAATCAGTATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
*
90024289 AAAATCAGAAT
1 AGAATCAGAAT
90024300 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:90024464 original size:27 final size:26
Alignment explanation
Indices: 90024418--90024477 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
90024408 GCGAGGCTGC
90024418 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGTCACCAGA-A
* * *
90024445 CAGATATTGTGGCTAGGTCACCAGAA
1 CAGATATTGTGACAAAGTCACCAGAA
90024471 CAGATAT
1 CAGATAT
90024478 ATATATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACAAAGTCACCAGAA
Found at i:90024570 original size:27 final size:26
Alignment explanation
Indices: 90024522--90024573 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
90024512 GCGAGGCTGC
*
90024522 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
90024548 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
90024574 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:90024840 original size:27 final size:27
Alignment explanation
Indices: 90024810--90025245 Score: 543
Period size: 27 Copynumber: 16.2 Consensus size: 27
90024800 AACACCCTAG
** *
90024810 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
90024837 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
90024864 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
90024891 GGGTAAAATAATAATTTTTTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
90024918 GGGTAAAATAGTAATTTTGTCAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
90024945 GGGTAAAAC-GATAATTCTGTAAATAGA
1 GGGTAAAACAG-TAATTTTGTAAATCGA
*
90024972 GGGTAAAACAGTAATTTTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
90024999 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
90025026 GGGTAAAACAGTAATTTTGCAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * * *
90025053 GGATAAAACAATAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
90025080 GGGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
** * * *
90025107 GGGTAAAATGGTAATTCTATAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
90025134 GGGTAAAATAGTAATTTTGT-AATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
90025160 GGGTAAAACGGTAATTTTATAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
90025187 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
90025214 GGGTAAAACAGTAATTTTGTAATTCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
90025241 GGGTA
1 GGGTA
90025246 CTTTGATAAT
Statistics
Matches: 355, Mismatches: 51, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
26 23 0.06
27 331 0.93
28 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:90025298 original size:54 final size:53
Alignment explanation
Indices: 90025240--90025391 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 53
90025230 TTGTAATTCA
* *
90025240 AGGGTACTTTGATAATTTCACAAGTTGAGGGTATTTCAGTAATTTTACAAACTG
1 AGGGTACTTTGGTAATTTTACAA-TTGAGGGTATTTCAGTAATTTTACAAACTG
* * ** * *
90025294 AGGGTA-TTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATTG
1 AGGGTACTTT-GGTAATTTTAC-AATTGAGGGTATTTCAGTAATTTTACAAACTG
* * * *
90025348 GGGGTACTTTGGTAATTTTATAACTGGGGGTATTTCAGTAATTT
1 AGGGTACTTTGGTAATTTTACAATTGAGGGTATTTCAGTAATTT
90025392 GGTAAACTAA
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
53 20 0.25
54 54 0.68
55 5 0.06
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (53 bp):
AGGGTACTTTGGTAATTTTACAATTGAGGGTATTTCAGTAATTTTACAAACTG
Found at i:90025368 original size:27 final size:27
Alignment explanation
Indices: 90025252--90025391 Score: 140
Period size: 27 Copynumber: 5.2 Consensus size: 27
90025242 GGTACTTTGA
* * *
90025252 TAATTTCACAAGTTGAGGGTATTTCAG
1 TAATTTTACAAATTGAGGGTATTTCGG
*
90025279 TAATTTTACAAACTGAGGGTATTTCGG
1 TAATTTTACAAATTGAGGGTATTTCGG
* * *
90025306 TAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTACAAATTGAGGGTATTTCGG
* *
90025333 TAATTTTATAAATTGGGGGTACTTT-GG
1 TAATTTTACAAATTGAGGGTA-TTTCGG
* * * *
90025360 TAATTTTA-TAACTGGGGGTATTTCAG
1 TAATTTTACAAATTGAGGGTATTTCGG
90025386 TAATTT
1 TAATTT
90025392 GGTAAACTAA
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
25 3 0.03
26 17 0.18
27 73 0.76
28 3 0.03
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAATTGAGGGTATTTCGG
Found at i:90026908 original size:28 final size:31
Alignment explanation
Indices: 90026877--90026935 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
90026867 TGCATAGAAG
*
90026877 TTTTGTTATT-TATATAT-AATACATATGAT
1 TTTTGGTATTATATATATAAATACATATGAT
* *
90026906 TTTTGGTGTTATATATATAAATATATATGA
1 TTTTGGTATTATATATATAAATACATATGA
90026936 GTGGGGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 7 0.28
31 10 0.40
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.53
Consensus pattern (31 bp):
TTTTGGTATTATATATATAAATACATATGAT
Found at i:90028121 original size:17 final size:17
Alignment explanation
Indices: 90028099--90028173 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
90028089 TTATGATGGA
90028099 GCATGAACTATTATTTT
1 GCATGAACTATTATTTT
* * *
90028116 GCATGAATTGTTATTTG
1 GCATGAACTATTATTTT
** *
90028133 GTGTGAACTGA-TATTTC
1 GCATGAACT-ATTATTTT
**
90028150 ATATGAACTATTATTTTT
1 GCATGAACTATTA-TTTT
90028168 GCATGA
1 GCATGA
90028174 GCTGTCATTT
Statistics
Matches: 42, Mismatches: 13, Indels: 5
0.70 0.22 0.08
Matches are distributed among these distances:
16 1 0.02
17 34 0.81
18 7 0.17
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.45
Consensus pattern (17 bp):
GCATGAACTATTATTTT
Found at i:90028184 original size:52 final size:51
Alignment explanation
Indices: 90028101--90028209 Score: 155
Period size: 52 Copynumber: 2.1 Consensus size: 51
90028091 ATGATGGAGC
* * **
90028101 ATGAACTATTATTTTGCATGAATTGTTATTTGGTGTGAACTGATATTTCAT
1 ATGAACTATTATTTTGCATGAACTGTCATTTGGTAAGAACTGATATTTCAT
* *
90028152 ATGAACTATTATTTTTGCATGAGCTGTCATTTGGTAAGAACTGTTATTTCAT
1 ATGAACTATTA-TTTTGCATGAACTGTCATTTGGTAAGAACTGATATTTCAT
90028204 ATGAAC
1 ATGAAC
90028210 AAATGTTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 11 0.22
52 40 0.78
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.44
Consensus pattern (51 bp):
ATGAACTATTATTTTGCATGAACTGTCATTTGGTAAGAACTGATATTTCAT
Found at i:90028209 original size:17 final size:17
Alignment explanation
Indices: 90028136--90028209 Score: 51
Period size: 17 Copynumber: 4.3 Consensus size: 17
90028126 TTATTTGGTG
*
90028136 TGAACTGATATTTCATA
1 TGAACTGTTATTTCATA
* *
90028153 TGAACTATTATTT-TTGCA
1 TGAACTGTTATTTCAT--A
* * **
90028171 TGAGCTGTCATTTGGTA
1 TGAACTGTTATTTCATA
*
90028188 AGAACTGTTATTTCATA
1 TGAACTGTTATTTCATA
90028205 TGAAC
1 TGAAC
90028210 AAATGTTTTA
Statistics
Matches: 41, Mismatches: 13, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
16 1 0.02
17 28 0.68
18 11 0.27
19 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (17 bp):
TGAACTGTTATTTCATA
Found at i:90029585 original size:37 final size:37
Alignment explanation
Indices: 90029526--90029635 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
90029516 AGCTCAGACG
* *
90029526 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGAAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
*
90029563 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
* *
90029600 TAATCTCCACACGTAGTCATCGGGTCTTATCCGGAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
90029636 TATATTTCCA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
Found at i:90029906 original size:48 final size:49
Alignment explanation
Indices: 90029780--90029916 Score: 206
Period size: 50 Copynumber: 2.8 Consensus size: 49
90029770 GCACATCGCC
*
90029780 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-A
* * *
90029830 TATATATTTCACATT-GACCATTCAGCTTTACCACATATACATTTCTC-A
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCAA
90029878 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
90029917 TGCATGTTCA
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
48 36 0.46
49 2 0.03
50 41 0.52
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
Found at i:90029949 original size:47 final size:47
Alignment explanation
Indices: 90029887--90029987 Score: 139
Period size: 47 Copynumber: 2.1 Consensus size: 47
90029877 ATACATATTT
* * * *
90029887 CACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCAC
1 CACATTAGCCATTCGGCCTTACCACACATATGCATGCTCACATTCAC
* * *
90029934 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCAT
1 CACATTAGCCATTCGGCCTTACCACACATATGCATGCTCACATTCAC
90029981 CACATTA
1 CACATTA
90029988 AATCCTAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CACATTAGCCATTCGGCCTTACCACACATATGCATGCTCACATTCAC
Found at i:90043557 original size:50 final size:50
Alignment explanation
Indices: 90043434--90043781 Score: 279
Period size: 50 Copynumber: 6.9 Consensus size: 50
90043424 AAGACAGTTT
* * * ** * **
90043434 TAGGTCGCCTGTGTAGTACTAAATGCAGGCTACTATGCATACCCGATAGTT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GGA
* * * * *
90043485 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAATGGT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGA
* * * * * *
90043535 TAGGTCATGTGTGTAGTACTAAGTGTAGGCTACCACGTGTACCGGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGA
* * * * * **
90043585 TAGGTCGCATGTGTTGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGA
* * * * *
90043634 CTTTGATCACGTGTGTAGTACTAAGTGTAGGCTACTACT-TTTATCAGATGGA
1 --TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA-TGTGTACCAGATGGA
* * * *
90043686 TAAGTGACGTGTGTAGTA-TGAAGTGCAGGCTACTACGTGTACCAGATTGA
1 TAGGTCACGTGTGTAGTACT-AAGTGCAGGCTACTATGTGTACCAGATGGA
* * * *
90043736 TAGGTCGCATGTGTAGTACTGAGTGCAGGCTACTATGCGTACCAGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
90043782 GAGCTTCGGT
Statistics
Matches: 230, Mismatches: 60, Indels: 15
0.75 0.20 0.05
Matches are distributed among these distances:
49 4 0.02
50 152 0.66
51 71 0.31
52 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGA
Found at i:90043666 original size:151 final size:151
Alignment explanation
Indices: 90043434--90043778 Score: 489
Period size: 151 Copynumber: 2.3 Consensus size: 151
90043424 AAGACAGTTT
* * * *
90043434 TAGGTCGCCTGTGTAGTACTAAATGCAGGCTACTATGCATACCCGATAGTTTCGATCACGTGTGT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATACTTTCGATCACGTGTGT
* * * *
90043499 AGTACTAAGTGCAGGCTACTA-TGTGTATCAAATGGTTAGGTCATGTGTGTAGTACT-AAGTGTA
66 AGTACTAAGTGCAGGCTACTACT-TGTATCAAATGGATAAGTCACGTGTGTAGTA-TGAAGTGCA
*
90043562 GGCTACCACGTGTACCGGATTGA
129 GGCTACCACGTGTACCAGATTGA
* *
90043585 TAGGTCGCATGTGTTGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTT-GATCACGTGTG
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAT-ACTTTCGATCACGTGTG
* * * *
90043649 TAGTACTAAGTGTAGGCTACTACTTTTATCAGATGGATAAGTGACGTGTGTAGTATGAAGTGCAG
65 TAGTACTAAGTGCAGGCTACTACTTGTATCAAATGGATAAGTCACGTGTGTAGTATGAAGTGCAG
*
90043714 GCTACTACGTGTACCAGATTGA
130 GCTACCACGTGTACCAGATTGA
*
90043736 TAGGTCGCATGTGTAGTACTGAGTGCAGGCTACTATGCGTACC
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
90043779 AGAGAGCTTC
Statistics
Matches: 173, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
150 1 0.01
151 167 0.97
152 5 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (151 bp):
TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATACTTTCGATCACGTGTGT
AGTACTAAGTGCAGGCTACTACTTGTATCAAATGGATAAGTCACGTGTGTAGTATGAAGTGCAGG
CTACCACGTGTACCAGATTGA
Found at i:90043728 original size:101 final size:101
Alignment explanation
Indices: 90043543--90043728 Score: 241
Period size: 101 Copynumber: 1.8 Consensus size: 101
90043533 GTTAGGTCAT
* * * *
90043543 GTGTGTAGTACTAAGTGTAGGCTACCACGTGTACCGGATTGATAGGTCGCATGTGTTGTACTAAG
1 GTGTGTAGTACTAAGTGTAGGCTACCACGTGTACCAGATGGATAAGTCGCATGTGTAGTACTAAG
*
90043608 TGCAGGCTACTATGCGTACCCGTTAACTTTGATCAC
66 TGCAGGCTACTACGCGTACCCGTTAACTTTGATCAC
* * * * *
90043644 GTGTGTAGTACTAAGTGTAGGCTACTACTTTTATCAGATGGATAAGT-GACGTGTGTAGTA-TGA
1 GTGTGTAGTACTAAGTGTAGGCTACCACGTGTACCAGATGGATAAGTCG-CATGTGTAGTACT-A
*
90043707 AGTGCAGGCTACTACGTGTACC
64 AGTGCAGGCTACTACGCGTACC
90043729 AGATTGATAG
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
100 2 0.03
101 70 0.97
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (101 bp):
GTGTGTAGTACTAAGTGTAGGCTACCACGTGTACCAGATGGATAAGTCGCATGTGTAGTACTAAG
TGCAGGCTACTACGCGTACCCGTTAACTTTGATCAC
Found at i:90044652 original size:180 final size:180
Alignment explanation
Indices: 90044340--90044702 Score: 512
Period size: 180 Copynumber: 2.0 Consensus size: 180
90044330 TCCGAGATCT
* *
90044340 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATCGGAACTGTCAGACAGTGAAACAGGGGTA
1 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTGTCAGACAGTGAAACAAGGGTA
** * *
90044405 TTTTTAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTCTTAAAAGTTTATGGGAATAATA
66 AATTTAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTCTGAAAAGTTTATGGGAAGAATA
* * * * *
90044470 TATGT-GAGTCTAATTTCTGGTAAAATTACCGGTTCTTAATTTGGAGTCCC
131 TATATGGA-TCTAATTTCTGGGAAAATTAACAGATCTTAATTTGGAGTCCC
* * ** * *
90044520 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTTGGATAGTGAAATAAGGGTA
1 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTGTCAGACAGTGAAACAAGGGTA
* * *
90044585 AATTTAATGAATAAATTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAATA
66 AATTTAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTCTGAAAAGTTTATGGGAAGAATA
* *
90044650 TATATGGATCTCATTTCTGGGAAAATTAACAGATCTTAATTTGGAGTTCC
131 TATATGGATCTAATTTCTGGGAAAATTAACAGATCTTAATTTGGAGTCCC
90044700 GTA
1 GTA
90044703 GCTCCAGTTA
Statistics
Matches: 160, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
180 158 0.99
181 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (180 bp):
GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTGTCAGACAGTGAAACAAGGGTA
AATTTAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTCTGAAAAGTTTATGGGAAGAATA
TATATGGATCTAATTTCTGGGAAAATTAACAGATCTTAATTTGGAGTCCC
Found at i:90044904 original size:36 final size:36
Alignment explanation
Indices: 90044852--90044960 Score: 209
Period size: 36 Copynumber: 3.0 Consensus size: 36
90044842 CTTTATGCTT
*
90044852 ACTCTCTTTCCATTCCTTTGTCTTATAGTGTCACCA
1 ACTCTCTTTCCTTTCCTTTGTCTTATAGTGTCACCA
90044888 ACTCTCTTTCCTTTCCTTTGTCTTATAGTGTCACCA
1 ACTCTCTTTCCTTTCCTTTGTCTTATAGTGTCACCA
90044924 ACTCTCTTTCCTTTCCTTTGTCTTATAGTGTCACCA
1 ACTCTCTTTCCTTTCCTTTGTCTTATAGTGTCACCA
90044960 A
1 A
90044961 GCCAGCTCAG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 72 1.00
ACGTcount: A:0.16, C:0.30, G:0.08, T:0.46
Consensus pattern (36 bp):
ACTCTCTTTCCTTTCCTTTGTCTTATAGTGTCACCA
Found at i:90068820 original size:11 final size:11
Alignment explanation
Indices: 90068804--90068828 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
90068794 GTTTTGGTGT
90068804 TATATATAATA
1 TATATATAATA
90068815 TATATATAATA
1 TATATATAATA
90068826 TAT
1 TAT
90068829 CTGTGTAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATATATAATA
Found at i:90072956 original size:39 final size:39
Alignment explanation
Indices: 90072912--90073141 Score: 379
Period size: 39 Copynumber: 5.9 Consensus size: 39
90072902 TATCAACACA
* * *
90072912 AAGCCTACGGGACTTTAACCCGGATACATTTCCAGCATG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
90072951 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
90072990 AAGCCTGCGGGACTTTAGCCCAGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
90073029 AAGCCTGCGGGACTTTGGCCCGGATATATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
90073068 AAGCCTGCGGGACTTTAGCTCAGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
90073107 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
90073142 TGTCTTGCAT
Statistics
Matches: 176, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 176 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:90076271 original size:11 final size:10
Alignment explanation
Indices: 90076253--90076355 Score: 93
Period size: 11 Copynumber: 9.6 Consensus size: 10
90076243 TATGTCTTTC
90076253 AAAATAAAAT
1 AAAATAAAAT
90076263 AATAATAAAATT
1 AA-AATAAAA-T
*
90076275 GAAATAAAAT
1 AAAATAAAAT
90076285 CAAAATCAAAAT
1 -AAAAT-AAAAT
90076297 CAAAATAAAAAT
1 -AAAAT-AAAAT
90076309 AAAAATAAAAT
1 -AAAATAAAAT
*
90076320 -AAAGAAAAT
1 AAAATAAAAT
90076329 AAAAATAAGAAT
1 -AAAATAA-AAT
90076341 -AAATAAAAT
1 AAAATAAAAT
90076350 AAAATA
1 AAAATA
90076356 GGAGGATTCA
Statistics
Matches: 79, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
9 11 0.14
10 14 0.18
11 28 0.35
12 26 0.33
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:90076289 original size:6 final size:5
Alignment explanation
Indices: 90076253--90076355 Score: 93
Period size: 6 Copynumber: 19.2 Consensus size: 5
90076243 TATGTCTTTC
*
90076253 AAAAT AAAAT AATAAT AAAATT GAAAT AAAAT CAAAAT CAAAAT CAAAAT
1 AAAAT AAAAT AA-AAT AAAA-T AAAAT AAAAT -AAAAT -AAAAT -AAAAT
*
90076303 AAAAAT AAAAAT AAAAT -AAAG AAAAT AAAAAT AAGAAT -AAAT AAAAT
1 -AAAAT -AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAAT
90076350 AAAAT A
1 AAAAT A
90076356 GGAGGATTCA
Statistics
Matches: 86, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
4 6 0.07
5 35 0.41
6 45 0.52
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:90076333 original size:21 final size:21
Alignment explanation
Indices: 90076304--90076353 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
90076294 AATCAAAATA
90076304 AAAATAAAAATAA-AATAAAG
1 AAAATAAAAATAAGAATAAAG
*
90076324 AAAATAAAAATAAGAATAAAT
1 AAAATAAAAATAAGAATAAAG
90076345 AAAATAAAA
1 AAAATAAAA
90076354 TAGGAGGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAATAAAAATAAGAATAAAG
Found at i:90076334 original size:26 final size:25
Alignment explanation
Indices: 90076298--90076347 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
90076288 AATCAAAATC
90076298 AAAATAAAAATAAAAATAAAATAAAG
1 AAAATAAAAATAAAAAT-AAATAAAG
*
90076324 AAAATAAAAATAAGAATAAATAAA
1 AAAATAAAAATAAAAATAAATAAA
90076348 ATAAAATAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (25 bp):
AAAATAAAAATAAAAATAAATAAAG
Found at i:90080750 original size:40 final size:39
Alignment explanation
Indices: 90080705--90080905 Score: 171
Period size: 40 Copynumber: 5.2 Consensus size: 39
90080695 CGGAATACAA
*
90080705 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
90080745 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
*
90080785 CCGGATTTAA-CA----AC-AATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
90080818 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * * *
90080858 CCAGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
90080898 CCGGATAT
1 CCGGATAT
90080906 CATTTAATTG
Statistics
Matches: 131, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
33 27 0.21
34 4 0.03
39 2 0.02
40 98 0.75
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:90080845 original size:73 final size:73
Alignment explanation
Indices: 90080726--90080868 Score: 191
Period size: 73 Copynumber: 2.0 Consensus size: 73
90080716 CACATGCACG
* * *
90080726 AATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCCCGGAT
1 AATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACCCAGAT
90080791 TTAACAAC
66 TTAACAAC
* * * *
90080799 AATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAATTGCCTTCGGGTCTTAACCCAG
1 AATGCCTTCGGGTCTTAGCCCGGA--TAGAACGACTAGCACAAATGCCTTCGGGTATTAACCCAG
90080862 ATTTAAC
64 ATTTAAC
90080869 TACTAGCATA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
73 57 0.93
74 1 0.02
75 3 0.05
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (73 bp):
AATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACCCAGAT
TTAACAAC
Found at i:90088127 original size:2 final size:2
Alignment explanation
Indices: 90088120--90088145 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
90088110 AGTAAATGGC
90088120 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
90088146 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90088879 original size:40 final size:40
Alignment explanation
Indices: 90088745--90088966 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
90088735 TATTCGGATG
* *
90088745 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
90088784 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
90088826 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
90088866 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
90088906 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
90088946 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
90088967 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 12, Indels: 16
0.85 0.06 0.08
Matches are distributed among these distances:
39 45 0.28
40 81 0.50
41 2 0.01
42 18 0.11
43 17 0.10
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:90098741 original size:39 final size:40
Alignment explanation
Indices: 90098627--90098794 Score: 227
Period size: 39 Copynumber: 4.2 Consensus size: 40
90098617 ACGACTAGCT
*
90098627 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCA
* *
90098667 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
90098707 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
90098746 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
90098785 CGAACGCCTT
1 CAAATGCCTT
90098795 GGATCTTAGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 70 0.59
40 45 0.38
41 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:90098826 original size:78 final size:78
Alignment explanation
Indices: 90098669--90098848 Score: 197
Period size: 78 Copynumber: 2.3 Consensus size: 78
90098659 AACTCGCACG
* *
90098669 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAACGCCTTCGGGCTTAACCCGGA-T
**
90098734 TATTAACTCGCACA
65 TATTAACTAACACA
* * * **
90098748 AATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCACGAACGCCTT-GGATCTTAGTCCGGA-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAACGCCTTCGG-GCTTAACCCGGAT
*
90098810 TATGTCACTTAACACA
65 TAT-TAAC-TAACACA
*
90098826 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
90098849 CATCATTCAA
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
76 3 0.03
77 14 0.16
78 57 0.66
79 12 0.14
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (78 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAACGCCTTCGGGCTTAACCCGGATT
ATTAACTAACACA
Found at i:90117004 original size:27 final size:27
Alignment explanation
Indices: 90116974--90117104 Score: 122
Period size: 27 Copynumber: 4.9 Consensus size: 27
90116964 GGCCTTTTGG
90116974 TAATTTTACAAGTCGAGGGTATTTCGA
1 TAATTTTACAAGTCGAGGGTATTTCGA
* *
90117001 TAATTGTACAGGTCGAGGGTATTTC-A
1 TAATTTTACAAGTCGAGGGTATTTCGA
* * * * *
90117027 GTAATTGTATAGGTCAAGGGTATTTCGG
1 -TAATTTTACAAGTCGAGGGTATTTCGA
* * * * *
90117055 TAATTTCACAAAT-TAGGGGTATTTTGG
1 TAATTTTACAAGTCGA-GGGTATTTCGA
90117082 TAATTTTACAAGTCGAGGGTATT
1 TAATTTTACAAGTCGAGGGTATT
90117105 CAGTAATTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.02
27 82 0.96
28 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCGA
Found at i:90117166 original size:26 final size:26
Alignment explanation
Indices: 90117097--90117156 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
90117087 TTACAAGTCG
*
90117097 AGGGTATTCAGTAATTTTGTAAACCA
1 AGGGTATTTAGTAATTTTGTAAACCA
*
90117123 AGGGTATTTAGTAATTTTGTAAATC-
1 AGGGTATTTAGTAATTTTGTAAACCA
90117148 AGGGTATTT
1 AGGGTATTT
90117157 CTATAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 9 0.28
26 23 0.72
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (26 bp):
AGGGTATTTAGTAATTTTGTAAACCA
Found at i:90117517 original size:29 final size:28
Alignment explanation
Indices: 90117466--90117523 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
90117456 TAAATATATG
*
90117466 CATATGGCCCATTCGGCCCAAATCACATT
1 CATATGGCCCATTCAGCCCAAATCA-ATT
*
90117495 CATATGGCCCATGT-AGCCTAAATCAATT
1 CATATGGCCCAT-TCAGCCCAAATCAATT
90117523 C
1 C
90117524 CAAGCCATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.15
29 21 0.81
30 1 0.04
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (28 bp):
CATATGGCCCATTCAGCCCAAATCAATT
Found at i:90120698 original size:50 final size:50
Alignment explanation
Indices: 90120514--90120756 Score: 233
Period size: 50 Copynumber: 4.8 Consensus size: 50
90120504 ATTGTGAGTA
* * * *
90120514 CACGTGTTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACT-GTTAAGT
1 CACGTG-TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTCAGGT
* * * * * *
90120565 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATTCA-ATGACTTC-GAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG--GTCAGGT
*
90120616 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTCAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTCAGGT
* * * * *
90120666 CACGTGTGTAGTACTAAGTGCAGGCTAGTACGTGTACCGGATTGT-TGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTCAGGT
* * * *
90120715 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
90120757 AGCTTCGGCT
Statistics
Matches: 157, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
49 41 0.26
50 74 0.47
51 41 0.26
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTCAGGT
Found at i:90125002 original size:16 final size:16
Alignment explanation
Indices: 90124981--90125014 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
90124971 AGATTTTACA
*
90124981 TGAGGCACACAATGGT
1 TGAGGCACACAATAGT
90124997 TGAGGCACACAATAGT
1 TGAGGCACACAATAGT
90125013 TG
1 TG
90125015 TTTACAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (16 bp):
TGAGGCACACAATAGT
Found at i:90127583 original size:50 final size:50
Alignment explanation
Indices: 90127508--90127733 Score: 199
Period size: 50 Copynumber: 4.5 Consensus size: 50
90127498 TGAGTACACG
* * * *
90127508 TGTGTAGTACTAAGCGCAGGCTACTACGTGTACCATACTATTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATCAAGTCACA
* * * * **
90127558 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATTCAATGACT-TCGA-TCATG
1 TGTGTAGTACTAAGTGCAGGCTACTA--CGTGTACCA-GACTATCAAGTCACA
* * * * *
90127609 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGA-TGGTCAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-ATCAAGTCACA
* * * ** *
90127659 TGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATTAT-TGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATCAAGTCACA
90127708 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
90127734 TGCGTATCAG
Statistics
Matches: 142, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 37 0.26
50 63 0.44
51 28 0.20
52 8 0.06
53 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATCAAGTCACA
Found at i:90133726 original size:35 final size:34
Alignment explanation
Indices: 90133671--90133785 Score: 133
Period size: 35 Copynumber: 3.3 Consensus size: 34
90133661 CTCTTTTTTT
* * *
90133671 TTGGTGTGTT-ACGAAGGGATTAGATTTTATGAACA
1 TTGGTGTGTTCA-GAA-GGATTAGCTCTTATGAGCA
*
90133706 TTGGTGTGATTCAGAAGGATTAGCTCTTACGAGCA
1 TTGGTGTG-TTCAGAAGGATTAGCTCTTATGAGCA
* *
90133741 TTGGTGTGTTCAGATGGATTGGCTCTTATGAGCA
1 TTGGTGTGTTCAGAAGGATTAGCTCTTATGAGCA
90133775 TCTGGTGTGTT
1 T-TGGTGTGTT
90133786 TTGGTTGGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
34 24 0.34
35 40 0.57
36 5 0.07
37 1 0.01
ACGTcount: A:0.22, C:0.10, G:0.30, T:0.37
Consensus pattern (34 bp):
TTGGTGTGTTCAGAAGGATTAGCTCTTATGAGCA
Found at i:90139545 original size:34 final size:34
Alignment explanation
Indices: 90139455--90139534 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
90139445 GTTTGCATCT
* *
90139455 CTGATACTGC-ACTG-AATTGGGCTAAGGCCTACA
1 CTGATACTGCTACCGTAA-TGGGCTAAGGCCCACA
* *
90139488 TTGATACTGTTACCGTAATGGGCTAAGGCCCACA
1 CTGATACTGCTACCGTAATGGGCTAAGGCCCACA
*
90139522 CTGATATTGCTAC
1 CTGATACTGCTAC
90139535 TGATAAGGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
33 8 0.21
34 28 0.74
35 2 0.05
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (34 bp):
CTGATACTGCTACCGTAATGGGCTAAGGCCCACA
Found at i:90142911 original size:40 final size:40
Alignment explanation
Indices: 90142867--90143021 Score: 181
Period size: 40 Copynumber: 3.9 Consensus size: 40
90142857 GGATATTGCT
* * *
90142867 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
90142907 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
90142947 ACTCGCACAAATGCCTTCGGGACTT-GCCCGG-AACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* ** *
90142986 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
90143022 CATCCAAATA
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
39 31 0.32
40 64 0.65
41 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:90156236 original size:45 final size:45
Alignment explanation
Indices: 90156141--90156310 Score: 170
Period size: 45 Copynumber: 3.9 Consensus size: 45
90156131 ATTCATCCAT
* * * *
90156141 CGGCATT-TCGCCTGCTAGGCTCGAA-GCCC-AATATTATTTCAC
1 CGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATTTCAC
* *
90156183 TGGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGTATTTCAC
1 CGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATTTCAC
* * * *
90156228 CGGTATTATAGCCTGCTAGGCTCAAAGGCCAG-ATA-TCATTTTAC
1 CGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGT-ATTTCAC
* * * *
90156272 CGGCATTATAGCCTATTATGCGCAAAGGCCCGATTAGTA
1 CGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTA
90156311 CCGTACGGTA
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
42 6 0.06
43 17 0.16
44 39 0.37
45 42 0.40
46 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (45 bp):
CGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATTTCAC
Found at i:90162819 original size:40 final size:40
Alignment explanation
Indices: 90162715--90162838 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 40
90162705 CGGAATACAA
**
90162715 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
90162755 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * * *
90162795 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
90162835 CCGG
1 CCGG
90162839 GTATCATTCA
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 2 0.03
40 66 0.97
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:90174482 original size:34 final size:33
Alignment explanation
Indices: 90174409--90174488 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 33
90174399 TGTGCTGAAT
*
90174409 TGGGCTAAGGTCCACATTGATTCTGTTACCGTAA
1 TGGGCTAAGG-CCACATTGATTCTGCTACCGTAA
*
90174443 TGGGCTAAGGCCAACATTGATAT-TGCTACTGATAA
1 TGGGCTAAGGCC-ACATTGAT-TCTGCTACCG-TAA
*
90174478 -GGGCTTAGGCC
1 TGGGCTAAGGCC
90174489 CAGACTGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 2 0.05
34 34 0.85
35 4 0.10
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (33 bp):
TGGGCTAAGGCCACATTGATTCTGCTACCGTAA
Found at i:90178269 original size:33 final size:33
Alignment explanation
Indices: 90178223--90178287 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
90178213 TTGCATACTG
* * *
90178223 CACTGATACTGTTACTGTAATGGGCTTAGGCCC
1 CACTGATACTGTTACTGAAATGAGCTCAGGCCC
*
90178256 CACTGATGA-TGTTATTGAAATGAGCTCAGGCC
1 CACTGAT-ACTGTTACTGAAATGAGCTCAGGCC
90178288 TAGACTGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (33 bp):
CACTGATACTGTTACTGAAATGAGCTCAGGCCC
Found at i:90181628 original size:45 final size:45
Alignment explanation
Indices: 90181564--90181879 Score: 246
Period size: 45 Copynumber: 7.0 Consensus size: 45
90181554 ATGTTATCAC
* * * * *
90181564 CAACATGATGAAAACGAATAAGAGCATAACTGAAATACGCTATGG
1 CAACATGACGAAAATGAATAAGACCATAGCTGAAAGACGCTATGG
* * *
90181609 CAACATGACGAAAATGAATAAGACTATAGCTGAAAGGCACTATGG
1 CAACATGACGAAAATGAATAAGACCATAGCTGAAAGACGCTATGG
** * * *
90181654 CAACATGAAAAAAATCAATAAGACCATACCTAAAAGACGCTATGG
1 CAACATGACGAAAATGAATAAGACCATAGCTGAAAGACGCTATGG
* ** * *
90181699 CAACATGATGAAAACCAAATAAGACCATAGCTTAAAGAAGCTAT-G
1 CAACATGACGAAAA-TGAATAAGACCATAGCTGAAAGACGCTATGG
* * * *
90181744 -AACATAACAAAAATGAATAAGACCATAGTTGAAAAACGCTATGG
1 CAACATGACGAAAATGAATAAGACCATAGCTGAAAGACGCTATGG
** * * * * * *
90181788 CAATTTGTC-AGAAACGAGTAAGAGCATGGCTGAAAGACGCGATGG
1 CAACATGACGA-AAATGAATAAGACCATAGCTGAAAGACGCTATGG
** * * *
90181833 CATTATTA--TATATAGAACTAAGACCATAGCTGAAAGACGCTATGG
1 CAACATGACGAAAAT-GAA-TAAGACCATAGCTGAAAGACGCTATGG
90181878 CA
1 CA
90181880 TCCTTTCTTA
Statistics
Matches: 211, Mismatches: 54, Indels: 12
0.76 0.19 0.04
Matches are distributed among these distances:
43 25 0.12
44 14 0.07
45 148 0.70
46 24 0.11
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (45 bp):
CAACATGACGAAAATGAATAAGACCATAGCTGAAAGACGCTATGG
Found at i:90185764 original size:29 final size:27
Alignment explanation
Indices: 90185718--90185774 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 27
90185708 ATATATATAC
*
90185718 ATATTTTTATAATTTA-TTTATTTTAA
1 ATATTTTTATAATTTATTTTACTTTAA
90185744 ATATTTTGTATACCATTTATTTTACTTTAA
1 ATATTTT-TATA--ATTTATTTTACTTTAA
90185774 A
1 A
90185775 CTTTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 7 0.27
27 4 0.15
29 5 0.19
30 10 0.38
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
ATATTTTTATAATTTATTTTACTTTAA
Found at i:90185848 original size:26 final size:26
Alignment explanation
Indices: 90185806--90185873 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
90185796 TTTATTTTAT
*
90185806 TATTATTT-T-TTTGTATTATCTATTA
1 TATTATTTATATTT-TATTATATATTA
*
90185831 TATTATTTATATTTTATTGTATATTA
1 TATTATTTATATTTTATTATATATTA
*
90185857 TATTATGTATAATTTTA
1 TATTATTTAT-ATTTTA
90185874 AAATTTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 8 0.22
26 20 0.54
27 9 0.24
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (26 bp):
TATTATTTATATTTTATTATATATTA
Found at i:90185861 original size:31 final size:28
Alignment explanation
Indices: 90185798--90185862 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
90185788 TAAAAATGTT
* *
90185798 TATTTTATTATTATTTTTTTGTATTATC
1 TATTATATTATTATTTTTTTGTATTATA
* * *
90185826 TATTATATTATT-TATATTT-TATTGTA
1 TATTATATTATTATTTTTTTGTATTATA
90185852 TATTATATTAT
1 TATTATATTAT
90185863 GTATAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 16 0.50
27 5 0.16
28 11 0.34
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.68
Consensus pattern (28 bp):
TATTATATTATTATTTTTTTGTATTATA
Found at i:90185865 original size:14 final size:14
Alignment explanation
Indices: 90185826--90185867 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
90185816 TTGTATTATC
*
90185826 TATTATATTATTTA
1 TATTATATTATGTA
*
90185840 TATTTTA-T-TGTA
1 TATTATATTATGTA
90185852 TATTATATTATGTA
1 TATTATATTATGTA
90185866 TA
1 TA
90185868 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 9 0.39
13 2 0.09
14 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (14 bp):
TATTATATTATGTA
Found at i:90185880 original size:8 final size:8
Alignment explanation
Indices: 90185867--90185894 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
90185857 TATTATGTAT
90185867 AATTTTAA
1 AATTTTAA
90185875 AATTTTAA
1 AATTTTAA
90185883 AATTTTAA
1 AATTTTAA
90185891 AATT
1 AATT
90185895 ATTACATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AATTTTAA
Found at i:90186254 original size:18 final size:18
Alignment explanation
Indices: 90186231--90186265 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90186221 ATCTCATAAA
*
90186231 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
*
90186249 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
90186266 AAATTTGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Done.