Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008113.1 Hibiscus syriacus cultivar Beakdansim tig00110652_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 992058
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 4 of 5
Found at i:667501 original size:2 final size:2
Alignment explanation
Indices: 667494--667536 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
667484 AAATTAAGTA
667494 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
667535 AT
1 AT
667537 GTGTGTGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:667541 original size:2 final size:2
Alignment explanation
Indices: 667536--667576 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
667526 TATATATATA
667536 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
667577 TTATATTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:667786 original size:32 final size:30
Alignment explanation
Indices: 667733--667791 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
667723 CTTATATACA
667733 ATATATAAGTTTTAAAACATTTTGAAAGTT
1 ATATATAAGTTTTAAAACATTTTGAAAGTT
* *
667763 ATATATATATTTTTGAAATCATTTTGAAA
1 ATATATA-AGTTTT-AAAACATTTTGAAA
667792 ATAATGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 7 0.28
31 5 0.20
32 13 0.52
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (30 bp):
ATATATAAGTTTTAAAACATTTTGAAAGTT
Found at i:667861 original size:38 final size:41
Alignment explanation
Indices: 667792--667872 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 41
667782 CATTTTGAAA
* *
667792 ATAATGTATAGTTTTTAAAAAAACATTTTTGAAAAATTTAT
1 ATAATATATAGTTTTTAAAAAAACATTTTTGAAAAACTTAT
667833 ATAATATATAG-TTTT-AAAAAACA-TTTTGAAAAACTTAT
1 ATAATATATAGTTTTTAAAAAAACATTTTTGAAAAACTTAT
667871 AT
1 AT
667873 TATTTTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 16 0.42
39 8 0.21
40 4 0.11
41 10 0.26
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (41 bp):
ATAATATATAGTTTTTAAAAAAACATTTTTGAAAAACTTAT
Found at i:667969 original size:31 final size:31
Alignment explanation
Indices: 667897--667969 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
667887 TTTTGAAAAC
* **
667897 TATATAATATATAGCTTTGAAAACGTTTTTA
1 TATATAATATATAGCTTTAAAAAAATTTTTA
*
667928 -AGTATAATATATAGTTTTAAAAAAATTTTTA
1 TA-TATAATATATAGCTTTAAAAAAATTTTTA
*
667959 TATATTATATA
1 TATATAATATA
667970 CGCTATTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 1 0.03
31 33 0.94
32 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.47
Consensus pattern (31 bp):
TATATAATATATAGCTTTAAAAAAATTTTTA
Found at i:667981 original size:3 final size:3
Alignment explanation
Indices: 667973--668010 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
667963 TTATATACGC
667973 TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT T
668011 TTTTCATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:669270 original size:22 final size:22
Alignment explanation
Indices: 669245--669287 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
669235 ACTTTAACCC
*
669245 TTTT-TTTTATCTATTTTTATTA
1 TTTTATTTTA-CTATTGTTATTA
669267 TTTTATTTTACTATTGTTATT
1 TTTTATTTTACTATTGTTATT
669288 TCTTTCCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTATTTTACTATTGTTATTA
Found at i:671274 original size:19 final size:19
Alignment explanation
Indices: 671246--671287 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
671236 AGACATTTTA
671246 CATTTCGTTATTTTCTTTG
1 CATTTCGTTATTTTCTTTG
*
671265 CATTTTGTTATTTTCTTTG
1 CATTTCGTTATTTTCTTTG
671284 CATT
1 CATT
671288 CACATTAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.12, C:0.14, G:0.10, T:0.64
Consensus pattern (19 bp):
CATTTCGTTATTTTCTTTG
Found at i:674831 original size:84 final size:84
Alignment explanation
Indices: 674640--675237 Score: 720
Period size: 84 Copynumber: 7.2 Consensus size: 84
674630 GCTCAAGGCC
* *
674640 AGAAGGGCTACCTGCC-A-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC-TT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
*
674702 TGCAGCATAACTTAAGTCA
66 TGCAGCATAACTTAAGTCT
*
674721 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
*
674786 TGCAGCATAACTTAAGTCA
66 TGCAGCATAACTTAAGTCT
* *
674805 AGAAGGGTTATATGCCGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
*
674870 TGCAGCACAACTTAAGTCT
66 TGCAGCATAACTTAAGTCT
* * * *
674889 AGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCAT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCAT
* *
674953 TTGCAGCATAGCTTAAGTCG
65 TTGCAGCATAACTTAAGTCT
* * * * * * *
674973 AGAAGGGCTATCTG----CCAAAGACC-CCTGAGTTTGATTACACTCAGCTTCGAGGGC-TCATC
1 AGAAGGGTTATCTGCCAACCAAAGACCTTC-GAGTTCGACTACGCTCAGC-TCCAAGGCAT-ATC
* * *
675032 ATTTACAGCATAACTCAAGGCT
63 ATTTGCAGCATAACTTAAGTCT
** *
675054 AGAAGGGTTATCTG-TGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCATATCA
1 AGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCA
*
675117 TTTGCAGCACAACTTAAGTCT
64 TTTGCAGCATAACTTAAGTCT
* * *
675138 AGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GCACATCA-T
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
* * *
675201 TGCAGTATAGCTTAAGTCG
66 TGCAGCATAACTTAAGTCT
* *
675220 AGAAGGGCTGTCTGCCAA
1 AGAAGGGTTATCTGCCAA
675238 AGACCCCTGA
Statistics
Matches: 446, Mismatches: 54, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
80 24 0.05
81 51 0.11
82 35 0.08
83 53 0.12
84 253 0.57
85 30 0.07
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (84 bp):
AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
TGCAGCATAACTTAAGTCT
Found at i:675060 original size:249 final size:248
Alignment explanation
Indices: 674651--675311 Score: 939
Period size: 249 Copynumber: 2.7 Consensus size: 248
674641 GAAGGGCTAC
* * *
674651 CTGCC-ACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC-TTTGCAGCATAACT
1 CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
* * * * * * *
674714 TAAGTCAAGAAGGGTTATCTGCCAACCAAAGA-CCTTCGAGTTTGACTACGCTCAGC-TCCAAGG
66 TAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCT-GAGTTTGATTACACTCAGCTTCGAGGG
* * * *
674777 CAT-ATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATATGCCGACC-AAAGACCTTCGAGTT
126 C-TCATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATG-CGACCAAAAGACCTTCGAGTT
674840 CGACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
189 CGACTACGCTCAGCT-CAACGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
674900 CTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAG
1 CTGCCAAC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAG
674964 CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTGAGTTTGATTACACTCAGCTTCGAGGGCTC
64 CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTGAGTTTGATTACACTCAGCTTCGAGGGCTC
* * *
675029 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACT
129 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGCGACCAAAAGACCTTCGAGTTCGACT
675094 ACGCTCAGCTCAACGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
194 ACGCTCAGCTCAACGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
*
675149 CTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GCACATCA-TTGCAGTATAGC
1 CTGCCAA-CAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGC
* * * *
675212 TTAAGTCGAGAAGGGCTGTCTGCCAAAGACCCCTGAGTTTGATTCCACTCAGCTCCGAGGGCACA
65 TTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTGAGTTTGATTACACTCAGCTTCGAGGGCTCA
675277 TCATTTACAGCATAACTCAAGGCTAG-AGGAGTTAT
130 TCATTTACAGCATAACTCAAGGCTAGAAGG-GTTAT
675312 CTGTCAACAA
Statistics
Matches: 378, Mismatches: 22, Indels: 26
0.89 0.05 0.06
Matches are distributed among these distances:
246 3 0.01
247 103 0.27
248 40 0.11
249 155 0.41
250 9 0.02
251 36 0.10
252 32 0.08
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (248 bp):
CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
TAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTGAGTTTGATTACACTCAGCTTCGAGGGCTCAT
CATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGCGACCAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCAACGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
Found at i:675098 original size:165 final size:165
Alignment explanation
Indices: 674640--675226 Score: 706
Period size: 165 Copynumber: 3.5 Consensus size: 165
674630 GCTCAAGGCC
* *
674640 AGAAGGGCTACCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC-TTTG
1 AGAAGGGCTATCTGAC-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
* * *
674704 CAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTTGACTACGCTCA
65 CAGCATAACTTAAGTCTAGAAGGGTTATCTG-CAACCAAAAGACCTTTGAGTTCGACTACGCTCA
674768 GCTCCAA-GGCATATCATTTGCAGCATAACTTAAGTCA
129 GCT-CAACGGCATATCATTTGCAGCATAACTTAAGTCA
* *
674805 AGAAGGGTTATATGCCGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGG--CTAT-CTGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
* *
674870 TGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAA-CAAAAGACCTTTGAGTTCGACTACGCT
63 TGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-CAACCAAAAGACCTTTGAGTTCGACTACGCT
* * *
674934 CAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCG
127 CAGCTCAACGGCATATCATTTGCAGCATAACTTAAGTCA
* * * * * *
674973 AGAAGGGCTATCTG-CCAAAGACC-CCTGAGTTTGATTACACTCAGCTTCGAGGGC-TCATCATT
1 AGAAGGGCTATCTGACCAAAGACCTTC-GAGTTCGACTACGCTCAGC-TCCAAGGCAT-ATCATT
* * * **
675035 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTC
63 TGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCAACCAAAAGACCTTTGAGTTCGACTACGCTC
* *
675100 AGCTCAACGGCATATCATTTGCAGCACAACTTAAGTCT
128 AGCTCAACGGCATATCATTTGCAGCATAACTTAAGTCA
* * * *
675138 AGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GCACATCA-T
1 AGAAGGGCTATCTG---ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
* * *
675201 TGCAGTATAGCTTAAGTCGAGAAGGG
63 TGCAGCATAACTTAAGTCTAGAAGGG
675227 CTGTCTGCCA
Statistics
Matches: 359, Mismatches: 47, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
163 1 0.00
164 27 0.08
165 123 0.34
166 24 0.07
167 55 0.15
168 104 0.29
169 25 0.07
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (165 bp):
AGAAGGGCTATCTGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGC
AGCATAACTTAAGTCTAGAAGGGTTATCTGCAACCAAAAGACCTTTGAGTTCGACTACGCTCAGC
TCAACGGCATATCATTTGCAGCATAACTTAAGTCA
Found at i:675400 original size:36 final size:36
Alignment explanation
Indices: 675336--675566 Score: 245
Period size: 36 Copynumber: 6.4 Consensus size: 36
675326 CTTTGAGATT
* * *
675336 GTTT-TCTTGAAATAAA-ATTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
* *
675370 GATTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
* * * * *
675406 ATTTCCCTTAAAACAAATTTCGCCTCCCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
* *
675442 GTTTCACTTGAAACAAATTTCGTCTCCCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
* *
675478 GTTTC-CTTTGAAACAAATTTTTTGTCAAT-CTTTGAAACA
1 GTTTCTC-TTGAAACAAA--TTTTGTC--TCCCTTGAGACA
*
675517 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA
1 GTTTCTCTTGAAAC-AAATTTTGTCTCCCTTGAGACA
675554 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
675567 AAACCTTTGA
Statistics
Matches: 167, Mismatches: 20, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
34 3 0.02
35 12 0.07
36 94 0.56
37 20 0.12
38 13 0.08
39 20 0.12
40 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (36 bp):
GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
Found at i:675564 original size:112 final size:107
Alignment explanation
Indices: 675336--675566 Score: 288
Period size: 112 Copynumber: 2.1 Consensus size: 107
675326 CTTTGAGATT
* *
675336 GTTT-TCTTGAAATAAAATTGTCTCTCTTGAGACAGATTCTCTTGAAACAAATTTTGTCTCTCTT
1 GTTTCTCTTGAAACAAAATTGTCTCCCTTGAGACAGATTCTCTTGAAACAAATTTTGTCTCTCTT
*
675400 GAGACAATTTCCCTTAAAACAAATTTCGCCTCCCTTGAGACA
66 GAAACAATTTCCCTTAAAACAAATTTCGCCTCCCTTGAGACA
* * *
675442 GTTTCACTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTC-CTTTGAAACAAATTTTTTGTCAA
1 GTTTCTCTTGAAACAAAATT-GTCTCCCTTGAGACAGATTCTC-TTGAAACAAA--TTTTGTC--
* * * *
675506 TCT-TTGAAACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA
60 TCTCTTGAAACAATTTCCCTTAAAAC-AAATTTCGCCTCCCTTGAGACA
675554 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
675567 AAACCTTTGA
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
106 4 0.04
107 13 0.12
108 28 0.26
110 7 0.07
111 19 0.18
112 35 0.33
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (107 bp):
GTTTCTCTTGAAACAAAATTGTCTCCCTTGAGACAGATTCTCTTGAAACAAATTTTGTCTCTCTT
GAAACAATTTCCCTTAAAACAAATTTCGCCTCCCTTGAGACA
Found at i:675611 original size:28 final size:27
Alignment explanation
Indices: 675554--675621 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
675544 CCTTGAGACA
675554 GTTTCTCTTGAAAAAACCTTTGAAATT
1 GTTTCTCTTGAAAAAACCTTTGAAATT
675581 GTTTCTCTTGAAAAAACCCCTTTGAAA-T
1 GTTTCTCTTGAAAAAA--CCTTTGAAATT
675609 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
675622 CACGATACCT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 16 0.41
28 14 0.36
29 9 0.23
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.40
Consensus pattern (27 bp):
GTTTCTCTTGAAAAAACCTTTGAAATT
Found at i:675776 original size:83 final size:86
Alignment explanation
Indices: 675631--675810 Score: 251
Period size: 84 Copynumber: 2.1 Consensus size: 86
675621 ACACGATACC
*
675631 TTCGAGTTCGACTACGCTCAGCTCAAAGGGCACATCATCTGCAGCACAAATTAAGTCTAGAA-GG
1 TTCGAGTTCGACTACGCTCAGCTCAAAGGGCACATCATCTGCAGCACAAATTAAGTCGAGAAGGG
* *
675695 TTGTCTGCC-AACAAGAGA-CT
66 CTATCTGCCTAACAA-AGACCT
* * **
675715 TTCGAGTTCGACTACGCTCAGCTCAAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
1 TTCGAGTTCGACTACGCTCAGCTCAAAGGGCACATCATCTGCAGCACAAATTAAGTCGAGAAGGG
*
675779 CTATCTGCCTACCAAAGACCT
66 CTATCTGCCTAACAAAGACCT
675800 TTCGAGTTCGA
1 TTCGAGTTCGA
675811 TTCCATTCAG
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
83 29 0.34
84 39 0.46
85 17 0.20
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (86 bp):
TTCGAGTTCGACTACGCTCAGCTCAAAGGGCACATCATCTGCAGCACAAATTAAGTCGAGAAGGG
CTATCTGCCTAACAAAGACCT
Found at i:676466 original size:34 final size:35
Alignment explanation
Indices: 676427--676503 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 35
676417 TAGTTAATGT
676427 TTTTGAAAACTTATACAATATAAGTTTT-AAAACA
1 TTTTGAAAACTTATACAATATAAGTTTTGAAAACA
* * ** *
676461 TTTTG-AAAGTTATATAATATATTTTTTGAAATCA
1 TTTTGAAAACTTATACAATATAAGTTTTGAAAACA
676495 TTTTGAAAA
1 TTTTGAAAA
676504 TATAATGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 18 0.50
34 15 0.42
35 3 0.08
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (35 bp):
TTTTGAAAACTTATACAATATAAGTTTTGAAAACA
Found at i:676605 original size:33 final size:34
Alignment explanation
Indices: 676524--676622 Score: 114
Period size: 33 Copynumber: 2.9 Consensus size: 34
676514 AGTTTTTTAA
*
676524 AAAAAACATTTTTGAAAAATTTATATATATAGTTTT
1 AAAAAACATTTTTGAAAAACTTATAT-TATA-TTTT
676560 AAAAAACA-TTTTGAAAAACTTATATTATATTTT
1 AAAAAACATTTTTGAAAAACTTATATTATATTTT
* * *
676593 -TAAATCATTTTTG-AAAACTATATAATATAT
1 AAAAAACATTTTTGAAAAACT-TATATTATAT
676623 AGCTTTGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
32 11 0.19
33 18 0.32
34 4 0.07
35 16 0.28
36 8 0.14
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (34 bp):
AAAAAACATTTTTGAAAAACTTATATTATATTTT
Found at i:676698 original size:3 final size:3
Alignment explanation
Indices: 676690--676723 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
676680 ATATACGCTA
676690 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
676724 TCTTTTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:679992 original size:19 final size:19
Alignment explanation
Indices: 679964--680005 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
679954 AGACATTTTA
679964 CATTTCGTTATTTTCTTTG
1 CATTTCGTTATTTTCTTTG
*
679983 CATTTTGTTATTTTCTTTG
1 CATTTCGTTATTTTCTTTG
680002 CATT
1 CATT
680006 CACATTAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.12, C:0.14, G:0.10, T:0.64
Consensus pattern (19 bp):
CATTTCGTTATTTTCTTTG
Found at i:683500 original size:84 final size:84
Alignment explanation
Indices: 683377--683977 Score: 747
Period size: 84 Copynumber: 7.2 Consensus size: 84
683367 GCTCAAGGCC
* *
683377 AGAAGGGCTACCTGCC-A-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
*
683440 TGCAGCATAACTTAAGTCA
66 TGCAGCATAACTTAAGTCT
*
683459 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
*
683524 TGCAGCATAACTTAAGTCA
66 TGCAGCATAACTTAAGTCT
* *
683543 AGAAGGGTTATATGCCGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
*
683608 TGCAGCACAACTTAAGTCT
66 TGCAGCATAACTTAAGTCT
* * * *
683627 AGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCAT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCAT
* *
683691 TTGCAGCATAGCTTAAGTCG
65 TTGCAGCATAACTTAAGTCT
* * * * * * *
683711 AGAAGGGCTATCTG----CCAAAGACC-CCTGAGTTTGATTACACTCAGCTTCGAGGGC-TCATC
1 AGAAGGGTTATCTGCCAACCAAAGACCTTC-GAGTTCGACTACGCTCAGC-TCCAAGGCAT-ATC
* * *
683770 ATTTACAGCATAACTCAAGGCT
63 ATTTGCAGCATAACTTAAGTCT
** *
683792 AGAAGGGTTATCTG-TGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCATATCA
1 AGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCA
*
683855 TTTGCAGCACAACTTAAGTCT
64 TTTGCAGCATAACTTAAGTCT
* * *
683876 AGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
* * *
683941 TGCAGTATAGCTTAAGTCG
66 TGCAGCATAACTTAAGTCT
* *
683960 AGAAGGGCTGTCTGCCAA
1 AGAAGGGTTATCTGCCAA
683978 AGACCCCTGA
Statistics
Matches: 449, Mismatches: 54, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
80 24 0.05
81 37 0.08
82 15 0.03
83 5 0.01
84 338 0.75
85 30 0.07
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (84 bp):
AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
TGCAGCATAACTTAAGTCT
Found at i:683857 original size:249 final size:248
Alignment explanation
Indices: 683388--684072 Score: 983
Period size: 249 Copynumber: 2.8 Consensus size: 248
683378 GAAGGGCTAC
* * *
683388 CTGCC-ACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACT
1 CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
* * * * * * *
683452 TAAGTCAAGAAGGGTTATCTGCCAACCAAAGA-CCTTCGAGTTTGACTACGCTCAGC-TCCAAGG
66 TAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCT-GAGTTTGATTACACTCAGCTTCGAGGG
* * * * * * *
683515 CAT-ATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATATGCCGACC-AAAGACCTTCGAGTT
126 C-TCATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTTGAGTT
683578 CGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
189 CGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
683638 CTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAG
1 CTGCCAAC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAG
683702 CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTGAGTTTGATTACACTCAGCTTCGAGGGCTC
64 CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTGAGTTTGATTACACTCAGCTTCGAGGGCTC
683767 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACT
129 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACT
683832 ACGCTCAGCT-CAACGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
194 ACGCTCAGCTCCAA-GGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
*
683887 CTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGC
1 CTGCCAA-CAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGC
* * * *
683952 TTAAGTCGAGAAGGGCTGTCTGCCAAAGACCCCTGAGTTTGATTCCACTCAGCTCCGAGGGCACA
65 TTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTGAGTTTGATTACACTCAGCTTCGAGGGCTCA
* *
684017 TCATTTACAGCATAACTCAAGGCTAG-AGGAGTTATCTGTCAACAAAA-ACCTTTGAG
130 TCATTTACAGCATAACTCAAGGCTAGAAGG-GTTATCTGTGACCAAAAGACCTTTGAG
684073 ATTGTTTTTC
Statistics
Matches: 400, Mismatches: 24, Indels: 24
0.89 0.05 0.05
Matches are distributed among these distances:
248 44 0.11
249 273 0.68
250 9 0.02
251 5 0.01
252 69 0.17
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (248 bp):
CTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
TAAGTCGAGAAGGGCTATCTGCCAAAGACCCCTGAGTTTGATTACACTCAGCTTCGAGGGCTCAT
CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTAC
GCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
Found at i:684121 original size:36 final size:36
Alignment explanation
Indices: 684076--684308 Score: 231
Period size: 36 Copynumber: 6.4 Consensus size: 36
684066 CTTTGAGATT
* * *
684076 GTTTTTCTTGAAATAAAATTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAAATTTGTCTCCCTTGAGACA
* * *
684112 GATTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAAATTTGTCTCCCTTGAGACA
* * * *
684148 ATTTCCCTTAAAAC-AAATTTCGCCTCCCTTGAGACA
1 GTTTCTCTTGAAACAAAATTT-GTCTCCCTTGAGACA
*
684184 GTTTCACTTGAAAC-AAATTTCGTCTCCCTTGAGACA
1 GTTTCTCTTGAAACAAAATTT-GTCTCCCTTGAGACA
* * *
684220 GTTTC-CTTTGAAACAAATTTTTTGTCAAT-CTTTGAAACA
1 GTTTCTC-TTGAAACAAA--ATTTGTC--TCCCTTGAGACA
*
684259 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA
1 GTTTCTCTTGAAACAAAA-TTTGTCTCCCTTGAGACA
684296 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
684309 AAACCTTTGA
Statistics
Matches: 165, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
35 6 0.04
36 100 0.61
37 22 0.13
38 9 0.05
39 26 0.16
40 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (36 bp):
GTTTCTCTTGAAACAAAATTTGTCTCCCTTGAGACA
Found at i:684326 original size:27 final size:28
Alignment explanation
Indices: 684296--684364 Score: 113
Period size: 29 Copynumber: 2.5 Consensus size: 28
684286 CCTTGAGACA
*
684296 GTTTCTCTTGAAAAAA-CCTTTGAAATT
1 GTTTCTCTTGAAAAAACCCTTTGAAAAT
684323 GTTTCTCTTGAAAAAACCCCTTTGAAAAT
1 GTTTCTCTTGAAAAAA-CCCTTTGAAAAT
684352 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
684365 CACGATACCT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 16 0.41
29 23 0.59
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (28 bp):
GTTTCTCTTGAAAAAACCCTTTGAAAAT
Found at i:684520 original size:84 final size:86
Alignment explanation
Indices: 684374--684554 Score: 260
Period size: 85 Copynumber: 2.1 Consensus size: 86
684364 ACACGATACC
*
684374 TTCGAGTTCGACTACGCTCAGCTCAAAGGGCACATCATCTGCAGCACAAATTAAGTCTAGAAGGG
1 TTCGAGTTCGACTACGCTCAGCTCAAAGGGCACATCATCTGCAGCACAAATTAAGTCGAGAAGGG
* *
684439 TTGTCTGCC-AACAAGAGA-CT
66 CTATCTGCCTAACAA-AGACCT
* * **
684459 TTCGAGTTCGACTACGCTCAGCTCAAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
1 TTCGAGTTCGACTACGCTCAGCTCAAAGGGCACATCATCTGCAGCACAAATTAAGTCGAGAAGGG
*
684523 CTATCTGCCTACCAAAGACCT
66 CTATCTGCCTAACAAAGACCT
684544 TTCGAGTTCGA
1 TTCGAGTTCGA
684555 TTCCATTCAG
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
84 42 0.49
85 44 0.51
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (86 bp):
TTCGAGTTCGACTACGCTCAGCTCAAAGGGCACATCATCTGCAGCACAAATTAAGTCGAGAAGGG
CTATCTGCCTAACAAAGACCT
Found at i:685232 original size:37 final size:35
Alignment explanation
Indices: 685181--685400 Score: 136
Period size: 35 Copynumber: 6.1 Consensus size: 35
685171 TAGTTAATGT
685181 TTTTGAAAACTTATATACAATATATAAGTTTT-AAAACA
1 TTTTG-AAACTTATAT--AATATAT-AGTTTTGAAAACA
* * *
685219 TTTTGAAAGTTATATAATATATATTTTTGAAATCA
1 TTTTGAAACTTATATAATATATAGTTTTGAAAACA
* *
685254 TTTTGAAA---ATATAATGTATAGTTTTTAAAAAAAACA
1 TTTTGAAACTTATATAATATATAG-TTTT---GAAAACA
* *
685290 TTTTTGAAAAATTTATATAATATATAGTTTTAAAAAACA
1 -TTTTG--AAACTTATATAATATATAGTTTT-GAAAACA
*
685329 TTTTGAAAAACTTATAT--TATAT--TTTT-AAATCA
1 TTTTG--AAACTTATATAATATATAGTTTTGAAAACA
* *
685361 TTTTTGAAAAC-TATATAATATATAGCTTTGAAAACG
1 -TTTTG-AAACTTATATAATATATAGTTTTGAAAACA
685397 TTTT
1 TTTT
685401 TAAGTATAAT
Statistics
Matches: 152, Mismatches: 13, Indels: 37
0.75 0.06 0.18
Matches are distributed among these distances:
31 5 0.03
32 21 0.14
33 14 0.09
34 9 0.06
35 27 0.18
36 14 0.09
37 14 0.09
38 21 0.14
39 11 0.07
41 4 0.03
42 12 0.08
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (35 bp):
TTTTGAAACTTATATAATATATAGTTTTGAAAACA
Found at i:685241 original size:35 final size:34
Alignment explanation
Indices: 685194--685424 Score: 133
Period size: 35 Copynumber: 6.6 Consensus size: 34
685184 TGAAAACTTA
*
685194 TATACAATATATAAGTTTTAAAACATTTTGAAAGT
1 TATATAATATAT-AGTTTTAAAACATTTTGAAAGT
* *
685229 TATATAATATATATTTTTGAAATCATTTTGAAA--
1 TATATAATATATAGTTTT-AAAACATTTTGAAAGT
* *
685262 -ATATAATGTATAGTTTTTAAAAAAAACATTTTTGAAAAATT
1 TATATAATATATAG-TTTT----AAAACA-TTTTG--AAAGT
*
685303 TATATAATATATAGTTTTAAAAAACATTTTGAAAAACT
1 TATATAATATATAGTTTT--AAAACATTTTG--AAAGT
* **
685341 TATAT--TATAT--TTTTAAATCATTTTTGAAAAC
1 TATATAATATATAGTTTTAAAACA-TTTTGAAAGT
* * *
685372 TATATAATATATAGCTTTGAAAACGTTTT-TAAG-
1 TATATAATATATAG-TTTTAAAACATTTTGAAAGT
685405 --TATAATATATAGTTTTAAAA
1 TATATAATATATAGTTTTAAAA
685425 AATATTTTTA
Statistics
Matches: 161, Mismatches: 18, Indels: 39
0.74 0.08 0.18
Matches are distributed among these distances:
30 7 0.04
31 20 0.12
32 16 0.10
33 14 0.09
34 11 0.07
35 28 0.17
36 17 0.11
37 5 0.03
38 16 0.10
39 11 0.07
41 4 0.02
42 12 0.07
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (34 bp):
TATATAATATATAGTTTTAAAACATTTTGAAAGT
Found at i:685368 original size:33 final size:35
Alignment explanation
Indices: 685283--685384 Score: 104
Period size: 38 Copynumber: 2.9 Consensus size: 35
685273 AGTTTTTAAA
*
685283 AAAAACATTTTTGAAAAATTTATATAATATATAGTTTT
1 AAAAACATTTTTGAAAAACTTATAT--TATATA-TTTT
685321 AAAAAACA-TTTTGAAAAACTTATATTATAT-TTTT
1 -AAAAACATTTTTGAAAAACTTATATTATATATTTT
* *
685355 -AAATCATTTTTG-AAAACTATATAATATATA
1 AAAAACATTTTTGAAAAACT-TATATTATATA
685385 GCTTTGAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
32 11 0.19
33 14 0.25
34 4 0.07
36 5 0.09
38 16 0.28
39 7 0.12
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (35 bp):
AAAAACATTTTTGAAAAACTTATATTATATATTTT
Found at i:685459 original size:3 final size:3
Alignment explanation
Indices: 685451--685491 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
685441 ATATACGCTA
685451 TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
685492 TCTTTTTCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:688189 original size:23 final size:23
Alignment explanation
Indices: 688156--688223 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
688146 CATCTTATAT
688156 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* * *
688179 GGCACTTCGGTGCAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
* *
688202 GGCACTCCGGTGCATTTATACG
1 GGCACTACGGTGCATTTCTACG
688224 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:688528 original size:2 final size:2
Alignment explanation
Indices: 688521--688555 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
688511 ATGTACCTGG
688521 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
688556 GTTTGGATGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:700962 original size:6 final size:6
Alignment explanation
Indices: 700951--700977 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
700941 TAATTGCAAA
700951 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
700978 AACCCAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:701596 original size:24 final size:24
Alignment explanation
Indices: 701536--701584 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
701526 AAACACCTTG
701536 AAATAAAAGGAATTAAATTTGCAA
1 AAATAAAAGGAATTAAATTTGCAA
701560 AAATAAAAGGAATTAAATTTGCAA
1 AAATAAAAGGAATTAAATTTGCAA
701584 A
1 A
701585 CATAGCTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.24
Consensus pattern (24 bp):
AAATAAAAGGAATTAAATTTGCAA
Found at i:703004 original size:106 final size:106
Alignment explanation
Indices: 702881--705033 Score: 3573
Period size: 106 Copynumber: 20.3 Consensus size: 106
702871 GTATTGTTTC
*
702881 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
702946 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
702987 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
703052 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
703093 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGATGTTGTTTTTTTTTGA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG---TTTGTTGA
*
703158 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
63 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
703202 GAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
703267 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
703308 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
703373 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
703414 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
703479 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
703520 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTTTTTTTTGA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG---TTTGTTGA
*
703585 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
63 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
703629 GAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
703693 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
703734 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
703799 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
703840 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
703905 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
703946 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
704010 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
704051 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
704115 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
704156 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
704220 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
704261 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * *
704326 CCACCGGTCCCTTCGTCATGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
704367 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAAAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
704432 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
704473 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
704537 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
704578 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
704642 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
704683 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
704748 CCAGCGGTCCCTTCCTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
704789 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
704854 CCATCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
704895 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * **
704960 CCATCGGTCCCTTCTTCGTGAAGTTGAACTTGTATTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * *
705002 GA-TTCAAGATCCTTCGTTGAGAAGTTGAAATT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
705034 TACTCTCGAG
Statistics
Matches: 1942, Mismatches: 95, Indels: 20
0.94 0.05 0.01
Matches are distributed among these distances:
105 607 0.31
106 1133 0.58
107 4 0.00
108 2 0.00
109 196 0.10
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:704313 original size:527 final size:529
Alignment explanation
Indices: 702881--705039 Score: 3581
Period size: 527 Copynumber: 4.1 Consensus size: 529
702871 GTATTGTTTC
* * * *
702881 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAA
*
702946 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAA
* * *
703011 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * * *
703076 TGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
** * *
703141 ATGTTGTTTTTTTTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGT
261 A-AATG---TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
703206 CCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAG
322 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAG
* * *
703271 CAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
387 CGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
703336 AAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
452 AAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
703401 CTTGCGTTGTCTG
517 CTTGCGTTGTCTG
* * *
703414 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAA
* *
703479 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAA
* * * * * *
703544 GTTGAAATTGGCTCCGAAATTGGGAAGTTGTTTTTTTTTGACAACCAGCGGTCCCTTCGTCGTGA
131 GTTGAAATTGACTCTGAAATCGAGAAGATG---TTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
* *
703609 AGTTGAACTTGCGTTGTCTTGAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT
193 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT
* *
703674 GGGAAATGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
258 GAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* *
703739 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
323 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGC
* * *
703804 GGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
388 GGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGA
703869 AATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
453 AATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
703934 TTGCGTTGTCTG
518 TTGCGTTGTCTG
703946 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAA
704010 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAA
704075 GTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * *
704139 TGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
* *
704204 AAATGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAA
261 AAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
* * *
704269 TATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCACCGGT
326 TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGT
* *
704334 CCCTTCGTCATGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTTGCTGTGAAGTTGAAAT
391 CCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
*
704399 TGGCTCTGAAATTGAGAAGTTGTTTGTTGAAAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
456 TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
*
704464 TGTTGTCTG
521 CGTTGTCTG
704473 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAA
704537 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAA
*
704602 GTTGAAATTGACTCTGAAATCGAGAA-ATGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
704666 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
* * *
704731 AATTTGTTTGTTGACAACCAGCGGTCCCTTCCTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
261 AA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
704796 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCATCGG
325 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
*
704861 TCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCTAATATCCTTCGCTGTGAAGTTGAAA
390 TCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
* * *
704926 TTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCATCGGTCCCTTCTTCGTGAAGTTGAACTT
455 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
**
704991 GTATTGTCTTG
520 GCGTTGTC-TG
* * * *
705002 GA-TTCAAGATCCTTCGTTGAGAAGTTGAAATTTACTCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCT
705040 CGAGCAAATT
Statistics
Matches: 1548, Mismatches: 73, Indels: 15
0.95 0.04 0.01
Matches are distributed among these distances:
527 608 0.39
528 281 0.18
529 4 0.00
530 2 0.00
531 98 0.06
532 302 0.20
533 156 0.10
535 2 0.00
536 95 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (529 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGACTCTGAAATCGAGAAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
AAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
TGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
CGTTGTCTG
Found at i:704425 original size:422 final size:423
Alignment explanation
Indices: 702881--705039 Score: 3624
Period size: 422 Copynumber: 5.1 Consensus size: 423
702871 GTATTGTTTC
* *
702881 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGTTTGTTGACAA
702946 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
703011 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * *
703076 TGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAG
* * *
703141 ATGTTGTTTTTTTTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGT
261 AAGTTG---TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
703206 CCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAG
323 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TGTTTGTTGACAACCAG
* *
703271 CAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
387 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
*
703308 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGTTTGTTGACAA
703373 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
703438 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
703503 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAG
* * *
703568 AAGTTGTTTTTTTTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAAT
261 AAGTTG---TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
703633 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGC
323 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGC
* *
703698 AGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
388 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
*
703734 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
703799 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
703864 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * *
703929 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAG
* *
703994 AA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCA
261 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
704058 ATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATGTTTGTTGACAACCAGCGGT
326 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGT
704123 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
391 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
* * *
704156 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
704220 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* *
704285 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCACCGGTCCCTTCGTCATGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
704350 TGAACTTACGTTGTCTGGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAG
* *
704415 AAGTTGTTTGTTGAAAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
261 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
704480 ATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATGTTTGTTGACAACCAGCGGT
326 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGT
704545 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
391 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
* * *
704578 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGTTTGTTGACAA
704642 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* *
704707 GTTGAAATTGGCTCTGAAATTGAGAATTTGTTTGTTGACAACCAGCGGTCCCTTCCTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
704772 TGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAG
* * * *
704837 AAGTTGTTTATTGACAACCATCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCTA
261 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
704902 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCATCGG
326 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATGTTTGTTGACAACCAGCGG
* ** *
704967 TCCCTTCTTCGTGAAGTTGAACTTGTATTGTCTT
390 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
* * * *
705001 G-GATTCAAGATCCTTCGTTGAGAAGTTGAAATTTACTCT
1 GAG-TCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCT
705040 CGAGCAAATT
Statistics
Matches: 1666, Mismatches: 63, Indels: 10
0.96 0.04 0.01
Matches are distributed among these distances:
421 202 0.12
422 705 0.42
423 82 0.05
425 2 0.00
426 309 0.19
427 366 0.22
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (423 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAG
AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAACCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
Found at i:708628 original size:6 final size:6
Alignment explanation
Indices: 708617--708643 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
708607 TAATTGCAAA
708617 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
708644 AACCCGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:709215 original size:23 final size:23
Alignment explanation
Indices: 709187--709234 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
709177 AAACACCTTG
709187 AAATAAAAGGAATTAAATTTGCA
1 AAATAAAAGGAATTAAATTTGCA
709210 AAATAAAAGGAATTAAATTTGCA
1 AAATAAAAGGAATTAAATTTGCA
709233 AA
1 AA
709235 CATAGCTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.25
Consensus pattern (23 bp):
AAATAAAAGGAATTAAATTTGCA
Found at i:713595 original size:16 final size:16
Alignment explanation
Indices: 713567--713600 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
713557 GAGTTGTTTG
713567 ATAATTTATTTTATTT
1 ATAATTTATTTTATTT
713583 ATAATATTA-TTTATTT
1 ATAAT-TTATTTTATTT
713599 AT
1 AT
713601 TTATTCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATAATTTATTTTATTT
Found at i:713815 original size:16 final size:17
Alignment explanation
Indices: 713788--713823 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
713778 AGATATGAGA
713788 AAATTCAATTTAAATTT
1 AAATTCAATTTAAATTT
*
713805 AAATT-AATTTAATTTT
1 AAATTCAATTTAAATTT
713821 AAA
1 AAA
713824 ATAGCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTAAATTT
Found at i:714106 original size:24 final size:24
Alignment explanation
Indices: 714074--714120 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
714064 CTTCGAAAAC
714074 GTTACGATGCGGGCGTTAAGCTAT
1 GTTACGATGCGGGCGTTAAGCTAT
* *
714098 GTTACGATGCGGGTGTTATGCTA
1 GTTACGATGCGGGCGTTAAGCTA
714121 CATTGCGCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.34, T:0.32
Consensus pattern (24 bp):
GTTACGATGCGGGCGTTAAGCTAT
Found at i:715092 original size:15 final size:15
Alignment explanation
Indices: 715072--715114 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
715062 AAGTAAACCT
715072 TATTTATATTTTGAA
1 TATTTATATTTTGAA
715087 TATTTATATATTTTGAA
1 TA-TT-TATATTTTGAA
*
715104 CATTTATATTT
1 TATTTATATTT
715115 ATTGTTGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 9 0.36
16 4 0.16
17 12 0.48
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (15 bp):
TATTTATATTTTGAA
Found at i:715098 original size:17 final size:17
Alignment explanation
Indices: 715076--715112 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
715066 AAACCTTATT
*
715076 TATATTTTGAATATTTA
1 TATATTTTGAACATTTA
715093 TATATTTTGAACATTTA
1 TATATTTTGAACATTTA
715110 TAT
1 TAT
715113 TTATTGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (17 bp):
TATATTTTGAACATTTA
Found at i:715208 original size:23 final size:23
Alignment explanation
Indices: 715160--715209 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
715150 ATCATGACTA
*
715160 TTCATGAAAAATAATTAAGTCTT
1 TTCATGAAAAATAATTAAGTCAT
* **
715183 TTCATGAAAAATAGTTATTTCAT
1 TTCATGAAAAATAATTAAGTCAT
715206 TTCA
1 TTCA
715210 CCCCAAAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (23 bp):
TTCATGAAAAATAATTAAGTCAT
Found at i:715808 original size:26 final size:27
Alignment explanation
Indices: 715764--715821 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
715754 TTACAAATAA
*
715764 TTTTTGAAATATATATATAATATATAG
1 TTTTTGAAATACATATATAATATATAG
* *
715791 TTTTTGAAA-ACATGTATATTATATAG
1 TTTTTGAAATACATATATAATATATAG
715817 TTTTT
1 TTTTT
715822 TAAACATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.52
Consensus pattern (27 bp):
TTTTTGAAATACATATATAATATATAG
Found at i:715809 original size:28 final size:25
Alignment explanation
Indices: 715764--715828 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
715754 TTACAAATAA
*
715764 TTTTTGAAATATATATATAATATATAG
1 TTTTTGAAACATATATAT--TATATAG
*
715791 TTTTTGAAAACATGTATATTATATAG
1 TTTTTG-AAACATATATATTATATAG
*
715817 TTTTTTAAACAT
1 TTTTTGAAACAT
715829 TTTGGAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.18
26 12 0.35
27 6 0.18
28 10 0.29
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (25 bp):
TTTTTGAAACATATATATTATATAG
Found at i:715831 original size:64 final size:60
Alignment explanation
Indices: 715741--715863 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 60
715731 TATCTATATA
715741 TATATTATATAGTTTACAAATAATTTTTGAAATATATATATAATATATAGTTTTTGAAAACATG
1 TATATTATATAGTTTACAAATAA-TTTTG-AA-A-ATATATAATATATAGTTTTTGAAAACATG
** * * *
715805 TATATTATATAGTTTTTTAAA-CATTTTGGAAATATATAATATATAGTTTTTTAAAACAT
1 TATATTATATAG-TTTACAAATAATTTTGAAAATATATAATATATAGTTTTTGAAAACAT
715864 TTTGAAAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
60 27 0.51
61 1 0.02
62 1 0.02
63 5 0.09
64 13 0.25
65 6 0.11
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (60 bp):
TATATTATATAGTTTACAAATAATTTTGAAAATATATAATATATAGTTTTTGAAAACATG
Found at i:715863 original size:35 final size:34
Alignment explanation
Indices: 715805--716110 Score: 198
Period size: 35 Copynumber: 8.4 Consensus size: 34
715795 TGAAAACATG
* *
715805 TATATTATATAGTTTTTTAAACATTTTGGAAA-TA
1 TATAATATATAGTTTTTAAAACATTTT-GAAATTA
715839 TATAATATATAGTTTTTTAAAACATTTTGAAAATTTA
1 TATAATATATAG-TTTTTAAAACATTTTG-AAA-TTA
715876 TATAATATATAGTTTTTAAAACATTTTGAAACTT-
1 TATAATATATAGTTTTTAAAACATTTTGAAA-TTA
715910 TATATATATATAGTTTTTAAAACATTTTGAATATATA
1 TATA-ATATATAGTTTTTAAAACATTTTGAA-AT-TA
*
715947 TATATATATATA-TATATAATATAGTTTTTAAAACATTTTGAAAGT-
1 TATA-ATATATAGT-T-T--T-TA-------AAACATTTTGAAATTA
* *
715992 TAT-ATAATATA-TAGTTTTTAAAAATATTTTGAAAATA
1 TATAAT-ATATAGT--TTTT--AAAACATTTTGAAATTA
* *
716029 TATAATATATGGTTTTTAAAACATTTTGAAAACTA
1 TATAATATATAGTTTTTAAAACATTTTG-AAATTA
* * *
716064 TAT-ATATATAG-TTTGAAAACTTTTTAAAAATTA
1 TATAATATATAGTTTTTAAAACATTTT-GAAATTA
716097 TAT-ATAATATAGTT
1 TATAAT-ATATAGTT
716111 GTAAATTTCT
Statistics
Matches: 226, Mismatches: 15, Indels: 61
0.75 0.05 0.20
Matches are distributed among these distances:
33 22 0.10
34 39 0.17
35 58 0.26
36 36 0.16
37 34 0.15
38 4 0.02
40 1 0.00
41 3 0.01
42 1 0.00
43 3 0.01
44 7 0.03
45 4 0.02
46 1 0.00
47 1 0.00
48 12 0.05
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (34 bp):
TATAATATATAGTTTTTAAAACATTTTGAAATTA
Found at i:715932 original size:25 final size:27
Alignment explanation
Indices: 715899--715950 Score: 63
Period size: 29 Copynumber: 1.9 Consensus size: 27
715889 TTTTAAAACA
*
715899 TTTTGAAAC-TTT-ATATATATATAGT
1 TTTTAAAACATTTAATATATATATAGT
715924 TTTTAAAACATTTTGAATATATATATA
1 TTTTAAAACA-TTT-AATATATATATA
715951 TATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 8 0.36
27 3 0.14
29 11 0.50
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (27 bp):
TTTTAAAACATTTAATATATATATAGT
Found at i:715947 original size:2 final size:2
Alignment explanation
Indices: 715940--715969 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
715930 AACATTTTGA
715940 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
715970 GTTTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:715971 original size:83 final size:81
Alignment explanation
Indices: 715874--716038 Score: 253
Period size: 83 Copynumber: 2.0 Consensus size: 81
715864 TTTGAAAATT
*
715874 TATATAATATATAGTTTTTAAAACATTTTGAAACTT-TATATATATATAGTTTTT-AAAACATTT
1 TATATAATATATAGTTTTTAAAACATTTTGAAAGTTATATA-ATATATAGTTTTTAAAAACATTT
*
715937 TGAATATATATATATATA
65 TGAAAATATATA-ATATA
*
715955 TATATATATAATATAGTTTTTAAAACATTTTGAAAGTTATATAATATATAGTTTTTAAAAATATT
1 TATATA-AT-ATATAGTTTTTAAAACATTTTGAAAGTTATATAATATATAGTTTTTAAAAACATT
716020 TTGAAAATATATAATATA
64 TTGAAAATATATAATATA
716038 T
1 T
716039 GGTTTTTAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
81 6 0.08
82 2 0.03
83 46 0.60
84 23 0.30
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (81 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAGTTATATAATATATAGTTTTTAAAAACATTTT
GAAAATATATAATATA
Found at i:716002 original size:118 final size:119
Alignment explanation
Indices: 715836--716073 Score: 367
Period size: 118 Copynumber: 2.0 Consensus size: 119
715826 CATTTTGGAA
*
715836 ATATATAATATATAGTTTTTTAAAACATTTTGAAAATTTATATAATATATAGTTTTT-AAAACAT
1 ATATATAATATATAGTTTTTTAAAACATTTTGAAAAGTTATATAATATATAGTTTTTAAAAACAT
* * *
715900 TTTGAAACTTTATATATATATAGTTTTTAAAACATTTTGAATA-TATATATATAT
66 TTTGAAAATATATA-ATATATAGTTTTTAAAACATTTTGAAAACTATATATATAT
*
715954 ATATATATATAATATAG-TTTTTAAAACATTTTG-AAAGTTATATAATATATAGTTTTTAAAAAT
1 ATATATA-AT-ATATAGTTTTTTAAAACATTTTGAAAAGTTATATAATATATAGTTTTTAAAAAC
*
716017 ATTTTGAAAATATATAATATATGGTTTTTAAAACATTTTGAAAACTATATATATAT
64 ATTTTGAAAATATATAATATATAGTTTTTAAAACATTTTGAAAACTATATATATAT
716073 A
1 A
716074 GTTTGAAAAC
Statistics
Matches: 110, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
118 56 0.51
119 48 0.44
120 6 0.05
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.47
Consensus pattern (119 bp):
ATATATAATATATAGTTTTTTAAAACATTTTGAAAAGTTATATAATATATAGTTTTTAAAAACAT
TTTGAAAATATATAATATATAGTTTTTAAAACATTTTGAAAACTATATATATAT
Found at i:716138 original size:2 final size:2
Alignment explanation
Indices: 716131--716160 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
716121 TTTTAAAAAG
716131 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
716161 TATTTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:716886 original size:30 final size:30
Alignment explanation
Indices: 716850--717036 Score: 365
Period size: 30 Copynumber: 6.2 Consensus size: 30
716840 TCCGAAGGAC
716850 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
716880 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
716910 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
716940 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
716970 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
717000 CTATCCAGAGGTCATAAAGATCCTCGGTAG
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
717030 CTATCCA
1 CTATCCA
717037 TATGTTCCTT
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 156 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:717450 original size:2 final size:2
Alignment explanation
Indices: 717438--717480 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
717428 TACACAACTC
717438 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
717479 AT
1 AT
717481 TGTAACATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:721339 original size:30 final size:30
Alignment explanation
Indices: 721303--721549 Score: 494
Period size: 30 Copynumber: 8.2 Consensus size: 30
721293 TCCGAAGGAC
721303 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
721333 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
721363 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
721393 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
721423 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
721453 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
721483 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
721513 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
721543 CTATCCA
1 CTATCCA
721550 TATGTTCCTT
Statistics
Matches: 217, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 217 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:721961 original size:2 final size:2
Alignment explanation
Indices: 721949--721977 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
721939 TACACAACTC
721949 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
721978 TGTAACATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:724214 original size:18 final size:18
Alignment explanation
Indices: 724176--724214 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
724166 TTAATTCGAA
*
724176 TTTAACCCTGATTTCACT
1 TTTAACCCTAATTTCACT
724194 TTTAATCCCTAATTTCA-T
1 TTTAA-CCCTAATTTCACT
724212 TTT
1 TTT
724215 GTTTCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.23, C:0.23, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTAACCCTAATTTCACT
Found at i:724352 original size:17 final size:19
Alignment explanation
Indices: 724306--724357 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
724296 ATATATATAA
724306 TTATTATTATTATTTACTTC
1 TTATTATTATT-TTTACTTC
*
724326 TTATTATTATTTTTCCTT-
1 TTATTATTATTTTTACTTC
724344 TTATT-TTATATTTT
1 TTATTATTAT-TTTT
724358 TTGGGTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 4 0.13
18 9 0.30
19 6 0.20
20 11 0.37
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATTATTATTTTTACTTC
Found at i:728859 original size:34 final size:34
Alignment explanation
Indices: 728816--728983 Score: 156
Period size: 34 Copynumber: 4.5 Consensus size: 34
728806 ATAAACAAGT
*
728816 AAATAAATAACACCATTAAGTCTCAATATGTCTA
1 AAATAAATAACACCATTAAGTCTCAATAAGTCTA
*
728850 AAATAAATAACGCCATTAAGTCTCAATAAGTCTA
1 AAATAAATAACACCATTAAGTCTCAATAAGTCTA
728884 AAATAAATAACACCATAACACTATTAAGTCTCAATAAGTCTAA
1 AAATAAAT-A-A-C---AC-C-ATTAAGTCTCAATAAGTCT-A
* *
728927 AATAAATAACTCCATAACACCATTAAATCTCAATAAGTTTA
1 ---AAATAA----ATAACACCATTAAGTCTCAATAAGTCTA
728968 AAATAAATAACACCAT
1 AAATAAATAACACCAT
728984 AACACTAATA
Statistics
Matches: 113, Mismatches: 5, Indels: 32
0.75 0.03 0.21
Matches are distributed among these distances:
34 50 0.44
35 1 0.01
36 1 0.01
37 1 0.01
38 6 0.05
40 1 0.01
41 2 0.02
42 36 0.32
43 2 0.02
44 2 0.02
46 6 0.05
47 1 0.01
48 1 0.01
49 1 0.01
50 2 0.02
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.27
Consensus pattern (34 bp):
AAATAAATAACACCATTAAGTCTCAATAAGTCTA
Found at i:728910 original size:42 final size:42
Alignment explanation
Indices: 728864--728990 Score: 218
Period size: 42 Copynumber: 3.0 Consensus size: 42
728854 AAATAACGCC
728864 ATTAAGTCTCAATAAGTCTAAAATAAATAACACCATAACACT
1 ATTAAGTCTCAATAAGTCTAAAATAAATAACACCATAACACT
* *
728906 ATTAAGTCTCAATAAGTCTAAAATAAATAACTCCATAACACC
1 ATTAAGTCTCAATAAGTCTAAAATAAATAACACCATAACACT
* *
728948 ATTAAATCTCAATAAGTTTAAAATAAATAACACCATAACACT
1 ATTAAGTCTCAATAAGTCTAAAATAAATAACACCATAACACT
728990 A
1 A
728991 ATAAATTTAA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (42 bp):
ATTAAGTCTCAATAAGTCTAAAATAAATAACACCATAACACT
Found at i:729006 original size:31 final size:34
Alignment explanation
Indices: 728940--729007 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
728930 AAATAACTCC
*
728940 ATAACACCATTAAATCTCAATAAGTTTAAAATAA
1 ATAACACCATTAAATCTCAATAAATTTAAAATAA
728974 ATAACACCA-TAACA-CT-AATAAATTT-AAATAA
1 ATAACACCATTAA-ATCTCAATAAATTTAAAATAA
729005 ATA
1 ATA
729008 TTAATTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 9 0.28
32 8 0.25
33 5 0.16
34 10 0.31
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.28
Consensus pattern (34 bp):
ATAACACCATTAAATCTCAATAAATTTAAAATAA
Found at i:730497 original size:17 final size:16
Alignment explanation
Indices: 730477--730517 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
730467 TAGAAGATAC
730477 TCGATTCAAAAGCACCT
1 TCGATTCAAAAG-ACCT
730494 TCGA--CAAAAGACCT
1 TCGATTCAAAAGACCT
730508 TCGAGTTCAA
1 TCGA-TTCAA
730518 TTACATTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 8 0.38
15 6 0.29
17 7 0.33
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.22
Consensus pattern (16 bp):
TCGATTCAAAAGACCT
Found at i:730509 original size:14 final size:15
Alignment explanation
Indices: 730483--730511 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
730473 ATACTCGATT
730483 CAAAAGCACCTTCGA
1 CAAAAGCACCTTCGA
730498 CAAAAG-ACCTTCGA
1 CAAAAGCACCTTCGA
730512 GTTCAATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.31, G:0.14, T:0.14
Consensus pattern (15 bp):
CAAAAGCACCTTCGA
Found at i:730710 original size:84 final size:84
Alignment explanation
Indices: 730497--731815 Score: 1632
Period size: 84 Copynumber: 15.8 Consensus size: 84
730487 AGCACCTTCG
* * *
730497 ACAAAAGACCTTCGAGTTCAATTACATTCAGCTCAAAGGCACATCATTTATAGCATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* * *
730562 CAAGAAGGGTTATATGTCA
66 CGAGAAGGGTTATCTGCCA
* * * * * * *
730581 AC-CAAGACCTTCAATTTTGATTACACTCAGTTCAAAGG-AGTATCATTTACAGCATAGCTCAAG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATCATTTACAGCATAACTCAAG
730644 GCGAGAAGGGTTATCTGCCA
65 GCGAGAAGGGTTATCTGCCA
* *
730664 ACAAAAGACCTTCGAGTTTGATTATACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
*
730729 CGAGAAGGGTTATCTGTCA
66 CGAGAAGGGTTATCTGCCA
* * *
730748 AC-CAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGCACATCATTTATAGCATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* * * *
730812 AGATAAGGGTTATATGTCA
66 CGAGAAGGGTTATCTGCCA
* * ** * *
730831 AC-CAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGTGCATCATTTGCAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* *
730895 CGAAAAAGGTTATCTGCCA
66 CGAGAAGGGTTATCTGCCA
* *
730914 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTTAAAGGCACATCATTTACAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
*
730979 CGAGAAGGGATATCTGCCA
66 CGAGAAGGGTTATCTGCCA
* * * *
730998 ACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATATCATTTACATCATGACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
*
731063 CGAGAAGGGTTATCTGTCA
66 CGAGAAGGGTTATCTGCCA
* * * * *
731082 AC-CAATACCTTCGAGTTTGATTACACTCAGCTCAAAGACACATCATTTACAACATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
**
731146 CGAGAAGGGTTATCTTTCA
66 CGAGAAGGGTTATCTGCCA
* * * * ** ** *
731165 AC-CAAGACCTTCGAGTTTGATTACACTCAACTCAAAAGTGCATCATTTGTAGCATAACTCAATG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* * *
731229 TGAAAATGGTTATCTGCCA
66 CGAGAAGGGTTATCTGCCA
* * *
731248 ACAAAAGACCTTTGAGTTCTATTACACTCAGCTCAAAGGCACATCATTTACAGAATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
731313 CGAGAAGGGTTATCTGCCA
66 CGAGAAGGGTTATCTGCCA
* * *
731332 ACAAAAGACCTAT-GAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGAATAGCTCAAG
1 ACAAAAGACCT-TCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAG
* *
731396 GTGAAAAGGGTTATCTGCCA
65 GCGAGAAGGGTTATCTGCCA
* * * *
731416 ACAACAA-CCCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGAATAGCTCAAG
1 ACAA-AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAG
* *
731480 ACGAGAAGGGTTATCTACCA
65 GCGAGAAGGGTTATCTGCCA
* * * * * *
731500 ACAAAAGACCTTCGAGTTCAATTACACTAAGCTCAAAGACACATAATTTGCAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
*
731565 CGA-TAGGGTTATCTGCCA
66 CGAGAAGGGTTATCTGCCA
* * * *
731583 ATAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATTATTTACAACATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* ** *
731648 TGAGAAAAGTTATCTGTCA
66 CGAGAAGGGTTATCTGCCA
* * * ** *
731667 AC-CAAGACCTTCGAGTTCGATTACACTCATCTCAAAGGCGCATCATTTGTAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
* **
731731 CGAGAATGACTATCTGCCA
66 CGAGAAGGGTTATCTGCCA
* * *
731750 ACAAAAGACCTTCGAGTTTGATTACAGTCAGCTCAAAGGCACATCCAATTTATAGCATAACTCAA
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C-ATTTACAGCATAACTCAA
731815 G
64 G
731816 TTAAAATGGT
Statistics
Matches: 1075, Mismatches: 147, Indels: 24
0.86 0.12 0.02
Matches are distributed among these distances:
82 1 0.00
83 504 0.47
84 548 0.51
85 5 0.00
86 17 0.02
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (84 bp):
ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
CGAGAAGGGTTATCTGCCA
Found at i:730773 original size:167 final size:168
Alignment explanation
Indices: 730497--731815 Score: 1650
Period size: 167 Copynumber: 7.9 Consensus size: 168
730487 AGCACCTTCG
* * **
730497 ACAAAAGACCTTCGAGTTCAATTACATTCAGCTCAAAGGCACATCATTTATAGCATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGG
* * * * * * * * *
730562 CAAGAAGGGTTATATGTCAAC-CAAGACCTTCAATTTTGATTACACTCAGTTCAAAGG-AGTATC
66 CGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATC
*
730625 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCA
130 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* * *
730664 ACAAAAGACCTTCGAGTTTGATTATACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGG
* * *
730729 CGAGAAGGGTTATCTGTCAAC-CAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGCACATCA
66 CGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* * * * *
730793 TTTATAGCATAACTCAAGGAGATAAGGGTTATATGTCA
131 TTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* * ** *
730831 AC-CAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGTGCATCATTTGCAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGG
* * *
730895 CGAAAAAGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTTAAAGGCACATCA
66 CGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* *
730960 TTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGCCA
131 TTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* * * * *
730998 ACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATATCATTTACATCATGACTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGG
* * * * *
731063 CGAGAAGGGTTATCTGTCAAC-CAATACCTTCGAGTTTGATTACACTCAGCTCAAAGACACATCA
66 CGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* **
731127 TTTACAACATAACTCAAGGCGAGAAGGGTTATCTTTCA
131 TTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* * * * ** * *
731165 AC-CAAGACCTTCGAGTTTGATTACACTCAACTCAAAAGTGCATCATTTGTAGCATAACTCAATG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGG
* * * * *
731229 TGAAAATGGTTATCTGCCAACAAAAGACCTTTGAGTTCTATTACACTCAGCTCAAAGGCACATCA
66 CGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
*
731294 TTTACAGAATAACTCAAGGCGAGAAGGGTTATCTGCCA
131 TTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* *
731332 ACAAAAGACCTAT-GAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGAATAGCTCAAG
1 ACAAAAGACCT-TCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAG
* * *
731396 GTGAAAAGGGTTATCTGCCAACAACAA-CCCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
65 GCGAGAAGGGTTATCTGCCAACAA-AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
* * * * *
731460 CATTTGCAGAATAGCTCAAGACGAGAAGGGTTATCTACCA
129 CATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* * * * *
731500 ACAAAAGACCTTCGAGTTCAATTACACTAAGCTCAAAGACACATAATTTGCAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGG
* * * *
731565 CGA-TAGGGTTATCTGCCAATAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATTA
66 CGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* * ** *
731629 TTTACAACATAACTCAAGGTGAGAAAAGTTATCTGTCA
131 TTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
* * * * *
731667 AC-CAAGACCTTCGAGTTCGATTACACTCATCTCAAAGGCGCATCATTTGTAGCATAGCTCAAGG
1 ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGG
* ** * *
731731 CGAGAATGACTATCTGCCAACAAAAGACCTTCGAGTTTGATTACAGTCAGCTCAAAGGCACATCC
66 CGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C
*
731796 AATTTATAGCATAACTCAAG
130 -ATTTACAGCATAACTCAAG
731816 TTAAAATGGT
Statistics
Matches: 994, Mismatches: 146, Indels: 22
0.86 0.13 0.02
Matches are distributed among these distances:
166 199 0.20
167 502 0.51
168 273 0.27
169 20 0.02
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (168 bp):
ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGG
CGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
TTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCA
Found at i:732435 original size:36 final size:35
Alignment explanation
Indices: 732249--732648 Score: 398
Period size: 35 Copynumber: 11.5 Consensus size: 35
732239 TATATATATA
* **
732249 TATATATTATATAGTTTGCAAATA-ATTTTTGAAATAT
1 TATATAATATATAGTTTTTAAA-ACA-TTTTGAAA-AT
* * *
732286 ATATATAATATATAGTTTTTGAAAGCATTTTAAAAACA
1 -TATATAATATATAGTTTTT-AAAACATTTTGAAAA-T
* * *
732324 TGTATATTATATAGTTTTTAAAACATTTTGGAAA-
1 TATATAATATATAGTTTTTAAAACATTTTGAAAAT
732358 TATATAATATATAGTTTTTTAAAACATTTTGAAAATTT
1 TATATAATATATAG-TTTTTAAAACATTTTGAAAA--T
732396 TATATAATATATAGTTTTTAAAACATTTTGAAAACT
1 TATATAATATATAGTTTTTAAAACATTTTGAAAA-T
732432 TATATAATATATAGTTTTTAAAACATTTTGAAAAT
1 TATATAATATATAGTTTTTAAAACATTTTGAAAAT
*
732467 ATATTTAATATATAG----T------TTTT-AAAAT
1 -TATATAATATATAGTTTTTAAAACATTTTGAAAAT
*
732492 TATATAATATATAGATTTTAAAACTATTTTGAAAA-
1 TATATAATATATAGTTTTTAAAAC-ATTTTGAAAAT
* *
732527 TATATAATATATGGTTTTTAAAACATTTTGAAAAC
1 TATATAATATATAGTTTTTAAAACATTTTGAAAAT
* *
732562 TATATAATATATGGTTTTTAAAACATTTTGAAAAC
1 TATATAATATATAGTTTTTAAAACATTTTGAAAAT
* * * *
732597 TATATAATAAATAG-TTTGAAAACTTTTTAAAAATT
1 TATATAATATATAGTTTTTAAAACATTTTGAAAA-T
732632 ATATATAATATATAGTT
1 -TATATAATATATAGTT
732649 GTAAATTTCT
Statistics
Matches: 312, Mismatches: 26, Indels: 49
0.81 0.07 0.13
Matches are distributed among these distances:
24 13 0.04
25 5 0.02
26 4 0.01
28 1 0.00
32 1 0.00
34 38 0.12
35 93 0.30
36 77 0.25
37 39 0.12
38 37 0.12
39 4 0.01
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (35 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAAT
Found at i:732497 original size:60 final size:60
Alignment explanation
Indices: 732421--732550 Score: 201
Period size: 60 Copynumber: 2.2 Consensus size: 60
732411 TTTTAAAACA
* *
732421 TTTTGAAAACTTATATAATATATAGTTTTTAAAAC-ATTTTGAAAATATATTTAATATATAG
1 TTTTTAAAACTTATATAATATATAGATTTTAAAACTATTTTGAAAATATA--TAATATATAG
*
732482 TTTTTAAAA-TTATATAATATATAGATTTTAAAACTATTTTGAAAATATATAATATATGG
1 TTTTTAAAACTTATATAATATATAGATTTTAAAACTATTTTGAAAATATATAATATATAG
732541 TTTTTAAAAC
1 TTTTTAAAAC
732551 ATTTTGAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
59 18 0.28
60 24 0.38
61 22 0.34
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (60 bp):
TTTTTAAAACTTATATAATATATAGATTTTAAAACTATTTTGAAAATATATAATATATAG
Found at i:732510 original size:24 final size:25
Alignment explanation
Indices: 732456--732514 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
732446 TTTTTAAAAC
*
732456 ATTTTGAAAATATATTTAATATATAG
1 ATTTT-AAAATATATATAATATATAG
*
732482 TTTTTAAAAT-TATATAATATATAG
1 ATTTTAAAATATATATAATATATAG
732506 ATTTTAAAA
1 ATTTTAAAA
732515 CTATTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 21 0.70
25 5 0.17
26 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (25 bp):
ATTTTAAAATATATATAATATATAG
Found at i:732693 original size:14 final size:14
Alignment explanation
Indices: 732674--732701 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
732664 AAAAGATATA
732674 TATTATTATTATTT
1 TATTATTATTATTT
732688 TATTATTATTATTT
1 TATTATTATTATTT
732702 ATTTGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTATTATTATTT
Found at i:733206 original size:21 final size:21
Alignment explanation
Indices: 733182--733244 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
733172 CATCGAAAAC
733182 CAAGCAAGCAAATATACAACA
1 CAAGCAAGCAAATATACAACA
* * **
733203 CAAGAAAACCCA-A-A-AAC-
1 CAAGCAAGCAAATATACAACA
733220 CAAGCAAGCAAATATACAACA
1 CAAGCAAGCAAATATACAACA
733241 CAAG
1 CAAG
733245 GGAACCAAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
17 8 0.27
18 4 0.13
19 2 0.07
20 4 0.13
21 12 0.40
ACGTcount: A:0.59, C:0.25, G:0.10, T:0.06
Consensus pattern (21 bp):
CAAGCAAGCAAATATACAACA
Found at i:733789 original size:8 final size:8
Alignment explanation
Indices: 733778--733810 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
733768 TATTTTCATG
733778 TTTTATTTT
1 TTTTA-TTT
733787 TTTTATTT
1 TTTTATTT
733795 TTTTA-TT
1 TTTTATTT
733802 TTTTATTT
1 TTTTATTT
733810 T
1 T
733811 GTATGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.30
8 11 0.48
9 5 0.22
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:733796 original size:15 final size:15
Alignment explanation
Indices: 733778--733820 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
733768 TATTTTCATG
733778 TTTTATTTTTTTTAT
1 TTTTATTTTTTTTAT
733793 TTTT-TTATTTTTTAT
1 TTTTATT-TTTTTTAT
733808 TTTGTATGTTTTT
1 TTT-TAT-TTTTT
733821 AACATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.08
15 15 0.62
16 1 0.04
17 5 0.21
18 1 0.04
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.84
Consensus pattern (15 bp):
TTTTATTTTTTTTAT
Found at i:733819 original size:14 final size:13
Alignment explanation
Indices: 733765--733819 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
733755 AAATTAGTCC
*
733765 TTTTATTTTCATG
1 TTTTATTTTTATG
733778 TTTTATTTTT-T-
1 TTTTATTTTTATG
*
733789 TTATT-TTTTTATT
1 TT-TTATTTTTATG
733802 TTTTATTTTGTATG
1 TTTTATTTT-TATG
733816 TTTT
1 TTTT
733820 TAACATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
11 7 0.20
12 6 0.17
13 15 0.43
14 7 0.20
ACGTcount: A:0.13, C:0.02, G:0.05, T:0.80
Consensus pattern (13 bp):
TTTTATTTTTATG
Found at i:733841 original size:3 final size:3
Alignment explanation
Indices: 733835--733894 Score: 102
Period size: 3 Copynumber: 19.3 Consensus size: 3
733825 TTTTTTTACA
733835 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TACT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT
733882 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
733895 TCCTTTCCTT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:733926 original size:20 final size:20
Alignment explanation
Indices: 733903--733951 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
733893 TTTCCTTTCC
*
733903 TTTTATTTTATTTTATATTT
1 TTTTATTTTATTTAATATTT
** *
733923 TTTTGGTTAATTTAATATTT
1 TTTTATTTTATTTAATATTT
*
733943 TATTATTTT
1 TTTTATTTT
733952 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (20 bp):
TTTTATTTTATTTAATATTT
Found at i:739166 original size:23 final size:23
Alignment explanation
Indices: 739118--739167 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
739108 ATCATGACTA
*
739118 TTCATGAAAAATAATTAAGTCTT
1 TTCATGAAAAATAATTAAGTCAT
* **
739141 TTCATGAAAAATAGTTATTTCAT
1 TTCATGAAAAATAATTAAGTCAT
739164 TTCA
1 TTCA
739168 CCCCAAAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (23 bp):
TTCATGAAAAATAATTAAGTCAT
Found at i:748957 original size:2 final size:2
Alignment explanation
Indices: 748950--748975 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
748940 TCTGCAAATG
748950 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
748976 TGTAATTATT
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:749026 original size:29 final size:29
Alignment explanation
Indices: 748992--749049 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
748982 TATTAGTGTG
748992 TGGTTGTTAAGCAAATTATATGGCATTGT
1 TGGTTGTTAAGCAAATTATATGGCATTGT
749021 TGGTTGTTAAGCAAATTATATGGCATTGT
1 TGGTTGTTAAGCAAATTATATGGCATTGT
749050 CATGATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (29 bp):
TGGTTGTTAAGCAAATTATATGGCATTGT
Found at i:751550 original size:16 final size:16
Alignment explanation
Indices: 751529--751560 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
751519 AATTTTCCTT
751529 TGTTTGGCATGGAAGA
1 TGTTTGGCATGGAAGA
751545 TGTTTGGCATGGAAGA
1 TGTTTGGCATGGAAGA
751561 AAATATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.38, T:0.31
Consensus pattern (16 bp):
TGTTTGGCATGGAAGA
Found at i:752241 original size:29 final size:29
Alignment explanation
Indices: 752198--752280 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
752188 CTCGCCTAAC
752198 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
752228 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
752257 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
752281 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:756979 original size:29 final size:29
Alignment explanation
Indices: 756936--757018 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
756926 CTCACCTAAC
756936 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
756966 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
756995 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
757019 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:758742 original size:21 final size:17
Alignment explanation
Indices: 758681--758731 Score: 102
Period size: 17 Copynumber: 3.0 Consensus size: 17
758671 AATATGTGAT
758681 TAAATTTATCTTCTAAA
1 TAAATTTATCTTCTAAA
758698 TAAATTTATCTTCTAAA
1 TAAATTTATCTTCTAAA
758715 TAAATTTATCTTCTAAA
1 TAAATTTATCTTCTAAA
758732 ACAATAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAATTTATCTTCTAAA
Found at i:759745 original size:2 final size:2
Alignment explanation
Indices: 759738--759762 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
759728 TTTTAAACTT
759738 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
759763 GAGTTATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:764541 original size:23 final size:23
Alignment explanation
Indices: 764508--764575 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
764498 CATATAGTAT
* *
764508 TGTCCCAAAGGACTGCGTAGAAA
1 TGTCCCGAAGGACCGCGTAGAAA
* *
764531 TGTCCCGAAGGACCACGTAGAAT
1 TGTCCCGAAGGACCGCGTAGAAA
*
764554 TGTCCCGAATGACCGCGTAGAA
1 TGTCCCGAAGGACCGCGTAGAA
764576 CCCTCGACTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.18
Consensus pattern (23 bp):
TGTCCCGAAGGACCGCGTAGAAA
Found at i:764556 original size:46 final size:46
Alignment explanation
Indices: 764482--764575 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
764472 TGTCATATAT
* * * *
764482 AAATGTACCGAATGACCATATAGTATTGTCCCAAAGGACTGCGTAG
1 AAATGTACCGAAGGACCACATAGAATTGTCCCAAAGGACCGCGTAG
* * * *
764528 AAATGTCCCGAAGGACCACGTAGAATTGTCCCGAATGACCGCGTAG
1 AAATGTACCGAAGGACCACATAGAATTGTCCCAAAGGACCGCGTAG
764574 AA
1 AA
764576 CCCTCGACTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (46 bp):
AAATGTACCGAAGGACCACATAGAATTGTCCCAAAGGACCGCGTAG
Found at i:768003 original size:18 final size:18
Alignment explanation
Indices: 767966--768007 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
767956 CCCGAGCCGT
* *
767966 TTGACCCGACCCGACTCG
1 TTGACCCGACCCAACCCG
*
767984 TTGACCCGACCTAACCCG
1 TTGACCCGACCCAACCCG
768002 TTGACC
1 TTGACC
768008 GTTGACTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.43, G:0.19, T:0.19
Consensus pattern (18 bp):
TTGACCCGACCCAACCCG
Found at i:770342 original size:24 final size:24
Alignment explanation
Indices: 770296--770359 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
770286 ATACCTTACA
* *
770296 TGGATTCTGTTCTAATACTTGACC
1 TGGATTCTGTTTTGATACTTGACC
770320 TGGATTCTGTTTTGATA-TCTGACC
1 TGGATTCTGTTTTGATACT-TGACC
* *
770344 TGAATTATGTTTTGAT
1 TGGATTCTGTTTTGAT
770360 TTTTGATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 1 0.03
24 34 0.97
ACGTcount: A:0.20, C:0.14, G:0.19, T:0.47
Consensus pattern (24 bp):
TGGATTCTGTTTTGATACTTGACC
Found at i:773289 original size:18 final size:18
Alignment explanation
Indices: 773266--773443 Score: 266
Period size: 18 Copynumber: 9.9 Consensus size: 18
773256 GAGGGTCTAC
773266 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* *
773284 GTGGTCTTTCGAGACATA
1 GTGGTCCTTCGGGACATA
*
773302 ATGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
773320 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* *
773338 ATGGTCCTTTGGGACATA
1 GTGGTCCTTCGGGACATA
*
773356 GTGGTCCTTCGTGACATA
1 GTGGTCCTTCGGGACATA
*
773374 ATGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
773392 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* *
773410 ATGGTCCTTCGGGACACA
1 GTGGTCCTTCGGGACATA
*
773428 GTGGTCCTACGGGACA
1 GTGGTCCTTCGGGACA
773444 AATTCTACGC
Statistics
Matches: 142, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 142 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:773307 original size:36 final size:36
Alignment explanation
Indices: 773267--773443 Score: 300
Period size: 36 Copynumber: 4.9 Consensus size: 36
773257 AGGGTCTACG
* *
773267 TGGTCCTTCGGGACATAGTGGTCTTTCGAGACATAA
1 TGGTCCTTCGGGACATAGTGGTCCTTCGGGACATAA
773303 TGGTCCTTCGGGACATAGTGGTCCTTCGGGACATAA
1 TGGTCCTTCGGGACATAGTGGTCCTTCGGGACATAA
* *
773339 TGGTCCTTTGGGACATAGTGGTCCTTCGTGACATAA
1 TGGTCCTTCGGGACATAGTGGTCCTTCGGGACATAA
773375 TGGTCCTTCGGGACATAGTGGTCCTTCGGGACATAA
1 TGGTCCTTCGGGACATAGTGGTCCTTCGGGACATAA
* *
773411 TGGTCCTTCGGGACACAGTGGTCCTACGGGACA
1 TGGTCCTTCGGGACATAGTGGTCCTTCGGGACA
773444 AATTCTACGC
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 133 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (36 bp):
TGGTCCTTCGGGACATAGTGGTCCTTCGGGACATAA
Found at i:779747 original size:11 final size:11
Alignment explanation
Indices: 779728--779763 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
779718 TTTTGTTCAA
779728 ATAAT-TAAAT
1 ATAATATAAAT
779738 ATAATATAAAT
1 ATAATATAAAT
779749 ATAATATAAA-
1 ATAATATAAAT
779759 ATAAT
1 ATAAT
779764 TTTACCTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:782009 original size:182 final size:182
Alignment explanation
Indices: 781686--782500 Score: 1150
Period size: 182 Copynumber: 4.5 Consensus size: 182
781676 ACTTTTTTAC
* * *
781686 TACCGGTTTTGTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * * * *
781751 TACATTTTTATAAAGTATCGATACTTTATTGGCGCTATAACTTTTTTTCTTTTAAATTTCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
* * * * * *
781816 TGTCGATACTTATAATAAAATATCGACACTTTCAACATATCTGGTAGCTCTT
131 TGCCAATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
* * *
781868 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATAGATTGA
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * *
781933 TACATTTTTATAAAGTATCGACACTTTATTAGAGCTATAGCTTATTCTCTTTTAAATTCCAAAAA
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
*
781998 TGCCAATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTT
131 TGCCAATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
** * *
782050 TACCAGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * * *
782115 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTTTCTTTTAAATTTCAAAAT
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
* * * * *
782180 TGTCGAA-ACTTATAATAAAGTATCGACAATTTCAATATATCCGGTAGCTCTT
131 TG-CCAATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
* *
782232 TACCGGTTTTGTTATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
782297 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
* * ** *
782362 TGTCGATAC-T-TAATAAAGTATTAACACTATCAACATATCCGATAGCGCTT
131 TGCCAATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
* * ** * * * *
782412 TATCTGTTTTGTCATTTATAAACCGGTTTTGTCATTTTTTTACCTGTTATATTATTATGGATCAA
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
782477 TATATTTTTATAAAGTATCGACAC
66 TACATTTTTATAAAGTATCGACAC
782501 AAACCGACAA
Statistics
Matches: 563, Mismatches: 68, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
180 112 0.20
181 2 0.00
182 446 0.79
183 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (182 bp):
TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAG
TGCCAATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
Found at i:782360 original size:364 final size:362
Alignment explanation
Indices: 781686--782500 Score: 1297
Period size: 364 Copynumber: 2.2 Consensus size: 362
781676 ACTTTTTTAC
* ** * * * *
781686 TACCGGTTTTGTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCAGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
* * *
781751 TACATTTTTATAAAGTATCGATACTTTATTGGCGCTATAACTTTTTTTCTTTTAAATTTCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTTTCTTTTAAATTTCAAAAG
* * *
781816 TGTCGATACTTATAATAAAATATCGACACTTTCAACATATCTGGTAGCTCTTTACCAGTTTTGTC
131 TGTCGAAACTTATAATAAAATATCGACAATTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTC
*
781881 ATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATAGATTGATACATTTTTATAA
196 ATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATTTTTATAA
*
781946 AGTATCGACACTTTATTAGAGCTATAGCTTATTCTCTTTTAAATTCCAAAAATGCCAATACTTAT
261 AGTATCGACACTTTATTAGAGCTATAACTTATTCTCTTTTAAATTCCAAAAATGCCAATAC-T-T
* * *
782011 AATAAAGTATCGACACTATCAACATATCTGGTAGCGCTT
324 AATAAAGTATCAACACTATCAACATATCCGATAGCGCTT
782050 TACCAGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
1 TACCAGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
*
782115 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTTTCTTTTAAATTTCAAAAT
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTTTCTTTTAAATTTCAAAAG
* * * *
782180 TGTCGAAACTTATAATAAAGTATCGACAATTTCAATATATCCGGTAGCTCTTTACCGGTTTTGTT
131 TGTCGAAACTTATAATAAAATATCGACAATTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTC
* *
782245 ATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAA
196 ATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATTTTTATAA
* * * *
782310 AGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTAA
261 AGTATCGACACTTTATTAGAGCTATAACTTATTCTCTTTTAAATTCCAAAAATGCCAATACTTAA
*
782375 TAAAGTATTAACACTATCAACATATCCGATAGCGCTT
326 TAAAGTATCAACACTATCAACATATCCGATAGCGCTT
* * * *
782412 TATCTGTTTTGTCATTTATAAACCGGTTTTGTCATTTTTTTACCTGTTATATTATTATGGATCAA
1 TACCAGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
*
782477 TATATTTTTATAAAGTATCGACAC
66 TACATTTTTATAAAGTATCGACAC
782501 AAACCGACAA
Statistics
Matches: 416, Mismatches: 35, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
362 120 0.29
363 1 0.00
364 295 0.71
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (362 bp):
TACCAGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTTTCTTTTAAATTTCAAAAG
TGTCGAAACTTATAATAAAATATCGACAATTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTC
ATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATTTTTATAA
AGTATCGACACTTTATTAGAGCTATAACTTATTCTCTTTTAAATTCCAAAAATGCCAATACTTAA
TAAAGTATCAACACTATCAACATATCCGATAGCGCTT
Found at i:794276 original size:2 final size:2
Alignment explanation
Indices: 794269--794305 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
794259 ATCTTATCTC
794269 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
794306 AAGCTATTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:795594 original size:20 final size:20
Alignment explanation
Indices: 795569--795611 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
795559 TCTAAGAGCT
*
795569 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
795589 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
795609 CAT
1 CAT
795612 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:805253 original size:20 final size:22
Alignment explanation
Indices: 805228--805267 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
805218 TGTTGTTTAT
805228 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
805248 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
805268 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:805319 original size:21 final size:21
Alignment explanation
Indices: 805295--805337 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
805285 CCCAAAATAG
*
805295 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
805316 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
805337 A
1 A
805338 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:805401 original size:20 final size:20
Alignment explanation
Indices: 805376--805414 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
805366 TTGAACAGGG
805376 GGGGAATCGGTACCCCCTGA
1 GGGGAATCGGTACCCCCTGA
805396 GGGGAATCGGTACCCCCTG
1 GGGGAATCGGTACCCCCTG
805415 GACATTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.18, C:0.31, G:0.36, T:0.15
Consensus pattern (20 bp):
GGGGAATCGGTACCCCCTGA
Found at i:805486 original size:20 final size:21
Alignment explanation
Indices: 805449--805511 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
805439 AAAACCTGCA
805449 GGGGGTATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
805470 GGGGGTATCTGTACCCCCT-G
1 GGGGGTATCTGTACCCCCTGG
* *
805490 GGGGGAATCTATACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
805511 G
1 G
805512 CAATCTTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.13, C:0.29, G:0.37, T:0.22
Consensus pattern (21 bp):
GGGGGTATCTGTACCCCCTGG
Found at i:805622 original size:29 final size:31
Alignment explanation
Indices: 805590--805649 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
805580 AAACTTTGAA
805590 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
805619 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
805650 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:808498 original size:34 final size:32
Alignment explanation
Indices: 808445--808514 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 32
808435 CCTTACAAAC
*
808445 TCCCTAGTTTTTCCGGGCTAAGCTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAGCTAGAACCTT
808477 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAGCTAGAACCTT
808511 TCCC
1 TCCC
808515 CTTTACAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 7 0.20
33 5 0.14
34 23 0.66
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAGCTAGAACCTT
Found at i:808822 original size:21 final size:21
Alignment explanation
Indices: 808797--808839 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
808787 CCCAGAATAG
*
808797 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
808818 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
808839 A
1 A
808840 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:808912 original size:19 final size:20
Alignment explanation
Indices: 808875--808916 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
808865 TTGTTGAACA
808875 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
808895 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
808915 GG
1 GG
808917 ACATTCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.29, G:0.43, T:0.14
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCCCT
Found at i:808975 original size:21 final size:21
Alignment explanation
Indices: 808950--809028 Score: 98
Period size: 21 Copynumber: 4.0 Consensus size: 21
808940 AAAACCTGCA
808950 GGGGGTATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
808971 GGGGGTATCTGTA--CCC---
1 GGGGGTATCTGTACCCCCTGG
808987 -GGGGTATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
* *
809007 GGGGGAATCTATACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
809028 G
1 G
809029 CAATCTTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
19 3 0.06
21 32 0.64
ACGTcount: A:0.13, C:0.28, G:0.37, T:0.23
Consensus pattern (21 bp):
GGGGGTATCTGTACCCCCTGG
Found at i:808992 original size:15 final size:15
Alignment explanation
Indices: 808972--809001 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
808962 ACCCCCTGGG
808972 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
808987 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
809002 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:808998 original size:36 final size:36
Alignment explanation
Indices: 808951--809022 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
808941 AAACCTGCAG
* *
808951 GGGGTATCTGTACCCCCTGGGGGGGTATCTGTACCC
1 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
808987 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
1 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
809023 CCTGGGCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.14, C:0.28, G:0.35, T:0.24
Consensus pattern (36 bp):
GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
Found at i:809140 original size:29 final size:29
Alignment explanation
Indices: 809105--809175 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
809095 TGAAACCTTT
809105 TAAAAAC-TTTGAATAAATTCAATT-AAGTC
1 TAAAAACATTTG--TAAATTCAATTCAAGTC
809134 TAAAAACATTTTGTAAATTCAATTCAAGTC
1 TAAAAACA-TTTGTAAATTCAATTCAAGTC
*
809164 CAAAAACCATTT
1 TAAAAA-CATTT
809176 TTCCTTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 18 0.49
30 13 0.35
31 6 0.16
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (29 bp):
TAAAAACATTTGTAAATTCAATTCAAGTC
Found at i:809169 original size:30 final size:30
Alignment explanation
Indices: 809118--809176 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
809108 AAACTTTGAA
*
809118 TAAATTCAATTAAGTCTAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
809147 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAACCATTTT
809177 TCCTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
30 10 0.37
31 6 0.22
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:809367 original size:30 final size:29
Alignment explanation
Indices: 809324--809384 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
809314 ATATGCCCTC
**
809324 ATCTTATGACCTTACCCTTCTTGGTTCTCT
1 ATCTTATGACCTTACCC-TCTCAGTTCTCT
* *
809354 ATCTTGTGGCCTTACCCTCTCAGTTCTCT
1 ATCTTATGACCTTACCCTCTCAGTTCTCT
809383 AT
1 AT
809385 AAAATAGGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.13, C:0.31, G:0.11, T:0.44
Consensus pattern (29 bp):
ATCTTATGACCTTACCCTCTCAGTTCTCT
Found at i:818700 original size:16 final size:16
Alignment explanation
Indices: 818669--818702 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
818659 TGAGTTTCCC
**
818669 TTTATTTATTTTTATT
1 TTTATTTATTACTATT
818685 TTTATTTATTACTATT
1 TTTATTTATTACTATT
818701 TT
1 TT
818703 ATGTATTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTATTACTATT
Found at i:823337 original size:20 final size:20
Alignment explanation
Indices: 823300--823337 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
823290 TAACAACAAT
*
823300 ATAATTTGATCAAAAACACA
1 ATAATTTGATAAAAAACACA
823320 ATAATTTGA-AAAATAACA
1 ATAATTTGATAAAA-AACA
823338 TTTTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAATTTGATAAAAAACACA
Found at i:827636 original size:22 final size:21
Alignment explanation
Indices: 827594--827633 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
827584 TGAGTTGTTT
*
827594 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
827615 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
827634 ACAATTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:835763 original size:22 final size:22
Alignment explanation
Indices: 835736--835777 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
835726 ATTTAAAATA
*
835736 AATTT-ATATAATTTATTATTAT
1 AATTTAATATAA-ATATTATTAT
835758 AATTTAATATAAATATTATT
1 AATTTAATATAAATATTATT
835778 TTTATGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTTAATATAAATATTATTAT
Found at i:835950 original size:29 final size:30
Alignment explanation
Indices: 835907--835963 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
835897 TTTTGACCAG
*
835907 TGACTAAAATATAAACTTT-GAAAGTTTTA
1 TGACTAAAATATAAACTTTAAAAAGTTTTA
* *
835936 TGACTAAATTGTAAACTTTAAAAAGTTT
1 TGACTAAAATATAAACTTTAAAAAGTTT
835964 AGGGACCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.39
Consensus pattern (30 bp):
TGACTAAAATATAAACTTTAAAAAGTTTTA
Found at i:837901 original size:178 final size:176
Alignment explanation
Indices: 837604--837957 Score: 672
Period size: 178 Copynumber: 2.0 Consensus size: 176
837594 AGTACATGAG
837604 GTGGAGTGATTCTAATATATTGGGATGTTACCTGAAGGTGCACTAGTATATTTTGATGTGATTGC
1 GTGGAGTGATTCTAATATATTGGGATGTTACCTGAAGGTGCACTAGTATATTTTGATGTGATTGC
837669 ACTTTGTGTGAACATTACGATTCTAATATGATAACACTATGTGTGCTTATATGTTCCAATTTTGA
66 ACTTTGTGTGAACATTACGATTCTAATATGATAACACTATGTGTGCTTATATGTTCCAATTTTGA
*
837734 TATATTGTGGTGTACCGGTGGGTGCACTAGTATATATATATTCTGA
131 TATATTGTGGTGTACCAGTGGGTGCACTAGTATATATATATTCTGA
837780 GTGGAGTGATTCTAATATATTGGGATGTTACCTGAAGGTGCACTAGTATATATTCTGATGTGATT
1 GTGGAGTGATTCTAATATATTGGGATGTTACCTGAAGGTGCACTAGTATAT-TT-TGATGTGATT
*
837845 GCACTTTGTGTGAACATTATGATTCTAATATGATAACACTATGTGTGCTTATATGTTCCAATTTT
64 GCACTTTGTGTGAACATTACGATTCTAATATGATAACACTATGTGTGCTTATATGTTCCAATTTT
837910 GATATATTGTGGTGTACCAGTGGGTGCACTAGTATATATATATTCTGA
129 GATATATTGTGGTGTACCAGTGGGTGCACTAGTATATATATATTCTGA
837958 TGTGATTGCA
Statistics
Matches: 174, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
176 51 0.29
177 2 0.01
178 121 0.70
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (176 bp):
GTGGAGTGATTCTAATATATTGGGATGTTACCTGAAGGTGCACTAGTATATTTTGATGTGATTGC
ACTTTGTGTGAACATTACGATTCTAATATGATAACACTATGTGTGCTTATATGTTCCAATTTTGA
TATATTGTGGTGTACCAGTGGGTGCACTAGTATATATATATTCTGA
Found at i:838089 original size:115 final size:118
Alignment explanation
Indices: 837820--838104 Score: 332
Period size: 120 Copynumber: 2.4 Consensus size: 118
837810 CCTGAAGGTG
* * *
837820 CACTAGTATATA--TTCTGATGTGATTGCACTTTGTGTGAACATTATGATTCTAATATGATAACA
1 CACTAGTATATATTTTCTGATGTGATTGCACTTTGTGTGCATATTATGATTCTAATACGATAACA
* * * * *
837883 CTATGTGTGCTTATATGTTCCAATTTTGATATATTGTGGTGTACCAGTGGGTG
66 CTATGTGTGCTTACATGTTCCAATTGTGATATACTGTAGTGTACCAGTGGGTA
* * * *
837936 CACTAGTATATATATATTCTGATGTGATTGCAATTTGTGTGCATATTCTGATTCTGATGCGATAG
1 CACTAGTATATAT-T-TTCTGATGTGATTGCACTTTGTGTGCATATTATGATTCTAATACGATA-
** **
838001 A-ACTATGTGTG-TT-CAT-TTCTGA-TGTGATATACTGTAGTGTTACTGGTGGGTA
63 ACACTATGTGTGCTTACATGTTCCAATTGTGATATACTGTAGTG-TACCAGTGGGTA
*
838053 CACTAGTATATATTTTCAGATGTGATTGCACTTTGTGTGCATATTATGATTC
1 CACTAGTATATATTTTCTGATGTGATTGCACTTTGTGTGCATATTATGATTC
838105 CGATATGATA
Statistics
Matches: 144, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
115 35 0.24
116 27 0.19
117 26 0.18
118 2 0.01
119 2 0.01
120 51 0.35
121 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (118 bp):
CACTAGTATATATTTTCTGATGTGATTGCACTTTGTGTGCATATTATGATTCTAATACGATAACA
CTATGTGTGCTTACATGTTCCAATTGTGATATACTGTAGTGTACCAGTGGGTA
Found at i:839578 original size:19 final size:20
Alignment explanation
Indices: 839554--839599 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
839544 GATTTTCAGT
839554 CGGTTCACA-CCGGTTTTAC
1 CGGTTCACAGCCGGTTTTAC
* *
839573 CGGTTCTCAGCCGGTTTTAT
1 CGGTTCACAGCCGGTTTTAC
839593 CGGTTCA
1 CGGTTCA
839600 TTGTAAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.13, C:0.28, G:0.24, T:0.35
Consensus pattern (20 bp):
CGGTTCACAGCCGGTTTTAC
Found at i:839893 original size:20 final size:20
Alignment explanation
Indices: 839870--839915 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
839860 GGAAAAAGAT
839870 TTTTAAAT-GATAAAAAAATA
1 TTTTAAATCGA-AAAAAAATA
* *
839890 TTTTAAATCGAAACAAAATT
1 TTTTAAATCGAAAAAAAATA
839910 TTTTAA
1 TTTTAA
839916 GCATTTAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (20 bp):
TTTTAAATCGAAAAAAAATA
Found at i:840734 original size:6 final size:6
Alignment explanation
Indices: 840723--840749 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
840713 GACACGTATT
840723 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
840750 CGAGACGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:841764 original size:41 final size:41
Alignment explanation
Indices: 841717--841811 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
841707 TCTTTTTTTT
841717 ACTATCGCAACGAATTTGGAAA-ATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAACATCGCAACGACAACT-TAG
*
841758 ACTATCGCAACGAATTTGGAAACTATCGCAACGACAACTTGG
1 ACTATCGCAACGAATTTGGAAAC-ATCGCAACGACAACTTAG
841800 ACTATCGCAACG
1 ACTATCGCAACG
841812 CGAAATGCAA
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
41 22 0.43
42 14 0.27
43 15 0.29
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAACATCGCAACGACAACTTAG
Found at i:841784 original size:21 final size:21
Alignment explanation
Indices: 841717--841791 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
841707 TCTTTTTTTT
841717 ACTATCGCAACGAATTTGGAA
1 ACTATCGCAACGAATTTGGAA
** * *
841738 A--ATCGCAACGACAACTGTAG
1 ACTATCGCAACGA-ATTTGGAA
841758 ACTATCGCAACGAATTTGGAA
1 ACTATCGCAACGAATTTGGAA
841779 ACTATCGCAACGA
1 ACTATCGCAACGA
841792 CAACTTGGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 10 0.23
20 5 0.12
21 18 0.42
22 10 0.23
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACGAATTTGGAA
Done.