Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 51 of 150
Found at i:15072082 original size:21 final size:19
Alignment explanation
Indices: 15072039--15072083 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
15072029 GAGCTCAAAT
* *
15072039 GAGCTGAAATGAGTTCATG
1 GAGCTGAAATGAGCTAATG
15072058 GAGCTGGAAATGAGCTAATTG
1 GAGCT-GAAATGAGCTAA-TG
15072079 GAGCT
1 GAGCT
15072084 CAATGAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 10 0.45
21 7 0.32
ACGTcount: A:0.31, C:0.11, G:0.33, T:0.24
Consensus pattern (19 bp):
GAGCTGAAATGAGCTAATG
Found at i:15075183 original size:20 final size:20
Alignment explanation
Indices: 15075158--15075204 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15075148 ATCTCGTTTC
*
15075158 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGATCAAGT
*
15075178 CAGCTCATTCGAGATCAATT
1 CAGCTCATTCGAGATCAAGT
15075198 CAGCTCA
1 CAGCTCA
15075205 ATTTTAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGATCAAGT
Found at i:15083689 original size:4 final size:4
Alignment explanation
Indices: 15083675--15083706 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
15083665 GTTGTAAAGT
15083675 TTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTT
15083707 TACTTAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:15083736 original size:17 final size:17
Alignment explanation
Indices: 15083716--15083750 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15083706 TTACTTAGTT
15083716 TAAATTTTTATATTCAG
1 TAAATTTTTATATTCAG
15083733 TAAATTTTTATATTCAG
1 TAAATTTTTATATTCAG
15083750 T
1 T
15083751 CCAAGAGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TAAATTTTTATATTCAG
Found at i:15087544 original size:33 final size:34
Alignment explanation
Indices: 15087493--15087567 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
15087483 AGATTTAAAC
*
15087493 AAATTAATTACTAACACTTATTTAAGTTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
15087527 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
15087560 AATTTAAT
1 AAATTAAT
15087568 AAACTAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:15091774 original size:18 final size:20
Alignment explanation
Indices: 15091753--15091802 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
15091743 AAAGGAAGAT
15091753 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
15091771 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
15091791 AGAAAAAAGAGA
1 AG-AAAAAGAGA
15091803 TTAAGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:15092262 original size:39 final size:40
Alignment explanation
Indices: 15092204--15092302 Score: 159
Period size: 39 Copynumber: 2.5 Consensus size: 40
15092194 TAGACACTCG
*
15092204 GATC-TGAAACGAAACAGAAAATTAAACTTAGAACTAACA
1 GATCTTGAAACGAAATAGAAAATTAAACTTAGAACTAACA
15092243 GAT-TTGAAACGAAATAGAAAATTAAACTTAGAACTAACA
1 GATCTTGAAACGAAATAGAAAATTAAACTTAGAACTAACA
*
15092282 GATCTT-AAACGAAATAAAAAA
1 GATCTTGAAACGAAATAGAAAA
15092303 GTTAGTTTCA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
39 54 0.96
40 2 0.04
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (40 bp):
GATCTTGAAACGAAATAGAAAATTAAACTTAGAACTAACA
Found at i:15098433 original size:48 final size:48
Alignment explanation
Indices: 15098337--15098441 Score: 115
Period size: 48 Copynumber: 2.1 Consensus size: 48
15098327 AACAAAAAAG
* * *
15098337 AAGAAAAAGAAAAAGAAAGTGAAAAAGAATAAGAGTGCGAGCGAGAAA
1 AAGAAAAAGAAAAAGAAAGTGAAAAAGAAGAAGAGAGCGAGAGAGAAA
* *
15098385 AAGAAAAAGAAAAAGAAA-TGAAAGTAA-AAGAAGATGAGCGTGAGGAAAAA
1 AAGAAAAAGAAAAAGAAAGTGAAA--AAGAAGAAGA-GAGCGAGA-GAGAAA
15098435 AAGAAAA
1 AAGAAAA
15098442 TTGAAAATGA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
47 5 0.10
48 24 0.50
49 7 0.15
50 12 0.25
ACGTcount: A:0.65, C:0.03, G:0.26, T:0.07
Consensus pattern (48 bp):
AAGAAAAAGAAAAAGAAAGTGAAAAAGAAGAAGAGAGCGAGAGAGAAA
Found at i:15114688 original size:196 final size:199
Alignment explanation
Indices: 15114442--15114831 Score: 517
Period size: 197 Copynumber: 2.0 Consensus size: 199
15114432 TTCCTAACCC
* ** *
15114442 TATTAGGAAAACTAAAAAAAAACCTAATTGTTTGATTTTTAAAGGAAAA-TTCGGCCAAGGCCCT
1 TATTAGGAAAACTAAAAAAAAACCTAATTGATTGAAATTTAAAGGAAAATTTCGGCCAAGG-CAT
* *
15114506 TAAATGGGCCT-CTTGGGCTGAA-TGTTTACATA-GAATTTAATTCATAAGGTATAAAAATTAAA
65 TAAATGGG-CTACTTGAGCTGAATTGTTTACATAGGAA-TTAA-TCATAAAGTATAAAAATTAAA
* *
15114568 CTAAGTATTTAAAGAATTAAAACTTAATAAATTGAGCCACTTTGACAATTTGGCCTGATTTTCAA
127 CTAAGTATTTAAAGAATTAAAACTTAACAAATTGAGCCACTTTAACAATTTGGCCTGATTTTCAA
15114633 CTTGGCCT
192 CTTGGCCT
*
15114641 TATTA-GAAAACT-AAAAAAAACCTAATT-ATT-AAATTTAAAGGGAAAATTTTGGCCAAGGCAT
1 TATTAGGAAAACTAAAAAAAAACCTAATTGATTGAAATTTAAA-GGAAAATTTCGGCCAAGGCAT
* * * *
15114702 TTAATGGGCTACTTGAGCTGAATTTTTTTACATAGGCATTAATCATAAAGTCTAAAAATTAAACT
65 TAAATGGGCTACTTGAGCTGAA-TTGTTTACATAGGAATTAATCATAAAGTATAAAAATTAAACT
* * * *
15114767 AGGTATTTAAAGAATTAAAATTTTACAAATTGGGCCACTTTAACAATTTGGCCTGATTTTCAACT
129 AAGTATTTAAAGAATTAAAACTTAACAAATTGAGCCACTTTAACAATTTGGCCTGATTTTCAACT
15114832 AAGTCTAGTT
Statistics
Matches: 168, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
195 9 0.05
196 27 0.16
197 105 0.62
198 20 0.12
199 7 0.04
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (199 bp):
TATTAGGAAAACTAAAAAAAAACCTAATTGATTGAAATTTAAAGGAAAATTTCGGCCAAGGCATT
AAATGGGCTACTTGAGCTGAATTGTTTACATAGGAATTAATCATAAAGTATAAAAATTAAACTAA
GTATTTAAAGAATTAAAACTTAACAAATTGAGCCACTTTAACAATTTGGCCTGATTTTCAACTTG
GCCT
Found at i:15126800 original size:11 final size:11
Alignment explanation
Indices: 15126784--15126869 Score: 52
Period size: 11 Copynumber: 7.6 Consensus size: 11
15126774 TCAAAATTAT
15126784 AAAAAATTGAA
1 AAAAAATTGAA
**
15126795 AAAAAAGAGAA
1 AAAAAATTGAA
*
15126806 AAAAAA-GGAGA
1 AAAAAATTGA-A
15126817 GAGAAAGAATTTGAA
1 -A-AAA-AA-TTGAA
*
15126832 AAAAAATTCAA
1 AAAAAATTGAA
*
15126843 AAAAAATT--C
1 AAAAAATTGAA
*
15126852 AAAAAAGTGAA
1 AAAAAATTGAA
15126863 AAAAAAT
1 AAAAAAT
15126870 ATCGAGCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
9 7 0.12
10 2 0.03
11 34 0.59
12 3 0.05
13 6 0.10
14 3 0.05
15 1 0.02
16 2 0.03
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.13
Consensus pattern (11 bp):
AAAAAATTGAA
Found at i:15126844 original size:10 final size:11
Alignment explanation
Indices: 15126830--15126857 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
15126820 AAAGAATTTG
15126830 AAAAAAAATTC
1 AAAAAAAATTC
15126841 AAAAAAAATTC
1 AAAAAAAATTC
15126852 AAAAAA
1 AAAAAA
15126858 GTGAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:15126857 original size:20 final size:20
Alignment explanation
Indices: 15126832--15126869 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15126822 AGAATTTGAA
*
15126832 AAAAAATTCAAAAAAAATTC
1 AAAAAAGTCAAAAAAAATTC
*
15126852 AAAAAAGTGAAAAAAAAT
1 AAAAAAGTCAAAAAAAAT
15126870 ATCGAGCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAAAAGTCAAAAAAAATTC
Found at i:15127799 original size:17 final size:18
Alignment explanation
Indices: 15127766--15127799 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15127756 AAGAAAAGAA
15127766 AATTGAAAAAGAAATTGG
1 AATTGAAAAAGAAATTGG
*
15127784 AATTGAGAAA-AAATTG
1 AATTGAAAAAGAAATTG
15127800 AAAAAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.24
Consensus pattern (18 bp):
AATTGAAAAAGAAATTGG
Found at i:15127809 original size:15 final size:16
Alignment explanation
Indices: 15127789--15127825 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
15127779 ATTGGAATTG
15127789 AGAAAAAA-TTGAAAA
1 AGAAAAAAGTTGAAAA
15127804 AGAAAAAATGTTGAAAA
1 AGAAAAAA-GTTGAAAA
15127821 AGAAA
1 AGAAA
15127826 CGAGAGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.40
17 12 0.60
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (16 bp):
AGAAAAAAGTTGAAAA
Found at i:15132966 original size:23 final size:23
Alignment explanation
Indices: 15132939--15132993 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
15132929 TCTTTTTGAA
* *
15132939 TTTTTTAGATTCAAGGATGGATC
1 TTTTTGAGATTCAAGGACGGATC
*
15132962 TTTTTGAGATTCGAGGACGGATC
1 TTTTTGAGATTCAAGGACGGATC
15132985 TTTTTGAGA
1 TTTTTGAGA
15132994 AAGGGGGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.42
Consensus pattern (23 bp):
TTTTTGAGATTCAAGGACGGATC
Found at i:15142298 original size:304 final size:304
Alignment explanation
Indices: 15141746--15142353 Score: 1074
Period size: 304 Copynumber: 2.0 Consensus size: 304
15141736 AAGGTCCGCT
*
15141746 TCTATCCTTCATCAAAATTCACCTTAAGCAATATAAGATTCGGGGCAATACTTTCTAGTATTGAA
1 TCTATCCTTCATCAAAATTCACCTTAAGCAATATAAGATTCGGGGCAATACTTTCTAGTACTGAA
15141811 ACATTCTTGAAGCTTGAGTTCAACTTCCATTCCATTTTATCTATCAATTTATAAATTATTTCTTT
66 ACATTCTTGAAGCTTGAGTTCAACTTCCATTCCATTTTATCTATCAATTTATAAATTATTTCTTT
* *
15141876 ATTAAACCGAACCTATAAAAATCATCAATCCAAGCCATCTTTTGAACCCAAATTGCCTACTTCCG
131 ATTAAACCAAACCTATAAAAAACATCAATCCAAGCCATCTTTTGAACCCAAATTGCCTACTTCCG
* * * *
15141941 CTTATACATCTCCATAACTCAATTTTCATATGACAACAAAACGAAATCTTCTCGTCGACAATCGG
196 CTTATACATCTCCATAACTCAATTTTCATACGACAACAAAACGAAAACTTCTCGCCGACAATCAG
15142006 GCAATCAAGTGAATCGACTCAAT-ATCCCGGGCCGGATCACATCA
261 GCAATCAAGTGAATCGACTCAATCA-CCCGGGCCGGATCACATCA
* *
15142050 TCTATCCTTCATCAAAATTCACCTTAAGCAATATAAGATTCTGGGCAATACTTTTTAGTACTGAA
1 TCTATCCTTCATCAAAATTCACCTTAAGCAATATAAGATTCGGGGCAATACTTTCTAGTACTGAA
*
15142115 ACATTCTTGAAGCTTGAGTTCAACTTCCATTCCATTTTATCTATCAATTTATAGATTATTTCTTT
66 ACATTCTTGAAGCTTGAGTTCAACTTCCATTCCATTTTATCTATCAATTTATAAATTATTTCTTT
*
15142180 ATTAAACCAAACCTATAAAAAACATCAATCCAAGCCATCTTTTGAACCCAAATTGCCTGCTTCCG
131 ATTAAACCAAACCTATAAAAAACATCAATCCAAGCCATCTTTTGAACCCAAATTGCCTACTTCCG
* * *
15142245 CTTATACATCTCCATAACTCAATTTTCATACGACATCAAAATGAAAACTTCTCGCCGACGATCAG
196 CTTATACATCTCCATAACTCAATTTTCATACGACAACAAAACGAAAACTTCTCGCCGACAATCAG
15142310 GCAATCAAGTGAATCGACTCAATCACCCGGGCCGGATCACATCA
261 GCAATCAAGTGAATCGACTCAATCACCCGGGCCGGATCACATCA
15142354 GCAACCCACT
Statistics
Matches: 289, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
304 288 1.00
305 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (304 bp):
TCTATCCTTCATCAAAATTCACCTTAAGCAATATAAGATTCGGGGCAATACTTTCTAGTACTGAA
ACATTCTTGAAGCTTGAGTTCAACTTCCATTCCATTTTATCTATCAATTTATAAATTATTTCTTT
ATTAAACCAAACCTATAAAAAACATCAATCCAAGCCATCTTTTGAACCCAAATTGCCTACTTCCG
CTTATACATCTCCATAACTCAATTTTCATACGACAACAAAACGAAAACTTCTCGCCGACAATCAG
GCAATCAAGTGAATCGACTCAATCACCCGGGCCGGATCACATCA
Found at i:15146939 original size:18 final size:20
Alignment explanation
Indices: 15146918--15146967 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
15146908 AAAGGAAGAC
15146918 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
15146936 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
15146956 AGCAAAAAGAGA
1 AG-AAAAAGAGA
15146968 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:15148867 original size:23 final size:23
Alignment explanation
Indices: 15148837--15148891 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
15148827 ATTCCCCCTT
* *
15148837 TCTCAAAAAGTTCCGTCCTCGAA
1 TCTCAAAAAGATCCATCCTCGAA
15148860 TCTCAAAAAGATCCATCCTCGAA
1 TCTCAAAAAGATCCATCCTCGAA
*
15148883 TCTGAAAAA
1 TCTCAAAAA
15148892 TTCAAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (23 bp):
TCTCAAAAAGATCCATCCTCGAA
Found at i:15155420 original size:18 final size:20
Alignment explanation
Indices: 15155399--15155448 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
15155389 AAAGGAAGAC
15155399 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
15155417 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
15155437 AGCAAAAAGAGA
1 AG-AAAAAGAGA
15155449 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:15175841 original size:21 final size:21
Alignment explanation
Indices: 15175816--15175865 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
15175806 GTTGTTGAGA
15175816 AGGAAGTTG-CTGCTGTAGAAG
1 AGGAAGTTGTC-GCTGTAGAAG
*
15175837 AGGAAGTTGTCGTTGTAGAAG
1 AGGAAGTTGTCGCTGTAGAAG
15175858 AGGAAGTT
1 AGGAAGTT
15175866 ATTGCTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.30, C:0.06, G:0.38, T:0.26
Consensus pattern (21 bp):
AGGAAGTTGTCGCTGTAGAAG
Found at i:15176362 original size:17 final size:17
Alignment explanation
Indices: 15176336--15176368 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15176326 GCATATATTT
*
15176336 TCATTGCATTTTCATGG
1 TCATTACATTTTCATGG
15176353 TCATTACATTTTCATG
1 TCATTACATTTTCATG
15176369 ATAATGCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (17 bp):
TCATTACATTTTCATGG
Found at i:15177865 original size:21 final size:20
Alignment explanation
Indices: 15177833--15177876 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
15177823 TTTTACCCAG
*
15177833 TTTTTAACTCT-AAAATACCT
1 TTTTTAAATCTAAAAAT-CCT
15177853 TTTTTAAAATCTAAAAATCCT
1 TTTTT-AAATCTAAAAATCCT
15177874 TTT
1 TTT
15177877 AACTTAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTTTAAATCTAAAAATCCT
Found at i:15180726 original size:40 final size:40
Alignment explanation
Indices: 15180633--15180733 Score: 125
Period size: 40 Copynumber: 2.6 Consensus size: 40
15180623 AAAATCCTTG
* *
15180633 TTATAATTATTGTAATTATAA--TTTACGATCAAATATTA
1 TTATAATTATTGTAATTATAATTTTTACGATAAAACATTA
* * * *
15180671 CTATAATTATTGTAATTTTAATTTTTTCGGTAAAACATTA
1 TTATAATTATTGTAATTATAATTTTTACGATAAAACATTA
*
15180711 TTATAATTATGGTAATTATAATT
1 TTATAATTATTGTAATTATAATT
15180734 ATTATATTCG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 19 0.37
40 33 0.63
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (40 bp):
TTATAATTATTGTAATTATAATTTTTACGATAAAACATTA
Found at i:15192540 original size:20 final size:20
Alignment explanation
Indices: 15192512--15192588 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
15192502 AAGACTATGA
*
15192512 ACCACTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
15192532 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
15192552 TCCATTTCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
15192572 TCTATTCCATTTACTTA
1 ACCATTCCATTTACTTA
15192589 GCATAAGCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:15192554 original size:15 final size:16
Alignment explanation
Indices: 15192526--15192558 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15192516 CTCCATTTAC
15192526 TTACTTACCATTCCAT
1 TTACTTACCATTCCAT
*
15192542 TTACTTA-CTTTCCAT
1 TTACTTACCATTCCAT
15192557 TT
1 TT
15192559 CATTTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (16 bp):
TTACTTACCATTCCAT
Found at i:15194623 original size:62 final size:62
Alignment explanation
Indices: 15194548--15194668 Score: 242
Period size: 62 Copynumber: 2.0 Consensus size: 62
15194538 GTATTCAGCT
15194548 AAAACCCTATTAAGAATGTCACTCCAAGATTCTCCAAATGTTGAGGGAAGAAATCTACCATA
1 AAAACCCTATTAAGAATGTCACTCCAAGATTCTCCAAATGTTGAGGGAAGAAATCTACCATA
15194610 AAAACCCTATTAAGAATGTCACTCCAAGATTCTCCAAATGTTGAGGGAAGAAATCTACC
1 AAAACCCTATTAAGAATGTCACTCCAAGATTCTCCAAATGTTGAGGGAAGAAATCTACC
15194669 TTACTTTTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (62 bp):
AAAACCCTATTAAGAATGTCACTCCAAGATTCTCCAAATGTTGAGGGAAGAAATCTACCATA
Found at i:15199734 original size:65 final size:65
Alignment explanation
Indices: 15199662--15199790 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 65
15199652 ATGGCAATTG
* * *
15199662 ATGGGAATAGTTTAACTTATGCGACTAACTAGCGCGTATAGCATCTATAAGGCCCGTGATAGTTT
1 ATGGGAATAGTGTAACTTAAGCGACTAACTAGCGCGTATAGCATCTATAAGGCCCATGATAGTTT
* * *
15199727 ATGGGAATAGTGTAACTTAAGCGACTAACTAGCGGGTATTGCATGTATAAGGCCCATGATAGTT
1 ATGGGAATAGTGTAACTTAAGCGACTAACTAGCGCGTATAGCATCTATAAGGCCCATGATAGTT
15199791 GGCTAGGGCC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (65 bp):
ATGGGAATAGTGTAACTTAAGCGACTAACTAGCGCGTATAGCATCTATAAGGCCCATGATAGTTT
Found at i:15200416 original size:13 final size:12
Alignment explanation
Indices: 15200400--15200460 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 12
15200390 TTTAAACCAA
15200400 ACTTTTCAAAGGT
1 ACTTTTCAAA-GT
**
15200413 ACTTCACAAAGT
1 ACTTTTCAAAGT
*
15200425 ACTTTTCCACAGT
1 ACTTTT-CAAAGT
*
15200438 ACTTTTCAAAAGC
1 ACTTTTC-AAAGT
15200451 ACTTTTCAAA
1 ACTTTTCAAA
15200461 AGCAATGAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
12 10 0.26
13 29 0.74
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.34
Consensus pattern (12 bp):
ACTTTTCAAAGT
Found at i:15202648 original size:45 final size:45
Alignment explanation
Indices: 15202587--15202685 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
15202577 TCAGTAATAT
* * * *
15202587 GTAACGGTAACAGTAACAGTATACAACACACAAAGTGTTGAATCT
1 GTAACAGTAACAGTAACAGTATACAACACACAAAGTATCGAATCA
* * * *
15202632 GTAGCAGTAACGGTAACAGTATTCGACACACAAAGTATCGAATCA
1 GTAACAGTAACAGTAACAGTATACAACACACAAAGTATCGAATCA
15202677 GTAACAGTA
1 GTAACAGTA
15202686 GTCATCACAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATACAACACACAAAGTATCGAATCA
Found at i:15203099 original size:3 final size:3
Alignment explanation
Indices: 15203091--15203138 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
15203081 GAGATTCACA
15203091 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15203138 T
1 T
15203139 CAGTTCAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:15203913 original size:12 final size:12
Alignment explanation
Indices: 15203896--15203929 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
15203886 AAAACCCTAG
15203896 TTTTTCCTTTTC
1 TTTTTCCTTTTC
15203908 TTTTT-CTTTTC
1 TTTTTCCTTTTC
15203919 TTCTTTCCTTT
1 TT-TTTCCTTT
15203930 CCCCTGTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 8 0.40
13 4 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:15204262 original size:4 final size:4
Alignment explanation
Indices: 15204253--15204278 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
15204243 TTATTATGTC
15204253 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
15204279 TATAATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:15204315 original size:32 final size:32
Alignment explanation
Indices: 15204253--15204325 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
15204243 TTATTATGTC
15204253 TTAATTAAT-TAATTAATTAATTAATTTATAAT
1 TTAA-TAATATAATTAATTAATTAATTTATAAT
*
15204285 TTCATAATATAA-TAATTAATATAATTTATAAT
1 TTAATAATATAATTAATTAAT-TAATTTATAAT
15204317 TTAATAATA
1 TTAATAATA
15204326 GATAAAACCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 12 0.32
32 25 0.68
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (32 bp):
TTAATAATATAATTAATTAATTAATTTATAAT
Found at i:15205446 original size:10 final size:11
Alignment explanation
Indices: 15205418--15205450 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
15205408 ATTGTAAGAA
15205418 TTATTTCTTTG
1 TTATTTCTTTG
15205429 TTTATTTCTTTG
1 -TTATTTCTTTG
15205441 -TATTTCTTTG
1 TTATTTCTTTG
15205451 AGAGGGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
12 11 0.52
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.73
Consensus pattern (11 bp):
TTATTTCTTTG
Found at i:15219475 original size:12 final size:12
Alignment explanation
Indices: 15219438--15219488 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
15219428 TATCATAGTT
15219438 CTTACTT-CTT-
1 CTTACTTGCTTA
* *
15219448 CTTTACTTACTCA
1 C-TTACTTGCTTA
*
15219461 CTTACTTGTTTA
1 CTTACTTGCTTA
15219473 CTTACTTGCTTA
1 CTTACTTGCTTA
15219485 CTTA
1 CTTA
15219489 AATAACTTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 1 0.03
11 6 0.18
12 25 0.76
13 1 0.03
ACGTcount: A:0.18, C:0.25, G:0.04, T:0.53
Consensus pattern (12 bp):
CTTACTTGCTTA
Found at i:15219819 original size:50 final size:50
Alignment explanation
Indices: 15219690--15219932 Score: 213
Period size: 50 Copynumber: 4.8 Consensus size: 50
15219680 TGATAATAAC
* ** *
15219690 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTC-T-T-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * **
15219737 TACTGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* ** *
15219789 ATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * *
15219839 GTGCCAACGCCATGTCCCAAACATGGTATTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---G
* * *
15219895 ATGCCAATGCCATGTTCCAAACATGGTCTTGCATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
15219933 TTTTATCACC
Statistics
Matches: 156, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 36 0.23
50 80 0.51
51 2 0.01
52 1 0.01
53 2 0.01
56 34 0.22
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:15222531 original size:40 final size:39
Alignment explanation
Indices: 15222487--15222847 Score: 285
Period size: 40 Copynumber: 9.1 Consensus size: 39
15222477 AATGTGTGTT
* * * *
15222487 AGGGTATCAAGGTACGAATAAGAGCATGTATGTGCAATTC
1 AGGGTATCAA-GTACAAATAGGGGCACGTATGTGCAATTC
* *
15222527 AGGGT-TCCAAAGTACAAATAGGGGCACGT-TGTGCATTTA
1 AGGGTAT-C-AAGTACAAATAGGGGCACGTATGTGCAATTC
*
15222566 AGGGTACTGAAGTACAAATAGGGGCACGTATGTGC-ATTC
1 AGGGTA-TCAAGTACAAATAGGGGCACGTATGTGCAATTC
* * * *
15222605 AGGGGCACCGAAGTAC-AATCAGCGGCACGTATGTG-TATTC
1 A-GGGTATC-AAGTACAAAT-AGGGGCACGTATGTGCAATTC
* * *
15222645 AGGGGTACCGAAGTACAAACAAGGGCACGTATGTGC-ATTC
1 A-GGGTATC-AAGTACAAATAGGGGCACGTATGTGCAATTC
* *
15222685 AGGGGTATTGAAGTACAAACAGGGGCACGTATGTGC-ATTC
1 A-GGGTA-TCAAGTACAAATAGGGGCACGTATGTGCAATTC
* *
15222725 AGGGGTACTGAAGTACAAACAGGGGCACGTATGTGC-ATTC
1 A-GGGTA-TCAAGTACAAATAGGGGCACGTATGTGCAATTC
* * *
15222765 AGGGGTACTGAAGTACTAATAGGGGCATGTATGTGC-ATTC
1 A-GGGTA-TCAAGTACAAATAGGGGCACGTATGTGCAATTC
* *
15222805 AGGGGTACCGAAGTACAAATAGGGGCATGTAT-TGC-ATTC
1 A-GGGTATC-AAGTACAAATAGGGGCACGTATGTGCAATTC
15222844 AGGG
1 AGGG
15222848 ACATATCTTT
Statistics
Matches: 281, Mismatches: 27, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
38 3 0.01
39 48 0.17
40 225 0.80
41 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.22
Consensus pattern (39 bp):
AGGGTATCAAGTACAAATAGGGGCACGTATGTGCAATTC
Found at i:15222674 original size:80 final size:80
Alignment explanation
Indices: 15222514--15222847 Score: 451
Period size: 80 Copynumber: 4.2 Consensus size: 80
15222504 ATAAGAGCAT
* * * * *
15222514 GTATGTGCAATTCA-GGGTTCCAAAGTACAAATAGGGGCACGT-TGTGCATTTAAGGGTACTGAA
1 GTATGTGC-ATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGTACCGAA
*
15222577 GTACAAATAGGGGCAC
65 GTACAAACAGGGGCAC
* * *
15222593 GTATGTGCATTCAGGGGCACCGAAGTAC-AATCAGCGGCACGTATGTGTATTCAGGGGTACCGAA
1 GTATGTGCATTCAGGGGTACCGAAGTACAAAT-AGGGGCACGTATGTGCATTCAGGGGTACCGAA
*
15222657 GTACAAACAAGGGCAC
65 GTACAAACAGGGGCAC
** * *
15222673 GTATGTGCATTCAGGGGTATTGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACTGAAG
1 GTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGTACCGAAG
15222738 TACAAACAGGGGCAC
66 TACAAACAGGGGCAC
* * *
15222753 GTATGTGCATTCAGGGGTACTGAAGTACTAATAGGGGCATGTATGTGCATTCAGGGGTACCGAAG
1 GTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGTACCGAAG
* *
15222818 TACAAATAGGGGCAT
66 TACAAACAGGGGCAC
15222833 GTAT-TGCATTCAGGG
1 GTATGTGCATTCAGGG
15222848 ACATATCTTT
Statistics
Matches: 226, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
78 8 0.04
79 39 0.17
80 177 0.78
81 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (80 bp):
GTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGTACCGAAG
TACAAACAGGGGCAC
Found at i:15222726 original size:120 final size:120
Alignment explanation
Indices: 15222514--15222847 Score: 467
Period size: 120 Copynumber: 2.8 Consensus size: 120
15222504 ATAAGAGCAT
* * * *
15222514 GTATGTGCAATTCA-GGGTTCCAAAGTACAAATAGGGGCACGT-TGTGCATTTAAGGGTACTGAA
1 GTATGTG-AATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGTACTGAA
*
15222577 GTACAAATAGGGGCACGTATGTGCATTCAGGGGCACCGAAGTACAATCAGCGGCAC
65 GTACAAATAGGGGCACGTATGTGCATTCAGGGGCACCGAAGTACAAACAGCGGCAC
* * * *
15222633 GTATGTGTATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCATTCAGGGGTATTGAAG
1 GTATGTGAATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGTACTGAAG
* * * *
15222698 TACAAACAGGGGCACGTATGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCAC
66 TACAAATAGGGGCACGTATGTGCATTCAGGGGCACCGAAGTACAAACAGCGGCAC
* * * * *
15222753 GTATGTGCATTCAGGGGTACTGAAGTACTAATAGGGGCATGTATGTGCATTCAGGGGTACCGAAG
1 GTATGTGAATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGTACTGAAG
*
15222818 TACAAATAGGGGCATGTAT-TGCATTCAGGG
66 TACAAATAGGGGCACGTATGTGCATTCAGGG
15222848 ACATATCTTT
Statistics
Matches: 190, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
118 5 0.03
119 42 0.22
120 143 0.75
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (120 bp):
GTATGTGAATTCAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGTACTGAAG
TACAAATAGGGGCACGTATGTGCATTCAGGGGCACCGAAGTACAAACAGCGGCAC
Found at i:15223918 original size:385 final size:385
Alignment explanation
Indices: 15223208--15223954 Score: 1431
Period size: 385 Copynumber: 1.9 Consensus size: 385
15223198 TTATTTGCCA
*
15223208 ATTACATTGATCACAACATAATCCATTTATATACATGTATATTGTCCCTTATTCGAGCCCCTGAG
1 ATTACATTGATCACAACATAATCCATTTATATACATGCATATTGTCCCTTATTCGAGCCCCTGAG
15223273 GCCTTAGAAACACTTTAGAAATGATTCAGGACTAAATTCGAAACATTTAGAACTTTATGGAAAAA
66 GCCTTAGAAACACTTTAGAAATGATTCAGGACTAAATTCGAAACATTTAGAACTTTATGGAAAAA
*
15223338 GATAGAAAATTTCACACTGTAGGGGTCACACGGCCGTGTGGCTAGGTCGTGTGACTCACAAGGCT
131 GATAGAAAATTTCACACTGTAGGGGTCACACGACCGTGTGGCTAGGTCGTGTGACTCACAAGGCT
15223403 AAGACATACACCCGTGTCTCAGACCGTGTAACATTCAAAATAGGGACACACAGACGTGTCCTAGC
196 AAGACATACACCCGTGTCTCAGACCGTGTAACATTCAAAATAGGGACACACAGACGTGTCCTAGC
** *
15223468 CCGTGTCCATGCCCGTGGAACTCTCTGACTTGGACCACATGGCTAAGCCACACGCCCGTGTGCTA
261 CCGTGTCCATGCCCGTGGAACTCTCTGACTTGGACCACACAGCCAAGCCACACGCCCGTGTGCTA
*
15223533 GGTCGTGTAGCCTTCGAAATGGCCTCACATGCCGTGTGTATACATGCCGTGTTTCTAAAC
326 GGTCGTGTAGCCTTCAAAATGGCCTCACATGCCGTGTGTATACATGCCGTGTTTCTAAAC
*
15223593 ATTACATTGATCACGACATAATCCATTTATATACATGCATATTGTCCCTTATTCGAGCCCCTGAG
1 ATTACATTGATCACAACATAATCCATTTATATACATGCATATTGTCCCTTATTCGAGCCCCTGAG
15223658 GCCTTAGAAACACTTTAGAAATGATTCAGGACTAAATTCGAAACATTTAGAACTTTATGGAAAAA
66 GCCTTAGAAACACTTTAGAAATGATTCAGGACTAAATTCGAAACATTTAGAACTTTATGGAAAAA
15223723 GATAGAAAATTTCACACTGTAGGGGTCACACGACCGTGTGGCTAGGTCGTGTGACTCACAAGGCT
131 GATAGAAAATTTCACACTGTAGGGGTCACACGACCGTGTGGCTAGGTCGTGTGACTCACAAGGCT
15223788 AAGACATACACCCGTGTCTCAGACCGTGTAACATTCAAAATAGGGACACACAGACGTGTCCTAGC
196 AAGACATACACCCGTGTCTCAGACCGTGTAACATTCAAAATAGGGACACACAGACGTGTCCTAGC
15223853 CCGTGTCCATGCCCGTGGAACTCTCTGACTTGGACCACACAGCCAAGCCACACGCCCGTGTGCTA
261 CCGTGTCCATGCCCGTGGAACTCTCTGACTTGGACCACACAGCCAAGCCACACGCCCGTGTGCTA
15223918 GGTCGTGTAGCCTTCAAAATGGCCTCACATGCCGTGT
326 GGTCGTGTAGCCTTCAAAATGGCCTCACATGCCGTGT
15223955 ACCAGGCCAT
Statistics
Matches: 355, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
385 355 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (385 bp):
ATTACATTGATCACAACATAATCCATTTATATACATGCATATTGTCCCTTATTCGAGCCCCTGAG
GCCTTAGAAACACTTTAGAAATGATTCAGGACTAAATTCGAAACATTTAGAACTTTATGGAAAAA
GATAGAAAATTTCACACTGTAGGGGTCACACGACCGTGTGGCTAGGTCGTGTGACTCACAAGGCT
AAGACATACACCCGTGTCTCAGACCGTGTAACATTCAAAATAGGGACACACAGACGTGTCCTAGC
CCGTGTCCATGCCCGTGGAACTCTCTGACTTGGACCACACAGCCAAGCCACACGCCCGTGTGCTA
GGTCGTGTAGCCTTCAAAATGGCCTCACATGCCGTGTGTATACATGCCGTGTTTCTAAAC
Found at i:15232457 original size:30 final size:30
Alignment explanation
Indices: 15232423--15232485 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
15232413 TTTGATAGGA
15232423 TATTCATCGCAATTTGCATCAACAATCACT
1 TATTCATCGCAATTTGCATCAACAATCACT
* * *
15232453 TATTCATTGCAATTTGCATCGACCATCACT
1 TATTCATCGCAATTTGCATCAACAATCACT
15232483 TAT
1 TAT
15232486 CCTTTTATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
TATTCATCGCAATTTGCATCAACAATCACT
Found at i:15239658 original size:3 final size:3
Alignment explanation
Indices: 15239652--15239684 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15239642 CTTCTTGTTG
15239652 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15239685 CTCAGTTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15243890 original size:27 final size:28
Alignment explanation
Indices: 15243848--15243917 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
15243838 ATTTTTAATG
15243848 CATG-TTTTAATATGTCATAG-CTAGTA
1 CATGTTTTTAATATGTCATAGTCTAGTA
* * *
15243874 CATGTTTTTAATTTGTCTTAGTCTATTA
1 CATGTTTTTAATATGTCATAGTCTAGTA
15243902 CATGTTTTTAATATGT
1 CATGTTTTTAATATGT
15243918 TCTTGTTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.11
27 14 0.37
28 20 0.53
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (28 bp):
CATGTTTTTAATATGTCATAGTCTAGTA
Found at i:15245852 original size:18 final size:19
Alignment explanation
Indices: 15245829--15245908 Score: 78
Period size: 18 Copynumber: 4.3 Consensus size: 19
15245819 TTATTTTCCA
15245829 AAATAAATATTATTTAA-T
1 AAATAAATATTATTTAACT
15245847 AAATAAATATTATTTAA-T
1 AAATAAATATTATTTAACT
* *
15245865 AAATTAATTAATTAATTAACT
1 AAA-TAAAT-ATTATTTAACT
* *
15245886 AAATTAAT-TT-TTTAATT
1 AAATAAATATTATTTAACT
15245903 AAATAA
1 AAATAA
15245909 TTTTCTCGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
17 10 0.19
18 23 0.44
19 4 0.08
20 11 0.21
21 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATAAATATTATTTAACT
Found at i:15245890 original size:21 final size:20
Alignment explanation
Indices: 15245837--15245904 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 20
15245827 CAAAATAAAT
* *
15245837 ATTATTTAATAAA-TAAAT-
1 ATTAATTAATAAATTAATTA
*
15245855 ATTATTTAATAAATTAATTA
1 ATTAATTAATAAATTAATTA
*
15245875 ATTAATTAACTAAATTAATTT
1 ATTAATTAA-TAAATTAATTA
*
15245896 TTTAATTAA
1 ATTAATTAA
15245905 ATAATTTTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
18 13 0.30
19 4 0.09
20 8 0.19
21 18 0.42
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAATTAATAAATTAATTA
Found at i:15245900 original size:17 final size:17
Alignment explanation
Indices: 15245870--15245912 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
15245860 TTAATAAATT
**
15245870 AATTAATTAATTAACTA
1 AATTAATTTTTTAACTA
*
15245887 AATTAATTTTTTAATTA
1 AATTAATTTTTTAACTA
15245904 AA-TAATTTT
1 AATTAATTTT
15245913 CTCGATCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTAATTTTTTAACTA
Found at i:15251293 original size:33 final size:33
Alignment explanation
Indices: 15251251--15251319 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
15251241 TTTGGTGGAT
*
15251251 TCAGCACTTAGCAACCACCAG-TGATTCGGGGAA
1 TCAGCACTTAGCAACCACC-GCTGATTCAGGGAA
15251284 TCAGCACTTAGCAACCACCGCTGATTCAGGGAA
1 TCAGCACTTAGCAACCACCGCTGATTCAGGGAA
15251317 TCA
1 TCA
15251320 ACACAACCCC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 1 0.03
33 33 0.97
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCGCTGATTCAGGGAA
Found at i:15256424 original size:20 final size:20
Alignment explanation
Indices: 15256399--15256438 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15256389 AAACCAAGCC
15256399 GTAAATATTTTTATAAATAT
1 GTAAATATTTTTATAAATAT
15256419 GTAAATATTTTTATAAATAT
1 GTAAATATTTTTATAAATAT
15256439 TTATAGAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
GTAAATATTTTTATAAATAT
Found at i:15258357 original size:36 final size:36
Alignment explanation
Indices: 15258315--15258384 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
15258305 TAAGTTCATA
15258315 GTAGGGATATAATATGATGAAATAAAAGGATTGTTG
1 GTAGGGATATAATATGATGAAATAAAAGGATTGTTG
15258351 GTAGGGATATAATATGATGAAATAAAAGGATTGT
1 GTAGGGATATAATATGATGAAATAAAAGGATTGT
15258385 CGAGTTAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (36 bp):
GTAGGGATATAATATGATGAAATAAAAGGATTGTTG
Found at i:15259398 original size:14 final size:15
Alignment explanation
Indices: 15259373--15259402 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
15259363 ATTGGTTGAA
15259373 TGGAACTTGGTCATT
1 TGGAACTTGGTCATT
15259388 TGGAA-TTGGTCATT
1 TGGAACTTGGTCATT
15259402 T
1 T
15259403 TATGCCTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (15 bp):
TGGAACTTGGTCATT
Found at i:15261529 original size:19 final size:19
Alignment explanation
Indices: 15261507--15261544 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15261497 TCAACCATCC
15261507 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
15261526 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
15261545 ATTATTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:15270303 original size:14 final size:14
Alignment explanation
Indices: 15270284--15270311 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15270274 TAAAGTTATA
15270284 TTTAATAATTCATT
1 TTTAATAATTCATT
15270298 TTTAATAATTCATT
1 TTTAATAATTCATT
15270312 AATAATTGGG
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:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:15284506 original size:41 final size:41
Alignment explanation
Indices: 15284461--15284750 Score: 328
Period size: 41 Copynumber: 7.0 Consensus size: 41
15284451 GTTACTCGGT
15284461 GGAATCAGCACTTAGCAACCACTTTATATTCAGTGATACGG
1 GGAATCAGCACTTAGCAACCACTTTATATTCAGTGATACGG
* *
15284502 GGAATCAGCACAT-GCAACCCCTTTCACTA-TCAAG-GATACGG
1 GGAATCAGCACTTAGCAACCACTTT-A-TATTC-AGTGATACGG
15284543 TGGAATCAGCACTTAGCAACCACTTTATATTCAGTGATACGG
1 -GGAATCAGCACTTAGCAACCACTTTATATTCAGTGATACGG
* *
15284585 GGAATCAGCACATAGCAACCCCTTTCACTA-TCAAG-GATACGG
1 GGAATCAGCACTTAGCAACCACTTT-A-TATTC-AGTGATACGG
*
15284627 TGGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGG
1 -GGAATCAGCACTTAGCAACCACTTTATATTCAGTGATACGG
*
15284669 GGAATCAGCACATAGCAACC-CGTTTCACTA-TCAAG-GATACGACG
1 GGAATCAGCACTTAGCAACCAC-TTT-A-TATTC-AGTGATACG--G
*
15284713 GG-ATCAGCACTTAGCAACCACCTTATATTCAGTGATAC
1 GGAATCAGCACTTAGCAACCACTTTATATTCAGTGATAC
15284751 CGGTTCACAT
Statistics
Matches: 214, Mismatches: 13, Indels: 43
0.79 0.05 0.16
Matches are distributed among these distances:
40 11 0.05
41 78 0.36
42 63 0.29
43 58 0.27
44 4 0.02
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCACTTTATATTCAGTGATACGG
Found at i:15284656 original size:84 final size:84
Alignment explanation
Indices: 15284457--15284750 Score: 527
Period size: 84 Copynumber: 3.5 Consensus size: 84
15284447 AACCGTTACT
*
15284457 CGGTGGAATCAGCACTTAGCAACCACTTTATATTCAGTGATACGGGGAATCAGCACAT-GCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGGGGAATCAGCACATAGCAACC
15284521 CCTTTCACTATCAAGGATA
66 CCTTTCACTATCAAGGATA
*
15284540 CGGTGGAATCAGCACTTAGCAACCACTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGGGGAATCAGCACATAGCAACC
15284605 CCTTTCACTATCAAGGATA
66 CCTTTCACTATCAAGGATA
15284624 CGGTGGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGGGGAATCAGCACATAGCAACC
*
15284689 CGTTTCACTATCAAGGATA
66 CCTTTCACTATCAAGGATA
** *
15284708 CGACGGGATCAGCACTTAGCAACCACCTTATATTCAGTGATAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATATTCAGTGATAC
15284751 CGGTTCACAT
Statistics
Matches: 205, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
83 58 0.28
84 147 0.72
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATATTCAGTGATACGGGGAATCAGCACATAGCAACC
CCTTTCACTATCAAGGATA
Found at i:15284836 original size:51 final size:51
Alignment explanation
Indices: 15284760--15284902 Score: 227
Period size: 50 Copynumber: 2.8 Consensus size: 51
15284750 CCGGTTCACA
15284760 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTTTCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTTTCCGATACACG
* * *
15284811 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA--TTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTTTCCGATACACG
*
15284861 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTC
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTTTC
15284903 ACCTTCACAT
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
49 4 0.05
50 41 0.49
51 35 0.42
52 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTTTCCGATACACG
Found at i:15290095 original size:21 final size:21
Alignment explanation
Indices: 15290071--15290117 Score: 76
Period size: 22 Copynumber: 2.2 Consensus size: 21
15290061 TAATATCAAA
15290071 ATTTAAAGATTAGGTTTGATC
1 ATTTAAAGATTAGGTTTGATC
*
15290092 ATTTTGAAGATTAGGTTTGATC
1 A-TTTAAAGATTAGGTTTGATC
15290114 ATTT
1 ATTT
15290118 TGAAGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.47
Consensus pattern (21 bp):
ATTTAAAGATTAGGTTTGATC
Found at i:15290101 original size:22 final size:22
Alignment explanation
Indices: 15290076--15290123 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
15290066 TCAAAATTTA
15290076 AAGATTAGGTTTGATCATTTTG
1 AAGATTAGGTTTGATCATTTTG
15290098 AAGATTAGGTTTGATCATTTTG
1 AAGATTAGGTTTGATCATTTTG
15290120 AAGA
1 AAGA
15290124 AAATGTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.42
Consensus pattern (22 bp):
AAGATTAGGTTTGATCATTTTG
Found at i:15296595 original size:50 final size:50
Alignment explanation
Indices: 15296485--15296677 Score: 289
Period size: 50 Copynumber: 3.8 Consensus size: 50
15296475 GATAATAACA
* ** *
15296485 TGCCAAAT-CCATTTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* **
15296536 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
15296586 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
15296636 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15296678 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
50 98 0.76
51 31 0.24
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:15297051 original size:30 final size:30
Alignment explanation
Indices: 15297015--15297072 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15297005 CCTCGACTCT
*
15297015 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
15297045 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
15297073 AAGGCTCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:15308995 original size:25 final size:24
Alignment explanation
Indices: 15308931--15309013 Score: 94
Period size: 25 Copynumber: 3.4 Consensus size: 24
15308921 TCATTAGGGA
*
15308931 TTACCGATTGCAGCTCATGAGAGC
1 TTACCGATTTCAGCTCATGAGAGC
* * *
15308955 TTACTGATTCTTAGCTCATAAGAGC
1 TTACCGATT-TCAGCTCATGAGAGC
*
15308980 TTACCGATTTACAGCTCGTGAGAGC
1 TTACCGATTT-CAGCTCATGAGAGC
*
15309005 ATACCGATT
1 TTACCGATT
15309014 CATAGCTCGT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 9 0.19
25 39 0.81
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (24 bp):
TTACCGATTTCAGCTCATGAGAGC
Found at i:15309029 original size:25 final size:24
Alignment explanation
Indices: 15308950--15309033 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 24
15308940 GCAGCTCATG
* * * *
15308950 AGAGCTTACTGATTCTTAGCTCAT
1 AGAGCATACCGATTCATAGCTCGT
* * *
15308974 AAGAGCTTACCGATTTACAGCTCGT
1 -AGAGCATACCGATTCATAGCTCGT
15308999 GAGAGCATACCGATTCATAGCTCGT
1 -AGAGCATACCGATTCATAGCTCGT
15309024 ATGAGCATAC
1 A-GAGCATAC
15309034 ATGTACATGA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 1 0.02
25 48 0.98
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
AGAGCATACCGATTCATAGCTCGT
Found at i:15309195 original size:17 final size:17
Alignment explanation
Indices: 15309173--15309213 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
15309163 ACATTTATTT
15309173 ACATGAAATACATGGAA
1 ACATGAAATACATGGAA
* *
15309190 ACATG--ATATATTGAA
1 ACATGAAATACATGGAA
15309205 ACATGAAAT
1 ACATGAAAT
15309214 GGATGATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 13 0.65
17 7 0.35
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.24
Consensus pattern (17 bp):
ACATGAAATACATGGAA
Found at i:15321774 original size:22 final size:20
Alignment explanation
Indices: 15321742--15321791 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
15321732 GAACATGGTG
*
15321742 AATTTTAATTAATTTTATAATT
1 AATTTTGATTAATTTT-T-ATT
15321764 AATTTTGATTAATTTTTATT
1 AATTTTGATTAATTTTTATT
*
15321784 ATTTTTGA
1 AATTTTGA
15321792 CAGATTCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 10 0.38
21 1 0.04
22 15 0.58
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
AATTTTGATTAATTTTTATT
Found at i:15321789 original size:9 final size:10
Alignment explanation
Indices: 15321742--15321789 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
15321732 GAACATGGTG
*
15321742 AATTTTAATT
1 AATTTTTATT
15321752 AATTTTATAATT
1 AATTTT-T-ATT
*
15321764 AATTTTGATT
1 AATTTTTATT
15321774 AATTTTTATT
1 AATTTTTATT
15321784 -ATTTTT
1 AATTTTT
15321790 GACAGATTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 6 0.18
10 18 0.55
12 9 0.27
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
AATTTTTATT
Found at i:15329569 original size:27 final size:27
Alignment explanation
Indices: 15329538--15330093 Score: 521
Period size: 27 Copynumber: 20.6 Consensus size: 27
15329528 ATATGGGCCT
*
15329538 AAATTACCGACATACCC-CTGATGGGTA
1 AAATTACCGAAATACCCTC-GATGGGTA
15329565 AAATTACCGAAATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* *
15329592 AAATTACTGAGATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
*
15329619 AAACTACCGAAATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
*
15329646 AAACTACCGAAATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
*
15329673 AAATTATCGAAATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* *
15329700 TAATTACCAAAATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
** *
15329727 AAATTACTAAAATAACCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* *
15329754 AAATTACCAAAATACCCTCGATAGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* **
15329781 AAATTACTGAAATACCCTTAATGGGT-
1 AAATTACCGAAATACCCTCGATGGGTA
** * *
15329807 AAATTATTGAAATACCATCGATGGATA
1 AAATTACCGAAATACCCTCGATGGGTA
* * *
15329834 AAATTATCGAAATACCTTTGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
** *
15329861 AAATTATTGAAATACCCTCGAAGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* * *
15329888 AAATGACCGAATTACCCTCGAAGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* * * * *
15329915 AAATGACTGAAATACCCCCAAAGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* * *
15329942 AAATGACCAAAATACCCCTAGA-GGGTA
1 AAATTACCGAAATA-CCCTCGATGGGTA
* * * *
15329969 AAATGACC-AAATTACCCCCGAAGGATA
1 AAATTACCGAAA-TACCCTCGATGGGTA
* **
15329996 AAATGACC-AAATTACCAC-CGAAAGGTA
1 AAATTACCGAAA-TACC-CTCGATGGGTA
* ** * *
15330023 AAATGACTAAAATACCCTCAAAGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
** * **
15330050 AAATTAAGGAAATACCCCCGAAAGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* *
15330077 AAATAACCAAAATACCC
1 AAATTACCGAAATACCC
15330094 CTATAGGATA
Statistics
Matches: 454, Mismatches: 67, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
26 30 0.07
27 415 0.91
28 9 0.02
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATGGGTA
Found at i:15338196 original size:17 final size:17
Alignment explanation
Indices: 15338174--15338210 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
15338164 GATAAATATA
*
15338174 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
15338191 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
15338208 CAT
1 CAT
15338211 GTTAGTGCAT
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:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:15339060 original size:28 final size:28
Alignment explanation
Indices: 15339020--15339130 Score: 168
Period size: 28 Copynumber: 4.0 Consensus size: 28
15339010 ATAACAGTAC
* *
15339020 AGTGTGGGCCTTAGCCTGATATAGTAAT
1 AGTGTGGGCCTTAGCCTAATACAGTAAT
*
15339048 AGTGTGGGACTTAGCCTAATACAGTAAT
1 AGTGTGGGCCTTAGCCTAATACAGTAAT
* * *
15339076 AGTATGGGCCTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAGCCTAATACAGTAAT
15339104 AGTGTGGGCCTTAGCCTAATACAGTAA
1 AGTGTGGGCCTTAGCCTAATACAGTAA
15339131 CCAGTACAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCTAATACAGTAAT
Found at i:15339340 original size:27 final size:27
Alignment explanation
Indices: 15339277--15339551 Score: 353
Period size: 27 Copynumber: 10.2 Consensus size: 27
15339267 GGTATAACAT
* *
15339277 TCATTTTACCCTAT-GGGGGTA-TCCAG
1 TCATTTTACCCT-TCGAGGGTATTTCAG
*
15339303 TTATTTTACCCTTCGAGGGTATTTC-G
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
15339329 ATCATTTTACCCTTCGAGGGTATTTTAG
1 -TCATTTTACCCTTCGAGGGTATTTCAG
*
15339357 TCATTTTACCCTT-TAGGGGTATTTC-G
1 TCATTTTACCCTTCGA-GGGTATTTCAG
*
15339383 ATCATTTTACCCTTCAAGGGTATTTCAG
1 -TCATTTTACCCTTCGAGGGTATTTCAG
* * *
15339411 TCATTTTACCTTTTGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
15339438 TCATTTTACCCTTTGAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
15339465 TCATTTTACCCTTTGAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAG
*
15339492 TCATTTTACCCTTCGAGGGTATTTTAG
1 TCATTTTACCCTTCGAGGGTATTTCAG
* *
15339519 TTATTTTACCCTTTGAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAG
15339546 TCATTT
1 TCATTT
15339552 GCCTATAAAT
Statistics
Matches: 221, Mismatches: 20, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
25 1 0.00
26 20 0.09
27 197 0.89
28 3 0.01
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCAG
Found at i:15339415 original size:81 final size:81
Alignment explanation
Indices: 15339277--15339551 Score: 396
Period size: 81 Copynumber: 3.4 Consensus size: 81
15339267 GGTATAACAT
* * * *
15339277 TCATTTTACCCTATGGGGGTA-TCCAGTTATTTTACCCTTCGAGGGTATTTC-GATCATTTTACC
1 TCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAG-TCATTTTACC
15339340 CTTCGAGGGTATTTTAG
65 CTTCGAGGGTATTTTAG
*
15339357 TCATTTTACCCTTT-AGGGGTATTTC-GATCATTTTACCCTTCAAGGGTATTTCAGTCATTTTAC
1 TCATTTTACCCTTTGA-GGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTAC
* * **
15339420 CTTTTGAGGGTATTTCGG
64 CCTTCGAGGGTATTTTAG
*
15339438 TCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCC
1 TCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCC
15339503 TTCGAGGGTATTTTAG
66 TTCGAGGGTATTTTAG
*
15339519 TTATTTTACCCTTTGAGGGTATTTCAGTCATTT
1 TCATTTTACCCTTTGAGGGTATTTCAGTCATTT
15339552 GCCTATAAAT
Statistics
Matches: 173, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
80 19 0.11
81 151 0.87
82 3 0.02
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (81 bp):
TCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCC
TTCGAGGGTATTTTAG
Found at i:15344028 original size:22 final size:19
Alignment explanation
Indices: 15344003--15344044 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
15343993 TGATAATCAT
15344003 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
15344025 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
15344044 T
1 T
15344045 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:15351383 original size:27 final size:27
Alignment explanation
Indices: 15351314--15351383 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
15351304 AATGACGTAT
*
15351314 TTCATGATAGTTCAAGTGAATTATGAG
1 TTCATGATAGTTCATGTGAATTATGAG
* *
15351341 TTGATGCACTA--ACATGTGAATTATGAG
1 TTCATG-A-TAGTTCATGTGAATTATGAG
15351368 TTCATGATAGTTCATG
1 TTCATGATAGTTCATG
15351384 ATTGTCCAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
25 2 0.06
26 1 0.03
27 28 0.82
28 1 0.03
29 2 0.06
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
TTCATGATAGTTCATGTGAATTATGAG
Found at i:15355782 original size:59 final size:59
Alignment explanation
Indices: 15355662--15355824 Score: 199
Period size: 59 Copynumber: 2.8 Consensus size: 59
15355652 AATAAAGTTA
*
15355662 GCCACAAAGGCTTCCTTT-TAACAGAGAT-AGCCACAAAAGATTT-CTTATAACAAAGATC
1 GCCACAAAGGCTT-CTTTATAACAGAGATCAGCCA-AAAAGGTTTCCTTATAACAAAGATC
* * * *
15355720 GCCACAAAGGCTTCTTTATAACAGATATCAGCCATAAAGGTTTCCTTTTAACAGAGATC
1 GCCACAAAGGCTTCTTTATAACAGAGATCAGCCAAAAAGGTTTCCTTATAACAAAGATC
* * * *
15355779 GCCACAAAGGCTTCCTTATAATAGAGATCA-CCAGAAAGGCTTCCTT
1 GCCACAAAGGCTTCTTTATAACAGAGATCAGCCAAAAAGGTTTCCTT
15355825 CTAAGGAAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
57 4 0.04
58 43 0.47
59 45 0.49
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (59 bp):
GCCACAAAGGCTTCTTTATAACAGAGATCAGCCAAAAAGGTTTCCTTATAACAAAGATC
Found at i:15355783 original size:88 final size:86
Alignment explanation
Indices: 15355633--15355821 Score: 229
Period size: 88 Copynumber: 2.2 Consensus size: 86
15355623 TTAGAGTCTT
15355633 GCCACAAAGGCGTTCTTTTAATAAAGTTAGCCACAAAGGCTTCCTTTTAACAGAGATAGCCACAA
1 GCCACAAAGGC-TTCTTTTAATAAAGTTAGCCACAAAGGCTTCCTTTTAACAGAGATAGCCACAA
*
15355698 AAGATTTCTTATAACAAAGATC
65 AAGATTCCTTATAACAAAGATC
* * *
15355720 GCCACAAAGGCTTC-TTT-ATAACAGATATCAGCCATAAAGGTTTCCTTTTAACAGAGATCGCCA
1 GCCACAAAGGCTTCTTTTAATAA-AG-T-T-AGCCACAAAGGCTTCCTTTTAACAGAGATAGCCA
* * * *
15355783 CAAAGGCTTCCTTATAATAGAGATC
62 CAAAAGATTCCTTATAACAAAGATC
* *
15355808 ACCAGAAAGGCTTC
1 GCCACAAAGGCTTC
15355822 CTTCTAAGGA
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
84 4 0.05
85 5 0.06
86 4 0.05
87 12 0.14
88 63 0.72
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (86 bp):
GCCACAAAGGCTTCTTTTAATAAAGTTAGCCACAAAGGCTTCCTTTTAACAGAGATAGCCACAAA
AGATTCCTTATAACAAAGATC
Found at i:15355793 original size:29 final size:29
Alignment explanation
Indices: 15355633--15355824 Score: 190
Period size: 29 Copynumber: 6.6 Consensus size: 29
15355623 TTAGAGTCTT
* * * *
15355633 GCCACAAAGGCGTT-CTTTTAATAAAGTTA
1 GCCACAAAGGC-TTCCTTTTAACAGAGATC
*
15355662 GCCACAAAGGCTTCCTTTTAACAGAGATA
1 GCCACAAAGGCTTCCTTTTAACAGAGATC
* * * * *
15355691 GCCACAAAAGATTTCTTATAACAAAGATC
1 GCCACAAAGGCTTCCTTTTAACAGAGATC
*
15355720 GCCACAAAGGCTT-CTTTATAACAGATATC
1 GCCACAAAGGCTTCCTTT-TAACAGAGATC
* *
15355749 AGCCATAAAGGTTTCCTTTTAACAGAGATC
1 -GCCACAAAGGCTTCCTTTTAACAGAGATC
* *
15355779 GCCACAAAGGCTTCCTTATAATAGAGATC
1 GCCACAAAGGCTTCCTTTTAACAGAGATC
* *
15355808 ACCAGAAAGGCTTCCTT
1 GCCACAAAGGCTTCCTT
15355825 CTAAGGAAAT
Statistics
Matches: 136, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
28 5 0.04
29 106 0.78
30 21 0.15
31 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (29 bp):
GCCACAAAGGCTTCCTTTTAACAGAGATC
Found at i:15357476 original size:96 final size:94
Alignment explanation
Indices: 15357280--15357516 Score: 267
Period size: 96 Copynumber: 2.5 Consensus size: 94
15357270 GAATGGCTAT
* * * * ** * *
15357280 AAGCCATAAGTACAGTAATGTGATTGGCACAAAGCCATCAATAGTAGTGATATGATCGGTACACA
1 AAGCCATCAGTACAGT-ATATGATCGACACAAAGCCATCAATAACAGTGAAATGATCGGCACACA
* * *
15357345 GCCATTAGTAACAGTAACATGATCGACATA
65 ACCATTAGTAACAGTAACATAATCGACACA
*
15357375 AAGCCATCAGTAGCAGTGATATGATCGACACACAGCCATCAATAACAGTGAAATGATCGGCACAC
1 AAGCCATCAGTA-CAGT-ATATGATCGACACAAAGCCATCAATAACAGTGAAATGATCGGCACAC
* * *
15357440 AACCATTAGTAACGGTAATATAATCGATACA
64 AACCATTAGTAACAGTAACATAATCGACACA
* * *
15357471 AAGCCATCAGTAACGGTACTATGACCGACACAAAGCCATCAGTAAC
1 AAGCCATCAGT-ACAGTA-TATGATCGACACAAAGCCATCAATAAC
15357517 GGTACTATGA
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
95 12 0.10
96 106 0.89
97 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.20
Consensus pattern (94 bp):
AAGCCATCAGTACAGTATATGATCGACACAAAGCCATCAATAACAGTGAAATGATCGGCACACAA
CCATTAGTAACAGTAACATAATCGACACA
Found at i:15357532 original size:96 final size:96
Alignment explanation
Indices: 15357307--15357534 Score: 271
Period size: 96 Copynumber: 2.4 Consensus size: 96
15357297 ATGTGATTGG
** * * *
15357307 CACAAAGCCATCAATAGTAGTGATATGATCGGTACACAGCCATTAGTAACAGTAACATGATCGAC
1 CACAAAGCCATCAATAACAGTGATATGATCGGCACACAACCATTAGTAACAGTAACATAATCGAC
* * *
15357372 ATAAAGCCATCAGTAGCAGTGATATGATCGA
66 ACAAAGCCATCAGTAACAGTGATATGACCGA
* * * * *
15357403 CACACAGCCATCAATAACAGTGAAATGATCGGCACACAACCATTAGTAACGGTAATATAATCGAT
1 CACAAAGCCATCAATAACAGTGATATGATCGGCACACAACCATTAGTAACAGTAACATAATCGAC
*
15357468 ACAAAGCCATCAGTAACGGT-ACTATGACCGA
66 ACAAAGCCATCAGTAACAGTGA-TATGACCGA
* * *
15357499 CACAAAGCCATCAGTAACGGT-ACTATGACCGGCACA
1 CACAAAGCCATCAATAACAGTGA-TATGATCGGCACA
15357535 AAGCCATCAG
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
95 2 0.02
96 109 0.98
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (96 bp):
CACAAAGCCATCAATAACAGTGATATGATCGGCACACAACCATTAGTAACAGTAACATAATCGAC
ACAAAGCCATCAGTAACAGTGATATGACCGA
Found at i:15357544 original size:32 final size:33
Alignment explanation
Indices: 15357307--15357546 Score: 199
Period size: 32 Copynumber: 7.5 Consensus size: 33
15357297 ATGTGATTGG
* ** *
15357307 CACAAAGCCATCAATAGTAGTGA-TATGATCGG
1 CACAAAGCCATCAGTAACAGTGACTATGATCGA
* * * *
15357339 TACACAGCCATTAGTAACAGTAAC-ATGATCGA
1 CACAAAGCCATCAGTAACAGTGACTATGATCGA
* *
15357371 CATAAAGCCATCAGTAGCAGTGA-TATGATCGA
1 CACAAAGCCATCAGTAACAGTGACTATGATCGA
* * * *
15357403 CACACAGCCATCAATAACAGTGA-AATGATCGG
1 CACAAAGCCATCAGTAACAGTGACTATGATCGA
* * * *
15357435 CACACAA-CCATTAGTAACGGT-AATATAATCGA
1 CACA-AAGCCATCAGTAACAGTGACTATGATCGA
* * *
15357467 TACAAAGCCATCAGTAACGGT-ACTATGACCGA
1 CACAAAGCCATCAGTAACAGTGACTATGATCGA
* * *
15357499 CACAAAGCCATCAGTAACGGT-ACTATGACCGG
1 CACAAAGCCATCAGTAACAGTGACTATGATCGA
15357531 CACAAAGCCATCAGTA
1 CACAAAGCCATCAGTA
15357547 GTATCGCAGC
Statistics
Matches: 169, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
31 3 0.02
32 165 0.98
33 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (33 bp):
CACAAAGCCATCAGTAACAGTGACTATGATCGA
Found at i:15357575 original size:26 final size:26
Alignment explanation
Indices: 15357546--15357602 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
15357536 AGCCATCAGT
15357546 AGTATCGCAGCAAAGCTGCCAGCAAC
1 AGTATCGCAGCAAAGCTGCCAGCAAC
* * * *
15357572 AGTATTGTAGCAAAGCTGCCAGTAAT
1 AGTATCGCAGCAAAGCTGCCAGCAAC
15357598 AGTAT
1 AGTAT
15357603 ATGTGGCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
AGTATCGCAGCAAAGCTGCCAGCAAC
Found at i:15357620 original size:27 final size:27
Alignment explanation
Indices: 15357564--15357653 Score: 80
Period size: 27 Copynumber: 3.4 Consensus size: 27
15357554 AGCAAAGCTG
* * * **
15357564 CCAGCAACAGT-ATTGTAGCAAAGCTG
1 CCAGTAACAGTGATTGTGGCAGAGCCA
*
15357590 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
15357617 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
15357644 CCAGT-ACAGT
1 CCAGTAACAGT
15357654 CGTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
26 18 0.33
27 32 0.59
28 4 0.07
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:15357879 original size:27 final size:27
Alignment explanation
Indices: 15357840--15358128 Score: 164
Period size: 27 Copynumber: 10.7 Consensus size: 27
15357830 CCACCAGGGC
*
15357840 ATTATAGTCATTTTACCCTATAGAGGT
1 ATTACAGTCATTTTACCCTATAGAGGT
* * *
15357867 ATTACAGTTATTTTACCCTATAGGGGC
1 ATTACAGTCATTTTACCCTATAGAGGT
* * *
15357894 ATTACGGTGATTTTACCCTATAGGGGT
1 ATTACAGTCATTTTACCCTATAGAGGT
* * *
15357921 ATTATAGTCATTTTACCCTATTGAGAT
1 ATTACAGTCATTTTACCCTATAGAGGT
*** * * *
15357948 ATTTTGGT-ATTCTACCCTACAGGGGT
1 ATTACAGTCATTTTACCCTATAGAGGT
* * * *
15357974 ATTTCGGTCATTTTACCCCATCGAGGGT
1 ATTACAGTCATTTTACCCTATAGA-GGT
* *
15358002 ATTTC-GATCATTTTACCC-ATCGAGGGT
1 ATTACAG-TCATTTTACCCTATAGA-GGT
* *
15358029 ATTTC-GATCATTTTACCC-ATCGAGGGT
1 ATTACAG-TCATTTTACCCTATAGA-GGT
* * *
15358056 ATTTCAGTTATTTTA-CCTATCGAGGGT
1 ATTACAGTCATTTTACCCTATAGA-GGT
* *
15358083 ATTTC-GATCATTTTACCCT-TCGAGGGT
1 ATTACAG-TCATTTTACCCTATAGA-GGT
*
15358110 ATTTC-GATCATTTTACCCT
1 ATTACAG-TCATTTTACCCT
15358129 TCAGGGGTGT
Statistics
Matches: 227, Mismatches: 28, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
26 23 0.10
27 181 0.80
28 23 0.10
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (27 bp):
ATTACAGTCATTTTACCCTATAGAGGT
Found at i:15358002 original size:81 final size:81
Alignment explanation
Indices: 15357847--15358142 Score: 264
Period size: 81 Copynumber: 3.6 Consensus size: 81
15357837 GGCATTATAG
* * * * * *
15357847 TCATTTTACCCTATAGAGGTATTACAGTTATTTTACCCTATAGGGGCATTACGGTGATTTTACCC
1 TCATTTTACCCTATAGAGGTATT-TAGATATTTTACCCTACAGGGGTATTTCGGTCATTTTACCC
*
15357912 TATAG-GGGTATTATAG-
65 TATCGAGGGTATT-TAGA
* * * * * *
15357928 TCATTTTACCCTATTGAGATATTTTGGTATTCTACCCTACAGGGGTATTTCGGTCATTTTACCCC
1 TCATTTTACCCTATAGAGGTATTTAGATATTTTACCCTACAGGGGTATTTCGGTCATTTTACCCT
*
15357993 ATCGAGGGTATTTCGA
66 ATCGAGGGTATTTAGA
* * * *
15358009 TCATTTTACCC-ATCGAGGGTATTTCGATCATTTTACCC-ATC-GAGGGTATTTCAGTTATTTTA
1 TCATTTTACCCTATAGA-GGTATTTAGAT-ATTTTACCCTA-CAG-GGGTATTTCGGTCATTTTA
*
15358071 -CCTATCGAGGGTATTTCGA
62 CCCTATCGAGGGTATTTAGA
* * * *
15358090 TCATTTTACCCT-TCGAGGGTATTTCGATCATTTTACCCTTCAGGGGTGTTTCG
1 TCATTTTACCCTATAGA-GGTATTTAGAT-ATTTTACCCTACAGGGGTATTTCG
15358143 ATCTAGATAT
Statistics
Matches: 182, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
80 42 0.23
81 113 0.62
82 27 0.15
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.40
Consensus pattern (81 bp):
TCATTTTACCCTATAGAGGTATTTAGATATTTTACCCTACAGGGGTATTTCGGTCATTTTACCCT
ATCGAGGGTATTTAGA
Found at i:15358129 original size:27 final size:27
Alignment explanation
Indices: 15357970--15358145 Score: 257
Period size: 27 Copynumber: 6.5 Consensus size: 27
15357960 TACCCTACAG
*
15357970 GGGTATTTCGGTCATTTTACCCCATCGA
1 GGGTATTTCGATCATTTTA-CCCATCGA
15357998 GGGTATTTCGATCATTTTACCCATCGA
1 GGGTATTTCGATCATTTTACCCATCGA
15358025 GGGTATTTCGATCATTTTACCCATCGA
1 GGGTATTTCGATCATTTTACCCATCGA
* *
15358052 GGGTATTTC-AGTTATTTTACCTATCGA
1 GGGTATTTCGA-TCATTTTACCCATCGA
*
15358079 GGGTATTTCGATCATTTTACCCTTCGA
1 GGGTATTTCGATCATTTTACCCATCGA
*
15358106 GGGTATTTCGATCATTTTACCCTTC-A
1 GGGTATTTCGATCATTTTACCCATCGA
*
15358132 GGGGTGTTTCGATC
1 -GGGTATTTCGATC
15358146 TAGATATCGA
Statistics
Matches: 138, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
26 2 0.01
27 117 0.85
28 19 0.14
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATCATTTTACCCATCGA
Found at i:15361767 original size:24 final size:24
Alignment explanation
Indices: 15361721--15361768 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15361711 GATTGATTTG
**
15361721 ATATGCATTATCGTTAATGAAATT
1 ATATGCATTATCGTTAACAAAATT
*
15361745 ATATGGATTATCGTTAACAAAATT
1 ATATGCATTATCGTTAACAAAATT
15361769 GAGTACTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (24 bp):
ATATGCATTATCGTTAACAAAATT
Found at i:15366389 original size:368 final size:369
Alignment explanation
Indices: 15365712--15366452 Score: 1094
Period size: 368 Copynumber: 2.0 Consensus size: 369
15365702 GATTTAACTC
* *
15365712 AAAGGAATCAAGGATATCATACGCGGGTAACACATACATGACGAGGTCATTGGACAAAGTAGTTA
1 AAAGGAATCAAGGATATCATACGCGGGTAACACACACATGACGAGGTCATTGGACAAAGCAGTTA
* *
15365777 GATGAATTGTTTTCGTAAAGATTATACAATGAGGAGTTTTCAATCATGGTACTTCTTGTGGACTG
66 GATGAATTGTTTTCGTAAAGATTATACAATAAGGAGTTTTCAATCATGGTACTTCTCGTGGACTG
* * * * * **
15365842 ACTCCATGATTAAGTAATTGTGAATTATCAGAATGACGCTTCTGGACATAATTGCAATCACTAGA
131 ACTCAATAATTAAGTAATTGCGAATTATCAGAACGACACTTCTAAACATAATTGCAATCACTAGA
* * *
15365907 GCCTAATTGTATATGTCTTATTAGTCCCTCCGCTTGCTCAACAAAAGCTCGATCGGATTGCATTT
196 GCCTAATTATATATGTCTTATTAGTCCCTCCGCTAGCTCAACAAAAGCTCGATCGGACTGCATTT
* *
15365972 GAATTAGAAGAAAATTCTACGACTTTAGGAATAATTTAATTGAGTCAATTTATTCAAT-TTGAAT
261 GAATTAGAAGAAAATTCCACGACTTTAGGAATAATTTAATTGAGTCAATTTATTCAATGTGGAAT
* *
15366036 TAAATTAGGTGGTCGTGAGAATTATTCAACTAGAGAATTTTATT
326 TAAATTAGGTGGTCGTGAAAATTATTCAACTAGAGAATTTGATT
* *
15366080 AAAGGAATCAAGGATATCATATGCGGGTAACACACACATGACGAGGTCATTGGACAGAGCAGTTA
1 AAAGGAATCAAGGATATCATACGCGGGTAACACACACATGACGAGGTCATTGGACAAAGCAGTTA
* * * * *
15366145 GATGAATTGCTTTT-GTAAAGATTATGCAATAAGGATTTTTTAGTCATGGTACTTCTCGTGGATT
66 GATGAATTG-TTTTCGTAAAGATTATACAATAAGGAGTTTTCAATCATGGTACTTCTCGTGGACT
*
15366209 GACTCAATAATTAAGTAATTGCGAATTATC-GAAACGATACTTCTAAACATAATTGCAATCACTA
130 GACTCAATAATTAAGTAATTGCGAATTATCAG-AACGACACTTCTAAACATAATTGCAATCACTA
* * * *
15366273 GAGCCTAATTATATATGTCTTATTGGTCCCTCTGCTAGCTTAACAAAAGCTTGATCGGACTGCAT
194 GAGCCTAATTATATATGTCTTATTAGTCCCTCCGCTAGCTCAACAAAAGCTCGATCGGACTGCAT
* * * *
15366338 TTG-ATTCGGAAGAAAATTCCATGACTTTGGGAATAATTTAATTGAGTCAATTTATTCGATGTGG
259 TTGAATT-AGAAGAAAATTCCACGACTTTAGGAATAATTTAATTGAGTCAATTTATTCAATGTGG
* * *
15366402 AATTAAATTAGGTGGTTGTGAAAATTGTTCTACTAGAGAATTTGATT
323 AATTAAATTAGGTGGTCGTGAAAATTATTCAACTAGAGAATTTGATT
15366449 AAAG
1 AAAG
15366453 AATTTTCTTG
Statistics
Matches: 332, Mismatches: 37, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
367 4 0.01
368 276 0.83
369 52 0.16
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (369 bp):
AAAGGAATCAAGGATATCATACGCGGGTAACACACACATGACGAGGTCATTGGACAAAGCAGTTA
GATGAATTGTTTTCGTAAAGATTATACAATAAGGAGTTTTCAATCATGGTACTTCTCGTGGACTG
ACTCAATAATTAAGTAATTGCGAATTATCAGAACGACACTTCTAAACATAATTGCAATCACTAGA
GCCTAATTATATATGTCTTATTAGTCCCTCCGCTAGCTCAACAAAAGCTCGATCGGACTGCATTT
GAATTAGAAGAAAATTCCACGACTTTAGGAATAATTTAATTGAGTCAATTTATTCAATGTGGAAT
TAAATTAGGTGGTCGTGAAAATTATTCAACTAGAGAATTTGATT
Found at i:15367121 original size:22 final size:22
Alignment explanation
Indices: 15367093--15367135 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15367083 AATATGATTT
15367093 AATATTAAATT-AATATAATATA
1 AATATTAAATTAAAT-TAATATA
*
15367115 AATATTAGATTAAATTAATAT
1 AATATTAAATTAAATTAATAT
15367136 TAAAGTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AATATTAAATTAAATTAATATA
Found at i:15367139 original size:11 final size:12
Alignment explanation
Indices: 15367091--15367138 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
15367081 TTAATATGAT
15367091 TTAATATTAA-A
1 TTAATATTAATA
15367102 TTAATA-TAATA
1 TTAATATTAATA
* *
15367113 TAAATATT-AGA
1 TTAATATTAATA
15367124 TTAA-ATTAATA
1 TTAATATTAATA
15367135 TTAA
1 TTAA
15367139 AGTGATTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
10 6 0.20
11 23 0.77
12 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (12 bp):
TTAATATTAATA
Found at i:15374667 original size:17 final size:17
Alignment explanation
Indices: 15374645--15374679 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15374635 ACCAAAAAAG
*
15374645 AATGTAAAAGCTGTAAT
1 AATGTAAAAGCTATAAT
15374662 AATGTAAAAGCTATAAT
1 AATGTAAAAGCTATAAT
15374679 A
1 A
15374680 GATTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (17 bp):
AATGTAAAAGCTATAAT
Found at i:15379628 original size:7 final size:7
Alignment explanation
Indices: 15379618--15379642 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15379608 ATATTGAATT
15379618 ATTTATC
1 ATTTATC
15379625 ATTTATC
1 ATTTATC
15379632 ATTTATC
1 ATTTATC
15379639 ATTT
1 ATTT
15379643 GGCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTATC
Found at i:15385688 original size:20 final size:20
Alignment explanation
Indices: 15385660--15385776 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
15385650 TTGTACGGGA
*
15385660 TTTGCACTTCGGTGCTCCTG
1 TTTGCACTTCGGTGCCCCTG
*
15385680 TTTGTACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* * * * * *
15385700 TATACACTTCAGTGTCTCTA
1 TTTGCACTTCGGTGCCCCTG
* *
15385720 TTTGCACTACGATGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
*
15385740 TTTGCACATT-TGTGCCCCTG
1 TTTGCAC-TTCGGTGCCCCTG
* * *
15385760 TCTACACTTTGGTGCCC
1 TTTGCACTTCGGTGCCC
15385777 TTGTCATGCA
Statistics
Matches: 72, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
19 2 0.03
20 69 0.96
21 1 0.01
ACGTcount: A:0.12, C:0.31, G:0.20, T:0.38
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:15388295 original size:22 final size:22
Alignment explanation
Indices: 15388269--15388324 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
15388259 ACATAAACAT
15388269 TCAATTATATTGACACAATCAA
1 TCAATTATATTGACACAATCAA
** *
15388291 TCAATTATATTGGTATAATCAA
1 TCAATTATATTGACACAATCAA
*
15388313 TAAATTATATTG
1 TCAATTATATTG
15388325 CGTAATACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (22 bp):
TCAATTATATTGACACAATCAA
Found at i:15390085 original size:20 final size:21
Alignment explanation
Indices: 15390062--15390100 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
15390052 TAAATTTCAA
*
15390062 TTTAACCCAAAA-TATTTATT
1 TTTAACCAAAAAGTATTTATT
*
15390082 TTTATCCAAAAAGTATTTA
1 TTTAACCAAAAAGTATTTA
15390101 AAACCATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.44
Consensus pattern (21 bp):
TTTAACCAAAAAGTATTTATT
Found at i:15397008 original size:31 final size:31
Alignment explanation
Indices: 15396973--15397035 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
15396963 TTTGAACCAA
15396973 TAAGCTGAGGAGTTTTGGGTGTCTTGAAGGT
1 TAAGCTGAGGAGTTTTGGGTGTCTTGAAGGT
15397004 TAAGCTGAGGAGTTTTGGGTGTCTTGAAGGT
1 TAAGCTGAGGAGTTTTGGGTGTCTTGAAGGT
15397035 T
1 T
15397036 GAGAATTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.06, G:0.38, T:0.37
Consensus pattern (31 bp):
TAAGCTGAGGAGTTTTGGGTGTCTTGAAGGT
Found at i:15403978 original size:11 final size:10
Alignment explanation
Indices: 15403962--15404000 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
15403952 TAAGTGATTG
15403962 AAAAAAATTC
1 AAAAAAATTC
15403972 AAAAAAATTC
1 AAAAAAATTC
15403982 -AAAAAATTC
1 AAAAAAATTC
15403991 GAAAAAAATT
1 -AAAAAAATT
15404001 TGAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.33
10 10 0.37
11 8 0.30
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.21
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:15403987 original size:19 final size:20
Alignment explanation
Indices: 15403963--15404000 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
15403953 AAGTGATTGA
15403963 AAAAAATTC-AAAAAAATTC
1 AAAAAATTCGAAAAAAATTC
15403982 AAAAAATTCGAAAAAAATT
1 AAAAAATTCGAAAAAAATT
15404001 TGAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.68, C:0.08, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAAAATTCGAAAAAAATTC
Found at i:15404005 original size:11 final size:10
Alignment explanation
Indices: 15403958--15404008 Score: 59
Period size: 11 Copynumber: 5.0 Consensus size: 10
15403948 GAAGTAAGTG
15403958 ATTGAAAAAA
1 ATTGAAAAAA
*
15403968 ATTCAAAAAA
1 ATTGAAAAAA
*
15403978 ATT-CAAAAA
1 ATTGAAAAAA
15403987 ATTCGAAAAAA
1 ATT-GAAAAAA
15403998 ATTTGAAAAAA
1 A-TTGAAAAAA
15404009 TAAAAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 8 0.23
10 12 0.34
11 13 0.37
12 2 0.06
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.22
Consensus pattern (10 bp):
ATTGAAAAAA
Found at i:15404070 original size:26 final size:25
Alignment explanation
Indices: 15404041--15404089 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
15404031 TAAAATGGTT
15404041 GAATGTATTAAAAAAAAAGAAGTTAC
1 GAAT-TATTAAAAAAAAAGAAGTTAC
* *
15404067 GAATTTTTAAAAAAAAGGAAGTT
1 GAATTATTAAAAAAAAAGAAGTT
15404090 GTTTGAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.55, C:0.02, G:0.16, T:0.27
Consensus pattern (25 bp):
GAATTATTAAAAAAAAAGAAGTTAC
Found at i:15405081 original size:6 final size:6
Alignment explanation
Indices: 15405070--15405124 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
15405060 GTGTGAGCGA
* *
15405070 GAAAAT GAAAAT GAAAAT GAAATT G-AAA- GAACA- GAAAAT GAAAAT
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
15405115 GAAAAT GAAA
1 GAAAAT GAAA
15405125 GAGAGTTTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 1 0.02
5 8 0.19
6 34 0.79
ACGTcount: A:0.65, C:0.02, G:0.18, T:0.15
Consensus pattern (6 bp):
GAAAAT
Found at i:15410104 original size:25 final size:25
Alignment explanation
Indices: 15410075--15410209 Score: 144
Period size: 25 Copynumber: 5.4 Consensus size: 25
15410065 ATATTCTCAT
* *
15410075 ACGAGCTATAATTTGGTATGCTCAC
1 ACGAGCTATAAATTGGTATGCTCTC
* * * * *
15410100 TCGAGCTGTAGATCGATATGCTCTC
1 ACGAGCTATAAATTGGTATGCTCTC
****
15410125 ACGAGCTATAAATCAAAATGCTCTC
1 ACGAGCTATAAATTGGTATGCTCTC
15410150 ACGAGCTATAAATTGGTATGCTCTC
1 ACGAGCTATAAATTGGTATGCTCTC
* * *
15410175 ATGAGCTATAAATTAGTATGCTCTG
1 ACGAGCTATAAATTGGTATGCTCTC
15410200 ACGAGCTATA
1 ACGAGCTATA
15410210 GAGTATCCGC
Statistics
Matches: 90, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 90 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (25 bp):
ACGAGCTATAAATTGGTATGCTCTC
Found at i:15412113 original size:28 final size:29
Alignment explanation
Indices: 15412042--15412184 Score: 139
Period size: 29 Copynumber: 5.0 Consensus size: 29
15412032 TCCACTATCG
* *
15412042 ACTACGAAAAGGGATGGTGATGGCCATCA
1 ACTATGAAAAGGGATGGTGATGACCATCA
*
15412071 ACTATGAAAAAGGAT-GTGATGACCATCGA
1 ACTATGAAAAGGGATGGTGATGACCATC-A
** * * ** **
15412100 A-TATTTAAAGGGATAGT-TTCGATTATTG
1 ACTATGAAAAGGGATGGTGAT-GACCATCA
*
15412128 ACTATGAAAAGGGACGGTGATGACCATCA
1 ACTATGAAAAGGGATGGTGATGACCATCA
15412157 ACTATGAAAAGGGATGGTGATGACCATC
1 ACTATGAAAAGGGATGGTGATGACCATC
15412185 GATTAATGAA
Statistics
Matches: 88, Mismatches: 21, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
28 23 0.26
29 64 0.73
30 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (29 bp):
ACTATGAAAAGGGATGGTGATGACCATCA
Found at i:15412165 original size:86 final size:87
Alignment explanation
Indices: 15412020--15412186 Score: 264
Period size: 86 Copynumber: 1.9 Consensus size: 87
15412010 CAATTGAAGA
* *
15412020 AAAGGGATAGTTTCCACTATCGACTACGAAAAGGGATGGTGATGGCCATCAACTATGAAAAAGGA
1 AAAGGGATAGTTTCCACTATCGACTACGAAAAGGGACGGTGATGACCATCAACTATGAAAAAGGA
15412085 T-GTGATGACCATCGAATATTT
66 TGGTGATGACCATCGAATATTT
* * * * *
15412106 AAAGGGATAGTTTCGATTATTGACTATGAAAAGGGACGGTGATGACCATCAACTATGAAAAGGGA
1 AAAGGGATAGTTTCCACTATCGACTACGAAAAGGGACGGTGATGACCATCAACTATGAAAAAGGA
15412171 TGGTGATGACCATCGA
66 TGGTGATGACCATCGA
15412187 TTAATGAAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 59 0.81
87 14 0.19
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (87 bp):
AAAGGGATAGTTTCCACTATCGACTACGAAAAGGGACGGTGATGACCATCAACTATGAAAAAGGA
TGGTGATGACCATCGAATATTT
Found at i:15414580 original size:8 final size:8
Alignment explanation
Indices: 15414567--15414599 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
15414557 ATTTGTGTGT
15414567 TCAATTTC
1 TCAATTTC
15414575 TCAATTTC
1 TCAATTTC
15414583 TCAATTTC
1 TCAATTTC
15414591 TCAATTTC
1 TCAATTTC
15414599 T
1 T
15414600 TTTGCTATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCAATTTC
Found at i:15416534 original size:8 final size:8
Alignment explanation
Indices: 15416521--15416545 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15416511 ATTTGTGTGT
15416521 TCAATTTC
1 TCAATTTC
15416529 TCAATTTC
1 TCAATTTC
15416537 TCAATTTC
1 TCAATTTC
15416545 T
1 T
15416546 TTTACTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCAATTTC
Found at i:15418019 original size:11 final size:11
Alignment explanation
Indices: 15418005--15418034 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15417995 GGTCCAATGA
15418005 TGGTTCAACGG
1 TGGTTCAACGG
*
15418016 TGGTTCAGCGG
1 TGGTTCAACGG
15418027 TGGTTCAA
1 TGGTTCAA
15418035 TGAGGTAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.37, T:0.30
Consensus pattern (11 bp):
TGGTTCAACGG
Found at i:15425868 original size:24 final size:25
Alignment explanation
Indices: 15425828--15425874 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
15425818 GGACTTTATC
*
15425828 TTTATTTTTCTTGTTGT-TCAATCT
1 TTTAATTTTCTTGTTGTGTCAATCT
15425852 TTTAATTTTC-TGCTTGTGTCAAT
1 TTTAATTTTCTTG-TTGTGTCAAT
15425875 TTCAATATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 13 0.65
25 5 0.25
ACGTcount: A:0.15, C:0.13, G:0.11, T:0.62
Consensus pattern (25 bp):
TTTAATTTTCTTGTTGTGTCAATCT
Found at i:15433200 original size:12 final size:12
Alignment explanation
Indices: 15433175--15433213 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
15433165 TGCTATAAAA
* *
15433175 TTTTAATTTTAG
1 TTTTAGTTTCAG
15433187 TTTTAGTTTCAG
1 TTTTAGTTTCAG
*
15433199 TTTGAGTTTCAG
1 TTTTAGTTTCAG
15433211 TTT
1 TTT
15433214 CATATAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.18, C:0.05, G:0.15, T:0.62
Consensus pattern (12 bp):
TTTTAGTTTCAG
Found at i:15436630 original size:23 final size:22
Alignment explanation
Indices: 15436603--15436645 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
15436593 GAAATAGATT
*
15436603 AATTTAAAATATATTTATTATAA
1 AATTTAAAATA-ATTAATTATAA
15436626 AATTTAAAATAATTAATTAT
1 AATTTAAAATAATTAATTAT
15436646 TAATAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTTAAAATAATTAATTATAA
Found at i:15436728 original size:14 final size:14
Alignment explanation
Indices: 15436711--15436747 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
15436701 TAATAGAAAA
15436711 ATTAAAATGTGACC
1 ATTAAAATGTGACC
15436725 ATTAAAATGTGACC
1 ATTAAAATGTGACC
15436739 ATTAAAATG
1 ATTAAAATG
15436748 AGAAAGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (14 bp):
ATTAAAATGTGACC
Found at i:15443145 original size:51 final size:51
Alignment explanation
Indices: 15443069--15443183 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
15443059 ACAGTGAATT
** *
15443069 TTATTTCCCTGGCGTTGCAGTGGAAC-GAATTAAAGCTGAAGGCAGCAAATC
1 TTATTTCCCTGGCGTTGCAACGGAACAG-ATTAAAGCTGAAGGCAACAAATC
* * * *
15443120 TTATTTCCCTGGCGTTGTAACGGAACAGATTAAAGTTGAATGCAACGAATC
1 TTATTTCCCTGGCGTTGCAACGGAACAGATTAAAGCTGAAGGCAACAAATC
* *
15443171 TCATCTCCCTGGC
1 TTATTTCCCTGGC
15443184 ATTTAAAATT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 53 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (51 bp):
TTATTTCCCTGGCGTTGCAACGGAACAGATTAAAGCTGAAGGCAACAAATC
Found at i:15446495 original size:16 final size:16
Alignment explanation
Indices: 15446470--15446503 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15446460 TGTGTTTTGC
* *
15446470 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
15446486 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
15446502 TT
1 TT
15446504 CATCATAAAA
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:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:15451592 original size:15 final size:15
Alignment explanation
Indices: 15451572--15451603 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
15451562 TATTATTGCG
15451572 GCCGTAACCAATAAT
1 GCCGTAACCAATAAT
15451587 GCCGTAACCAATAAT
1 GCCGTAACCAATAAT
15451602 GC
1 GC
15451604 ACCGTACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.19
Consensus pattern (15 bp):
GCCGTAACCAATAAT
Found at i:15457433 original size:132 final size:132
Alignment explanation
Indices: 15457196--15457954 Score: 1078
Period size: 132 Copynumber: 5.8 Consensus size: 132
15457186 AGATAACAAG
* * * * *
15457196 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAATATTGTAGATCCT-ATCTCTCTAAGCAGCA
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGAT-CTGGTCTCCCTAAGCAGTA
* *
15457260 GCGGAGCAGATCGAAGACGGTGAATCTTATCTTCTCAAGGTAGTAGGAAAGCAGATTTAAGCCAC
65 GCGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAC
15457325 TAA
130 TAA
15457328 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAG
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAG
* * *
15457393 CGAAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACA
66 CGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACT
15457458 AA
131 AA
*
15457460 TCCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAG
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAG
* *
15457525 CGGAGCAGATCGAAGAAGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACT
66 CGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACT
15457590 AA
131 AA
15457592 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAG
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAG
* * * * *
15457657 CGGAGCAGATCGAAGACAGTGAAACTTATCTTCCCAAGGTAGTAGGGAAGCATATTTAGGCTACT
66 CGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACT
15457722 AA
131 AA
* *
15457724 T-CTCATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATGTAGATCTTGTCTCCCTAAGCAGTA
1 TCCT-ATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTA
* ** ** * * * * * *
15457788 GTGGAATAGATAAAAAAATGATAAATTTTATCTTCCCAATGTAGTAGGGAAGCAGATTTAAGCCA
65 GCGGAGCAGAT-CGAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
*
15457853 CCAA
129 CTAA
* * * *
15457857 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCAT-GTCTCCTTGAGCAGT-
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATC-TGGTCTCCCTAAGCAGTA
** * * *
15457920 GTAGAGCGGATCGAAGACAGTGAATTTTAT-TTCCC
65 GCGGAGCAGATCGAAGACGGTGAATCTTATCTTCCC
15457955 TGGCGTTGCA
Statistics
Matches: 563, Mismatches: 59, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
130 5 0.01
131 16 0.03
132 443 0.79
133 96 0.17
134 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (132 bp):
TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAG
CGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACT
AA
Found at i:15457540 original size:44 final size:44
Alignment explanation
Indices: 15457492--15457672 Score: 122
Period size: 44 Copynumber: 4.1 Consensus size: 44
15457482 GGAGTAGGTT
*
15457492 GAAGAATGTAGATCTGGTCTCCCTAAGCAGTAGCGGAGCAGATC
1 GAAGAATGTAGATCTGATCTCCCTAAGCAGTAGCGGAGCAGATC
* * * * *
15457536 GAAGAAGGT-GAATCTTATCTTCCC-AAGGTAGTAG-GGAAGTAGATT
1 GAAGAATGTAG-ATCTGATC-TCCCTAA-GCAGTAGCGG-AGCAGATC
* * * * * * * * *
15457581 TAAGCCA-CTA-ATCCT-ATCTCCCTGAGCAGCAGTGGAGTAGGTT
1 GAAG-AATGTAGAT-CTGATCTCCCTAAGCAGTAGCGGAGCAGATC
*
15457624 GAAGAATGTAGATCTGGTCTCCCTAAGCAGTAGCGGAGCAGATC
1 GAAGAATGTAGATCTGATCTCCCTAAGCAGTAGCGGAGCAGATC
15457668 GAAGA
1 GAAGA
15457673 CAGTGAAACT
Statistics
Matches: 102, Mismatches: 23, Indels: 24
0.68 0.15 0.16
Matches are distributed among these distances:
42 1 0.01
43 24 0.24
44 54 0.53
45 22 0.22
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (44 bp):
GAAGAATGTAGATCTGATCTCCCTAAGCAGTAGCGGAGCAGATC
Found at i:15465694 original size:30 final size:30
Alignment explanation
Indices: 15465660--15465730 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
15465650 CCTCGTGTTT
15465660 ATCTTCATCTCCACCGTCATCTTCAACCTC
1 ATCTTCATCTCCACCGTCATCTTCAACCTC
* * *
15465690 ATCTTCATCTTCACTGTCGTCTTCAACCTC
1 ATCTTCATCTCCACCGTCATCTTCAACCTC
15465720 ATCTTCATCTC
1 ATCTTCATCTC
15465731 TACCCTCGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.18, C:0.39, G:0.04, T:0.38
Consensus pattern (30 bp):
ATCTTCATCTCCACCGTCATCTTCAACCTC
Found at i:15465744 original size:30 final size:30
Alignment explanation
Indices: 15465660--15465744 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
15465650 CCTCGTGTTT
* *
15465660 ATCTTCATCTCCACCGTCATCTTCAACCTC
1 ATCTTCATCTCTACCGTCGTCTTCAACCTC
*
15465690 ATCTTCATCT-TCACTGTCGTCTTCAACCTC
1 ATCTTCATCTCT-ACCGTCGTCTTCAACCTC
* *
15465720 ATCTTCATCTCTACCCTCGGCTTCA
1 ATCTTCATCTCTACCGTCGTCTTCA
15465745 TCTTCGTCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 46 0.98
31 1 0.02
ACGTcount: A:0.18, C:0.40, G:0.06, T:0.36
Consensus pattern (30 bp):
ATCTTCATCTCTACCGTCGTCTTCAACCTC
Found at i:15472958 original size:21 final size:20
Alignment explanation
Indices: 15472905--15472964 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
15472895 TTGAAGGTAT
*
15472905 GTTACATAATTCTGTTTTTTTT
1 GTTACATAATT-TG-TTTTTTA
*
15472927 TTTACA-AATTTGTTTTTTA
1 GTTACATAATTTGTTTTTTA
15472946 GTTACATATATTTGTTTTT
1 GTTACATA-ATTTGTTTTT
15472965 AATATTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 11 0.33
20 3 0.09
21 14 0.42
22 5 0.15
ACGTcount: A:0.22, C:0.07, G:0.08, T:0.63
Consensus pattern (20 bp):
GTTACATAATTTGTTTTTTA
Found at i:15481256 original size:13 final size:13
Alignment explanation
Indices: 15481238--15481262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15481228 TTATAATTAT
15481238 AATATTATTTTTA
1 AATATTATTTTTA
15481251 AATATTATTTTT
1 AATATTATTTTT
15481263 TATGCCGGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AATATTATTTTTA
Found at i:15482098 original size:43 final size:45
Alignment explanation
Indices: 15482031--15482114 Score: 136
Period size: 43 Copynumber: 1.9 Consensus size: 45
15482021 TCCTCTGAAC
*
15482031 TATACAAATTTTTTTTATCTCTAATACCCTCCCATTTAATTGATT
1 TATACAAATTTTTTATATCTCTAATACCCTCCCATTTAATTGATT
*
15482076 TATA-AAATTTTTTAT-TCTCTAATACCCTTCCATTTAATT
1 TATACAAATTTTTTATATCTCTAATACCCTCCCATTTAATT
15482115 TCACTACTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 23 0.62
44 10 0.27
45 4 0.11
ACGTcount: A:0.30, C:0.19, G:0.01, T:0.50
Consensus pattern (45 bp):
TATACAAATTTTTTATATCTCTAATACCCTCCCATTTAATTGATT
Found at i:15483606 original size:3 final size:3
Alignment explanation
Indices: 15483598--15483638 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
15483588 ATGGGCTGTT
15483598 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15483639 GTTGTTGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15488346 original size:41 final size:41
Alignment explanation
Indices: 15488244--15488346 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
15488234 ACCGGCTTTT
* * * * *
15488244 AGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
* *
15488285 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
15488326 AGCCTGCTAGACGTAAAGTCT
1 AGCCTGCTAGACGTAAAGTCT
15488347 CTATTACATT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
Found at i:15488575 original size:2 final size:2
Alignment explanation
Indices: 15488568--15488593 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15488558 ATAAAAGGAC
15488568 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
15488594 GTAAACATGC
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
Done.