Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 134 of 444
Found at i:35293408 original size:40 final size:40
Alignment explanation
Indices: 35293364--35293444 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
35293354 GGGTAGAAAG
35293364 TAAGTTACACCATGGTTGGTTTGTGGTGATTTTAATGAGA
1 TAAGTTACACCATGGTTGGTTTGTGGTGATTTTAATGAGA
35293404 TAAGTTACACCATGGTTGGTTTGTGGTGATTTTAATGAGA
1 TAAGTTACACCATGGTTGGTTTGTGGTGATTTTAATGAGA
35293444 T
1 T
35293445 TTTATTTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.41
Consensus pattern (40 bp):
TAAGTTACACCATGGTTGGTTTGTGGTGATTTTAATGAGA
Found at i:35296732 original size:41 final size:41
Alignment explanation
Indices: 35296687--35296804 Score: 96
Period size: 41 Copynumber: 3.1 Consensus size: 41
35296677 TGAAAGATAA
35296687 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * * * *
35296728 ATGTAG--A-----CAAGAGAG-TT--ACGTGAAAGATA-A
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35296758 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35296799 ATGTAG
1 ATGTAG
35296805 ACAAGAGAGC
Statistics
Matches: 52, Mismatches: 14, Indels: 22
0.59 0.16 0.25
Matches are distributed among these distances:
30 6 0.12
31 9 0.17
32 1 0.02
33 2 0.04
34 5 0.10
37 5 0.10
38 2 0.04
39 1 0.02
40 9 0.17
41 12 0.23
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:35296748 original size:71 final size:71
Alignment explanation
Indices: 35296655--35296818 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
35296645 GAGATGTATC
35296655 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35296720 AGGACA
66 AGGACA
*
35296726 CCATGTAGACAAGAGAGTTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35296791 AGGACA
66 AGGACA
35296797 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35296819 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:35305309 original size:17 final size:17
Alignment explanation
Indices: 35305287--35305323 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
35305277 TGCTAGAAAG
* *
35305287 TACAACATTTAATTTCC
1 TACAACAATTAATTCCC
35305304 TACAACAATTAATTCCC
1 TACAACAATTAATTCCC
35305321 TAC
1 TAC
35305324 TTAAAGCTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (17 bp):
TACAACAATTAATTCCC
Found at i:35310075 original size:46 final size:47
Alignment explanation
Indices: 35309938--35310203 Score: 158
Period size: 46 Copynumber: 5.7 Consensus size: 47
35309928 CCACATTATG
* * * * *
35309938 AGAGCTAGTGTACGACCATGTCTAAGACATGGCATCGGCATTGAGATG-
1 AGAGCCAGTGTAAGACCATGTCTAGGACAT-GAATCGGCA-CGAGATGT
* * * *
35309986 AGAGCTAGTGTAAGA-CATGTC-AGGGACATGCAA-AGACCTCGAGATGT
1 AGAGCCAGTGTAAGACCATGTCTA-GGACATG-AATCG-GCACGAGATGT
35310033 A-AGCCAGTGTAAGA-CATGTCTAGGACATGAATCGGCTACGAGATGT
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGAATCGGC-ACGAGATGT
* * * * *
35310079 ---GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGAATATGT
1 AGAGCCAGTGTAAGACCATGTCTAGGACAT-GAATCGGCACG-AGATGT
* * * * ** *
35310125 GAGAGCTAGTGTAAGACCATGTCTGGGACATG--GCGTCGACTTGATGG
1 -AGAGCCAGTGTAAGACCATGTCTAGGACATGAATCGGC-ACGAGATGT
*
35310172 ATGAGCTAGTGTAAGACCATGTCTAGGACATG
1 A-GAGCCAGTGTAAGACCATGTCTAGGACATG
35310204 GCATCGATAT
Statistics
Matches: 176, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
44 11 0.06
45 19 0.11
46 55 0.31
47 49 0.28
48 16 0.09
49 1 0.01
50 25 0.14
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACCATGTCTAGGACATGAATCGGCACGAGATGT
Found at i:35310201 original size:47 final size:47
Alignment explanation
Indices: 35309936--35310210 Score: 178
Period size: 47 Copynumber: 5.9 Consensus size: 47
35309926 GGCCACATTA
* ** * *
35309936 TGAGAGCTAGTGTACGACCATGTCTAAGACATGGCATCGGCATTGA-G
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAAT-ATG
* ** * *
35309983 ATGAGAGCTAGTGTAAGA-CATGTCAGGGACAT-GCAAAGACCTCGAGATG
1 -TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA---CAATATG
* * * * *
35310032 T-A-AGCCAGTGTAAGA-CATGTCTAGGACAT-GAATCGGC--TACG
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAATATG
* *
35310073 AGATGTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGAATATG
1 TGA-GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-AATATG
* *
35310124 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGAC-TTGATG
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAAT-ATG
*
35310171 -GATGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGA
1 TGA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA
35310211 TATTATACCA
Statistics
Matches: 177, Mismatches: 32, Indels: 37
0.72 0.13 0.15
Matches are distributed among these distances:
41 2 0.01
42 1 0.01
43 1 0.01
44 10 0.06
45 13 0.07
46 38 0.21
47 51 0.29
48 21 0.12
49 3 0.02
50 31 0.18
51 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAATATG
Found at i:35324797 original size:30 final size:30
Alignment explanation
Indices: 35324761--35324891 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
35324751 GACAAGATTG
* * * * *
35324761 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
35324791 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
35324819 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35324849 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35324878 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35324892 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:35324852 original size:58 final size:58
Alignment explanation
Indices: 35324761--35324891 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
35324751 GACAAGATTG
* * * * * *
35324761 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
35324819 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
35324878 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35324892 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:35329707 original size:28 final size:28
Alignment explanation
Indices: 35329638--35329738 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
35329628 GACAAGATTG
* * * *
35329638 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
35329668 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35329696 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
35329725 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35329739 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35337656 original size:28 final size:28
Alignment explanation
Indices: 35337587--35337687 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
35337577 GACAAGATTG
* * * *
35337587 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
35337617 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35337645 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
35337674 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35337688 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35353389 original size:20 final size:22
Alignment explanation
Indices: 35353364--35353419 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
35353354 TGAGGGGTTA
*
35353364 ACACGCCTATGTG-GAGG-GGC
1 ACACGCCTATGTGAAAGGAGGC
*
35353384 ACACGCCCATGTGAAAGGAGGC
1 ACACGCCTATGTGAAAGGAGGC
*
35353406 ACACGCCTGTGTGA
1 ACACGCCTATGTGA
35353420 CCTAGGGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.40
21 3 0.10
22 15 0.50
ACGTcount: A:0.25, C:0.27, G:0.34, T:0.14
Consensus pattern (22 bp):
ACACGCCTATGTGAAAGGAGGC
Found at i:35353409 original size:22 final size:20
Alignment explanation
Indices: 35353364--35353412 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
35353354 TGAGGGGTTA
* *
35353364 ACACGCCTATGTGGAGGGGC
1 ACACGCCCATGTGAAGGGGC
35353384 ACACGCCCATGTGAAAGGAGGC
1 ACACGCCCATGTG-AAGG-GGC
35353406 ACACGCC
1 ACACGCC
35353413 TGTGTGACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.48
21 3 0.12
22 10 0.40
ACGTcount: A:0.27, C:0.31, G:0.33, T:0.10
Consensus pattern (20 bp):
ACACGCCCATGTGAAGGGGC
Found at i:35354281 original size:6 final size:6
Alignment explanation
Indices: 35354265--35354314 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
35354255 TTAATACAAC
* * *
35354265 AAAAT- AAAATA AAAATA AGTAAGA CAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA AAAATA
35354313 AA
1 AA
35354315 TATCTAACCT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
5 5 0.14
6 29 0.78
7 3 0.08
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:35358096 original size:15 final size:14
Alignment explanation
Indices: 35358074--35358104 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
35358064 AATACAACAA
35358074 AATAAAATAAAAAT
1 AATAAAATAAAAAT
35358088 AATACAAATAAAAAT
1 AATA-AAATAAAAAT
35358103 AA
1 AA
35358105 AAATCTAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AATAAAATAAAAAT
Found at i:35362078 original size:22 final size:22
Alignment explanation
Indices: 35362036--35362079 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
35362026 AATTATTTAC
* *
35362036 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
35362058 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
35362080 ACGATATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:35362359 original size:39 final size:40
Alignment explanation
Indices: 35362305--35362484 Score: 269
Period size: 39 Copynumber: 4.6 Consensus size: 40
35362295 AACCCAAGTA
* * *
35362305 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAAG
* *
35362344 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
*
35362384 -CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
35362423 CCTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
35362462 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
35362485 CATTCGAATA
Statistics
Matches: 128, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 86 0.67
40 41 0.32
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
Found at i:35362436 original size:79 final size:79
Alignment explanation
Indices: 35362305--35362484 Score: 285
Period size: 79 Copynumber: 2.3 Consensus size: 79
35362295 AACCCAAGTA
* * *
35362305 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAG-CCGGATATAG
35362369 TCAATAGCACAAAAG
65 TCAATAGCACAAAAG
35362384 -CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCGGATATAG
*
35362447 TCACTAGCACAAAAG
65 TCAATAGCACAAAAG
35362462 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
35362485 CATTCGAATA
Statistics
Matches: 94, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
78 36 0.38
79 57 0.61
80 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCGGATATAGT
CAATAGCACAAAAG
Found at i:35370641 original size:22 final size:22
Alignment explanation
Indices: 35370599--35370642 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
35370589 AATTATTTAC
* *
35370599 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
35370621 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
35370643 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:35370942 original size:40 final size:40
Alignment explanation
Indices: 35370868--35371049 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
35370858 AACCCAAGTA
* * *
35370868 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAAG
*
35370907 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* *
35370947 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
*
35370987 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
35371027 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
35371050 CATTCGAATA
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.09
40 118 0.89
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
Found at i:35376430 original size:46 final size:46
Alignment explanation
Indices: 35376380--35376555 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35376370 TGGTTGAGCA
35376380 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35376426 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35376471 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35376519 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35376556 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35376536 original size:93 final size:93
Alignment explanation
Indices: 35376377--35376548 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35376367 GGATGGTTGA
* *
35376377 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35376442 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35376470 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35376535 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35376549 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35382850 original size:40 final size:40
Alignment explanation
Indices: 35382806--35383028 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
35382796 GCTACTCGTT
* * *
35382806 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
*
35382846 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
35382886 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
35382926 CAAATGCCTTCGGATCTTAGTCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* *
35382965 C-AATGCCTTCGGATCTTAGTCCGGATTTAGT-ACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
35383004 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
35383029 CATCATTCGA
Statistics
Matches: 169, Mismatches: 8, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
38 23 0.14
39 49 0.29
40 95 0.56
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:35382964 original size:39 final size:40
Alignment explanation
Indices: 35382834--35383028 Score: 278
Period size: 40 Copynumber: 5.0 Consensus size: 40
35382824 AGCCCGGTTA
*
35382834 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
35382874 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
35382914 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCC-GATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
35382953 TAGTAACTCGCAC-AATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
35382992 TAGT-ACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
35383029 CATCATTCGA
Statistics
Matches: 146, Mismatches: 3, Indels: 13
0.90 0.02 0.08
Matches are distributed among these distances:
38 23 0.16
39 49 0.34
40 73 0.50
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:35382989 original size:78 final size:79
Alignment explanation
Indices: 35382834--35383028 Score: 283
Period size: 78 Copynumber: 2.5 Consensus size: 79
35382824 AGCCCGGTTA
*
35382834 TAGTAGCTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTC-GGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGG
35382899 ATCTTAGTCCGGATT
65 ATCTTAGTCCGGATT
35382914 TAGTAACTCGCACAAATGCCTTCGGATCTTAGT-CC-GATTTAGTAACTCGCAC-AATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGA-CTTA-TCCCGGATTTAGTAACTCGCACAAATGCCTTCG
35382976 GATCTTAGTCCGGATT
64 GATCTTAGTCCGGATT
* *
35382992 TAGT-ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGACTTATCCCGGA
35383029 CATCATTCGA
Statistics
Matches: 106, Mismatches: 3, Indels: 14
0.86 0.02 0.11
Matches are distributed among these distances:
77 14 0.13
78 43 0.41
79 20 0.19
80 28 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (79 bp):
TAGTAACTCGCACAAATGCCTTCGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGGA
TCTTAGTCCGGATT
Found at i:35386111 original size:42 final size:42
Alignment explanation
Indices: 35386065--35386202 Score: 127
Period size: 42 Copynumber: 3.3 Consensus size: 42
35386055 GTTCCAAACG
* * *
35386065 TGGTCTTACATGGGATCTCACATCAATGCCATATCCAAGAAA
1 TGGTCTTACATGGAATCTCATATCAACGCCATATCCAAGAAA
* * * * * **
35386107 TGGTCTTATA-CGAATTCTCATTTCAACGCCATGTCCCAGACG
1 TGGTCTTACATGGAA-TCTCATATCAACGCCATATCCAAGAAA
** *
35386149 TGGTCTTACATAAAATCTCATATCAACGCCATATCCTAA-ATA
1 TGGTCTTACATGGAATCTCATATCAACGCCATATCC-AAGAAA
35386191 TGGTCTTACATG
1 TGGTCTTACATG
35386203 ATAACTCATA
Statistics
Matches: 74, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
41 2 0.03
42 69 0.93
43 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
TGGTCTTACATGGAATCTCATATCAACGCCATATCCAAGAAA
Found at i:35386211 original size:42 final size:40
Alignment explanation
Indices: 35386046--35386212 Score: 109
Period size: 42 Copynumber: 4.0 Consensus size: 40
35386036 AATAAAATGC
* ** * * *
35386046 CAACGCCATGTTCCAAACGTGGTCTTACATGGGATCTCACAT
1 CAACGCCAT-ATCCAAAAATGGTCTTACAT-GAAACTCATAT
* * * * *
35386088 CAATGCCATATCCAAGAAATGGTCTTATACGAATTCTCATTT
1 CAACGCCATATCCAA-AAATGGTCTTACATGAA-ACTCATAT
* * ** *
35386130 CAACGCCATGTCCCAGACGTGGTCTTACATAAAATCTCATAT
1 CAACGCCATAT-CCAAAAATGGTCTTACATGAAA-CTCATAT
*
35386172 CAACGCCATATCCTAAATATGGTCTTACATGATAACTCATA
1 CAACGCCATATCC-AAAAATGGTCTTACATGA-AACTCATA
35386213 CTGATGCTGA
Statistics
Matches: 95, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
41 9 0.09
42 81 0.85
43 5 0.05
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (40 bp):
CAACGCCATATCCAAAAATGGTCTTACATGAAACTCATAT
Found at i:35386211 original size:84 final size:84
Alignment explanation
Indices: 35386046--35386200 Score: 204
Period size: 84 Copynumber: 1.8 Consensus size: 84
35386036 AATAAAATGC
* *** *
35386046 CAACGCCATGTTCCAAACGTGGTCTTACATGGGATCTCACATCAATGCCATATCCAAGAAATGGT
1 CAACGCCATGTCCCAAACGTGGTCTTACATAAAATCTCACATCAACGCCATATCCAAGAAATGGT
* *
35386111 CTTATACGAATTCTCATTT
66 CTTACACGAATACTCATTT
* * *
35386130 CAACGCCATGTCCCAGACGTGGTCTTACATAAAATCTCATATCAACGCCATATCCTAA-ATATGG
1 CAACGCCATGTCCCAAACGTGGTCTTACATAAAATCTCACATCAACGCCATATCC-AAGAAATGG
35386194 TCTTACA
65 TCTTACA
35386201 TGATAACTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
84 59 0.97
85 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (84 bp):
CAACGCCATGTCCCAAACGTGGTCTTACATAAAATCTCACATCAACGCCATATCCAAGAAATGGT
CTTACACGAATACTCATTT
Found at i:35390442 original size:22 final size:21
Alignment explanation
Indices: 35390414--35390492 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 21
35390404 GAATAACTGC
35390414 ATATGAATCTGATTTGTTCTGT
1 ATATGAA-CTGATTTGTTCTGT
* * *
35390436 ATATGAAACTTAAATTGCTTCTGC
1 ATATG-AAC-TGATTTG-TTCTGT
*
35390460 ATATGTAACTGATCTGTTCTGT
1 ATATG-AACTGATTTGTTCTGT
**
35390482 AGCTGAACTGA
1 ATATGAACTGA
35390493 AATTGTTTCT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
21 6 0.14
22 14 0.32
23 11 0.25
24 13 0.30
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.41
Consensus pattern (21 bp):
ATATGAACTGATTTGTTCTGT
Found at i:35390478 original size:46 final size:45
Alignment explanation
Indices: 35390410--35390504 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 45
35390400 GTAAGAATAA
* * *
35390410 CTGCATATGAATCTGATTTGTTCTGTATATGAAACTTAAATTGCTT
1 CTGCATATGAATCTGATCTGTTCTGTAGATG-AACTGAAATTGCTT
* *
35390456 CTGCATATGTAA-CTGATCTGTTCTGTAGCTGAACTGAAATTGTTT
1 CTGCATATG-AATCTGATCTGTTCTGTAGATGAACTGAAATTGCTT
35390501 CTGC
1 CTGC
35390505 TACCTAATCG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 16 0.37
46 25 0.58
47 2 0.05
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (45 bp):
CTGCATATGAATCTGATCTGTTCTGTAGATGAACTGAAATTGCTT
Found at i:35395018 original size:24 final size:25
Alignment explanation
Indices: 35394945--35395091 Score: 95
Period size: 27 Copynumber: 5.8 Consensus size: 25
35394935 AATCAATTTT
*
35394945 AAATAAATAATTTAT-AAAGCAATTTA
1 AAATAAATAATATATAAAAG-AA-TTA
* * *
35394971 GAGTAAATAATATATAAAATAATTTA
1 AAATAAATAATATATAAAAGAA-TTA
*
35394997 AAAT-AATAATA-ATAAACGAATTA
1 AAATAAATAATATATAAAAGAATTA
** *
35395020 AAATAAATAATACGGTAAAAAAATTTA
1 AAATAAATAATA-TATAAAAGAA-TTA
* ** *
35395047 AAACAAATACCATATGAAAAAAACTTA
1 AAATAAATAATATAT-AAAAGAA-TTA
35395074 AAATAAATAATA-ATAAAA
1 AAATAAATAATATATAAAA
35395092 TTGTTCAAAA
Statistics
Matches: 95, Mismatches: 20, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
23 7 0.07
24 14 0.15
25 11 0.12
26 29 0.31
27 34 0.36
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (25 bp):
AAATAAATAATATATAAAAGAATTA
Found at i:35395047 original size:27 final size:25
Alignment explanation
Indices: 35394939--35395091 Score: 91
Period size: 26 Copynumber: 6.0 Consensus size: 25
35394929 AGTATAAATC
* **
35394939 AATTTTAAATAAATAATTTA-TAAAGC
1 AATTTAAAATAAATAA--TAGTAAAAA
* *
35394965 AATTTAGAGTAAATAATA-TATAAAA
1 AATTTAAAATAAATAATAGTA-AAAA
* **
35394990 TAATTTAAAAT-AATAATAATAAACG
1 -AATTTAAAATAAATAATAGTAAAAA
35395015 AA-TTAAAATAAATAATACGGTAAAAA
1 AATTTAAAATAAATAATA--GTAAAAA
*
35395041 AATTTAAAACAAATACCATA-TGAAAAA
1 AATTTAAAATAAATA--ATAGT-AAAAA
* *
35395068 AACTTAAAATAAATAATAATAAAA
1 AATTTAAAATAAATAATAGTAAAA
35395092 TTGTTCAAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 23
0.73 0.11 0.17
Matches are distributed among these distances:
23 7 0.07
24 13 0.13
25 18 0.18
26 31 0.31
27 29 0.29
29 3 0.03
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (25 bp):
AATTTAAAATAAATAATAGTAAAAA
Found at i:35395163 original size:50 final size:50
Alignment explanation
Indices: 35395109--35395245 Score: 133
Period size: 50 Copynumber: 2.8 Consensus size: 50
35395099 AAATAAATAT
*
35395109 TATGAATGATTTATAATAAATAAAATAAATAAGTTTAATAATAAAGCACA
1 TATGAATGATTTATAATAAATAAAATAAATAAGTTTAATAATAAAGAACA
* * * * *
35395159 TATGAAAAGATCTAAAAT-AATAAAAT-AATCAAGTTTAAT-ATAAATAATA
1 TATG-AATGATTTATAATAAATAAAATAAAT-AAGTTTAATAATAAAGAACA
* *
35395208 TATGAGAT-ATTT-TAA-AAATAAAATAAATACGCTTAATA
1 TATGA-ATGATTTATAATAAATAAAATAAATAAGTTTAATA
35395246 CAAATAGTAT
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
47 17 0.24
48 7 0.10
49 15 0.21
50 21 0.30
51 10 0.14
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.32
Consensus pattern (50 bp):
TATGAATGATTTATAATAAATAAAATAAATAAGTTTAATAATAAAGAACA
Found at i:35395231 original size:47 final size:47
Alignment explanation
Indices: 35395099--35395280 Score: 136
Period size: 47 Copynumber: 3.7 Consensus size: 47
35395089 AAATTGTTCA
* *
35395099 AAATAAATATTATGA-ATGATTTATAATAAATAAAATAAATAAGTTTAATAAT
1 AAAT-AATA-TATGAGAT-ATTTA-AA-AAATAAAATAAATAAGCTTAAT-AC
** * * * * * *
35395151 AAAGCACATATGAAAAGATCTAAAATAATAAAAT-AATCAAGTTTAATAT
1 AAATAATATATG-AGATATTTAAAA-AATAAAATAAAT-AAGCTTAATAC
* *
35395200 AAATAATATATGAGATATTTTAAAAATAAAATAAATACGCTTAATAC
1 AAATAATATATGAGATATTTAAAAAATAAAATAAATAAGCTTAATAC
* *
35395247 AAATAGTATCTGAGATATTTAAAAAAT-AAATAAA
1 AAATAATATATGAGATATTTAAAAAATAAAATAAA
35395281 ATATGTAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
46 7 0.07
47 40 0.37
48 11 0.10
49 15 0.14
50 23 0.21
51 7 0.07
52 4 0.04
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (47 bp):
AAATAATATATGAGATATTTAAAAAATAAAATAAATAAGCTTAATAC
Found at i:35396871 original size:51 final size:49
Alignment explanation
Indices: 35396805--35397088 Score: 325
Period size: 49 Copynumber: 5.7 Consensus size: 49
35396795 GTGAGTCGCA
* * *
35396805 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAA-T-TGGTCACG
* * *
35396856 AGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAA-T-TGGTCACG
* * * ***
35396907 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAATT-GGTCACG
* * *
35396957 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAATTGGTCACG
* * * * *
35397006 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAATTGGTCACG
* *
35397055 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
35397089 AGATAGCTTT
Statistics
Matches: 212, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
49 86 0.41
50 45 0.21
51 81 0.38
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAATTGGTCACG
Found at i:35397022 original size:49 final size:49
Alignment explanation
Indices: 35396805--35397080 Score: 336
Period size: 51 Copynumber: 5.5 Consensus size: 49
35396795 GTGAGTCGCA
* ** * *
35396805 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA-T-TGGTCACG
* * * * *
35396856 AGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA-T-TGGTCACG
* * **
35396907 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATT-GGTCACG
*
35396957 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCACG
* * *
35397006 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCACG
*
35397055 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
35397081 TGCGTACCAG
Statistics
Matches: 206, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
49 80 0.39
50 45 0.22
51 81 0.39
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCACG
Found at i:35397035 original size:99 final size:100
Alignment explanation
Indices: 35396805--35397088 Score: 347
Period size: 99 Copynumber: 2.8 Consensus size: 100
35396795 GTGAGTCGCA
* ** * * * *
35396805 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCACGAGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACGTGTGTAGTACTAAG
*
35396870 TGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
64 TGCAGGCTACTACGCGTACCCGAAAACTGTGATCACG
* **
35396907 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACGTGTGTAGTACTAAGT
* * * *
35396972 GCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
65 GCAGGCTACTACGCGTACCCGAAAACTGTGATCACG
* * * *
35397006 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTATGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTG
*
35397071 CAGGCTACTATGCGTACC
66 CAGGCTACTACGCGTACC
35397089 AGATAGCTTT
Statistics
Matches: 157, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
98 36 0.23
99 45 0.29
100 2 0.01
101 42 0.27
102 32 0.20
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTG
CAGGCTACTACGCGTACCCGAAAACTGTGATCACG
Found at i:35399343 original size:13 final size:14
Alignment explanation
Indices: 35399315--35399341 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35399305 TATTTTTACT
35399315 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
35399329 TAAAAAAATAAAA
1 TAAAAAAATAAAA
35399342 TAGATAACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:35405488 original size:16 final size:17
Alignment explanation
Indices: 35405457--35405490 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
35405447 TTAAAGTCAC
*
35405457 ATTCATAGTGATCATGA
1 ATTCATAATGATCATGA
35405474 ATTCATAAT-ATCATGA
1 ATTCATAATGATCATGA
35405490 A
1 A
35405491 GCCAATGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
ATTCATAATGATCATGA
Found at i:35405705 original size:50 final size:50
Alignment explanation
Indices: 35405637--35405779 Score: 250
Period size: 50 Copynumber: 2.9 Consensus size: 50
35405627 ACATAGTAAG
* * *
35405637 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCA
*
35405687 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCA
35405737 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
35405780 CATAGCCCTA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 89 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATACCA
Found at i:35406939 original size:18 final size:18
Alignment explanation
Indices: 35406899--35406940 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
35406889 GAAATTATAC
35406899 ACATAG-CATATATTTGA
1 ACATAGTCATATATTTGA
* * *
35406916 AAATAGTCATGTATTTGT
1 ACATAGTCATATATTTGA
35406934 ACATAGT
1 ACATAGT
35406941 TCGGGTCTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (18 bp):
ACATAGTCATATATTTGA
Found at i:35413982 original size:2 final size:2
Alignment explanation
Indices: 35413975--35414017 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
35413965 AAAGCTTAAC
35413975 AT AT AT 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
35414017 A
1 A
35414018 AGTCGACACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35415570 original size:16 final size:18
Alignment explanation
Indices: 35415549--35415581 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
35415539 CATACTAGCT
35415549 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
35415565 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
35415582 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:35416209 original size:45 final size:45
Alignment explanation
Indices: 35416121--35416326 Score: 294
Period size: 45 Copynumber: 4.6 Consensus size: 45
35416111 CCGACATTTT
* * *
35416121 GCCTGCTA-GCTCGAA-GCCC-AATA-TCATTTCACCGACATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGACATCATA
* * *
35416163 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTGACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATA
* *
35416208 GCCTGCTAGGCTCAAAGGCCCGAATGGTATCTCACCGGCATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATA
35416253 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATA
*
35416298 GCCTGCTAGGCTCAAAGGCCCAAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
35416327 CCATACGATA
Statistics
Matches: 150, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
42 8 0.05
43 6 0.04
44 4 0.03
45 131 0.87
46 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATCATA
Found at i:35428512 original size:46 final size:46
Alignment explanation
Indices: 35428462--35428637 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
35428452 TATTTGGGCA
35428462 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
35428508 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
35428555 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
35428601 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35428638 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:35428617 original size:93 final size:93
Alignment explanation
Indices: 35428458--35428629 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35428448 TGGATATTTG
* *
35428458 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
35428523 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
35428551 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
35428616 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
35428630 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:35431627 original size:15 final size:15
Alignment explanation
Indices: 35431588--35431666 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
35431578 GTATCTTGGG
*
35431588 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
35431603 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
35431618 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
35431632 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
35431647 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
35431661 TTTCTT
1 TTTCTT
35431667 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:35431651 original size:29 final size:29
Alignment explanation
Indices: 35431579--35431665 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
35431569 CATAGTATCG
* * * *
35431579 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
35431609 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
35431638 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
35431666 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:35434102 original size:46 final size:46
Alignment explanation
Indices: 35434049--35434224 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
35434039 TATTTGGGCA
35434049 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
35434095 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
35434142 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
35434188 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35434225 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:35434204 original size:93 final size:93
Alignment explanation
Indices: 35434045--35434216 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35434035 GGGATATTTG
* *
35434045 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
35434110 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
35434138 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
35434203 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
35434217 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:35440577 original size:27 final size:27
Alignment explanation
Indices: 35440525--35440615 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 27
35440515 GCTCTTCTTT
* * * *
35440525 AGAGTTCGTTATACCTACTGTTCCTTC
1 AGAGTTCGTCATACATACTATCCCTTC
35440552 AGAGTTCGTCATACATACTATCCCTTCC
1 AGAGTTCGTCATACATACTATCCCTT-C
* * * * *
35440580 A-TGTTTGCCACATATACTATCCCTTC
1 AGAGTTCGTCATACATACTATCCCTTC
35440606 AGAGTTCGTC
1 AGAGTTCGTC
35440616 GGGAATACTA
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 2 0.04
27 46 0.92
28 2 0.04
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.36
Consensus pattern (27 bp):
AGAGTTCGTCATACATACTATCCCTTC
Found at i:35444220 original size:21 final size:20
Alignment explanation
Indices: 35444196--35444241 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
35444186 CAAAATGCAA
35444196 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
35444217 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
35444237 T-AACC
1 TCAACC
35444242 ATTCCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:35459544 original size:24 final size:24
Alignment explanation
Indices: 35459499--35459545 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
35459489 TATATATACC
35459499 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
35459523 AATTC-ATCATATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
35459546 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:35469936 original size:47 final size:49
Alignment explanation
Indices: 35469882--35469990 Score: 136
Period size: 48 Copynumber: 2.3 Consensus size: 49
35469872 CGCATAGTAA
*
35469882 GATGCCAATGCCATA-TC-CGAGATAT-GTCTTACATGGGATCAAATATC
1 GATGCCAATGCCATAGTCTC-AGACATGGTCTTACATGGGATCAAATATC
* * *
35469929 GATGCCAATGCCA-AGTCTCAGGCATGGTCTTATATGGGATCACATATC
1 GATGCCAATGCCATAGTCTCAGACATGGTCTTACATGGGATCAAATATC
*
35469977 GGTGCCAATGCCAT
1 GATGCCAATGCCAT
35469991 GTAACACCCC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
46 1 0.02
47 19 0.36
48 33 0.62
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (49 bp):
GATGCCAATGCCATAGTCTCAGACATGGTCTTACATGGGATCAAATATC
Found at i:35471428 original size:40 final size:40
Alignment explanation
Indices: 35471370--35471600 Score: 192
Period size: 40 Copynumber: 5.8 Consensus size: 40
35471360 GGATATAGCG
* * * *
35471370 ACTCGCTCGATTGTCTTCGGGACATT-GCCCGGTTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATTAGCCCGGTT-TAGTA
*
35471410 ATTCGCACAATTGCCTTCGGGA-ATTAGCCCGGATTTAGTA
1 ACTCGCACAATTGCCTTCGGGACATTAGCCCGG-TTTAGTA
* *
35471450 ACTCGCACGAA-TGCCTTCGGGAC-TTAACCCGGTTTTGGTA
1 ACTCGCAC-AATTGCCTTCGGGACATTAGCCCGG-TTTAGTA
* * * *
35471490 ACTCGCACAAATGCCTTCGGGAC-TTAACCCGTTTTGGTA
1 ACTCGCACAATTGCCTTCGGGACATTAGCCCGGTTTAGTA
* *
35471529 ACTCGCACAAATG-CTTCGGGA-ATT-GACCCGGATTTAGTC
1 ACTCGCACAATTGCCTTCGGGACATTAG-CCCGG-TTTAGTA
* **
35471568 ACTTAGCACAAAAGCCTTCGGGAC-TTAGCCCGG
1 AC-TCGCACAATTGCCTTCGGGACATTAGCCCGG
35471601 ACACCATTCG
Statistics
Matches: 163, Mismatches: 16, Indels: 23
0.81 0.08 0.11
Matches are distributed among these distances:
38 14 0.09
39 32 0.20
40 97 0.60
41 19 0.12
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
ACTCGCACAATTGCCTTCGGGACATTAGCCCGGTTTAGTA
Found at i:35471482 original size:80 final size:77
Alignment explanation
Indices: 35471370--35471601 Score: 232
Period size: 80 Copynumber: 2.9 Consensus size: 77
35471360 GGATATAGCG
* * * * * *
35471370 ACTCGCTCGATTGTCTTCGGGACATTGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATG-CTTCGGGAC-TTACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTT
35471435 AGCCCGGATTTAGTA
63 AGCCCGGATTTAGTA
* *
35471450 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACGAATG-CTTCGGGACTT-ACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTT
* * *
35471515 AACCC-GTTTTGGTA
63 AGCCCGGATTTAGTA
* * * * *
35471529 ACTCGCACAAATGCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCTTCGGGACTT-ACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTT
35471594 AGCCCGGA
63 AGCCCGGA
35471602 CACCATTCGA
Statistics
Matches: 125, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
78 21 0.17
79 47 0.38
80 55 0.44
81 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (77 bp):
ACTCGCACGAATGCTTCGGGACTTACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGC
CCGGATTTAGTA
Found at i:35471535 original size:39 final size:40
Alignment explanation
Indices: 35471412--35471601 Score: 231
Period size: 40 Copynumber: 4.8 Consensus size: 40
35471402 TTATAGTGAT
* * *
35471412 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
35471452 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* *
35471492 TCGCACAAATGCCTTCGGGACTTAACCC-GTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
35471531 TCGCACAAATG-CTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
35471570 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGACTTAACCCGGA
35471602 CACCATTCGA
Statistics
Matches: 130, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
38 14 0.11
39 30 0.23
40 70 0.54
41 16 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
Found at i:35471577 original size:79 final size:79
Alignment explanation
Indices: 35471384--35471599 Score: 242
Period size: 79 Copynumber: 2.7 Consensus size: 79
35471374 GCTCGATTGT
* * *
35471384 CTTCGGGACATTG-CCCGGTTATAGTGA-TTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTA
1 CTTCGGGA-ATTGACCCGGTT-TAGTAACTTCGCACAAATGCCTTCGGGACTTAGCCC-GATTTA
*
35471447 GTAACTCGCACGAATGC
63 GTAACTCGCACAAATGC
* * * * * *
35471464 CTTCGGGACTTAACCCGGTTTTGGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGTTTTGGT
1 CTTCGGGAATTGACCCGG-TTTAGTAACTTCGCACAAATGCCTTCGGGACTTAGCCCGATTTAGT
35471528 AACTCGCACAAATG-
65 AACTCGCACAAATGC
* * *
35471542 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCG
1 CTTCGGGAATTGACCCGG-TTTAGTAACTTCGCACAAATGCCTTCGGGACTTAGCCCG
35471600 GACACCATTC
Statistics
Matches: 114, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
78 23 0.20
79 47 0.41
80 42 0.37
81 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (79 bp):
CTTCGGGAATTGACCCGGTTTAGTAACTTCGCACAAATGCCTTCGGGACTTAGCCCGATTTAGTA
ACTCGCACAAATGC
Found at i:35480833 original size:22 final size:22
Alignment explanation
Indices: 35480791--35480834 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
35480781 AATTATTTAC
* *
35480791 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
35480813 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
35480835 ATGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:35481135 original size:40 final size:40
Alignment explanation
Indices: 35481061--35481242 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
35481051 AACCCAAGTA
* * *
35481061 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAAG
*
35481100 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* *
35481140 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
*
35481180 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
35481220 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
35481243 CATTCGAATA
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.09
40 118 0.89
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
Found at i:35483868 original size:25 final size:25
Alignment explanation
Indices: 35483788--35483868 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
35483778 AGCATGTAAA
* *
35483788 CGGGAAGCTCTTCCGAGCCATATAAT
1 CGGGAAGCTCTTGCGAGCCAAAT-AT
* * * *
35483814 -GGGAAGCT-TATGTGAGTCGAATAA
1 CGGGAAGCTCT-TGCGAGCCAAATAT
*
35483838 CAGGAAGCTCTTGCGAGCCAAATAT
1 CGGGAAGCTCTTGCGAGCCAAATAT
35483863 CGGGAA
1 CGGGAA
35483869 ACTCATACGA
Statistics
Matches: 40, Mismatches: 12, Indels: 7
0.68 0.20 0.12
Matches are distributed among these distances:
24 2 0.05
25 37 0.93
26 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (25 bp):
CGGGAAGCTCTTGCGAGCCAAATAT
Found at i:35484434 original size:2 final size:2
Alignment explanation
Indices: 35484427--35484451 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35484417 GTTGATTTTC
35484427 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 A
35484452 AATAGCAGCC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35485700 original size:29 final size:29
Alignment explanation
Indices: 35485660--35485717 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
35485650 ATAAGTAAAC
35485660 AATAAATTCAAGATAATGGCTAATCTCAT
1 AATAAATTCAAGATAATGGCTAATCTCAT
35485689 AATAAATTCAAGATAATGGCTAATCTCAT
1 AATAAATTCAAGATAATGGCTAATCTCAT
35485718 CTCAAGATAC
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:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (29 bp):
AATAAATTCAAGATAATGGCTAATCTCAT
Found at i:35486223 original size:17 final size:18
Alignment explanation
Indices: 35486198--35486231 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35486188 CATATATTAT
*
35486198 ATATGTATAT-AATTAAA
1 ATATATATATGAATTAAA
35486215 ATATATATATGAATTAA
1 ATATATATATGAATTAA
35486232 GCATGCATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
ATATATATATGAATTAAA
Found at i:35489247 original size:11 final size:11
Alignment explanation
Indices: 35489232--35489261 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
35489222 TTAGCCCATC
35489232 ATTAATTAGAA
1 ATTAATTAGAA
*
35489243 TTTAATTAGAA
1 ATTAATTAGAA
35489254 ATTAATTA
1 ATTAATTA
35489262 CTAGAGTATC
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:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (11 bp):
ATTAATTAGAA
Found at i:35495601 original size:40 final size:39
Alignment explanation
Indices: 35495552--35495637 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
35495542 CATTCCAATA
*
35495552 AAAAAAATATTTATAGTCAAAAGTAAACCATTAAATAAAC
1 AAAAAAATATTTATAGT-AAAAGTAAAACATTAAATAAAC
* *
35495592 CAAAAAATATTTATAGTAAAAGTAAAACATTGAATAAAC
1 AAAAAAATATTTATAGTAAAAGTAAAACATTAAATAAAC
35495631 AAAAAAA
1 AAAAAAA
35495638 AAAAGAAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 26 0.62
40 16 0.38
ACGTcount: A:0.63, C:0.08, G:0.06, T:0.23
Consensus pattern (39 bp):
AAAAAAATATTTATAGTAAAAGTAAAACATTAAATAAAC
Found at i:35495638 original size:40 final size:41
Alignment explanation
Indices: 35495551--35495638 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 41
35495541 CCATTCCAAT
*
35495551 AAAAAAAATATTTATAGTCAAAAGTAAACCATTAAATAAAC
1 AAAAAAAATATTTATAGTCAAAAGTAAAACATTAAATAAAC
* *
35495592 -CAAAAAATATTTATAGT-AAAAGTAAAACATTGAATAAAC
1 AAAAAAAATATTTATAGTCAAAAGTAAAACATTAAATAAAC
35495631 AAAAAAAA
1 AAAAAAAA
35495639 AAAGAAGTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 20 0.48
40 22 0.52
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.23
Consensus pattern (41 bp):
AAAAAAAATATTTATAGTCAAAAGTAAAACATTAAATAAAC
Found at i:35500570 original size:22 final size:22
Alignment explanation
Indices: 35500548--35500589 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
35500538 ATTTAATTTA
35500548 AATAATAAAAATAT-TAAAATT
1 AATAATAAAAATATATAAAATT
*
35500569 AATTATAAAAATATATAAAAT
1 AATAATAAAAATATATAAAAT
35500590 ATCAACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAATAAAAATATATAAAATT
Found at i:35501124 original size:159 final size:159
Alignment explanation
Indices: 35500924--35501226 Score: 489
Period size: 159 Copynumber: 1.9 Consensus size: 159
35500914 GATCAAGTCA
* * * * *
35500924 GTAAATATTATCTGTTAATATTTACAAGCCTATTAAAGTGTTGTAGTGATTTTTGGTCCGGAAAT
1 GTAAATATTATCTATTAATATTTACAAACCTATTAAAGTGTTATAGTGATCTTTGGTACGGAAAT
* * *
35500989 TTTGTTGATCGGTTAGTAATTAAAATATAAGGACTAAATCGTAAAAATAGTAAAAGTTGATTTCA
66 TTTGTTGATCAGTTAGTAATTAAAACATAAGGACTAAATCGTAAAAATAGTAAAAGATGATTTCA
35501054 ATTGGCTTTATCTAATAAATGATCAGTTG
131 ATTGGCTTTATCTAATAAATGATCAGTTG
* * *
35501083 GTAAATATTATCTATTAATATTTACAAACTTATTAAGGTGTTATAGTGATCTTTGGTACGGTAAT
1 GTAAATATTATCTATTAATATTTACAAACCTATTAAAGTGTTATAGTGATCTTTGGTACGGAAAT
*
35501148 TTTGTTGATCAGTTAGTAATTAAAGCATAAGGACTAAATCGTAAAAATAGTAAAAGATGATTTCA
66 TTTGTTGATCAGTTAGTAATTAAAACATAAGGACTAAATCGTAAAAATAGTAAAAGATGATTTCA
*
35501213 ATTGGTTTTATCTA
131 ATTGGCTTTATCTA
35501227 GTAATTGAGT
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
159 131 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (159 bp):
GTAAATATTATCTATTAATATTTACAAACCTATTAAAGTGTTATAGTGATCTTTGGTACGGAAAT
TTTGTTGATCAGTTAGTAATTAAAACATAAGGACTAAATCGTAAAAATAGTAAAAGATGATTTCA
ATTGGCTTTATCTAATAAATGATCAGTTG
Found at i:35502323 original size:22 final size:22
Alignment explanation
Indices: 35502298--35502396 Score: 74
Period size: 22 Copynumber: 4.5 Consensus size: 22
35502288 ATTCGTACTA
35502298 CAGTGCCTACTATTTAGCACTT
1 CAGTGCCTACTATTTAGCACTT
* * * * * *
35502320 CAGTACTTATTAATTCGCACTA
1 CAGTGCCTACTATTTAGCACTT
** *
35502342 CA-TGCCTACTGCTTAGTACTT
1 CAGTGCCTACTATTTAGCACTT
* *
35502363 CAATGCCTAATATTTAAGCACTT
1 CAGTGCCTACTATTT-AGCACTT
*
35502386 CGGTGCCTACT
1 CAGTGCCTACT
35502397 GATGGTGTGG
Statistics
Matches: 54, Mismatches: 21, Indels: 3
0.69 0.27 0.04
Matches are distributed among these distances:
21 13 0.24
22 27 0.50
23 14 0.26
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.35
Consensus pattern (22 bp):
CAGTGCCTACTATTTAGCACTT
Found at i:35509875 original size:40 final size:40
Alignment explanation
Indices: 35509820--35510041 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
35509810 TATTCGAATG
**
35509820 ATATCCGGGCTAAGTCCCGAAAACATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
35509860 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * * *
35509900 ATATCCGGGTTAAGTCCCAAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
35509940 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
35509980 ATATCCGGGCTAAGACCCCAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
35510020 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
35510042 TACTTGGGTT
Statistics
Matches: 161, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 13 0.08
40 145 0.90
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:35511739 original size:12 final size:12
Alignment explanation
Indices: 35511722--35511754 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
35511712 CACTACCTTA
35511722 CACACGGCCTAC
1 CACACGGCCTAC
*
35511734 CACACGGCCTAT
1 CACACGGCCTAC
35511746 CACACGGCC
1 CACACGGCC
35511755 GTGTGGCGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:35523822 original size:30 final size:28
Alignment explanation
Indices: 35523786--35523886 Score: 130
Period size: 28 Copynumber: 3.5 Consensus size: 28
35523776 GACAAGATTG
* * *
35523786 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATATA
*
35523816 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
*
35523844 GCACTAAGTGTGCGAGTTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATATA
35523873 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35523887 GATTCACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
28 26 0.41
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATATA
Found at i:35527916 original size:14 final size:14
Alignment explanation
Indices: 35527897--35527925 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35527887 TTACACGCTT
35527897 AGTAAGTTCGTATA
1 AGTAAGTTCGTATA
35527911 AGTAAGTTCGTATA
1 AGTAAGTTCGTATA
35527925 A
1 A
35527926 CAGAAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (14 bp):
AGTAAGTTCGTATA
Found at i:35529634 original size:37 final size:37
Alignment explanation
Indices: 35529584--35529674 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
35529574 TTATTACGAA
35529584 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
35529621 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
35529658 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
35529675 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:35529769 original size:48 final size:48
Alignment explanation
Indices: 35529714--35529845 Score: 237
Period size: 48 Copynumber: 2.8 Consensus size: 48
35529704 TGTTACAACA
*
35529714 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
35529762 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
35529810 TTCACATTAGCCCTTCGGCTTTACCACATATACACA
1 TTCACATTAGCCATTCGGCTTTACCACATATACACA
35529846 CCTTCACATT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.32, C:0.30, G:0.07, T:0.31
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:35529901 original size:96 final size:94
Alignment explanation
Indices: 35529811--35530227 Score: 555
Period size: 96 Copynumber: 4.4 Consensus size: 94
35529801 CACATATATT
* * * * * *
35529811 TCACATTAGCCCTTCGGCTTTACCACATATACACACCTTCACATTCATCACATCGGCCATTAGGC
1 TCACATTGGCCATTAGGCCTTACCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
35529876 CTTACCACATATATACTCTTTCACATTCA
66 CTTACCACATATATACTCTTTCACATTCA
* *
35529905 TCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAG
1 TCACATTGGCCATTAGGCCTTA-C-CACATATATACACCTTCACATTCATCACATTGGCCATTAG
* *
35529970 GCCTCATCACATATATACTCTTTCACATTCA
64 GCCTTACCACATATATACTCTTTCACATTCA
* * *
35530001 TCACATTGGCCACTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAG
1 TCACATTGGCCATTAGGCCTTACCACA--TATATACACCTTCACATTCATCACATTGGCCATTAG
* * *
35530066 GCCTTATCACATATATATACACCTTCACATTCA
64 GCCTTA-C-CACATATATACTCTTTCACATTCA
* * * *
35530099 TCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGC
1 TCACATTGGCCATTAGGCCTTACCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* *
35530164 CTTATCACATGTATATACACTTTCACATTCA
66 CTTACCACA--TATATACTCTTTCACATTCA
*
35530195 TCACATTGGCCATTAGGCCTTATCACATATATA
1 TCACATTGGCCATTAGGCCTTACCACATATATA
35530228 TACATCTCCT
Statistics
Matches: 290, Mismatches: 25, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
94 24 0.08
95 1 0.00
96 219 0.76
98 46 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
TCACATTGGCCATTAGGCCTTACCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
CTTACCACATATATACTCTTTCACATTCA
Found at i:35529956 original size:49 final size:49
Alignment explanation
Indices: 35529837--35530231 Score: 613
Period size: 49 Copynumber: 8.2 Consensus size: 49
35529827 GCTTTACCAC
* * * *
35529837 ATATACACACCTTCACATTCATCACATCGGCCATTAGGCCTTA-C-CAC
1 ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
*
35529884 ATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
* * *
35529933 ATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--
1 ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
* *
35529980 ATATATACTCTTTCACATTCATCACATTGGCCACTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
*
35530029 GTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
* *
35530078 ATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--
1 ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
*
35530125 ATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
*
35530174 GTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
35530223 ATATATACA
1 ATATATACA
35530232 TCTCCTACAT
Statistics
Matches: 316, Mismatches: 26, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
47 125 0.40
48 1 0.00
49 190 0.60
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
Found at i:35530068 original size:145 final size:145
Alignment explanation
Indices: 35529834--35530231 Score: 710
Period size: 145 Copynumber: 2.8 Consensus size: 145
35529824 TCGGCTTTAC
* * * * * *
35529834 CACATATACACACCTTCACATTCATCACATCGGCCATTAGGCCTTACCACA--TATATACTCTTT
1 CACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTT
35529897 CACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCG
66 CACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCG
35529962 GCCATTAGGCCTCAT
131 GCCATTAGGCCTCAT
*
35529977 CACATATATACTCTTTCACATTCATCACATTGGCCACTAGGCCTTATCACATGTATATACACTTT
1 CACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTT
35530042 CACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCG
66 CACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCG
*
35530107 GCCATTAGGCCTTAT
131 GCCATTAGGCCTCAT
35530122 CACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTT
1 CACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTT
35530187 CACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACA
66 CACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACA
35530232 TCTCCTACAT
Statistics
Matches: 244, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
143 45 0.18
145 199 0.82
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (145 bp):
CACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTT
CACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCG
GCCATTAGGCCTCAT
Found at i:35538701 original size:50 final size:50
Alignment explanation
Indices: 35538642--35538778 Score: 211
Period size: 50 Copynumber: 2.7 Consensus size: 50
35538632 ATATGAGATC
* * *
35538642 CCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATGTGTGTGATT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT
* *
35538692 CCATGTAAGACTATGTCTGGGACATAGCATTGGCATCGATATGTGTGAAT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT
* *
35538742 CCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
35538779 TTACTATGTG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT
Found at i:35544880 original size:49 final size:49
Alignment explanation
Indices: 35544820--35545155 Score: 631
Period size: 49 Copynumber: 6.9 Consensus size: 49
35544810 ATGAGATATA
35544820 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
35544869 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
35544918 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
35544967 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
35545016 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
35545065 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
35545112 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
35545156 TATATGTGTG
Statistics
Matches: 281, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
47 45 0.16
49 236 0.84
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:35545296 original size:37 final size:37
Alignment explanation
Indices: 35545242--35545332 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
35545232 AACTTGGAAA
*
35545242 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
*
35545280 TATGTCTGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
35545317 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
35545333 TTCGTAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:35546920 original size:20 final size:20
Alignment explanation
Indices: 35546891--35546935 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
35546881 AGCACATGTA
*
35546891 TTCATAAAATTTCATAATTT
1 TTCATAAAATTTCACAATTT
* *
35546911 TTCATCAAATTTTACAATTT
1 TTCATAAAATTTCACAATTT
35546931 TTCAT
1 TTCAT
35546936 TTGAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTCACAATTT
Found at i:35550809 original size:6 final size:6
Alignment explanation
Indices: 35550800--35550831 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
35550790 GGAGAATATT
35550800 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AG
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AG
35550832 GGAGAATAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:35550847 original size:42 final size:42
Alignment explanation
Indices: 35550766--35550851 Score: 95
Period size: 42 Copynumber: 2.0 Consensus size: 42
35550756 AGAATGAAGG
**
35550766 AAAACAAAAAAAAGAAAGAAAGAAGGAGAATATTAGAAAAAGA
1 AAAACAAAAAAAAGAAAGAAAGAAGGAGAATAGGAG-AAAAGA
* * *
35550809 AAAAGAAAAAGAA-AAAGAAA-AAGGGAGAATAGGGGAAAAGA
1 AAAACAAAAAAAAGAAAGAAAGAA-GGAGAATAGGAGAAAAGA
35550850 AA
1 AA
35550852 CGTGAGAGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
41 10 0.27
42 16 0.43
43 11 0.30
ACGTcount: A:0.71, C:0.01, G:0.23, T:0.05
Consensus pattern (42 bp):
AAAACAAAAAAAAGAAAGAAAGAAGGAGAATAGGAGAAAAGA
Found at i:35551187 original size:47 final size:47
Alignment explanation
Indices: 35551115--35551208 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
35551105 CTTAAATAGA
* * * *
35551115 GTTACATACAATGTCTTTACTTGATTTAGACCACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCTGATTCAGACCACCTAATCAAGCTTT
* *
35551162 GTTACATATAATATCTCTACCTGATTCAGCCCACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCTGATTCAGACCACCTAATCAAGCTTT
35551209 ATACATTAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (47 bp):
GTTACATACAATATCTCTACCTGATTCAGACCACCTAATCAAGCTTT
Found at i:35555400 original size:40 final size:39
Alignment explanation
Indices: 35555240--35555402 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
35555230 TGTGTATGAA
*
35555240 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
35555279 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
35555318 GGTGCAAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
35555357 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
35555397 TGTGCG
1 TGTGCG
35555403 GGTTACCATA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:35555418 original size:40 final size:40
Alignment explanation
Indices: 35555257--35555438 Score: 154
Period size: 39 Copynumber: 4.6 Consensus size: 40
35555247 ATTGTGATAT
* *** *
35555257 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * * ** *
35555296 CCGGGCTAAG-CCCGAAGGCAATGGTGCAAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
35555335 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
35555374 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
35555414 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35555439 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
39 79 0.64
40 45 0.36
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:35558664 original size:40 final size:39
Alignment explanation
Indices: 35558619--35558785 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 39
35558609 CGGAATATAA
35558619 CCGGATATAGTCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGTCAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* * * * *
35558659 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAGTCACTAGCAC-AATGCCTTCGGGTCTTAGC
* * *
35558699 CCGGATATAGCCATTAGCACAATCGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAT-GCCTTCGGGTCTTAGC
* ** * * *
35558739 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAGTCACTAGCACAA-TGCCTTCGGGTCTTAGC
35558778 CCGGATAT
1 CCGGATAT
35558786 CATTCAATTT
Statistics
Matches: 102, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
39 17 0.17
40 84 0.82
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTCACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:35560044 original size:56 final size:53
Alignment explanation
Indices: 35559981--35560089 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
35559971 CCCCCTTTTC
35559981 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTT-TTTTCTTT
***
35560037 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
35560090 TTTTTTTTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 6 0.12
56 30 0.62
57 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
Found at i:35563333 original size:40 final size:40
Alignment explanation
Indices: 35563289--35563470 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
35563279 GCTACTCATT
*
35563289 CAAATGCCTTCGGGACATAGCCCG-ATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATT-TAGTAACTCGCA
* *
35563329 CAAATGCCTTCGGGACTTAACCCGAATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCA
*
35563369 C-CATGCCTTCGGG-CTTAGCCCGGAA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GAATTTAGTAACTCGCA
* * *
35563407 CAAATGCCTTC-GGATCTTAGTCCGAATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGAATTTAGTAAC-TCGCA
35563448 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
35563471 GACATCATTC
Statistics
Matches: 123, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
38 22 0.18
39 25 0.20
40 62 0.50
41 14 0.11
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCA
Found at i:35563404 original size:78 final size:81
Alignment explanation
Indices: 35563291--35563472 Score: 239
Period size: 78 Copynumber: 2.3 Consensus size: 81
35563281 TACTCATTCA
* *
35563291 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGA
*
35563354 ATTTAATAAC-TCGCAC
65 ATTTAATAACTTAGCAC
* **
35563370 CATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGAA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGAA
* *
35563433 TTTAGTCACTTAGCAC
66 TTTAATAACTTAGCAC
*
35563449 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
35563473 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
77 3 0.03
78 46 0.52
79 29 0.33
80 11 0.12
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGAA
TTTAATAACTTAGCAC
Found at i:35585378 original size:46 final size:46
Alignment explanation
Indices: 35585230--35585632 Score: 202
Period size: 46 Copynumber: 8.5 Consensus size: 46
35585220 TTTGTGTGCT
* * *
35585230 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATG-TAGCC
*** * ** * *
35585276 AGTGTAAGACCATGTCTACAACATGGCATCAGAATTGAGACG-AGTCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTAG-CC
*
35585323 TAATGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGT-AGCC
* * * *
35585370 AGTGTAAGA-TATATCTGGGACATGCATCGG-GTACGAGATGT-GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTAGCC
* * ** *
35585414 AGTGTAGGACCATGTCTGGGACATGGCATCGACGCGTATAGATGT-GTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG--GCCTCGAGATGTAGCC
* * * *
35585462 AGTGTAAGACCATGTCTGGGAAATGACATCGGCAC-GGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGC-CTCGAGATGT---AGCC
* * * *
35585512 AGTGTAAGACCACGTCTGGGACATGGCATCGGCCTTG-GTTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAG-AT-G-TAGCC
* * * *
35585561 AATGTAAGACCATGT-TAGGGACATGGTATC-GACTTGATGGATG-AGCC
1 AGTGTAAGACCATGTCT-GGGACAT-GCATCGGCCTCGA--GATGTAGCC
*
35585608 AGTGTAAGACTATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
35585633 ACATTAGCAT
Statistics
Matches: 276, Mismatches: 52, Indels: 58
0.72 0.13 0.15
Matches are distributed among these distances:
44 10 0.04
45 13 0.05
46 72 0.26
47 50 0.18
48 62 0.22
49 32 0.12
50 33 0.12
51 3 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGCC
Found at i:35585463 original size:48 final size:48
Alignment explanation
Indices: 35585405--35585632 Score: 169
Period size: 48 Copynumber: 4.7 Consensus size: 48
35585395 ATCGGGTACG
* * *
35585405 AGATGTGTCAGTGTAGGACCATGTCTGGGACATGGCATCGACGCGTAT
1 AGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGAT
* * *
35585453 AGATGTGTCAGTGTAAGACCATGTCTGGGAAATGACATCGGCACGGAT
1 AGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGAT
* * * * *
35585501 ATG-TGAGAGCTAGTGTAAGACCACGTCTGGGACATGGCATCGGC-CTTGGTTT
1 A-GATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGACAC--GG-AT
* * * * **
35585553 CGAT-AGTCAATGTAAGACCATGT-TAGGGACATGGTATCGAC-TTGAT
1 AGATGTGTCAGTGTAAGACCATGTCT-GGGACATGGCATCGACACGGAT
* * * *
35585599 GGATGAGCCAGTGTAAGACTATGTCTGGGACATG
1 AGATGTGTCAGTGTAAGACCATGTCTGGGACATG
35585633 ACATTAGCAT
Statistics
Matches: 145, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
46 4 0.03
47 25 0.17
48 48 0.33
49 30 0.21
50 31 0.21
51 5 0.03
52 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (48 bp):
AGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGAT
Found at i:35599558 original size:43 final size:42
Alignment explanation
Indices: 35599434--35599588 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
35599424 CTGAGACTAT
*
35599434 ATGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTC
1 ATGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTC
** *
35599476 ATGTAAGACCATATCTGGGATATGGCATTGATGTGAGATTTC
1 ATGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTC
* * * * *
35599518 GTGTAAGACCATAGCTAGGCTAATGGCATCAATACT-AGATTAC
1 ATGTAAGACCATATCTGGGAT-ATGGCATCAATA-TGAGATTTC
* *
35599561 ATGTATGACCATATTTGGGATATGGCAT
1 ATGTAAGACCATATCTGGGATATGGCAT
35599589 TGGTATGGTA
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 62 0.67
43 30 0.32
44 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (42 bp):
ATGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTC
Found at i:35599571 original size:85 final size:84
Alignment explanation
Indices: 35599435--35599590 Score: 226
Period size: 85 Copynumber: 1.8 Consensus size: 84
35599425 TGAGACTATA
* *
35599435 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCATGTAAGACCATATCTGGGATATG
1 TGTAAGACCATAGCTAGGATATGGCATCAATATGAGACTTCATGTAAGACCATATCTGGGATATG
35599500 GCATTGATGTGAGATTTCG
66 GCATTGATGTGAGATTTCG
* * *
35599519 TGTAAGACCATAGCTAGGCTAATGGCATCAATACT-AGA-TTACATGTATGACCATATTTGGGAT
1 TGTAAGACCATAGCTAGGAT-ATGGCATCAATA-TGAGACTT-CATGTAAGACCATATCTGGGAT
35599582 ATGGCATTG
63 ATGGCATTG
35599591 GTATGGTACC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
84 19 0.30
85 44 0.69
86 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (84 bp):
TGTAAGACCATAGCTAGGATATGGCATCAATATGAGACTTCATGTAAGACCATATCTGGGATATG
GCATTGATGTGAGATTTCG
Found at i:35601510 original size:93 final size:93
Alignment explanation
Indices: 35601398--35601569 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35601388 GCCCATAAGT
* *
35601398 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35601463 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
35601491 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35601556 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
35601570 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35601565 original size:46 final size:46
Alignment explanation
Indices: 35601390--35601565 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
35601380 TGTAACCCGC
* * *
35601390 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
35601436 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
35601486 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
35601529 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35601566 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:35603990 original size:30 final size:30
Alignment explanation
Indices: 35603946--35604034 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
35603936 CAAAGATAAC
35603946 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
35603975 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
35604005 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
35604035 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:35603994 original size:15 final size:15
Alignment explanation
Indices: 35603946--35604025 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
35603936 CAAAGATAAC
*
35603946 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
35603960 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
35603975 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
35603990 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
35604005 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
35604020 AAGAAA
1 AAGAAA
35604026 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:35604034 original size:15 final size:15
Alignment explanation
Indices: 35603957--35604034 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
35603947 AGAAAACCGA
35603957 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
35603972 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
35603986 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
35604001 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
35604017 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
35604032 ATA
1 ATA
35604035 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35607099 original size:93 final size:93
Alignment explanation
Indices: 35606987--35607158 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35606977 GCCCATAAGT
* *
35606987 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35607052 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
35607080 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35607145 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
35607159 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35607154 original size:46 final size:46
Alignment explanation
Indices: 35606979--35607154 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
35606969 TGTAACCCGC
* * *
35606979 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
35607025 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
35607075 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
35607118 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35607155 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:35615753 original size:12 final size:12
Alignment explanation
Indices: 35615736--35615760 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35615726 TAGACGGTCG
35615736 ACTATTACCCAA
1 ACTATTACCCAA
35615748 ACTATTACCCAA
1 ACTATTACCCAA
35615760 A
1 A
35615761 TGGCATCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (12 bp):
ACTATTACCCAA
Found at i:35623116 original size:2 final size:2
Alignment explanation
Indices: 35623109--35623136 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35623099 CTAATCAACT
35623109 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35623137 ACAGTTGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35630514 original size:40 final size:40
Alignment explanation
Indices: 35630470--35630726 Score: 347
Period size: 40 Copynumber: 6.5 Consensus size: 40
35630460 GCTCGATTGT
* * * * *
35630470 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
* * *
35630510 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
*
35630550 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
* *
35630590 CTTCGGGACTTAACCC-GATTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
*
35630629 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
* * *
35630669 CTTCGGGACTT-ACCCGGTTTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTAGTAAC-TCGCACAAATGC
*
35630709 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
35630727 ATACGATTCG
Statistics
Matches: 197, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 52 0.26
40 140 0.71
41 5 0.03
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
Found at i:35630638 original size:79 final size:80
Alignment explanation
Indices: 35630470--35630726 Score: 365
Period size: 79 Copynumber: 3.2 Consensus size: 80
35630460 GCTCGATTGT
* * * * * * * *
35630470 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGT
35630535 AACTCGCACAAATGC
66 AACTCGCACAAATGC
*
35630550 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCC-GATTTGGT
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGT
35630614 AACTCGCACAAATGC
66 AACTCGCACAAATGC
*
35630629 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTT-ACCCGGTTTTAGT
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGT
* * *
35630693 CACTTAGCACAAAAGC
66 AAC-TCGCACAAATGC
*
35630709 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
35630727 ATACGATTCG
Statistics
Matches: 160, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
78 4 0.03
79 81 0.51
80 75 0.47
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGT
AACTCGCACAAATGC
Found at i:35630646 original size:119 final size:120
Alignment explanation
Indices: 35630470--35630725 Score: 363
Period size: 119 Copynumber: 2.1 Consensus size: 120
35630460 GCTCGATTGT
* * * * *
35630470 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGT
* * *
35630535 AACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC-TCGCACAAATGC
66 AACTCGCACAAATGCCTTCGGGACTT-ACCCGGTTTTAGTAACTTAGCACAAAAGC
* * * * *
35630590 CTTCGGGACTTAACCCGATT-TGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGT
*
35630654 AACTCGCACAAATGCCTTCGGGACTTACCCGGTTTTAGTCACTTAGCACAAAAGC
66 AACTCGCACAAATGCCTTCGGGACTTACCCGGTTTTAGTAACTTAGCACAAAAGC
35630709 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
35630726 GATACGATTC
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
118 14 0.12
119 89 0.74
120 17 0.14
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGT
AACTCGCACAAATGCCTTCGGGACTTACCCGGTTTTAGTAACTTAGCACAAAAGC
Found at i:35638625 original size:40 final size:40
Alignment explanation
Indices: 35638581--35638839 Score: 365
Period size: 40 Copynumber: 6.5 Consensus size: 40
35638571 GCTCGATTGT
* * * * *
35638581 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
* * *
35638621 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
* *
35638661 CTTCGGGACTTAACCCGGTTTTGGTAACTCGTACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
*
35638701 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
*
35638741 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
* * *
35638781 CTTCGGGACTTAACCCGGTTTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTAGTAAC-TCGCACAAATGC
*
35638822 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
35638840 ATACCATTCG
Statistics
Matches: 201, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
40 174 0.87
41 27 0.13
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGC
Found at i:35654142 original size:40 final size:40
Alignment explanation
Indices: 35654098--35654322 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
35654088 GCTACTCGTT
* * *
35654098 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
*
35654138 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
35654178 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
35654218 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * *
35654258 CAATTGCCTTCGGATCTTAGTCCGGATTTAGT-ACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
35654298 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
35654323 CATCATTCGA
Statistics
Matches: 171, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
39 21 0.12
40 148 0.87
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:35658673 original size:46 final size:46
Alignment explanation
Indices: 35658611--35658785 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
35658601 TGGTTGAGCA
35658611 TCCGAA-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35658656 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35658701 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35658749 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35658786 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 9 0.08
46 56 0.51
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35658776 original size:93 final size:92
Alignment explanation
Indices: 35658608--35658778 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
35658598 GGATGGTTGA
* *
35658608 GCATCCGAATCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAATCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
35658673 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
35658700 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAA-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35658765 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
35658779 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 9 0.12
93 66 0.88
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAATCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35666528 original size:70 final size:71
Alignment explanation
Indices: 35666415--35666577 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
35666405 CGATTTGTCT
35666415 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35666479 CTTTCA
66 CTTTCA
*
35666485 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35666550 CTTTCA
66 CTTTCA
35666556 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35666578 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35666615 original size:71 final size:70
Alignment explanation
Indices: 35666415--35666611 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
35666405 CGATTTGTCT
* * * *
35666415 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35666479 CTTTCA
65 CTTTCA
* * * *
35666485 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35666550 CTTTCA
65 CTTTCA
* *
35666556 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
35666612 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35674033 original size:70 final size:71
Alignment explanation
Indices: 35673947--35674109 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
35673937 CGATTTGTCT
35673947 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35674011 CTTTCA
66 CTTTCA
*
35674017 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35674082 CTTTCA
66 CTTTCA
35674088 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35674110 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35674147 original size:71 final size:70
Alignment explanation
Indices: 35673947--35674143 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
35673937 CGATTTGTCT
* * * *
35673947 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35674011 CTTTCA
65 CTTTCA
* * * *
35674017 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35674082 CTTTCA
65 CTTTCA
* *
35674088 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
35674144 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35678408 original size:25 final size:23
Alignment explanation
Indices: 35678328--35678436 Score: 94
Period size: 25 Copynumber: 4.5 Consensus size: 23
35678318 TCATAGATCT
*
35678328 TATGAGCTTCCTGATTATGGCTC
1 TATGAGCTTCCTGATTTTGGCTC
* *
35678351 TCATGAGCTTCCTGATTAATGGCTT
1 T-ATGAGCTTCCTGATT-TTGGCTC
**
35678376 TCCGGAGCTTCCTGATATTTGGCTC
1 T-ATGAGCTTCCTGAT-TTTGGCTC
*
35678401 TATTGAGCTTCC-CATTTATGGCTC
1 TA-TGAGCTTCCTGATTT-TGGCTC
35678425 GTATGAGCTTCC
1 -TATGAGCTTCC
35678437 CTATAATTGG
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.04
24 32 0.44
25 36 0.50
26 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.39
Consensus pattern (23 bp):
TATGAGCTTCCTGATTTTGGCTC
Found at i:35678433 original size:49 final size:49
Alignment explanation
Indices: 35678328--35678461 Score: 123
Period size: 49 Copynumber: 2.7 Consensus size: 49
35678318 TCATAGATCT
* * *
35678328 TATGAGCTTCCTGAT-TATGGCTCTCATGAGCTTCCTGATTAATGGCTT
1 TATGAGCTTCCTGATATTTGGCTCTCATGAGCTTCCTCATTAATGGCTG
** *
35678376 TCCGGAGCTTCCTGATATTTGGCTCT-ATTGAGCTTCC-CATTTATGGCTCG
1 T-ATGAGCTTCCTGATATTTGGCTCTCA-TGAGCTTCCTCATTAATGGCT-G
* * *
35678426 TATGAGCTTCCCT-ATAATTGGCTCGCAAGAGCTTCC
1 TATGAGCTT-CCTGATATTTGGCTCTCATGAGCTTCC
35678462 CGTTACATGG
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
48 1 0.01
49 46 0.67
50 22 0.32
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.37
Consensus pattern (49 bp):
TATGAGCTTCCTGATATTTGGCTCTCATGAGCTTCCTCATTAATGGCTG
Found at i:35678472 original size:25 final size:25
Alignment explanation
Indices: 35678405--35678521 Score: 103
Period size: 25 Copynumber: 4.7 Consensus size: 25
35678395 TGGCTCTATT
* *
35678405 GAGCTTCCCATT-TATGGCTCGTAT
1 GAGCTTCCCATTATATGGCTCGCAA
*
35678429 GAGCTTCCCTATAAT-TGGCTCGCAA
1 GAGCTTCCC-ATTATATGGCTCGCAA
* * * *
35678454 GAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCATTATATGGCTCGCAA
* * *
35678479 GATCTTCCTATTATATGGCTCGAAA
1 GAGCTTCCCATTATATGGCTCGCAA
*
35678504 GAGCTACCCATTTATATG
1 GAGCTTCCCA-TTATATG
35678522 CTCACATGAG
Statistics
Matches: 71, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
24 11 0.15
25 52 0.73
26 8 0.11
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCATTATATGGCTCGCAA
Found at i:35678498 original size:50 final size:50
Alignment explanation
Indices: 35678405--35678537 Score: 146
Period size: 50 Copynumber: 2.7 Consensus size: 50
35678395 TGGCTCTATT
** *
35678405 GAGCTTCCCATT-TATGGCTCGTATGAGCTTCCCTATAATTGGCTCGCAA
1 GAGCTTCCCATTATATGGCTCACATGAGCTTCCCTATAATTGGCTCGAAA
* * * *
35678454 GAGCTTCCCGTTACATGGCTCACATGATCTT-CCTATTATATGGCTCGAAA
1 GAGCTTCCCATTATATGGCTCACATGAGCTTCCCTATAAT-TGGCTCGAAA
*
35678504 GAGCTACCCATTTATAT-GCTCACATGAGCATTCC
1 GAGCTTCCCA-TTATATGGCTCACATGAGC-TTCC
35678538 TGAATATGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
49 18 0.26
50 42 0.62
51 7 0.10
52 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (50 bp):
GAGCTTCCCATTATATGGCTCACATGAGCTTCCCTATAATTGGCTCGAAA
Found at i:35678579 original size:17 final size:19
Alignment explanation
Indices: 35678541--35678580 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
35678531 GCATTCCTGA
*
35678541 ATATGAATTGATAGATATT
1 ATATGAATTGATAGAAATT
35678560 ATATGAATTGA-A-AAATT
1 ATATGAATTGATAGAAATT
35678577 ATAT
1 ATAT
35678581 TTTTGTACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
19 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (19 bp):
ATATGAATTGATAGAAATT
Done.