Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 13 of 126
Found at i:4264229 original size:68 final size:70
Alignment explanation
Indices: 4264120--4264249 Score: 228
Period size: 68 Copynumber: 1.9 Consensus size: 70
4264110 AGGTCTCAAC
* *
4264120 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCAT-CTC-TGAAATTGAAGTAAGA
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCCTTGAAATTGAAGTAAGA
4264183 GCAAT
66 GCAAT
4264188 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCCTTGAAATTGAAGTA
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCCTTGAAATTGAAGTA
4264250 GAGTGGATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 43 0.74
69 2 0.03
70 13 0.22
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (70 bp):
GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCCTTGAAATTGAAGTAAGA
GCAAT
Found at i:4264254 original size:107 final size:107
Alignment explanation
Indices: 4264121--4264354 Score: 427
Period size: 107 Copynumber: 2.2 Consensus size: 107
4264111 GGTCTCAACG
*
4264121 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCATCTCTAAAATTGAAGTAAGAGCA
4264186 ATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
66 ATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
4264228 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCATCTCTAAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCATCTCTAAAATTGAAGTAAGAGCA
*
4264293 ATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCT
66 ATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
*
4264335 TCAT-CTC-TGAAATTGAAGTA
1 TCATCCCCTTGAAATTGAAGTA
4264355 AGAGCAATGT
Statistics
Matches: 124, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
105 13 0.10
106 2 0.02
107 109 0.88
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (107 bp):
TCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCATCTCTAAAATTGAAGTAAGAGCA
ATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
Found at i:4264308 original size:68 final size:68
Alignment explanation
Indices: 4264228--4264463 Score: 418
Period size: 68 Copynumber: 3.5 Consensus size: 68
4264218 TAACACGTCT
*
4264228 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCATCTCTAAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCATCTCTGAAATTGAAGTAAGAGCA
4264293 ATG
66 ATG
4264296 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCATCTCTGAAATTGAAGTAAGAGCA
4264361 ATG
66 ATG
*
4264364 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
4264429 ACG
66 ATG
* *
4264432 TCATCCTCTTGAAATTGAAGTAAAGTTGGATA
1 TCATCCCCTTGAAATTGAAGTAGAG-TGGATA
4264464 GCAAAGTCTC
Statistics
Matches: 162, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
68 156 0.96
69 6 0.04
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (68 bp):
TCATCCCCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCATCTCTGAAATTGAAGTAAGAGCA
ATG
Found at i:4264775 original size:6 final size:6
Alignment explanation
Indices: 4264761--4264864 Score: 79
Period size: 6 Copynumber: 16.8 Consensus size: 6
4264751 TTTAAATTTG
* *
4264761 TTTAAA TTTAGA TTT-AT TTTAAA TTTAAA TTTAAATA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA TTTAAA
* * * *
4264809 TTTGAA TTTAAA TTTAAA -TAAAGA TTAAAA TATTAAA TTTAACA TTAAAAA
1 TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA T-TTAAA TTTAA-A TT-TAAA
4264860 TTTAA
1 TTTAA
4264865 GAGTCCAATG
Statistics
Matches: 80, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
5 11 0.14
6 44 0.55
7 19 0.24
8 6 0.08
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:4264786 original size:11 final size:11
Alignment explanation
Indices: 4264765--4264827 Score: 60
Period size: 11 Copynumber: 5.8 Consensus size: 11
4264755 AATTTGTTTA
*
4264765 AATTTAGATTT
1 AATTTAAATTT
*
4264776 ATTTTAAATTT
1 AATTTAAATTT
4264787 AAATTTAAA--T
1 -AATTTAAATTT
4264797 -ATTTAAATTT
1 AATTTAAATTT
*
4264807 AATTTGAATTT
1 AATTTAAATTT
4264818 AAATTTAAAT
1 -AATTTAAAT
4264828 AAAGATTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 7 0.17
10 2 0.05
11 18 0.43
12 15 0.36
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:4264807 original size:31 final size:31
Alignment explanation
Indices: 4264766--4264828 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
4264756 ATTTGTTTAA
* *
4264766 ATTTAGATTTATTTTAAATTTAAATTTAAAT
1 ATTTAAATTTAATTTAAATTTAAATTTAAAT
*
4264797 ATTTAAATTTAATTTGAATTTAAATTTAAAT
1 ATTTAAATTTAATTTAAATTTAAATTTAAAT
4264828 A
1 A
4264829 AAGATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (31 bp):
ATTTAAATTTAATTTAAATTTAAATTTAAAT
Found at i:4264848 original size:31 final size:29
Alignment explanation
Indices: 4264778--4264850 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
4264768 TTAGATTTAT
*
4264778 TTTAAATTTAAATTTAAATATTTAAATTTAA
1 TTTAAATTTAAATTTAAATA--TAAATTAAA
*
4264809 TTTGAATTTAAATTTAAATA-AAGATTAAAA
1 TTTAAATTTAAATTTAAATATAA-ATT-AAA
4264839 TATTAAATTTAA
1 T-TTAAATTTAA
4264851 CATTAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 2 0.06
29 3 0.08
30 3 0.08
31 28 0.78
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
TTTAAATTTAAATTTAAATATAAATTAAA
Found at i:4266110 original size:26 final size:27
Alignment explanation
Indices: 4266081--4266131 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
4266071 TGCGGCTGGG
*
4266081 GGCAGGA-GCGGAGTGTGACCGGCGGC
1 GGCAGGATGCGGAGCGTGACCGGCGGC
*
4266107 GGCAGGATGCGGCGCGTGACCGGCG
1 GGCAGGATGCGGAGCGTGACCGGCG
4266132 ACGCGCTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.14, C:0.25, G:0.53, T:0.08
Consensus pattern (27 bp):
GGCAGGATGCGGAGCGTGACCGGCGGC
Found at i:4266727 original size:30 final size:30
Alignment explanation
Indices: 4266682--4267035 Score: 527
Period size: 30 Copynumber: 11.9 Consensus size: 30
4266672 CCCCAAACAA
* *
4266682 TCCAGAAATTGTATTTTAACCCCAAAACTTT
1 TCCA-AAATTATATTTTGACCCCAAAACTTT
4266713 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
4266743 TCTAAAATTATATTTTGACCCCAAAAC-TT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
4266772 TCCAAAAATTATATTTTGACCCCAAAACTTT
1 TCC-AAAATTATATTTTGACCCCAAAACTTT
**
4266803 TCCAAAATTATATTTT-AAACCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
4266832 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
4266862 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
4266892 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
4266922 T-CAAAATTACATTTTGACCCTAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* * *
4266951 T-CAAAATTACATTTTAACCTCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
4266980 TCAAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
4267010 TCAAAAATTACATTTTGACCCCAAAA
1 TCCAAAATTATATTTTGACCCCAAAA
4267036 ATTTCCTAAA
Statistics
Matches: 303, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
29 85 0.28
30 209 0.69
31 9 0.03
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (30 bp):
TCCAAAATTATATTTTGACCCCAAAACTTT
Found at i:4266848 original size:89 final size:89
Alignment explanation
Indices: 4266682--4267041 Score: 526
Period size: 89 Copynumber: 4.0 Consensus size: 89
4266672 CCCCAAACAA
* * *
4266682 TCCAGAAATTGTATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCTA
1 TCCA-AAATTATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCA
*
4266747 AAATTATATTTTGACCCCAAAACTT
65 AAATTACATTTTGACCCCAAAACTT
* * **
4266772 TCCAAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTATATTTT-AAACCAAAACTTTTCCA
1 TCC-AAAATTATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCA
*
4266836 AAATTATATTTTGACCCCAAAACTTT
65 AAATTACATTTTGACCCCAAAAC-TT
*
4266862 TCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTT-CAA
1 TCCAAAATTATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAA
*
4266926 AATTACATTTTGACCCTAAAACTT
66 AATTACATTTTGACCCCAAAACTT
* * * * *
4266950 TTCAAAATTACATTTTAACCTCAAAACTTTTCAAAAATTACATTTTGACCCCAAAACTTTTCAAA
1 TCCAAAATTATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAA
*
4267015 AATTACATTTTGACCCCAAAAATT
66 AATTACATTTTGACCCCAAAACTT
4267039 TCC
1 TCC
4267042 TAAACCCATT
Statistics
Matches: 247, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
88 58 0.23
89 128 0.52
90 60 0.24
91 1 0.00
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.36
Consensus pattern (89 bp):
TCCAAAATTATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAA
AATTACATTTTGACCCCAAAACTT
Found at i:4267081 original size:30 final size:30
Alignment explanation
Indices: 4267047--4267142 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
4267037 TTTCCTAAAC
4267047 CCATTTTAACCCCGATTTCACCGAAAATTA
1 CCATTTTAACCCCGATTTCACCGAAAATTA
* ** ** *
4267077 CCATTTTACCCCCGA-AGCTTCTAAAATT-
1 CCATTTTAACCCCGATTTCACCGAAAATTA
*
4267105 CCATTTTTAATCCCGATTTCACCGAAAATTA
1 CCA-TTTTAACCCCGATTTCACCGAAAATTA
4267136 CCATTTT
1 CCATTTT
4267143 GCCCCCGGGT
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
28 3 0.06
29 18 0.36
30 26 0.52
31 3 0.06
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (30 bp):
CCATTTTAACCCCGATTTCACCGAAAATTA
Found at i:4267171 original size:59 final size:58
Alignment explanation
Indices: 4267050--4267184 Score: 173
Period size: 59 Copynumber: 2.3 Consensus size: 58
4267040 CCTAAACCCA
*
4267050 TTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCAT
1 TTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCG-AGCTTCCAAAATTCCAT
* * * * *
4267109 TTTTAATCCCGATTTCACCGAAAATTACCATTTTGCCCCCG-GGTATCCATAAGTTCCGT
1 TTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAGCT-TCCA-AAATTCCAT
*
4267168 TTTTCACCCCGATTTCA
1 TTTTAACCCCGATTTCA
4267185 TCATTTATCA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 2 0.03
58 3 0.05
59 61 0.92
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (58 bp):
TTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAGCTTCCAAAATTCCAT
Found at i:4271219 original size:15 final size:16
Alignment explanation
Indices: 4271201--4271234 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4271191 TTTTAATATA
4271201 TATTT-TAAAATTTTT
1 TATTTATAAAATTTTT
*
4271216 TATTTATTAAATTTTT
1 TATTTATAAAATTTTT
4271232 TAT
1 TAT
4271235 AAAATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTATAAAATTTTT
Found at i:4279966 original size:69 final size:69
Alignment explanation
Indices: 4279855--4280008 Score: 254
Period size: 69 Copynumber: 2.2 Consensus size: 69
4279845 ACTGAAGTTA
* * * * *
4279855 ATCTTTCCAATATCAAGTTAAGGCAATTCCCCAGTTTCTTGCGATCTGCGGAAAGCTTGATAAGT
1 ATCTTTCCAATAACAAGCTAAGGCAATTCCCCAGTTTCTTGCGATCTACGAAAAGCTTGAGAAGT
4279920 CTTG
66 CTTG
*
4279924 ATCTTTCCAATAACAAGCTAAGGCAATTCCCGAGTTTCTTGCGATCTACGAAAAGCTTGAGAAGT
1 ATCTTTCCAATAACAAGCTAAGGCAATTCCCCAGTTTCTTGCGATCTACGAAAAGCTTGAGAAGT
4279989 CTTG
66 CTTG
4279993 ATCTTTCCAATAACAA
1 ATCTTTCCAATAACAA
4280009 AATTCAGGGT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 79 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (69 bp):
ATCTTTCCAATAACAAGCTAAGGCAATTCCCCAGTTTCTTGCGATCTACGAAAAGCTTGAGAAGT
CTTG
Found at i:4287993 original size:30 final size:31
Alignment explanation
Indices: 4287947--4288012 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
4287937 TAATAAAGAT
* **
4287947 AAAATTACATTTTAATTTTTTTAAAAATAATA
1 AAAATTACATTTTAATTTCTAAAAAAAT-ATA
4287979 AAAATTA-A-TTTAATTTCTAAAAAAATATA
1 AAAATTACATTTTAATTTCTAAAAAAATATA
4288008 AAAAT
1 AAAAT
4288013 ATAAATGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 8 0.26
30 15 0.48
31 1 0.03
32 7 0.23
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (31 bp):
AAAATTACATTTTAATTTCTAAAAAAATATA
Found at i:4292185 original size:25 final size:25
Alignment explanation
Indices: 4292156--4292203 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
4292146 TTGATGAACA
* *
4292156 TTTTTCATAATTTATTTAATTTCTT
1 TTTTTCAGAATTAATTTAATTTCTT
*
4292181 TTTTTCAGCATTAATTTAATTTC
1 TTTTTCAGAATTAATTTAATTTC
4292204 CACGAAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTCAGAATTAATTTAATTTCTT
Found at i:4297450 original size:6 final size:6
Alignment explanation
Indices: 4297441--4297470 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4297431 ATGGAAATGA
4297441 AATGGC AATGGC AATGGC AATGGC AATGGC
1 AATGGC AATGGC AATGGC AATGGC AATGGC
4297471 TTTGGCTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (6 bp):
AATGGC
Found at i:4300399 original size:31 final size:31
Alignment explanation
Indices: 4300364--4300424 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
4300354 CCTACCCTAA
4300364 ACTTCAATACTTGTCTTTGAGCTCTCACAAC
1 ACTTCAATACTTGTCTTTGAGCTCTCACAAC
4300395 ACTTCAATACTTGTCTTTGAGCTCTCACAA
1 ACTTCAATACTTGTCTTTGAGCTCTCACAA
4300425 TCTTGCAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.36
Consensus pattern (31 bp):
ACTTCAATACTTGTCTTTGAGCTCTCACAAC
Found at i:4301687 original size:35 final size:36
Alignment explanation
Indices: 4301643--4301714 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
4301633 ACTCTGCATG
**
4301643 ATTTCTACTAAAGTTCTAGTTTACTATTAAAATTGA
1 ATTTCTACTAAAGGACTAGTTTACTATTAAAATTGA
*
4301679 ATTT-TACTAAAGGAGTAGTTTACTATTAAAATTGA
1 ATTTCTACTAAAGGACTAGTTTACTATTAAAATTGA
4301714 A
1 A
4301715 AAATAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (36 bp):
ATTTCTACTAAAGGACTAGTTTACTATTAAAATTGA
Found at i:4302009 original size:19 final size:19
Alignment explanation
Indices: 4301972--4302012 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4301962 TGTTCACTCA
* * *
4301972 TTTTTTTCTTGATTGTTAT
1 TTTTTTTCTTAAATATTAT
4301991 TTTTTTTCTTAAATATTAT
1 TTTTTTTCTTAAATATTAT
4302010 TTT
1 TTT
4302013 ATCAATGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTTTTCTTAAATATTAT
Found at i:4308483 original size:26 final size:26
Alignment explanation
Indices: 4308453--4308509 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
4308443 TGATCAAAAT
4308453 ATTGATTTAGTAAA-AGATAAAAATTA
1 ATTGATTT-GTAAATAGATAAAAATTA
* * *
4308479 ATTGATTTGTAAATCGATACAAATTG
1 ATTGATTTGTAAATAGATAAAAATTA
4308505 ATTGA
1 ATTGA
4308510 ATCTCCACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.37
Consensus pattern (26 bp):
ATTGATTTGTAAATAGATAAAAATTA
Found at i:4323298 original size:2 final size:2
Alignment explanation
Indices: 4323291--4323319 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4323281 GTTACATCTA
4323291 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
4323320 TATCATGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4325176 original size:46 final size:46
Alignment explanation
Indices: 4325090--4325178 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
4325080 AACAATATTG
* * * *
4325090 CTCTCTCTCTATCTATATATTCAATCTAATAATTTTATATATAATA
1 CTCTATCTATATCTATATATTCAATCCAATAATTTAATATATAATA
* *
4325136 CTCTATCTATATCTATATATTCAATCCCATACTTTAATATATA
1 CTCTATCTATATCTATATATTCAATCCAATAATTTAATATATA
4325179 TAGAGAGATG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (46 bp):
CTCTATCTATATCTATATATTCAATCCAATAATTTAATATATAATA
Found at i:4326678 original size:2 final size:2
Alignment explanation
Indices: 4326667--4326723 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
4326657 TTGTTAAGAT
4326667 TA TA -A TA TA TA TA 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 TA TA TA TA TA TA TA
4326708 TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA T
4326724 TTAAAGTGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4330577 original size:27 final size:29
Alignment explanation
Indices: 4330512--4330579 Score: 90
Period size: 27 Copynumber: 2.4 Consensus size: 29
4330502 TAAAAAAATT
4330512 AAAA-ATATAAATTCGATAAATTTTATAGA
1 AAAATATATAAATTCGATAAATTTTATA-A
4330541 AAAATATATAAATT-GA-AAATTTTGAT-A
1 AAAATATATAAATTCGATAAATTTT-ATAA
4330568 AAAATATATAAA
1 AAAATATATAAA
4330580 ATTATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
27 13 0.35
28 7 0.19
29 8 0.22
30 9 0.24
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (29 bp):
AAAATATATAAATTCGATAAATTTTATAA
Found at i:4330878 original size:29 final size:29
Alignment explanation
Indices: 4330858--4330913 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
4330848 AAACAATATG
*
4330858 AAATTATTAAAA-TATTATTAAAAATTAGA
1 AAATTATAAAAATTA-TATTAAAAATTAGA
4330887 AAATTATAAAAATTATATTAAAAATTA
1 AAATTATAAAAATTATATTAAAAATTA
4330914 TTTAATGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
AAATTATAAAAATTATATTAAAAATTAGA
Found at i:4330883 original size:21 final size:20
Alignment explanation
Indices: 4330858--4330915 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
4330848 AAACAATATG
4330858 AAATTATTAAAATATTATTAA
1 AAATTATTAAAA-ATTATTAA
*
4330879 AAATTA--GAAAATTA-TAA
1 AAATTATTAAAAATTATTAA
4330896 AAATTATATTAAAAATTATT
1 AAA-T-TATTAAAAATTATT
4330916 TAATGTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
17 6 0.20
18 5 0.17
19 5 0.17
21 13 0.43
22 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AAATTATTAAAAATTATTAA
Found at i:4330918 original size:11 final size:10
Alignment explanation
Indices: 4330858--4330915 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 10
4330848 AAACAATATG
4330858 AAATTATTAA
1 AAATTATTAA
4330868 AATATTATTAA
1 AA-ATTATTAA
*
4330879 AAATTA--GA
1 AAATTATTAA
4330887 AAATTA-TAA
1 AAATTATTAA
4330896 AAATTATATTAA
1 AAA-T-TATTAA
4330908 AAATTATT
1 AAATTATT
4330916 TAATGTGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 7 0.17
9 4 0.10
10 11 0.27
11 13 0.32
12 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
AAATTATTAA
Found at i:4331219 original size:29 final size:30
Alignment explanation
Indices: 4331166--4331232 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
4331156 ATAGGGGCTT
* *
4331166 AATTGATTGCTAATTTTCAATTAAGGGTTC
1 AATTGATTGCTAATTTTCAACTAAGGGTTA
* *
4331196 AATTGATTGC-ACTTTTCAACTAAGTGTTA
1 AATTGATTGCTAATTTTCAACTAAGGGTTA
4331225 AATTGATT
1 AATTGATT
4331233 TTTCAATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
29 23 0.70
30 10 0.30
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.43
Consensus pattern (30 bp):
AATTGATTGCTAATTTTCAACTAAGGGTTA
Found at i:4332503 original size:18 final size:18
Alignment explanation
Indices: 4332480--4332522 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4332470 TTTTCAGTTG
4332480 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
4332498 TAATTAATTAAACTTATT
1 TAATTAATTAAAATTATT
4332516 TAATTAA
1 TAATTAA
4332523 AAATTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:4337842 original size:6 final size:6
Alignment explanation
Indices: 4337831--4337864 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
4337821 TGAAAGTAAA
* *
4337831 CTTTAT CTTTAT CATTAT CTTTAT CCTTAT CTTT
1 CTTTAT CTTTAT CTTTAT CTTTAT CTTTAT CTTT
4337865 TAAGAGTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (6 bp):
CTTTAT
Found at i:4342787 original size:7 final size:7
Alignment explanation
Indices: 4342745--4342785 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
4342735 TTAAATTAAA
4342745 TTTTATT
1 TTTTATT
4342752 TTTTATT
1 TTTTATT
4342759 TTTTATT
1 TTTTATT
4342766 TTTTATT
1 TTTTATT
*
4342773 TTTATAAT
1 TTT-TATT
4342781 TTTTA
1 TTTTA
4342786 ATAATTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTATT
Found at i:4344335 original size:20 final size:22
Alignment explanation
Indices: 4344300--4344354 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
4344290 ATCCTTCCTT
* *
4344300 TTTACTAAATTAAAATA-TAAA
1 TTTACTTAAGTAAAATATTAAA
4344321 TTTACTTAA-TAAAATATTAAA
1 TTTACTTAAGTAAAATATTAAA
4344342 TTTA-TTAAGTAAA
1 TTTACTTAAGTAAA
4344355 TTTAATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
TTTACTTAAGTAAAATATTAAA
Found at i:4344394 original size:20 final size:20
Alignment explanation
Indices: 4344300--4344395 Score: 73
Period size: 20 Copynumber: 5.0 Consensus size: 20
4344290 ATCCTTCCTT
* *
4344300 TTTACTAAATTAAAATATAAA
1 TTTACTTAA-TAAAATATTAA
4344321 TTTACTTAATAAAATATTAAA
1 TTTACTTAATAAAATATT-AA
4344342 TTTA-TTAAGT-AAAT-TTAA
1 TTTACTTAA-TAAAATATTAA
* *
4344360 TTTA--TACT---ATTTTAA
1 TTTACTTAATAAAATATTAA
4344375 TTTACTTAATAAAATATTAA
1 TTTACTTAATAAAATATTAA
4344395 T
1 T
4344396 CTTTCCAGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
14 2 0.03
15 8 0.13
16 1 0.02
17 5 0.08
18 6 0.10
19 2 0.03
20 23 0.37
21 15 0.24
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (20 bp):
TTTACTTAATAAAATATTAA
Found at i:4347069 original size:24 final size:23
Alignment explanation
Indices: 4347042--4347086 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
4347032 TTTTTTAGAG
4347042 ATTAAAATATAATTTTTATTATGC
1 ATTAAAATATAA-TTTTATTATGC
**
4347066 ATTAATTTATAATTTTATTAT
1 ATTAAAATATAATTTTATTAT
4347087 TTCTTGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
ATTAAAATATAATTTTATTATGC
Found at i:4350323 original size:58 final size:58
Alignment explanation
Indices: 4350256--4350372 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
4350246 AAAAAACGGA
4350256 TTTGAAAAAAAGAAATTAGATCCATTAAAAATATGTATCGAGTTCAGATTTGAACAAT
1 TTTGAAAAAAAGAAATTAGATCCATTAAAAATATGTATCGAGTTCAGATTTGAACAAT
4350314 TTTGAAAAAAAGAAATTAGATCCATTAAAAATATGTATCGAGTTCAGATTTGAACAAT
1 TTTGAAAAAAAGAAATTAGATCCATTAAAAATATGTATCGAGTTCAGATTTGAACAAT
4350372 T
1 T
4350373 GAGTTAGGTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.32
Consensus pattern (58 bp):
TTTGAAAAAAAGAAATTAGATCCATTAAAAATATGTATCGAGTTCAGATTTGAACAAT
Found at i:4351232 original size:22 final size:20
Alignment explanation
Indices: 4351203--4351242 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4351193 TCACACTGAA
4351203 AAATTAGTAAAATATATTTTT
1 AAATTAGT-AAATATATTTTT
*
4351224 AAATATAGTAATTATATTT
1 AAAT-TAGTAAATATATTT
4351243 ACTATGAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
AAATTAGTAAATATATTTTT
Found at i:4362183 original size:29 final size:29
Alignment explanation
Indices: 4362122--4362200 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
4362112 AAATTATAAA
* *
4362122 AATTTAA-ATTAATAATAAT-AAAATTAT
1 AATTTAACTTTAAAAATAATAAAAATTAT
*
4362149 ATTTTAACCTTTAAAAATAATAAAAATT-T
1 AATTTAA-CTTTAAAAATAATAAAAATTAT
* *
4362178 AATTTAATTTTAAAAATTATAAA
1 AATTTAACTTTAAAAATAATAAA
4362201 TATATAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 6 0.14
28 14 0.33
29 17 0.40
30 6 0.14
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
AATTTAACTTTAAAAATAATAAAAATTAT
Found at i:4362218 original size:17 final size:18
Alignment explanation
Indices: 4362193--4362229 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
4362183 AATTTTAAAA
4362193 ATTATAAAT-ATATAAATT
1 ATTATAAATAAT-TAAATT
4362211 ATTA-AAATAATTAAATT
1 ATTATAAATAATTAAATT
4362228 AT
1 AT
4362230 ATTCTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTATAAATAATTAAATT
Found at i:4362227 original size:81 final size:81
Alignment explanation
Indices: 4362081--4362232 Score: 193
Period size: 81 Copynumber: 1.9 Consensus size: 81
4362071 AGTCCCTTCT
* * * *
4362081 AAAATGATAAAATATAATTTAAATTCTTTATAAATTATAAAAATTTAAATTAATAATAATAAAAT
1 AAAATAATAAAATATAATTTAAATTCTTTAAAAATTATAAAAATATAAATTAAAAATAATAAAAT
4362146 TATATTTTAACCTTTA
66 TATATTTTAACCTTTA
* * *
4362162 AAAATAATAAAAATTTAATTT-AA-T-TTTAAAAATTATAAATATATAAATTATTAAAATAATTA
1 AAAATAAT-AAAATATAATTTAAATTCTTTAAAAATTATAAAAATATAAATTA--AAAATAATAA
4362224 AATTATATT
63 AATTATATT
4362233 CTTATAGTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
79 23 0.38
80 1 0.02
81 26 0.43
82 11 0.18
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (81 bp):
AAAATAATAAAATATAATTTAAATTCTTTAAAAATTATAAAAATATAAATTAAAAATAATAAAAT
TATATTTTAACCTTTA
Found at i:4371840 original size:72 final size:70
Alignment explanation
Indices: 4371751--4371891 Score: 230
Period size: 72 Copynumber: 2.0 Consensus size: 70
4371741 TTACTTCTAG
*
4371751 ATGAACATTCTAGCTATTAGATATTTGTAAAATCAATGGCAAGGATGATGACATGTATCAA-AAT
1 ATGAACATTCTAACTATTAGATATTTGTAAAATCAATGGCAA--A-GATGACATGTATCAACAAT
4371815 CCAACGGA
63 CCAACGGA
*
4371823 ATGAACATTCTAACTATTAGATATTTGTAAAATCAATGGCAAAGATGACATTTATCAACAATCCA
1 ATGAACATTCTAACTATTAGATATTTGTAAAATCAATGGCAAAGATGACATGTATCAACAATCCA
4371888 ACGG
66 ACGG
4371892 CCACTAAACT
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
69 14 0.21
70 11 0.17
72 41 0.62
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (70 bp):
ATGAACATTCTAACTATTAGATATTTGTAAAATCAATGGCAAAGATGACATGTATCAACAATCCA
ACGGA
Found at i:4374141 original size:10 final size:10
Alignment explanation
Indices: 4374122--4374165 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
4374112 CAACTAGAAG
4374122 AAAA-ATAAA
1 AAAATATAAA
4374131 AAAATATAAA
1 AAAATATAAA
*
4374141 AAAATATAAT
1 AAAATATAAA
*
4374151 ATAATATAATA
1 AAAATATAA-A
4374162 AAAA
1 AAAA
4374166 AAATGGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 4 0.14
10 22 0.76
11 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAATATAAA
Found at i:4384136 original size:12 final size:12
Alignment explanation
Indices: 4384119--4384148 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
4384109 AATCTGGCTC
4384119 TCCTATCCCCTA
1 TCCTATCCCCTA
4384131 TCCTATCCCCTA
1 TCCTATCCCCTA
4384143 TCCTAT
1 TCCTAT
4384149 AGGGCACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.47, G:0.00, T:0.37
Consensus pattern (12 bp):
TCCTATCCCCTA
Found at i:4405009 original size:32 final size:32
Alignment explanation
Indices: 4404972--4405036 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4404962 TGATTGAGTA
4404972 AAAAATAATTATTTTGTTTAATAAAAGTAAAT
1 AAAAATAATTATTTTGTTTAATAAAAGTAAAT
4405004 AAAAATAATTATTTTGTTTAATAAAAGTAAAT
1 AAAAATAATTATTTTGTTTAATAAAAGTAAAT
4405036 A
1 A
4405037 TTGAATTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (32 bp):
AAAAATAATTATTTTGTTTAATAAAAGTAAAT
Found at i:4411814 original size:78 final size:78
Alignment explanation
Indices: 4411684--4411839 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
4411674 GCCTAAAACA
4411684 AATAATTATATCAATTGGTCAAAATGGTCGGCTTATTTAAGCTACATCTTAATCCTCTTTTTAAT
1 AATAATTATATCAATTGGTCAAAATGGTCGGCTTATTTAAGCTACATCTTAATCCTCTTTTTAAT
4411749 TTTTCTTTTCTAT
66 TTTTCTTTTCTAT
*
4411762 AATAATTATATCAATTGGTCAAAATGGTCGGCTTATTTAAGCTACATGTTAATCCTCTTTTTAAT
1 AATAATTATATCAATTGGTCAAAATGGTCGGCTTATTTAAGCTACATCTTAATCCTCTTTTTAAT
4411827 TTTTCTTTTCTAT
66 TTTTCTTTTCTAT
4411840 TTTCTATGAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (78 bp):
AATAATTATATCAATTGGTCAAAATGGTCGGCTTATTTAAGCTACATCTTAATCCTCTTTTTAAT
TTTTCTTTTCTAT
Found at i:4413006 original size:2 final size:2
Alignment explanation
Indices: 4412999--4413024 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4412989 AATGTATGAC
4412999 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
4413025 TTGTCGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4425218 original size:120 final size:120
Alignment explanation
Indices: 4425005--4425244 Score: 453
Period size: 120 Copynumber: 2.0 Consensus size: 120
4424995 GCAGGTTAAA
* *
4425005 AATCAGTTGAATTGGTTGGTTAAACTGATTGAATAAGTCTTGTTATGAATTATTTTGTGTTATTT
1 AATCAGTTGAATTGGGTGGTTAAACTGATTGAATAAGTCTTGTTATGAATTATTTTGTGTTATCT
*
4425070 AATTGAATTAGACTAACTGATAGAATTAATTGGATTGATGACCTCATTGACAAGG
66 AATTGAATTAGACAAACTGATAGAATTAATTGGATTGATGACCTCATTGACAAGG
4425125 AATCAGTTGAATTGGGTGGTTAAACTGATTGAATAAGTCTTGTTATGAATTATTTTGTGTTATCT
1 AATCAGTTGAATTGGGTGGTTAAACTGATTGAATAAGTCTTGTTATGAATTATTTTGTGTTATCT
4425190 AATTGAATTAGACAAACTGATAGAATTAATTGGATTGATGACCTCATTGACAAGG
66 AATTGAATTAGACAAACTGATAGAATTAATTGGATTGATGACCTCATTGACAAGG
4425245 GCTAAGGGTT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (120 bp):
AATCAGTTGAATTGGGTGGTTAAACTGATTGAATAAGTCTTGTTATGAATTATTTTGTGTTATCT
AATTGAATTAGACAAACTGATAGAATTAATTGGATTGATGACCTCATTGACAAGG
Found at i:4426164 original size:18 final size:17
Alignment explanation
Indices: 4426134--4426167 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4426124 ATAATATTTT
*
4426134 TTAAAAATGTTTTTGAG
1 TTAAAAATATTTTTGAG
4426151 TTAAAAATTATTTTTGA
1 TTAAAAA-TATTTTTGA
4426168 AAAAAAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
TTAAAAATATTTTTGAG
Found at i:4432041 original size:20 final size:20
Alignment explanation
Indices: 4432016--4432055 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4432006 ATTCCACTAC
4432016 TAAACCAATTAACAATCGAA
1 TAAACCAATTAACAATCGAA
4432036 TAAACCAATTAACAATCGAA
1 TAAACCAATTAACAATCGAA
4432056 ATTATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (20 bp):
TAAACCAATTAACAATCGAA
Found at i:4432174 original size:23 final size:21
Alignment explanation
Indices: 4432146--4432251 Score: 96
Period size: 23 Copynumber: 5.0 Consensus size: 21
4432136 TTTGTTATTA
4432146 ATATTAAGTAATTAATAATCTTT
1 ATATTAA-TAATTAATAAT-TTT
4432169 ATATTAAGTAATTAATAATATTT
1 ATATTAA-TAATTAATAAT-TTT
*
4432192 ATATTAAT-ATT-CT-A-TTT
1 ATATTAATAATTAATAATTTT
4432209 ATATTAATAATTAATATATTTTT
1 ATATTAATAATTAATA-A-TTTT
*
4432232 ATATTTAT-ATTAATATATTT
1 ATATTAATAATTAATA-ATTT
4432252 CGATTTAGAA
Statistics
Matches: 73, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
17 11 0.15
18 3 0.04
19 2 0.03
20 1 0.01
21 7 0.10
22 10 0.14
23 39 0.53
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
ATATTAATAATTAATAATTTT
Found at i:4432188 original size:40 final size:38
Alignment explanation
Indices: 4432126--4432228 Score: 102
Period size: 40 Copynumber: 2.7 Consensus size: 38
4432116 ATTATTATTA
* ** *
4432126 ATTTATATTATTTGTTATTAATATTAAGTAATTAATAATC
1 ATTTATATTAATAATTAATAATATTAA-T-ATTAATAATC
* *
4432166 -TTTATATTAAGTAATTAATAATATTTATATTAATATTC
1 ATTTATATTAA-TAATTAATAATATTAATATTAATAATC
4432204 TATTTATATTAATAATTAAT-ATATT
1 -ATTTATATTAATAATTAATAATATT
4432229 TTTATATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
38 14 0.26
39 18 0.33
40 22 0.41
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (38 bp):
ATTTATATTAATAATTAATAATATTAATATTAATAATC
Found at i:4432216 original size:29 final size:29
Alignment explanation
Indices: 4432184--4432247 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
4432174 AAGTAATTAA
*
4432184 TAATATTT-ATATTAATATTCTATTTATAT
1 TAATATTTAATA-TAATATTATATTTATAT
* * *
4432213 TAATAATTAATATATTTTTATATTTATAT
1 TAATATTTAATATAATATTATATTTATAT
4432242 TAATAT
1 TAATAT
4432248 ATTTCGATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 26 0.90
30 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (29 bp):
TAATATTTAATATAATATTATATTTATAT
Found at i:4432233 original size:40 final size:40
Alignment explanation
Indices: 4432166--4432242 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
4432156 ATTAATAATC
4432166 TTTATATTAAGTAATTAATAATATTTATATTAATATTCTA
1 TTTATATTAAGTAATTAATAATATTTATATTAATATTCTA
* *
4432206 TTTATATTAA-TAATTAATATATTTTTATATTTATATT
1 TTTATATTAAGTAATTAATA-ATATTTATATTAATATT
4432243 AATATATTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 9 0.26
40 25 0.74
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (40 bp):
TTTATATTAAGTAATTAATAATATTTATATTAATATTCTA
Found at i:4432292 original size:12 final size:12
Alignment explanation
Indices: 4432275--4432408 Score: 51
Period size: 12 Copynumber: 10.3 Consensus size: 12
4432265 TATATTTCTA
4432275 TATTATTTATTT
1 TATTATTTATTT
4432287 TATTATTCTATCTAT
1 TATTATT-TAT-T-T
4432302 TATTATATTATCTAT
1 TATTAT-TTAT-T-T
4432317 TATTATATTATTCT
1 TATTAT-TTATT-T
* *
4432331 TATAATATTATTA
1 TATTAT-TTATTT
4432344 TA-TATATTATTAT
1 TATTAT-TTATT-T
**
4432357 T-TTATTTA-AA
1 TATTATTTATTT
**
4432367 TATTATTTAAAT
1 TATTATTTATTT
*
4432379 TATTATTTCTATT
1 TATTATTTAT-TT
4432392 TAGTTA-TTATTT
1 TA-TTATTTATTT
4432404 ATATT
1 -TATT
4432409 TAGTCTATTT
Statistics
Matches: 99, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
10 1 0.01
11 7 0.07
12 31 0.31
13 17 0.17
14 17 0.17
15 25 0.25
16 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:4432293 original size:15 final size:15
Alignment explanation
Indices: 4432275--4432441 Score: 62
Period size: 15 Copynumber: 10.9 Consensus size: 15
4432265 TATATTTCTA
4432275 TATTATTTATTTTAT
1 TATTATTTATTTTAT
* *
4432290 TA-T-TCTA-TCTAT
1 TATTATTTATTTTAT
*
4432302 TATTATATTA-TCTAT
1 TATTAT-TTATTTTAT
4432317 TATTATATTATTCTTAT
1 TATTAT-TTATT-TTAT
*
4432334 AATATTA-TTATATATAT
1 --TATTATTTAT-TTTAT
* *
4432351 TATTATTTTATTTAAA
1 TATTA-TTTATTTTAT
**
4432367 TATTATTTAAATTAT
1 TATTATTTATTTTAT
*
4432382 TATT-TCTA-TTTAGT
1 TATTATTTATTTTA-T
4432396 TATTATTTATATTTAGT
1 TATTATTTAT-TTTA-T
** *
4432413 CTATT-TAGAATTTAT
1 -TATTATTTATTTTAT
*
4432428 TATTATTTAATTTA
1 TATTATTTATTTTA
4432442 AGTTAAATAG
Statistics
Matches: 116, Mismatches: 20, Indels: 32
0.69 0.12 0.19
Matches are distributed among these distances:
12 6 0.05
13 7 0.06
14 14 0.12
15 45 0.39
16 12 0.10
17 22 0.19
18 5 0.04
19 5 0.04
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTATTTATTTTAT
Found at i:4432372 original size:11 final size:12
Alignment explanation
Indices: 4432358--4432386 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
4432348 TATTATTATT
4432358 TTATTTAAA-TA
1 TTATTTAAATTA
4432369 TTATTTAAATTA
1 TTATTTAAATTA
4432381 TTATTT
1 TTATTT
4432387 CTATTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTTAAATTA
Found at i:4432373 original size:3 final size:3
Alignment explanation
Indices: 4432275--4432362 Score: 64
Period size: 3 Copynumber: 30.3 Consensus size: 3
4432265 TATATTTCTA
*
4432275 TAT TATT TAT T-T TAT TAT T-C TAT CTAT TAT TA- TAT TAT CTAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT
* *
4432320 TA- TAT TAT TCT TA- TAA TAT TAT TA- TAT ATAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
4432362 T
1 T
4432363 TAAATATTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
2 13 0.19
3 44 0.64
4 12 0.17
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:4432400 original size:17 final size:17
Alignment explanation
Indices: 4432336--4432446 Score: 66
Period size: 17 Copynumber: 7.1 Consensus size: 17
4432326 ATTCTTATAA
*
4432336 TATTA-TTATATATA-T
1 TATTATTTATATTTAGT
**
4432351 TATTATTT-TATTTAAA
1 TATTATTTATATTTAGT
4432367 TATTATTTA-A---A-T
1 TATTATTTATATTTAGT
*
4432379 TATTATTTCTATTTAGT
1 TATTATTTATATTTAGT
4432396 TATTATTTATATTTAG-
1 TATTATTTATATTTAGT
* *
4432412 T-CTATTTAGAATTTA-T
1 TATTATTTA-TATTTAGT
4432428 TATTATTTA-ATTTAAGT
1 TATTATTTATATTT-AGT
4432445 TA
1 TA
4432447 AATAGAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 24
0.70 0.07 0.22
Matches are distributed among these distances:
12 8 0.11
13 2 0.03
15 20 0.27
16 20 0.27
17 25 0.33
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (17 bp):
TATTATTTATATTTAGT
Found at i:4433938 original size:12 final size:12
Alignment explanation
Indices: 4433921--4433947 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4433911 CTAGTACTTT
4433921 TTTGATATGAAC
1 TTTGATATGAAC
4433933 TTTGATATGAAC
1 TTTGATATGAAC
4433945 TTT
1 TTT
4433948 TAGAAGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (12 bp):
TTTGATATGAAC
Found at i:4437008 original size:21 final size:22
Alignment explanation
Indices: 4436982--4437039 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
4436972 TAAAAAAGAT
4436982 ATAAAATTAT-TAAATATTAAA
1 ATAAAATTATATAAATATTAAA
* *
4437003 ATAAAATAATATAAATATTTAA
1 ATAAAATTATATAAATATTAAA
4437025 A-AAAATTA-A-AAATAT
1 ATAAAATTATATAAATAT
4437040 GGGTAGATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.18
20 1 0.03
21 15 0.45
22 11 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
ATAAAATTATATAAATATTAAA
Found at i:4446963 original size:30 final size:30
Alignment explanation
Indices: 4446911--4446973 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
4446901 ATAGCACATG
* * * * *
4446911 ATTGAGCTCTTAATCGAGTTTAAGCACTCA
1 ATTGAGCGCTCAATCGAATTTAAACAATCA
*
4446941 ATTGAGCGCTCAATTGAATTTAAACAATCA
1 ATTGAGCGCTCAATCGAATTTAAACAATCA
4446971 ATT
1 ATT
4446974 AAACTCTCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (30 bp):
ATTGAGCGCTCAATCGAATTTAAACAATCA
Found at i:4447086 original size:21 final size:21
Alignment explanation
Indices: 4447060--4447101 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4447050 ATATTTCTTT
4447060 AAAAAACGT-AAAATTCATAAA
1 AAAAAACGTAAAAATTC-TAAA
*
4447081 AAAAAACTTAAAAATTCTAAA
1 AAAAAACGTAAAAATTCTAAA
4447102 GTATAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAAAACGTAAAAATTCTAAA
Found at i:4447206 original size:18 final size:18
Alignment explanation
Indices: 4447183--4447255 Score: 58
Period size: 18 Copynumber: 4.0 Consensus size: 18
4447173 AAATGAATTT
4447183 TTAAAAATTATTAAAAAA
1 TTAAAAATTATTAAAAAA
**
4447201 TTAAAAATT-TTAACAATG
1 TTAAAAATTATTAA-AAAA
* * *
4447219 TTGATAATTATAAAAAAA
1 TTAAAAATTATTAAAAAA
* *
4447237 TTACAAAAATCTTAAAAAA
1 TTA-AAAATTATTAAAAAA
4447256 AGAAAAAGCG
Statistics
Matches: 40, Mismatches: 12, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
17 4 0.10
18 22 0.55
19 14 0.35
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (18 bp):
TTAAAAATTATTAAAAAA
Found at i:4449680 original size:24 final size:24
Alignment explanation
Indices: 4449648--4449740 Score: 159
Period size: 24 Copynumber: 3.9 Consensus size: 24
4449638 GAATGCCTCC
4449648 CAACATGGGAGGGATGCCACCCAA
1 CAACATGGGAGGGATGCCACCCAA
4449672 CAACATGGGAGGGATGCCACCCAA
1 CAACATGGGAGGGATGCCACCCAA
*
4449696 CAACATGGGAAGGATGCCACCCAA
1 CAACATGGGAGGGATGCCACCCAA
* *
4449720 CAATATGGGAGGAATGCCACC
1 CAACATGGGAGGGATGCCACC
4449741 GAATCAAGGA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.34, C:0.28, G:0.28, T:0.10
Consensus pattern (24 bp):
CAACATGGGAGGGATGCCACCCAA
Found at i:4451761 original size:61 final size:62
Alignment explanation
Indices: 4451650--4451784 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 62
4451640 GATTTTTTTT
* * * * **
4451650 TTGAAATTTTTAGAGTTGGAACTAAATTGCATAAATTTTGTAAATTTTGAGGGCTAAATTTA
1 TTGAATTTTTTAGAATTGGAACTAAATAGCACAAATTTTGTAAACATTGAGGGCTAAATTTA
* * * *
4451712 TTGAATTTTTTAGAATTTGAACTAAA-AGGACAAATTTTGTAAACATTGAGTGCTAAATTTG
1 TTGAATTTTTTAGAATTGGAACTAAATAGCACAAATTTTGTAAACATTGAGGGCTAAATTTA
*
4451773 TTGAATATTTTA
1 TTGAATTTTTTA
4451785 TATTTAGGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
61 39 0.63
62 23 0.37
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.42
Consensus pattern (62 bp):
TTGAATTTTTTAGAATTGGAACTAAATAGCACAAATTTTGTAAACATTGAGGGCTAAATTTA
Found at i:4451937 original size:24 final size:24
Alignment explanation
Indices: 4451906--4451954 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4451896 GAGAGTAATC
4451906 AAAATATTTAATTTCAAAAAATTA
1 AAAATATTTAATTTCAAAAAATTA
4451930 AAAATATTTAATTTCAAAAAATTA
1 AAAATATTTAATTTCAAAAAATTA
4451954 A
1 A
4451955 GTGACTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATATTTAATTTCAAAAAATTA
Found at i:4460622 original size:20 final size:21
Alignment explanation
Indices: 4460585--4460623 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4460575 ATATTAAATT
* *
4460585 AAAAAAATAACCTTTAATTTA
1 AAAAAAATAAACTATAATTTA
4460606 AAAAAAATAAAC-ATAATT
1 AAAAAAATAAACTATAATT
4460624 ATCTAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAAATAAACTATAATTTA
Found at i:4461188 original size:9 final size:8
Alignment explanation
Indices: 4461149--4461185 Score: 65
Period size: 8 Copynumber: 4.5 Consensus size: 8
4461139 TAGCTAATTT
4461149 TTTAAAAA
1 TTTAAAAA
4461157 TTTAAAAA
1 TTTAAAAA
4461165 TTTAAAAA
1 TTTAAAAA
4461173 TTTATAAAA
1 TTTA-AAAA
4461182 TTTA
1 TTTA
4461186 TAATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TTTAAAAA
Found at i:4461598 original size:25 final size:27
Alignment explanation
Indices: 4461570--4461622 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4461560 TTTTATTTAT
4461570 ATTTTTA-TAATT-AAATCTAAATATA
1 ATTTTTATTAATTAAAATCTAAATATA
* *
4461595 ATTTTTATTATTTAAAATTTAAATATA
1 ATTTTTATTAATTAAAATCTAAATATA
4461622 A
1 A
4461623 AATTAATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 4 0.17
27 13 0.54
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTTTATTAATTAAAATCTAAATATA
Found at i:4466733 original size:159 final size:159
Alignment explanation
Indices: 4466444--4466776 Score: 553
Period size: 159 Copynumber: 2.1 Consensus size: 159
4466434 GGTCTCCGTG
4466444 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCTGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCTGCACTGAGTTCGTTA
*
4466509 GATCTGTTTGACTCGGACCTGCTACATTCGATTGAAATTGCAGGCTATGCTGAGAGTTTGAGTGA
66 GATCTGTTTGACTCGGACCTGCTACATGCGATTGAAATTGCAGGCTATGCTGAGAGTTTGAGTGA
**
4466574 TAAACCAGAGTCTGATTC-GGGTATGTTTC
131 TAAACCAGAGTCTGATTCTGACT-TGTTTC
*
4466603 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAATCTGTCACTCTGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCTGCACTGAGTTCGTTA
*
4466668 GATCTGTTTGACTCTGACCTGCTACATGCGATTGAAATTGCAGAG-TATGCTGAGAGTTTGAGTG
66 GATCTGTTTGACTCGGACCTGCTACATGCGATTGAAATTGCAG-GCTATGCTGAGAGTTTGAGTG
* * * *
4466732 ATGAATCGGAGTCTGATTCTGACTTTTTTC
130 ATAAACCAGAGTCTGATTCTGACTTGTTTC
4466762 ATTCAATTGAGGTTG
1 ATTCAATTGAGGTTG
4466777 AGGATATTCC
Statistics
Matches: 163, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
159 160 0.98
160 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (159 bp):
ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCTGCACTGAGTTCGTTA
GATCTGTTTGACTCGGACCTGCTACATGCGATTGAAATTGCAGGCTATGCTGAGAGTTTGAGTGA
TAAACCAGAGTCTGATTCTGACTTGTTTC
Found at i:4466909 original size:147 final size:147
Alignment explanation
Indices: 4466657--4466923 Score: 358
Period size: 147 Copynumber: 1.8 Consensus size: 147
4466647 CACTCTGCAC
* * * * * *
4466657 TGAGTTCGTTAGATCTGTTTGACTCTGACCTGCTACATGCGATTGAAATTGCAGAGTATGCTGAG
1 TGAGTTCCTCAGATCAGTTAGACTCTGACCTGCTACATGCGATTGAAATTGCAGACTATGCAGAG
* * * ** *
4466722 AGTTTGAGTGATGAATCGGAGTCTGATTCTGACTTTTTTCATTCAATTGAGGTTGAGGATATTCC
66 AGTCTGAGTGATGAATCAGAATCCAATTCCGACTTTTTTCATTCAATTGAGGTTGAGGATATTCC
4466787 AATAAGTAATTCTGCCG
131 AATAAGTAATTCTGCCG
*
4466804 TGAGTTCCTCAGATCAGTTAGACTCTGACCTGCTACACT-CGATTGAGATTGCAGACTATGCAGA
1 TGAGTTCCTCAGATCAGTTAGACTCTGACCTGCTACA-TGCGATTGAAATTGCAGACTATGCAGA
* * *
4466868 GGGTCTGAGTGATGAATCAGAATCCAATTCCGA-TTTGTTTCATTCGATTGGGGTTG
65 GAGTCTGAGTGATGAATCAGAATCCAATTCCGACTTT-TTTCATTCAATTGAGGTTG
4466924 GCTTGTGTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
146 3 0.03
147 98 0.96
148 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (147 bp):
TGAGTTCCTCAGATCAGTTAGACTCTGACCTGCTACATGCGATTGAAATTGCAGACTATGCAGAG
AGTCTGAGTGATGAATCAGAATCCAATTCCGACTTTTTTCATTCAATTGAGGTTGAGGATATTCC
AATAAGTAATTCTGCCG
Found at i:4468122 original size:61 final size:61
Alignment explanation
Indices: 4468024--4468161 Score: 195
Period size: 61 Copynumber: 2.3 Consensus size: 61
4468014 AAAACGTGTT
* * ** *
4468024 ACATAACAATCGATATAAACATATAAATAATTTATTCAAAAAAAGAAGAAGCAGTATTCCA
1 ACATAACAATCGATTTAAACATATAAACAATAGATTCAAAAAAAGAAAAAGCAGTATTCCA
* * *
4468085 ACATAATAATCGATTTAAACATATAAGCAATAGATTCAAAAGAAGAAAAAGCAGTATTCCA
1 ACATAACAATCGATTTAAACATATAAACAATAGATTCAAAAAAAGAAAAAGCAGTATTCCA
*
4468146 TCATAACAATCGATTT
1 ACATAACAATCGATTT
4468162 TTGAGAGGGC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.25
Consensus pattern (61 bp):
ACATAACAATCGATTTAAACATATAAACAATAGATTCAAAAAAAGAAAAAGCAGTATTCCA
Found at i:4470681 original size:19 final size:19
Alignment explanation
Indices: 4470657--4470701 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
4470647 GGTCTTAGGG
*
4470657 TTTTAATTAG-GTTTAAGGT
1 TTTTAATTAGAGTTT-AGAT
4470676 TTTTAAATTAGAGTTTAGAT
1 TTTT-AATTAGAGTTTAGAT
4470696 TTTTAA
1 TTTTAA
4470702 AATTAAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 13 0.57
21 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (19 bp):
TTTTAATTAGAGTTTAGAT
Found at i:4470686 original size:20 final size:20
Alignment explanation
Indices: 4470657--4470721 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
4470647 GGTCTTAGGG
*
4470657 TTTT-AATTAG-GTTTAAGGT
1 TTTTAAATTAGAGTTT-AGAT
4470676 TTTTAAATTAGAGTTTAGAT
1 TTTTAAATTAGAGTTTAGAT
*
4470696 TTTTAAAATTAAAGTTTTAG-T
1 TTTT-AAATTAGAG-TTTAGAT
4470717 TTTTA
1 TTTTA
4470722 TTTTATACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.10
20 14 0.35
21 17 0.43
22 5 0.12
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (20 bp):
TTTTAAATTAGAGTTTAGAT
Found at i:4471062 original size:25 final size:25
Alignment explanation
Indices: 4471015--4471062 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4471005 TGAAAGAATT
* *
4471015 AATTATTTTATTTTATTTTTATTCA
1 AATTATTTAATTTTATTTATATTCA
4471040 AATTATTTAATTATT-TTTATATT
1 AATTATTTAATT-TTATTTATATT
4471063 ATTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
AATTATTTAATTTTATTTATATTCA
Found at i:4471181 original size:141 final size:140
Alignment explanation
Indices: 4470804--4471246 Score: 638
Period size: 141 Copynumber: 3.2 Consensus size: 140
4470794 TATTGTCGTC
* * * *
4470804 AAATTATAATTTTAATATTTATTTTATATATTTTAGGTAAAAAAACCCATAATAAATTGAAAGAA
1 AAATTACAATTTTAGTATTTATTTTATATATTTTAAGTAAAAAAACCCATAACAAATTGAAAGAA
*
4470869 TTAAAATTTTTTATTTTTTTCTGTTTTATTTTTATTCAAATTATTTAGTTATTTTTATAAATATT
66 TT--AATTTTTTATTTTTTTCTGTTTTATTTTTATTCAAATTATTTAATTATTTTTAT--ATATT
*
4470934 TATTACTAATTGTT
127 TATTATTAATTGTT
4470948 AAATTACAATTTTAGTATTTATTTTATATATTTTAAGTAAAAAAACCCATAACAAATTGAAAGAA
1 AAATTACAATTTTAGTATTTATTTTATATATTTTAAGTAAAAAAACCCATAACAAATTGAAAGAA
*
4471013 TTAA----TTA----TTT-TATTTTATTTTTATTCAAATTATTTAATTATTTTTATATTATTTAT
66 TTAATTTTTTATTTTTTTCTGTTTTATTTTTATTCAAATTATTTAATTATTTTTATA-TATTTAT
* *
4471069 TATTTATTTTT
130 TATTAATTGTT
4471080 AAATTACAATTTTAGTATTTATTTTATATATTTTAAGT-AAAAAACCCATAACAAATTGAAAGAA
1 AAATTACAATTTTAGTATTTATTTTATATATTTTAAGTAAAAAAACCCATAACAAATTGAAAGAA
*
4471144 TTAATTTTTTTATTTTTTTCTGTTTTATTTTTATTCAAATTATTTAATTATTTATTGA-AAATTT
66 TTAA-TTTTTTATTTTTTTCTGTTTTATTTTTATTCAAATTATTTAATTATTT-TT-ATATATTT
4471208 ATTATTAATTGTT
128 ATTATTAATTGTT
*
4471221 AAATTACAAATTTAGTATTTATTTTA
1 AAATTACAATTTTAGTATTTATTTTA
4471247 GTATTTATTA
Statistics
Matches: 272, Mismatches: 14, Indels: 29
0.86 0.04 0.09
Matches are distributed among these distances:
131 31 0.11
132 53 0.19
133 35 0.13
134 3 0.01
136 3 0.01
138 3 0.01
140 3 0.01
141 72 0.26
142 5 0.02
143 1 0.00
144 63 0.23
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (140 bp):
AAATTACAATTTTAGTATTTATTTTATATATTTTAAGTAAAAAAACCCATAACAAATTGAAAGAA
TTAATTTTTTATTTTTTTCTGTTTTATTTTTATTCAAATTATTTAATTATTTTTATATATTTATT
ATTAATTGTT
Found at i:4471213 original size:18 final size:19
Alignment explanation
Indices: 4471167--4471218 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
4471157 TTTTTTCTGT
*
4471167 TTTATT-TTTATTCAAATTA
1 TTTATTATTTATTGAAA-TA
4471186 TTTAATTATTTATTGAAA-A
1 TTT-ATTATTTATTGAAATA
*
4471205 TTTATTATTAATTG
1 TTTATTATTTATTG
4471219 TTAAATTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 10 0.34
19 7 0.24
20 3 0.10
21 9 0.31
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTATTATTTATTGAAATA
Found at i:4471248 original size:12 final size:12
Alignment explanation
Indices: 4471231--4471255 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4471221 AAATTACAAA
4471231 TTTAGTATTTAT
1 TTTAGTATTTAT
4471243 TTTAGTATTTAT
1 TTTAGTATTTAT
4471255 T
1 T
4471256 ATTTTATATC
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTAGTATTTAT
Found at i:4471811 original size:3 final size:3
Alignment explanation
Indices: 4471803--4471828 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4471793 ATAGATATCT
4471803 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4471829 TAAAGATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4472144 original size:61 final size:60
Alignment explanation
Indices: 4471985--4472154 Score: 192
Period size: 55 Copynumber: 2.9 Consensus size: 60
4471975 GACGTGTTAC
* * * *
4471985 ATAA-CAATCGATTTAAAAGAAGAACAAATAATATTCCAACATAATAATCGATTTAAACAT
1 ATAATCAATCGATTCAAAAGAAGAATAAGT-ATATTCCAACATAATAATTGATTTAAACAT
* *
4472045 ATAATCAATCAATTC-----AA-AATAAGCTATATTCTAACATAATAATTGATTTAAACAT
1 ATAATCAATCGATTCAAAAGAAGAATAAG-TATATTCCAACATAATAATTGATTTAAACAT
* *
4472100 ATAATCAATCGATTCAAAAGAAGAATAAGTAGTATTCCACCATAACAATTGATTT
1 ATAATCAATCGATTCAAAAGAAGAATAAGTA-TATTCCAACATAATAATTGATTT
4472155 TTGAGAGGGC
Statistics
Matches: 91, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
55 46 0.51
56 3 0.03
60 8 0.09
61 34 0.37
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.30
Consensus pattern (60 bp):
ATAATCAATCGATTCAAAAGAAGAATAAGTATATTCCAACATAATAATTGATTTAAACAT
Found at i:4474780 original size:133 final size:131
Alignment explanation
Indices: 4474538--4474812 Score: 514
Period size: 133 Copynumber: 2.1 Consensus size: 131
4474528 AACACTAAAA
*
4474538 GAAAAAAAAAACACTGAGAATGAACTTCCCATCAAGAACCCTTCATGATCCATGGATGCAGAATG
1 GAAAAAAAAAACACTGAGAATGAACTTCCCATCAAGAACCCTCCATGATCCATGGATGCAGAATG
4474603 GCATAAGCTCAGCAGATTGATGATCTGCAAACATAACATAATCTAGACACTTGAATGACAATACT
66 GCATAAGCTCAGCAGATTGATGATCTGCAAACATAACATAATCTAGACACTTGAATGACAATACT
4474668 T
131 T
4474669 GAAAAAAAAAACACTGAGAATGAACTTCCCATCAAGAACCCTCCATGATCCATGGATGCAGAATT
1 GAAAAAAAAAACACTGAGAATGAACTTCCCATCAAGAACCCTCCATGATCCATGGATGCAGAA--
*
4474734 TGGCATAAGCTCAGCAGATTGATGATCTGCAAACATAACATAATCTAGACACTTGAATGGCAATA
64 TGGCATAAGCTCAGCAGATTGATGATCTGCAAACATAACATAATCTAGACACTTGAATGACAATA
4474799 CTT
129 CTT
4474802 GAAAAAAAAAA
1 GAAAAAAAAAA
4474813 AGGTATGACA
Statistics
Matches: 140, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
131 62 0.44
133 78 0.56
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (131 bp):
GAAAAAAAAAACACTGAGAATGAACTTCCCATCAAGAACCCTCCATGATCCATGGATGCAGAATG
GCATAAGCTCAGCAGATTGATGATCTGCAAACATAACATAATCTAGACACTTGAATGACAATACT
T
Found at i:4476976 original size:15 final size:15
Alignment explanation
Indices: 4476941--4476973 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4476931 TATTTAAATT
*
4476941 TTAATCAAGGACGGA
1 TTAATGAAGGACGGA
4476956 TTAATGAAGGA-GGA
1 TTAATGAAGGACGGA
4476970 TTAA
1 TTAA
4476974 ATGTAATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (15 bp):
TTAATGAAGGACGGA
Found at i:4484554 original size:24 final size:24
Alignment explanation
Indices: 4484509--4484588 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
4484499 ACCACTCAAC
*
4484509 CCACCATAAACAGTTGAACCTGGT
1 CCACCATAACCAGTTGAACCTGGT
* * *
4484533 CCGCCATAACCAGCTGATCCTGGT
1 CCACCATAACCAGTTGAACCTGGT
* *
4484557 ACACCATAGCCAGTTGAACCTGGT
1 CCACCATAACCAGTTGAACCTGGT
4484581 CCACCATA
1 CCACCATA
4484589 CCCACCATAC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (24 bp):
CCACCATAACCAGTTGAACCTGGT
Found at i:4492910 original size:16 final size:17
Alignment explanation
Indices: 4492880--4492912 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4492870 ATTTAAATCA
4492880 AACTGCATACATATTAC
1 AACTGCATACATATTAC
*
4492897 AACT-CATACGTATTAC
1 AACTGCATACATATTAC
4492913 CAAAAACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (17 bp):
AACTGCATACATATTAC
Found at i:4494923 original size:21 final size:21
Alignment explanation
Indices: 4494892--4494943 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
4494882 ATTAAAATTT
*
4494892 TTAAAAGTTTCAAGCA-TTTAA
1 TTAAAA-TTTCAAGCAGTCTAA
*
4494913 TTAGAAATTTCAAGTAGTCTAA
1 TTA-AAATTTCAAGCAGTCTAA
4494935 TTAAAATTT
1 TTAAAATTT
4494944 TTGATGATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (21 bp):
TTAAAATTTCAAGCAGTCTAA
Found at i:4497358 original size:15 final size:16
Alignment explanation
Indices: 4497338--4497369 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
4497328 TACTGGATAG
4497338 ATATGAAAT-AATATA
1 ATATGAAATAAATATA
4497353 ATATGAAATAAATATA
1 ATATGAAATAAATATA
4497369 A
1 A
4497370 ACAAAGCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
ATATGAAATAAATATA
Found at i:4500521 original size:16 final size:18
Alignment explanation
Indices: 4500482--4500515 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4500472 TAAGTTTATA
4500482 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
4500499 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
4500516 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:4500681 original size:32 final size:32
Alignment explanation
Indices: 4500612--4500690 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
4500602 TATAAATTTT
* * * *
4500612 TTAATAAATAAAATATACATAAATTTATTAAATA
1 TTAA-AAATAATATA-ATATAAATTTATAAAAAA
4500646 TT-AAAATAATATAATATAAATATTATAAAAAA
1 TTAAAAATAATATAATATAAAT-TTATAAAAAA
4500678 TTAAAAATAATAT
1 TTAAAAATAATAT
4500691 GGACGAGCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
31 7 0.18
32 19 0.49
33 11 0.28
34 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (32 bp):
TTAAAAATAATATAATATAAATTTATAAAAAA
Found at i:4502277 original size:13 final size:14
Alignment explanation
Indices: 4502253--4502281 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4502243 TAATAACTTA
4502253 AAAAATTAATATTT
1 AAAAATTAATATTT
4502267 AAAAATT-ATATTT
1 AAAAATTAATATTT
4502280 AA
1 AA
4502282 TATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAAATTAATATTT
Found at i:4506659 original size:6 final size:6
Alignment explanation
Indices: 4506636--4506670 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
4506626 TTTTTAGTCA
4506636 GAATCT CGAATCCT GAATCT GAATCT GAATCT GAA
1 GAATCT -GAAT-CT GAATCT GAATCT GAATCT GAA
4506671 CCTCGAACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 17 0.63
7 8 0.30
8 2 0.07
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (6 bp):
GAATCT
Found at i:4515976 original size:14 final size:14
Alignment explanation
Indices: 4515957--4515986 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4515947 AATCAATATC
*
4515957 AAATATATTATGCT
1 AAATATATTATACT
4515971 AAATATATTATACT
1 AAATATATTATACT
4515985 AA
1 AA
4515987 TAAATACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (14 bp):
AAATATATTATACT
Found at i:4525272 original size:16 final size:17
Alignment explanation
Indices: 4525251--4525285 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4525241 TCTCAAATAT
4525251 ATTT-AAAAATATATAA
1 ATTTAAAAAATATATAA
*
4525267 ATTTAAAAAATATTTAA
1 ATTTAAAAAATATATAA
4525284 AT
1 AT
4525286 AGTGTGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAAAAATATATAA
Found at i:4526278 original size:114 final size:114
Alignment explanation
Indices: 4525956--4526286 Score: 416
Period size: 120 Copynumber: 2.9 Consensus size: 114
4525946 CATTATACCT
*
4525956 TAAAAATTATTATTAAAAAGTGAAA-TACTTAAGTTTGAGTTCAATTAGTTATTCAATGCTTTTC
1 TAAAAATTATTATTAAAAAGTGAAAGTACTTAAGTTTGAGTTCAATTAGTTATTCAGTGCTTTTC
* * *
4526020 GATTATAGTATCTTAGGTTGAGGTAGTTTTGAACAATGTTAAGTTTGCCT
66 GATTATA-TATCTTAGGTTGAGGCAGTTTCGAACAATGTTAAGTTTGCCA
* * *
4526070 TAAAAATGATTATTAAAAAGTGAATTCGAAGTACTTAAGTTTGAATTCAATTAGTTATCCAGTGC
1 TAAAAATTATTATTAAAAAGTG-A----AAGTACTTAAGTTTGAGTTCAATTAGTTATTCAGTGC
* * * *
4526135 TTTTCGCTTATAATATCTTAGGCTAAGGCAGTTTCGAACAATGTTAAGTTTGTCA
61 TTTTCGATTAT-ATATCTTAGGTTGAGGCAGTTTCGAACAATGTTAAGTTTGCCA
* * * *
4526190 TACAAATTATTATTAAAAAGT-AAAGTACTTAAGTTTGAGCTT-AATTAATTATTGAGTGTTTTT
1 TAAAAATTATTATTAAAAAGTGAAAGTACTTAAGTTTGAG-TTCAATTAGTTATTCAGTGCTTTT
*
4526253 CGATTATGATATCTTAGGTTGAGGCAATTTCGAA
65 CGATTAT-ATATCTTAGGTTGAGGCAGTTTCGAA
4526287 TCATGCTAAA
Statistics
Matches: 186, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
114 83 0.45
115 3 0.02
118 1 0.01
119 2 0.01
120 96 0.52
121 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (114 bp):
TAAAAATTATTATTAAAAAGTGAAAGTACTTAAGTTTGAGTTCAATTAGTTATTCAGTGCTTTTC
GATTATATATCTTAGGTTGAGGCAGTTTCGAACAATGTTAAGTTTGCCA
Found at i:4526656 original size:44 final size:45
Alignment explanation
Indices: 4526576--4526667 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 45
4526566 GTGCTGATTA
* * * *
4526576 GATGGGAAGATTGACTATAATTGATACAATATGTTAGTAAGT-TT
1 GATGAGAAGACTGACTATAATTGATACAATAGGTTAGCAAGTCTT
* **
4526620 GATGAGAAGACTGATTATAATTGATACGGTAGGTTAGCAAGTCTT
1 GATGAGAAGACTGACTATAATTGATACAATAGGTTAGCAAGTCTT
4526665 GAT
1 GAT
4526668 TTCTTATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 35 0.88
45 5 0.12
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.34
Consensus pattern (45 bp):
GATGAGAAGACTGACTATAATTGATACAATAGGTTAGCAAGTCTT
Found at i:4538878 original size:59 final size:58
Alignment explanation
Indices: 4538823--4539219 Score: 578
Period size: 59 Copynumber: 6.7 Consensus size: 58
4538813 CCCGGGGGCA
*
4538823 AAAATGGTAATTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* **
4538881 AAAATGATAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTTAGGGGT
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* * * * *
4538940 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAACGGGATTTTAGAAGCTTCGGGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
*
4538999 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* * * * *
4539058 AAAACGGTAATTTTTGGTGAAATTGGGGTTAAAAATGAAATTTTAGAAGCTTCGGGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
*
4539117 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTTGGGGGT
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* *
4539176 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGTAATTTT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTT
4539220 GGAAAAGTTT
Statistics
Matches: 303, Mismatches: 30, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
58 21 0.07
59 270 0.89
60 12 0.04
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (58 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
Found at i:4538994 original size:118 final size:118
Alignment explanation
Indices: 4538823--4539219 Score: 652
Period size: 118 Copynumber: 3.4 Consensus size: 118
4538813 CCCGGGGGCA
* * *
4538823 AAAATGGTAA-TTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
* *
4538887 ATAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTTAGGGGT
66 GTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTTGGGGGT
* * *
4538940 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAACGGGATTTTAGAAGCTTCGGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
* *
4539005 GTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAAAAGATTCGGGGGT
66 GTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTTGGGGGT
* * *
4539058 AAAACGGTAATTTTTGGTGAAATTGGGGTTAAAAATGAAATTTTAGAAGCTTCGGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
4539123 GTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTTGGGGGT
66 GTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTTGGGGGT
* *
4539176 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGTAATTTT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTT
4539220 GGAAAAGTTT
Statistics
Matches: 259, Mismatches: 20, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
117 10 0.04
118 249 0.96
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (118 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATG
GTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTTGGGGGT
Found at i:4539247 original size:30 final size:30
Alignment explanation
Indices: 4539207--4539493 Score: 360
Period size: 30 Copynumber: 9.5 Consensus size: 30
4539197 ATCGAGGTTA
4539207 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
** * * *
4539237 AAAACATAATTTTGGTAAAGTTTCGAGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* * *
4539267 AAAATGTAACTTTGGAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
*
4539297 AAAATGTAATTTTGGAAAAGTTTCGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
4539327 AAGATGTAATTTTGAAAAAGTTTTGGGG-C
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
4539356 TAAAATGTAATTTTGGAAAAGTTTTAGGGTT
1 -AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* * * *
4539387 AAAGTGTGATTTTGGTAAAGTTTCGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
*
4539417 AAAATGTAATTTTGGAAAAGTTTTGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* * *
4539447 AAAATATAATATTGGGAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
4539477 AAAATGTAATTTATGGA
1 AAAATGTAATTT-TGGA
4539494 TAATTTAGGG
Statistics
Matches: 212, Mismatches: 42, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
29 1 0.00
30 208 0.98
31 3 0.01
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTGGGGTC
Found at i:4541210 original size:15 final size:15
Alignment explanation
Indices: 4541165--4541219 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
4541155 GCAGGTTCAA
*
4541165 TGGTGGTGGCAGGGC
1 TGGTGGTGGCAGAGC
4541180 ATGGTGGAT-G--GAGC
1 -TGGTGG-TGGCAGAGC
4541194 TGGTGGTGGCAGAGC
1 TGGTGGTGGCAGAGC
4541209 TGGTGGTGGCA
1 TGGTGGTGGCA
4541220 ACAGCATAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
12 1 0.03
13 7 0.21
14 3 0.09
15 15 0.44
16 7 0.21
17 1 0.03
ACGTcount: A:0.13, C:0.11, G:0.55, T:0.22
Consensus pattern (15 bp):
TGGTGGTGGCAGAGC
Found at i:4541420 original size:6 final size:6
Alignment explanation
Indices: 4541386--4541493 Score: 82
Period size: 6 Copynumber: 18.0 Consensus size: 6
4541376 TATTTGGACT
* **
4541386 TTTAAA -TTATAA TGTTAAA TTTAATA TTTTAA TTTTTA TTTAAA TTTAAA
1 TTTAAA TTTA-AA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA
* * *
4541436 TTCAAA -TTAAA TTTAAATA TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
4541484 --TAAA TTTAAA
1 TTTAAA TTTAAA
4541494 ATCAATTTAA
Statistics
Matches: 83, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
4 4 0.05
5 11 0.13
6 49 0.59
7 12 0.14
8 7 0.08
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:4541457 original size:25 final size:25
Alignment explanation
Indices: 4541429--4541478 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4541419 TTTTATTTAA
* *
4541429 ATTTAAATTCAAATTAAATTTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
*
4541454 ATTTAAATTTAAAATAAATCTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
4541479 TTAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTAAATTCAAAATAAATCTAAAT
Found at i:4541457 original size:31 final size:31
Alignment explanation
Indices: 4541422--4541485 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
4541412 TTTTAATTTT
*
4541422 TATTTAAATTTAAATTCAAAT-TAAATTTAAA
1 TATTTAAATTTAAAAT-AAATCTAAATTTAAA
4541453 TATTTAAATTTAAAATAAATCTAAATTTAAA
1 TATTTAAATTTAAAATAAATCTAAATTTAAA
4541484 TA
1 TA
4541486 AATTTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TATTTAAATTTAAAATAAATCTAAATTTAAA
Found at i:4541472 original size:42 final size:43
Alignment explanation
Indices: 4541400--4541493 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 43
4541390 AATTATAATG
* * ** *
4541400 TTAAATTT-AATATTTTAATTTTTATTTAAATTTAAATTCAAA
1 TTAAATTTAAATATTTTAAATTTAAAATAAATCTAAATTCAAA
*
4541442 TTAAATTTAAATA-TTTAAATTTAAAATAAATCTAAATTTAAA
1 TTAAATTTAAATATTTTAAATTTAAAATAAATCTAAATTCAAA
4541484 -TAAATTTAAA
1 TTAAATTTAAA
4541494 ATCAATTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 10 0.22
42 31 0.69
43 4 0.09
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (43 bp):
TTAAATTTAAATATTTTAAATTTAAAATAAATCTAAATTCAAA
Found at i:4541495 original size:17 final size:16
Alignment explanation
Indices: 4541423--4541493 Score: 85
Period size: 17 Copynumber: 4.4 Consensus size: 16
4541413 TTTAATTTTT
4541423 ATTTAAATTTAAATTCAA
1 ATTTAAATTTAAA-T-AA
4541441 A-TTAAATTTAAAT--
1 ATTTAAATTTAAATAA
4541454 ATTTAAATTTAAAATAA
1 ATTTAAATTT-AAATAA
*
4541471 ATCTAAATTTAAATAA
1 ATTTAAATTTAAATAA
4541487 ATTTAAA
1 ATTTAAA
4541494 ATCAATTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
13 1 0.02
14 8 0.17
15 4 0.09
16 13 0.28
17 20 0.43
18 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:4541899 original size:4 final size:4
Alignment explanation
Indices: 4541890--4541916 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4541880 CTATATATTC
4541890 ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATG
4541917 AATACTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:4544977 original size:2 final size:2
Alignment explanation
Indices: 4544970--4545008 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4544960 GGGTCACAAC
4544970 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4545009 ACTAGGGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4552414 original size:2 final size:2
Alignment explanation
Indices: 4552409--4552442 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4552399 AAAATAAAAA
4552409 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
4552443 TTAATATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4553618 original size:21 final size:21
Alignment explanation
Indices: 4553592--4553637 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4553582 CCAATCCTTT
4553592 TTTTCC-CTTACTTTTGCTTCC
1 TTTTCCTCTTACTTTTGCTT-C
* *
4553613 TTTTCCTTTTATTTTTGCTTC
1 TTTTCCTCTTACTTTTGCTTC
4553634 TTTT
1 TTTT
4553638 AATAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTCCTCTTACTTTTGCTTC
Found at i:4556946 original size:134 final size:134
Alignment explanation
Indices: 4556706--4556973 Score: 482
Period size: 134 Copynumber: 2.0 Consensus size: 134
4556696 GAACTAAAAC
4556706 CCAAAACCTCTCACATCACATTATTAAATGATATACTAAAAGAAACCCAGATCAAAACTTAGTCG
1 CCAAAACCTCTCACATCACATTATTAAATGATATACTAAAAGAAACCCAGATCAAAACTTAGTCG
*
4556771 GTGATTGAATTGTTGAAGGAATGGGTTTTGGCTCATGAAATTGTTTAACTAAAAAAGAAACTATA
66 GTGATTGAATTGTTGAAGGAATGGGTTTTGGCTCACGAAATTGTTTAACTAAAAAAGAAACTATA
4556836 CTTT
131 CTTT
** *
4556840 CCAAAACCTCTCACATCACATTATTAGCTGATATACTAAAAGAAACCCAGATCAAAGCTTAGTCG
1 CCAAAACCTCTCACATCACATTATTAAATGATATACTAAAAGAAACCCAGATCAAAACTTAGTCG
**
4556905 GTGATTGGGTTGTTGAAGGAATGGGTTTTGGCTCACGAAATTGTTTAACTAAAAAAGAAACTATA
66 GTGATTGAATTGTTGAAGGAATGGGTTTTGGCTCACGAAATTGTTTAACTAAAAAAGAAACTATA
4556970 CTTT
131 CTTT
4556974 TTTGGGGGGG
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 128 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (134 bp):
CCAAAACCTCTCACATCACATTATTAAATGATATACTAAAAGAAACCCAGATCAAAACTTAGTCG
GTGATTGAATTGTTGAAGGAATGGGTTTTGGCTCACGAAATTGTTTAACTAAAAAAGAAACTATA
CTTT
Found at i:4561531 original size:20 final size:18
Alignment explanation
Indices: 4561494--4561536 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 18
4561484 AAACATATAT
*
4561494 TTTATAAATTAATTATTA
1 TTTAAAAATTAATTATTA
4561512 TTTAAAAATGTAATTTATTA
1 TTTAAAAAT-TAA-TTATTA
4561532 TTTAA
1 TTTAA
4561537 TTTGAACTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTAAAAATTAATTATTA
Found at i:4562003 original size:13 final size:13
Alignment explanation
Indices: 4561985--4562010 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4561975 TTTTAAAAAC
4561985 ATATAAAATATTA
1 ATATAAAATATTA
4561998 ATATAAAATATTA
1 ATATAAAATATTA
4562011 TAATTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATAAAATATTA
Found at i:4562026 original size:30 final size:30
Alignment explanation
Indices: 4561992--4562100 Score: 83
Period size: 29 Copynumber: 3.8 Consensus size: 30
4561982 AACATATAAA
4561992 ATATTAATATAAAATATTATAATTTTTAAT
1 ATATTAATATAAAATATTATAATTTTTAAT
* *
4562022 ATATTAA-ACATACATATT-TAATTATTT-AT
1 ATATTAATATA-AAATATTATAATT-TTTAAT
* * *
4562051 AT-TTAATAATATAAT-TAATTA-TTTTAAT
1 ATATTAAT-ATAAAATATTATAATTTTTAAT
4562079 ATATTAAT-T--AATATTATAATTT
1 ATATTAATATAAAATATTATAATTT
4562101 CAAATTTTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 21
0.67 0.10 0.23
Matches are distributed among these distances:
25 3 0.05
26 4 0.07
27 6 0.10
28 10 0.16
29 20 0.33
30 18 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
ATATTAATATAAAATATTATAATTTTTAAT
Found at i:4562073 original size:26 final size:30
Alignment explanation
Indices: 4562015--4562092 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 30
4562005 ATATTATAAT
** * *
4562015 TTTTAATATATTAAACATACATATTTAATTA
1 TTTTAATATATTAATTA-ATATAATTAATTA
4562046 -TTT-ATAT-TTAA-TAATATAATTAATTA
1 TTTTAATATATTAATTAATATAATTAATTA
4562072 TTTTAATATATTAATTAATAT
1 TTTTAATATATTAATTAATAT
4562093 TATAATTTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
26 11 0.28
27 4 0.10
28 8 0.20
29 8 0.20
30 9 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTTAATATATTAATTAATATAATTAATTA
Found at i:4565344 original size:19 final size:19
Alignment explanation
Indices: 4565320--4565357 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4565310 CCATATTACT
4565320 TAGCTTCACACGGCTTGAC
1 TAGCTTCACACGGCTTGAC
4565339 TAGCTTCACACGGCTTGAC
1 TAGCTTCACACGGCTTGAC
4565358 CACATGGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (19 bp):
TAGCTTCACACGGCTTGAC
Found at i:4573112 original size:12 final size:12
Alignment explanation
Indices: 4573095--4573138 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
4573085 CACAACCGAC
4573095 CAACACCAACAT
1 CAACACCAACAT
*
4573107 CAACACCATCAT
1 CAACACCAACAT
* *
4573119 CATCAACAACAT
1 CAACACCAACAT
*
4573131 CACCACCA
1 CAACACCA
4573139 TCAAATCCCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.45, C:0.43, G:0.00, T:0.11
Consensus pattern (12 bp):
CAACACCAACAT
Found at i:4577943 original size:11 final size:11
Alignment explanation
Indices: 4577927--4577951 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4577917 GCAAAGATTT
4577927 GTGGGGTGGGG
1 GTGGGGTGGGG
4577938 GTGGGGTGGGG
1 GTGGGGTGGGG
4577949 GTG
1 GTG
4577952 TTTGATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.80, T:0.20
Consensus pattern (11 bp):
GTGGGGTGGGG
Found at i:4578958 original size:29 final size:28
Alignment explanation
Indices: 4578904--4578960 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
4578894 ATTTTTTTAA
* *
4578904 TATTTTTATTATAAATTTTGATATTATT
1 TATTTTTATTATAAATTTTAAAATTATT
4578932 TATTTTT-TTATACAATATTTAAAATTATT
1 TATTTTTATTATA-AAT-TTTAAAATTATT
4578961 CATAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 10 0.40
29 10 0.40
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
TATTTTTATTATAAATTTTAAAATTATT
Found at i:4594146 original size:17 final size:17
Alignment explanation
Indices: 4594124--4594159 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4594114 GGGAGAGACC
4594124 CTTTCCATCTCACCTAA
1 CTTTCCATCTCACCTAA
*
4594141 CTTTCCATTTCACCTAA
1 CTTTCCATCTCACCTAA
4594158 CT
1 CT
4594160 CTCACGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.39, G:0.00, T:0.39
Consensus pattern (17 bp):
CTTTCCATCTCACCTAA
Found at i:4605951 original size:24 final size:24
Alignment explanation
Indices: 4605922--4605970 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
4605912 TGAAGAAAGA
*
4605922 TATTTTTATAATAATATTT-ATTAT
1 TATTTTTAAAATAAT-TTTAATTAT
4605946 TATTTTTAAAATAATTTTAATTAT
1 TATTTTTAAAATAATTTTAATTAT
4605970 T
1 T
4605971 TATACTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTTTTAAAATAATTTTAATTAT
Found at i:4607948 original size:24 final size:26
Alignment explanation
Indices: 4607920--4607975 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
4607910 ATATAATCTT
4607920 AATATTT-CC-CAAAAAGATA-TTTTA
1 AATATTTCCCTCAAAAA-ATACTTTTA
4607944 AATATTTCCCTCAAAAAATATCTTTTA
1 AATATTTCCCTCAAAAAATA-CTTTTA
4607971 AATAT
1 AATAT
4607976 ATATTTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 7 0.25
25 5 0.18
26 6 0.21
27 10 0.36
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (26 bp):
AATATTTCCCTCAAAAAATACTTTTA
Found at i:4618464 original size:15 final size:15
Alignment explanation
Indices: 4618444--4618479 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
4618434 AATTATAGGA
4618444 TAATTTAATACAATT
1 TAATTTAATACAATT
*
4618459 TAATTTAATATAATT
1 TAATTTAATACAATT
4618474 TAATTT
1 TAATTT
4618480 TTTTAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATTTAATACAATT
Done.