Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 224 of 255
Found at i:74420833 original size:175 final size:175
Alignment explanation
Indices: 74420644--74421026 Score: 624
Period size: 175 Copynumber: 2.2 Consensus size: 175
74420634 CTTCGACGGA
* * *
74420644 GAACAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTCTCACATCAAAGCAGATCCAAGATA
1 GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAACAGATCCAAGATA
** * *
74420709 ACAAATCTGCCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGATG-TTT
66 ACAAATCTGCCATCTCCATTTAAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
* *
74420773 ATACTGAAGCAGATCCAAGATGATTTGGCATTTTTGTGTTTACAAG
131 -TACTGAAGCAGATCCAAGATGATTTAGCATTCTTGTGTTTACAAG
74420819 GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAACAGATCCAAGATA
1 GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAACAGATCCAAGATA
* *
74420884 ACAGATCTGGCATCTCCATTTAAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
66 ACAAATCTGCCATCTCCATTTAAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
74420949 TACTGAAGCAGATCCAAGATGATTTAGCATTCTTGTGTTTACAAG
131 TACTGAAGCAGATCCAAGATGATTTAGCATTCTTGTGTTTACAAG
* * *
74420994 GAGCAAATCGAAGACACAGCAGATTTGGCTTTC
1 GAACAAATCGAAGACATAGCAGATTTGACTTTC
74421027 ACGTGTTTAC
Statistics
Matches: 193, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
175 190 0.98
176 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (175 bp):
GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAACAGATCCAAGATA
ACAAATCTGCCATCTCCATTTAAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
TACTGAAGCAGATCCAAGATGATTTAGCATTCTTGTGTTTACAAG
Found at i:74420858 original size:87 final size:87
Alignment explanation
Indices: 74420762--74421065 Score: 241
Period size: 87 Copynumber: 3.5 Consensus size: 87
74420752 AGGTCTAACC
*
74420762 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTTTTGTGTTTACAAGGAACAAAT
1 TTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTTTTGTGTTTACAAGGAACAAAT
74420827 CGAAGACATAGCAGATTTGACT
66 CGAAGACATAGCAGATTTGACT
* ** * * * ***
74420849 TTCGGATGTTCTCACACCAAAACAGATCCAAGATAACAGATCTGGCA--TCTCCATTTA-AACGG
1 TTCAGATGTT-T-ACACTGAAGCAGATCCAAGAT----GATTTGGCATTTTTGTGTTTACAA-GG
* * * *
74420911 AGAGC--A--G-ATACATAGCAGATCTAACC
59 A-A-CAAATCGAAGACATAGCAGATTTGACT
* * * *
74420937 TTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTAGCATTCTTGTGTTTACAAGGAGCAAA
1 TTCAGATG-TTTACACTGAAGCAGATCCAAGATGATTTGGCATTTTTGTGTTTACAAGGAACAAA
* *
74421001 TCGAAGACACAGCAGATTTGGCT
65 TCGAAGACATAGCAGATTTGACT
* *
74421024 TTCACG-TGTTTACGCTGAAGCAGATCTAAGATGATTTGGCAT
1 TTCA-GATGTTTACACTGAAGCAGATCCAAGATGATTTGGCAT
74421066 CTCTGTATTG
Statistics
Matches: 160, Mismatches: 37, Indels: 40
0.68 0.16 0.17
Matches are distributed among these distances:
82 8 0.05
84 9 0.06
85 2 0.01
86 20 0.12
87 54 0.34
88 25 0.16
89 20 0.12
90 2 0.01
91 10 0.06
92 1 0.01
93 9 0.06
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (87 bp):
TTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTTTTGTGTTTACAAGGAACAAAT
CGAAGACATAGCAGATTTGACT
Found at i:74420968 original size:86 final size:86
Alignment explanation
Indices: 74420693--74420968 Score: 217
Period size: 86 Copynumber: 3.2 Consensus size: 86
74420683 TCTCACATCA
* * ** * *
74420693 AAGCAGATCCAAGATAACAAATCTGCCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTAAACGGAGAGCAGATACATAGCAGATCT
74420758 AACCTTCAGATGTTTATACTG
66 AACCTTCAGATGTTTATACTG
* * *** *
74420779 AAGCAGATCCAAGAT----GATTTGGCATTTTTGTGTTTACAA-GGA-A-CAAATCGAAGACATA
1 AAGCAGATCCAAGATAACAGATCTGGCA--TCTCCATTTA-AACGGAGAGC--A--G-ATACATA
* * * * * **
74420837 GCAGATTTGACTTTCGGATGTTCTCACACCA
58 GCAGATCTAACCTTCAGATGTT-T-ATACTG
*
74420868 AAACAGATCCAAGATAACAGATCTGGCATCTCCATTTAAACGGAGAGCAGATACATAGCAGATCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTAAACGGAGAGCAGATACATAGCAGATCT
74420933 AACCTTCAGATGATTT-TACTG
66 AACCTTCAGATG-TTTATACTG
74420954 AAGCAGATCCAAGAT
1 AAGCAGATCCAAGAT
74420969 GATTTAGCAT
Statistics
Matches: 138, Mismatches: 34, Indels: 36
0.66 0.16 0.17
Matches are distributed among these distances:
82 7 0.05
83 1 0.01
84 9 0.07
85 1 0.01
86 32 0.23
87 22 0.16
88 24 0.17
89 20 0.14
90 2 0.01
91 10 0.07
92 1 0.01
93 9 0.07
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (86 bp):
AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTAAACGGAGAGCAGATACATAGCAGATCT
AACCTTCAGATGTTTATACTG
Found at i:74424416 original size:29 final size:29
Alignment explanation
Indices: 74424383--74424440 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
74424373 AACACAAGGA
74424383 ACATATGTATATATATACAATCAAACATC
1 ACATATGTATATATATACAATCAAACATC
74424412 ACATATGTATATATATACAATCAAACATC
1 ACATATGTATATATATACAATCAAACATC
74424441 TTCTTAATTA
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:0.48, C:0.17, G:0.03, T:0.31
Consensus pattern (29 bp):
ACATATGTATATATATACAATCAAACATC
Found at i:74425845 original size:31 final size:32
Alignment explanation
Indices: 74425805--74425866 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 32
74425795 CCCTTTTTGT
*
74425805 TTTATTAATTCTTATTTC-ATAT-TATAAAACA
1 TTTAATAATT-TTATTTCTATATATATAAAACA
74425836 TTTAATAATTTTATTTCTTATATATATAAAA
1 TTTAATAATTTTATTTC-TATATATATAAAA
74425867 TGCATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 7 0.26
31 9 0.33
32 4 0.15
33 7 0.26
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (32 bp):
TTTAATAATTTTATTTCTATATATATAAAACA
Found at i:74426081 original size:14 final size:15
Alignment explanation
Indices: 74426052--74426081 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
74426042 CGAAATTTAG
74426052 ACATGATACTTTCAC
1 ACATGATACTTTCAC
74426067 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
74426081 A
1 A
74426082 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:74431205 original size:249 final size:249
Alignment explanation
Indices: 74430889--74431379 Score: 910
Period size: 249 Copynumber: 2.0 Consensus size: 249
74430879 AATCAATACA
*
74430889 TATGTTCATGGCATTAACAAACTCTCTTGAAGCCAAAACAAGGATAACGCCCTACGATATATGGA
1 TATGTTCATGGCATTAACAAACTCTCTTGAAGCCAAAACAAGGATAACACCCTACGATATATGGA
74430954 GAAGAATGAAGCTTGCTATCAAATACTTTGATATTTTTAAAAGTATCTGTTACATTCTAAGAGAT
66 GAAGAATGAAGCTTGCTATCAAATACTTTGATATTTTTAAAAGTATCTGTTACATTCTAAGAGAT
74431019 TGAACATACCATTGCTCAAATTTATGTAGATGACATCATATTTAGTTCTATTTATTTACAAGCAA
131 TGAACATACCATTGCTCAAATTTATGTAGATGACATCATATTTAGTTCTATTTATTTACAAGCAA
*
74431084 AAGATGGTTTTATGAAGGTGATGCAATAGAAATTTGAAGTTAGCATGATGGTTT
196 AAGATGGTTTTATGAAGGTGATGCAATAGAAATTTGAAATTAGCATGATGGTTT
*
74431138 TATGTTCATGGCATTAACAAACTCTCTTTAAGCCAAAACAAGGATAACACCCTACGATATATGGA
1 TATGTTCATGGCATTAACAAACTCTCTTGAAGCCAAAACAAGGATAACACCCTACGATATATGGA
* *
74431203 GAAGAATGAAGCTTGCTATCAAATACTTTGATATTTTTAAAAGTATCTGTTCCATTTTAAGAGAT
66 GAAGAATGAAGCTTGCTATCAAATACTTTGATATTTTTAAAAGTATCTGTTACATTCTAAGAGAT
* * *
74431268 TGAACATACCATTGCTCAAATTTGTGTAGATGACATCATCTTTAGTTCTATTTCTTTACAAGCAA
131 TGAACATACCATTGCTCAAATTTATGTAGATGACATCATATTTAGTTCTATTTATTTACAAGCAA
74431333 AAGATGGTTTTATGAAGGTGATGCAATAGAAATTTGAAATTAGCATG
196 AAGATGGTTTTATGAAGGTGATGCAATAGAAATTTGAAATTAGCATG
74431380 GTGGGAGAAC
Statistics
Matches: 234, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
249 234 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (249 bp):
TATGTTCATGGCATTAACAAACTCTCTTGAAGCCAAAACAAGGATAACACCCTACGATATATGGA
GAAGAATGAAGCTTGCTATCAAATACTTTGATATTTTTAAAAGTATCTGTTACATTCTAAGAGAT
TGAACATACCATTGCTCAAATTTATGTAGATGACATCATATTTAGTTCTATTTATTTACAAGCAA
AAGATGGTTTTATGAAGGTGATGCAATAGAAATTTGAAATTAGCATGATGGTTT
Found at i:74432224 original size:16 final size:15
Alignment explanation
Indices: 74432164--74432224 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 15
74432154 AATTTCTTAA
* *
74432164 AAATTTTAAAAATAAA
1 AAATTTTAAAAGT-AT
*
74432180 AAATTTTAAAATTAT
1 AAATTTTAAAAGTAT
*
74432195 AAAGTATTAAAAAGTAT
1 AAA-T-TTTAAAAGTAT
74432212 AAATTTTATAAAG
1 AAATTTTA-AAAG
74432225 GAATATAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
15 7 0.19
16 18 0.49
17 12 0.32
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (15 bp):
AAATTTTAAAAGTAT
Found at i:74433207 original size:7 final size:7
Alignment explanation
Indices: 74433195--74433220 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
74433185 AGTAATTATA
74433195 TATTTGT
1 TATTTGT
74433202 TATTTGT
1 TATTTGT
74433209 TATTTGT
1 TATTTGT
74433216 TATTT
1 TATTT
74433221 TAACTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (7 bp):
TATTTGT
Found at i:74433806 original size:17 final size:17
Alignment explanation
Indices: 74433784--74433821 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
74433774 TTTTATTGTT
*
74433784 TATTATA-ATAATTTTTA
1 TATTATATA-AATGTTTA
74433801 TATTATATAAATGTTTA
1 TATTATATAAATGTTTA
74433818 TATT
1 TATT
74433822 TTAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTATATAAATGTTTA
Found at i:74434048 original size:122 final size:126
Alignment explanation
Indices: 74433876--74434115 Score: 353
Period size: 122 Copynumber: 1.9 Consensus size: 126
74433866 TTTGTTTGTA
* *
74433876 AAGATTATATTGGTGTTTAAGGTGTAGGGATATATTAAAATAGTTCTAATGTA-TG-GTTTTTTA
1 AAGATTATATTGATGTTTAAGGTGTAGGGATAGATTAAAATAGTTCTAATGTATTGTGTTTTTTA
*
74433939 GTTTGTAATAATAATTT-TTTATTATAATATTTTACATATAATATTT-AGATTTAATCTTT
66 GTTTGTAATAATAATTTGTATATTATAATATTTTACATATAATATTTAAGATTTAATCTTT
* * ** * *
74433998 AAGATTATATTTATGTTTAAGTTGTAGGGATAGATTAGGATAGTTTTAATGTATTGTTTTTTTTA
1 AAGATTATATTGATGTTTAAGGTGTAGGGATAGATTAAAATAGTTCTAATGTATTGTGTTTTTTA
* *
74434063 GTTTGTAATAATAATTTGTATATTATAATATTTTACATTTAATTTTTAAGATT
66 GTTTGTAATAATAATTTGTATATTATAATATTTTACATATAATATTTAAGATT
74434116 ATAAAAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
122 46 0.45
123 2 0.02
124 24 0.23
125 26 0.25
126 5 0.05
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (126 bp):
AAGATTATATTGATGTTTAAGGTGTAGGGATAGATTAAAATAGTTCTAATGTATTGTGTTTTTTA
GTTTGTAATAATAATTTGTATATTATAATATTTTACATATAATATTTAAGATTTAATCTTT
Found at i:74436008 original size:16 final size:16
Alignment explanation
Indices: 74435987--74436025 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
74435977 CAACTCCTTC
74435987 ATGCATGAACGTCCCA
1 ATGCATGAACGTCCCA
74436003 ATGCATGAACGTCCCA
1 ATGCATGAACGTCCCA
74436019 ATGCATG
1 ATGCATG
74436026 CTCCTCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (16 bp):
ATGCATGAACGTCCCA
Found at i:74439260 original size:21 final size:21
Alignment explanation
Indices: 74439225--74439267 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
74439215 AATAAAATAT
** *
74439225 ATATTAGCTTTTATTACAAAA
1 ATATTAGCTCATATTAAAAAA
74439246 ATATTAGCTCATATTAAAAAA
1 ATATTAGCTCATATTAAAAAA
74439267 A
1 A
74439268 ATATAGCAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (21 bp):
ATATTAGCTCATATTAAAAAA
Found at i:74439548 original size:28 final size:29
Alignment explanation
Indices: 74439486--74439548 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
74439476 CTAACAGCTC
*
74439486 TTTTTTTCTCTCTTGGTTTCGTAAACCAA
1 TTTTTTTCTCTCTTCGTTTCGTAAACCAA
74439515 -TTTTTTCTCTC-TCGTATT-GCTAAA-CAA
1 TTTTTTTCTCTCTTCGT-TTCG-TAAACCAA
74439542 TTTTTTT
1 TTTTTTT
74439549 TAACTCTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.17, C:0.19, G:0.08, T:0.56
Consensus pattern (29 bp):
TTTTTTTCTCTCTTCGTTTCGTAAACCAA
Found at i:74444681 original size:58 final size:57
Alignment explanation
Indices: 74444619--74444789 Score: 182
Period size: 61 Copynumber: 2.9 Consensus size: 57
74444609 AACGCCTTCG
* *
74444619 AAAAACTCAGAAAAGGTAAGCCTATGTGGCGAACCTTTGAAAGGAAATGCCTTTATGA
1 AAAAACTCAGGAAAGGTAAGCCTATGTGGCGAA-CTATGAAAGGAAATGCCTTTATGA
* * * * * *
74444677 AAAAACTCTGGAAAGGAAAGCCTTTGTGGCGAGTACTAAATGTTAAGG-AATGCCTTTGTGG
1 AAAAACTCAGGAAAGGTAAGCCTATGTGGCGA--ACT--ATG-AAAGGAAATGCCTTTATGA
* *
74444738 AAAAACTCAGGAAAGGTAAGCCTATGCGGCGAATCTCTGAAAGGAAATGCCT
1 AAAAACTCAGGAAAGGTAAGCCTATGTGGCGAA-CTATGAAAGGAAATGCCT
74444790 CTGTGGCAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
57 4 0.04
58 37 0.40
59 3 0.03
60 3 0.03
61 41 0.45
62 4 0.04
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (57 bp):
AAAAACTCAGGAAAGGTAAGCCTATGTGGCGAACTATGAAAGGAAATGCCTTTATGA
Found at i:74444783 original size:119 final size:119
Alignment explanation
Indices: 74444444--74444824 Score: 464
Period size: 119 Copynumber: 3.2 Consensus size: 119
74444434 TCTTTGTGGC
* * * * *
74444444 AAACTTTGGATAGGAAAGCCTTTGTGGCAAGTACTGAATTTTAAGGAATGCCTTTGTGGCAAAAC
1 AAACTCTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAAC
* * * **
74444509 TTAGGAAAGGTAAGCCTATGTAGCGAACCTTTGAAAGGAAATGACTCTATGTTA
66 TCAGGAAAGGTAAGCCTATGTGGCGAACCTTTGAAAGGAAATGCCTCTATGAAA
* * * * * * *
74444563 AAACTTTGGACAA-GAAAGCCTTTATGGTGAGTATTGAATGTTAAAGAACGCC--T-TCGAAAAA
1 AAACTCTGGA-AAGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAA
* *
74444624 CTCAGAAAAGGTAAGCCTATGTGGCGAACCTTTGAAAGGAAATGCCTTTATGAAA
65 CTCAGGAAAGGTAAGCCTATGTGGCGAACCTTTGAAAGGAAATGCCTCTATGAAA
*
74444679 AAACTCTGGAAAGGAAAGCCTTTGTGGCGAGTACTAAATGTTAAGGAATGCCTTTGTGGAAAAAC
1 AAACTCTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAAC
* * * * **
74444744 TCAGGAAAGGTAAGCCTATGCGGCGAATCTCTGAAAGGAAATGCCTCTGTGGCA
66 TCAGGAAAGGTAAGCCTATGTGGCGAACCTTTGAAAGGAAATGCCTCTATGAAA
* * *
74444798 AAACTCTAGACACGAAAGCCTTTGTGG
1 AAACTCTGGAAAGGAAAGCCTTTGTGG
74444825 TTATCTCTAA
Statistics
Matches: 221, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
115 2 0.01
116 96 0.43
117 1 0.00
118 1 0.00
119 120 0.54
120 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (119 bp):
AAACTCTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAAC
TCAGGAAAGGTAAGCCTATGTGGCGAACCTTTGAAAGGAAATGCCTCTATGAAA
Found at i:74444804 original size:29 final size:28
Alignment explanation
Indices: 74444721--74444804 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 28
74444711 ACTAAATGTT
* * *
74444721 AAGGAATGCCTTTGTGGAAAAACTCAGGA
1 AAGGAATGCCTATGTGGCAAAACTC-TGA
* * *
74444750 AAGGTAA-GCCTATGCGGCGAATCTCTGA
1 AAGG-AATGCCTATGTGGCAAAACTCTGA
*
74444778 AAGGAAATGCCTCTGTGGCAAAACTCT
1 AAGG-AATGCCTATGTGGCAAAACTCT
74444805 AGACACGAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
28 8 0.19
29 32 0.76
30 2 0.05
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.21
Consensus pattern (28 bp):
AAGGAATGCCTATGTGGCAAAACTCTGA
Found at i:74453810 original size:47 final size:47
Alignment explanation
Indices: 74453756--74454258 Score: 792
Period size: 47 Copynumber: 10.6 Consensus size: 47
74453746 TATTTGAATA
*
74453756 AATGTGAAAATGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
74453803 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
74453850 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
74453899 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
74453948 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
74453995 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
74454042 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
74454091 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
74454138 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
74454185 AATGTGAAAGTGTATATAAGTGAT-AGCGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATG
* *
74454232 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
74454259 TCCCGAAGGG
Statistics
Matches: 429, Mismatches: 21, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
46 2 0.00
47 287 0.67
48 2 0.00
49 138 0.32
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:74453881 original size:96 final size:94
Alignment explanation
Indices: 74453756--74454258 Score: 810
Period size: 96 Copynumber: 5.3 Consensus size: 94
74453746 TATTTGAATA
*
74453756 AATGTGAAAATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
74453821 TGTGATAAGGCCGAATGGCCAATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
* *
74453850 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
* *
74453915 TATATGTGATAAGGCCTAATGGCCGATGTGATG
62 TATATGTGATAAGGCCGAATGGCCAATGTGATG
*
74453948 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
74454013 TGTGATAAGGCCGAATGGCCAATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
*
74454042 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
74454107 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
74454138 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
74454203 AGTGAT-AGCGCCGAGTGGCCAACGTGATG
66 TGTGATAAG-GCCGAATGGCCAATGTGATG
* *
74454232 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
74454259 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 22, Indels: 14
0.91 0.05 0.03
Matches are distributed among these distances:
93 2 0.01
94 154 0.41
96 179 0.47
98 45 0.12
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:74453916 original size:143 final size:142
Alignment explanation
Indices: 74453756--74454258 Score: 814
Period size: 143 Copynumber: 3.5 Consensus size: 142
74453746 TATTTGAATA
*
74453756 AATGTGAAAATG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
74453820 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAA
74453885 TGGCCAATGTGATG
129 TGGCCAATGTGATG
74453899 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
74453964 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
65 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
74454029 GGCCAATGTGATG
130 GGCCAATGTGATG
*
74454042 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
74454107 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
65 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
*
74454172 GGCCGATGTGATG
130 GGCCAATGTGATG
* * * * * *
74454185 AATGTGAAAGTG-TATATAAGTGAT-AGCGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 AATGTGAAAGTGATATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
74454248 AATGTGATAAG
65 TATGTGATAAG
74454259 TCCCGAAGGG
Statistics
Matches: 341, Mismatches: 16, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
140 2 0.01
141 51 0.15
143 197 0.58
145 91 0.27
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (142 bp):
AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
GCCAATGTGATG
Found at i:74456875 original size:17 final size:18
Alignment explanation
Indices: 74456847--74456880 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
74456837 ATATACATGT
*
74456847 TTTGGTTTGAAATAATTG
1 TTTGGTTTGAAAAAATTG
74456865 TTTGG-TTGAAAAAATT
1 TTTGGTTTGAAAAAATT
74456881 TTTAGGTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (18 bp):
TTTGGTTTGAAAAAATTG
Found at i:74457696 original size:51 final size:51
Alignment explanation
Indices: 74457636--74457737 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 51
74457626 TTTGAGTTTG
*
74457636 ACTCACTCACCAAGTCGTAACC-CCACTATTATACTTTACTCTAAACTACTC
1 ACTCACTCACCAAGTCGTAACCTCCA-TATTATACTTTACTCTAAACCACTC
* *
74457687 ACTCACTCACCAAGTCGTAACCTCGATCTTATACTTTACTCTAAACCACTC
1 ACTCACTCACCAAGTCGTAACCTCCATATTATACTTTACTCTAAACCACTC
74457738 TCCCGTTAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 45 0.96
52 2 0.04
ACGTcount: A:0.30, C:0.35, G:0.05, T:0.29
Consensus pattern (51 bp):
ACTCACTCACCAAGTCGTAACCTCCATATTATACTTTACTCTAAACCACTC
Found at i:74458573 original size:21 final size:22
Alignment explanation
Indices: 74458539--74458585 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
74458529 ATAACCATAA
74458539 AAAACCAACAAACAACTTT-AAC
1 AAAACCAACAAACAA-TTTCAAC
*
74458561 AAAA-CAATAAACAATTTCAAC
1 AAAACCAACAAACAATTTCAAC
74458582 AAAA
1 AAAA
74458586 AAAAACTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.13
21 16 0.70
22 4 0.17
ACGTcount: A:0.64, C:0.21, G:0.00, T:0.15
Consensus pattern (22 bp):
AAAACCAACAAACAATTTCAAC
Found at i:74460471 original size:124 final size:122
Alignment explanation
Indices: 74460247--74460507 Score: 389
Period size: 124 Copynumber: 2.1 Consensus size: 122
74460237 TTCATTCACC
* *
74460247 CAATATAATCCTATCTCATGTTAACCATTACATCTTTTATGAAAATGTCAATTACTAACAAATAG
1 CAATGTAATCCTATCTCATATTAACCATTACATCTTTTATGAAAATGTCAATTACTAACAAATAG
74460312 TAATTAAATCAGTTGTCCTAGACAAATGACCTGTGGTCACGTT-ACTTTTCCATCAA
66 TAATTAAATCAGTTGTCCTAGACAAATGACCTGTGGTCACGTTAACTTTTCCATCAA
* *
74460368 CCATGTAATCCTATCTCATATTAACCATTACATCTTCTTTTATGAAAATGTCAATTATTAACAAA
1 CAATGTAATCCTATCTCATATTAACCATTACA---TCTTTTATGAAAATGTCAATTACTAACAAA
* * * * * *
74460433 TAGTAATTAAATCATTTGTTCTAGACAAATTACTTGTGGTCACGTTAATTTTTTCATCAA
63 TAGTAATTAAATCAGTTGTCCTAGACAAATGACCTGTGGTCACGTTAACTTTTCCATCAA
74460493 CAATGTAATGCCTAT
1 CAATGTAAT-CCTAT
74460508 GAAAGGATAC
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
121 29 0.23
124 71 0.57
125 19 0.15
126 5 0.04
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (122 bp):
CAATGTAATCCTATCTCATATTAACCATTACATCTTTTATGAAAATGTCAATTACTAACAAATAG
TAATTAAATCAGTTGTCCTAGACAAATGACCTGTGGTCACGTTAACTTTTCCATCAA
Found at i:74461387 original size:21 final size:21
Alignment explanation
Indices: 74461363--74461403 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
74461353 GTTATAAAGT
*
74461363 GTCATGTG-TCAAGGTAAAATC
1 GTCATG-GATCAAGCTAAAATC
74461384 GTCATGGATCAAGCTAAAAT
1 GTCATGGATCAAGCTAAAAT
74461404 AATTATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (21 bp):
GTCATGGATCAAGCTAAAATC
Found at i:74466866 original size:3 final size:3
Alignment explanation
Indices: 74466852--74466891 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
74466842 CCTCTCCGGT
*
74466852 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
74466892 CTTTAATACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:74469953 original size:20 final size:20
Alignment explanation
Indices: 74469928--74469970 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
74469918 AATTTGAAAT
74469928 AGATGTTCACAAGATTATTA
1 AGATGTTCACAAGATTATTA
74469948 AGATGTTCACAAGATTATTA
1 AGATGTTCACAAGATTATTA
74469968 AGA
1 AGA
74469971 AGAGACAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (20 bp):
AGATGTTCACAAGATTATTA
Found at i:74483347 original size:9 final size:9
Alignment explanation
Indices: 74483333--74483360 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
74483323 AAGAAAAAAA
74483333 TTATTATTT
1 TTATTATTT
74483342 TTATTATTT
1 TTATTATTT
74483351 TTATTATTT
1 TTATTATTT
74483360 T
1 T
74483361 ATGAGGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATTATTT
Found at i:74484158 original size:30 final size:30
Alignment explanation
Indices: 74484101--74484158 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
74484091 CTTTCGAGCA
* **
74484101 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
74484131 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
74484159 ATGTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:74484643 original size:94 final size:95
Alignment explanation
Indices: 74484496--74484763 Score: 314
Period size: 94 Copynumber: 2.9 Consensus size: 95
74484486 GTTATGTGAG
* * * * * *
74484496 AGCCAGTATAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGGACTAGTGTAAGACATG
1 AGCCAGTATAAAACCATGTTTGGGACATGGCATCGACGTAGAGATGAGTACTAGTGTAAGACATG
*
74484561 CCTGGGACATGCATCAGCCGC-ATCATGAT
66 TCTGGGACATGCATCAGCCGCGATCATGAT
* * *
74484590 AGCCCGTATAAAACCACGTTTGGGACATGGCATCGACGTAGAGGTGAGTACTAGTGTAAGACATG
1 AGCCAGTATAAAACCATGTTTGGGACATGGCATCGACGTAGAGATGAGTACTAGTGTAAGACATG
* * *
74484655 TCTGGGACATGCATCAGCCTCGATGATGTT
66 TCTGGGACATGCATCAGCCGCGATCATGAT
* * * ** *
74484685 AGCCAGTGTAAAA-CGTGTTTGGGACAT-GCATC-A-GCTA-AGTTTCGTGCTAGTGTAAGACAT
1 AGCCAGTATAAAACCATGTTTGGGACATGGCATCGACG-TAGAGATGAGTACTAGTGTAAGACAT
74484745 GTCTGGGACATGCATCAGC
65 GTCTGGGACATGCATCAGC
74484764 ATGTATAAAT
Statistics
Matches: 151, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
91 39 0.26
92 3 0.02
93 5 0.03
94 87 0.58
95 17 0.11
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (95 bp):
AGCCAGTATAAAACCATGTTTGGGACATGGCATCGACGTAGAGATGAGTACTAGTGTAAGACATG
TCTGGGACATGCATCAGCCGCGATCATGAT
Found at i:74484693 original size:47 final size:47
Alignment explanation
Indices: 74484548--74484854 Score: 177
Period size: 47 Copynumber: 6.5 Consensus size: 47
74484538 GACGAGGACT
* * *
74484548 AGTGTAAGACATGCCTGGGACATGCATCAGCCGC-ATCATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGATAGCC
* * * * * * * * *
74484594 CGTATAAAACCACGTTTGGGACATGGCATC-GACGTAGA-GGTGAGTA-CT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CCTCGATGATGA-TAGCC
*
74484642 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGATAGCC
* * * * * *
74484689 AGTGTAAAACGTGTTTGGGACATGCATCAG-CT--AAGTTTCG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATG-AT-GATAGCC
* * * *
74484733 AGTGTAAGACATGTCTGGGACATGCATCAGCAT-GTATAAATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCG-AT-GATGATAGCC
* *
74484781 AGTGTAAGACCATGTCTAGGACATGGTATCAGCCTCGATGGA-GATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAT-GATGATAGCC
** *
74484830 AGCATAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
74484855 GCAGCTGCAA
Statistics
Matches: 197, Mismatches: 45, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
44 31 0.16
45 3 0.02
46 21 0.11
47 58 0.29
48 29 0.15
49 43 0.22
50 11 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGATAGCC
Found at i:74484752 original size:44 final size:45
Alignment explanation
Indices: 74484640--74484805 Score: 140
Period size: 44 Copynumber: 3.6 Consensus size: 45
74484630 GAGGTGAGTA
*
74484640 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGTTAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAG-CTC-AAGATGTTAG
* * * * *
74484687 CCAGTGTAAAACGTGTTTGGGACATGCATCAGCT-AAG-T-TTCGTG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCTCAAGATGTT--AG
* * **
74484731 CTAGTGTAAGACATGTCTGGGACATGCATCAGCATGTATAAATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGC-T-CA-AGATGTTAG
*
74484779 CTAGTGTAAGACCATGTCTAGGACATG
1 CTAGTGTAAGA-CATGTCTGGGACATG
74484806 GTATCAGCCT
Statistics
Matches: 95, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 32 0.34
45 1 0.01
46 2 0.02
47 29 0.31
48 13 0.14
49 15 0.16
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCTCAAGATGTTAG
Found at i:74487989 original size:18 final size:18
Alignment explanation
Indices: 74487966--74488000 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
74487956 TCCAACATGT
74487966 GTTGCGAATTCTCTGAAG
1 GTTGCGAATTCTCTGAAG
*
74487984 GTTGCGAATTCTTTGAA
1 GTTGCGAATTCTCTGAA
74488001 ACTTGTGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (18 bp):
GTTGCGAATTCTCTGAAG
Found at i:74492526 original size:12 final size:12
Alignment explanation
Indices: 74492511--74492536 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
74492501 AATAAAAGAG
74492511 AATTAAAAATAA
1 AATTAAAAATAA
74492523 AATTAAAAATAA
1 AATTAAAAATAA
74492535 AA
1 AA
74492537 GTAGTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AATTAAAAATAA
Found at i:74495001 original size:110 final size:110
Alignment explanation
Indices: 74494874--74495101 Score: 341
Period size: 110 Copynumber: 2.1 Consensus size: 110
74494864 GACACGTCCG
* * * *
74494874 TGTGTCTAGGCCGTGTGCGTT-TCACGGCCGTGTGGATTTATCGTAGGCTGTGTGCATGTCGATT
1 TGTGTCCAGGCCGTGTGC-TTCCCACGGCCGTGTGGATTTATCGCAGGCTGTATGCATGTCGATT
*
74494938 TTTGGGAAATTTTAGCCCTACTTCCACACAGCCAAAGACACACCCA
65 TTTGGGAAATTTCAGCCCTACTTCCACACAGCCAAAGACACACCCA
74494984 TGTGTCCAGGCCGTGTGCTTCCCACGGCCGTGTGGATTTATCGCAGGCTGTATGCATGTCGATTT
1 TGTGTCCAGGCCGTGTGCTTCCCACGGCCGTGTGGATTTATCGCAGGCTGTATGCATGTCGATTT
** * * * *
74495049 TTGGGAAATTTCAGCCCTGTTTCCACACGGCGAAGGACACTCCCA
66 TTGGGAAATTTCAGCCCTACTTCCACACAGCCAAAGACACACCCA
74495094 TGTGTCCA
1 TGTGTCCA
74495102 AGCCATATGG
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
109 2 0.02
110 104 0.98
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (110 bp):
TGTGTCCAGGCCGTGTGCTTCCCACGGCCGTGTGGATTTATCGCAGGCTGTATGCATGTCGATTT
TTGGGAAATTTCAGCCCTACTTCCACACAGCCAAAGACACACCCA
Found at i:74501410 original size:16 final size:17
Alignment explanation
Indices: 74501386--74501418 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
74501376 ACTTAAGGGA
74501386 CTCAATTAA-TAATTTT
1 CTCAATTAACTAATTTT
*
74501402 CTCATTTAACTAATTTT
1 CTCAATTAACTAATTTT
74501419 ACCTCTCGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (17 bp):
CTCAATTAACTAATTTT
Found at i:74503198 original size:13 final size:13
Alignment explanation
Indices: 74503182--74503217 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
74503172 TCGGACTCAT
74503182 AAATATTTATTAA
1 AAATATTTATTAA
74503195 AAATATTTATTAA
1 AAATATTTATTAA
74503208 AAATATTTAT
1 AAATATTTAT
74503218 GAAGTAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:74503534 original size:28 final size:28
Alignment explanation
Indices: 74503503--74503564 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
74503493 AGAAATAAAT
* *
74503503 AAAGACAAAAGCAAAA-TGAAACAAAAAG
1 AAAGA-AAAAGAAAAAGAGAAACAAAAAG
* *
74503531 AAAGAAAAAGAAAAAGAGAAAGAGAAAG
1 AAAGAAAAAGAAAAAGAGAAACAAAAAG
74503559 AAAGAA
1 AAAGAA
74503565 GAACCCACGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 9 0.31
28 20 0.69
ACGTcount: A:0.74, C:0.05, G:0.19, T:0.02
Consensus pattern (28 bp):
AAAGAAAAAGAAAAAGAGAAACAAAAAG
Found at i:74503542 original size:6 final size:6
Alignment explanation
Indices: 74503490--74503567 Score: 50
Period size: 6 Copynumber: 12.2 Consensus size: 6
74503480 TTATAGTAAT
* * *
74503490 AAAAGA AATAA-A TAAAGA CAAAAGCA AAATGA AACAAAA AGAAAGA AAAAGA
1 AAAAGA AA-AAGA AAAAGA -AAAAG-A AAAAGA AA-AAGA A-AAAGA AAAAGA
* *
74503542 AAAAGA GAAAGA GAAAGA AAGAAGA A
1 AAAAGA AAAAGA AAAAGA AA-AAGA A
74503568 CCCACGACTT
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
5 2 0.04
6 31 0.54
7 22 0.39
8 2 0.04
ACGTcount: A:0.74, C:0.04, G:0.18, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:74503552 original size:18 final size:18
Alignment explanation
Indices: 74503525--74503566 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
74503515 AAAATGAAAC
74503525 AAAA-AGAAAGAAAAAGA
1 AAAAGAGAAAGAAAAAGA
*
74503542 AAAAGAGAAAGAGAAAGA
1 AAAAGAGAAAGAAAAAGA
74503560 AAGAAGA
1 AA-AAGA
74503567 ACCCACGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.18
18 14 0.64
19 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAGAGAAAGAAAAAGA
Found at i:74503998 original size:19 final size:20
Alignment explanation
Indices: 74503974--74504014 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
74503964 GAATTTAGGC
*
74503974 AAATATTGAATA-AAAATTG
1 AAATATTAAATATAAAATTG
74503993 AAATATTAAATATAAAATTG
1 AAATATTAAATATAAAATTG
74504013 AA
1 AA
74504015 TTGTGTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATTAAATATAAAATTG
Found at i:74506408 original size:25 final size:25
Alignment explanation
Indices: 74506370--74506509 Score: 92
Period size: 25 Copynumber: 5.6 Consensus size: 25
74506360 AATAATGGGT
*
74506370 AGCTCCGAAGAGCCATTAATCAGGA
1 AGCTCCGGAGAGCCATTAATCAGGA
*
74506395 AGCTCCGGATAGCCA-TATATCAGGA
1 AGCTCCGGAGAGCCATTA-ATCAGGA
* ** * *
74506420 AGTTCAAGTGAGCCGA-T-ATCGGGA
1 AGCTCCGGAGAGCC-ATTAATCAGGA
* *
74506444 AGCTCTGGAGAGCCATTAA-CGGGA
1 AGCTCCGGAGAGCCATTAATCAGGA
* * *
74506468 AGCTCAC-AAAAGCCTTTAATCAGGA
1 AGCTC-CGGAGAGCCATTAATCAGGA
*
74506493 AGCTCACGAAGAGCCAT
1 AGCTC-CGGAGAGCCAT
74506510 ATATTGGGAC
Statistics
Matches: 89, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
23 1 0.01
24 38 0.43
25 41 0.46
26 9 0.10
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.18
Consensus pattern (25 bp):
AGCTCCGGAGAGCCATTAATCAGGA
Found at i:74506609 original size:24 final size:24
Alignment explanation
Indices: 74506582--74506647 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
74506572 GGATGCTTCG
*
74506582 AAGAGCTATTAACGGGAAGCTTGC
1 AAGAGCTATTAACGGGAAGCTTGA
* * *
74506606 AAGAACCATATAACGGGAAGTTTGA
1 AAGAGCTAT-TAACGGGAAGCTTGA
* *
74506631 AAGGGCTAGTAACGGGA
1 AAGAGCTATTAACGGGA
74506648 CGCTCTTTCG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
24 15 0.45
25 18 0.55
ACGTcount: A:0.38, C:0.14, G:0.30, T:0.18
Consensus pattern (24 bp):
AAGAGCTATTAACGGGAAGCTTGA
Found at i:74509015 original size:16 final size:16
Alignment explanation
Indices: 74508994--74509024 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
74508984 ATCGAGTTGA
74508994 GAAAATTAATTAATTG
1 GAAAATTAATTAATTG
74509010 GAAAATTAATTAATT
1 GAAAATTAATTAATT
74509025 AATTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:74509022 original size:20 final size:18
Alignment explanation
Indices: 74508997--74509038 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
74508987 GAGTTGAGAA
74508997 AATTAATTAATTGGAAAATT
1 AATTAATTAATT--AAAATT
74509017 AATTAATTAATTAAAATT
1 AATTAATTAATTAAAATT
74509035 AATT
1 AATT
74509039 TATGATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
AATTAATTAATTAAAATT
Found at i:74511468 original size:34 final size:34
Alignment explanation
Indices: 74511425--74511493 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
74511415 CAATTCATAC
* *
74511425 AGATATGACACTATTTGTTTTATATGCCATGCTA
1 AGATATGACACTATTTATTTTATATACCATGCTA
74511459 AGATATGACACTATTTATTTTATATACCATGCTA
1 AGATATGACACTATTTATTTTATATACCATGCTA
74511493 A
1 A
74511494 CAAATAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (34 bp):
AGATATGACACTATTTATTTTATATACCATGCTA
Found at i:74519125 original size:5 final size:5
Alignment explanation
Indices: 74519115--74519141 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
74519105 AACAAAAAAT
74519115 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
74519142 AATAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:74519277 original size:25 final size:24
Alignment explanation
Indices: 74519240--74519295 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
74519230 AATACATACA
74519240 AAAAAATCGTAATACAAAATTAAT
1 AAAAAATCGTAATACAAAATTAAT
* * **
74519264 TAAAAATACTTAATACAATTTTAAT
1 AAAAAAT-CGTAATACAAAATTAAT
74519289 AAAAAAT
1 AAAAAAT
74519296 GAGATTGAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAAAATCGTAATACAAAATTAAT
Found at i:74519324 original size:11 final size:11
Alignment explanation
Indices: 74519307--74519366 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
74519297 AGATTGAACT
74519307 GAGAGAATTGA
1 GAGAGAATTGA
*
74519318 GTA-AGAATTAA
1 G-AGAGAATTGA
*
74519329 TAGAGAATTGA
1 GAGAGAATTGA
*
74519340 GAGAGGATTGA
1 GAGAGAATTGA
74519351 GA-ATGAATTGA
1 GAGA-GAATTGA
74519362 GAGAG
1 GAGAG
74519367 TTTTGAGTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.05
11 35 0.90
12 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.22
Consensus pattern (11 bp):
GAGAGAATTGA
Found at i:74519377 original size:20 final size:21
Alignment explanation
Indices: 74519333--74519381 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
74519323 AATTAATAGA
74519333 GAATTGAGAGAGGATTGAGAAT
1 GAATTGAGAGAGGATTGAG-AT
**
74519355 GAATTGAGAGAGTTTTGAG-T
1 GAATTGAGAGAGGATTGAGAT
74519375 GAATTGA
1 GAATTGA
74519382 AAAAGTGGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.32
22 17 0.68
ACGTcount: A:0.37, C:0.00, G:0.35, T:0.29
Consensus pattern (21 bp):
GAATTGAGAGAGGATTGAGAT
Found at i:74528597 original size:30 final size:30
Alignment explanation
Indices: 74528533--74528597 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
74528523 GGCCTTTTGG
* * * * *
74528533 ATTTCTTGTTGGTTGGCTGGAGCATTCGAG
1 ATTTCTTGCTAGTTGGCTAGAGCATCCGAA
*
74528563 ATTTCTTGCTAGTTGGCTAGAGTATCCGAA
1 ATTTCTTGCTAGTTGGCTAGAGCATCCGAA
74528593 ATTTC
1 ATTTC
74528598 ATGACTATGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.15, G:0.26, T:0.40
Consensus pattern (30 bp):
ATTTCTTGCTAGTTGGCTAGAGCATCCGAA
Found at i:74530655 original size:13 final size:13
Alignment explanation
Indices: 74530634--74530666 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
74530624 TGAGCACCTT
74530634 CACACGGGAGTGG
1 CACACGGGAGTGG
*
74530647 CATACGGGAGTGG
1 CACACGGGAGTGG
74530660 CACACGG
1 CACACGG
74530667 CCGTGTCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.42, T:0.09
Consensus pattern (13 bp):
CACACGGGAGTGG
Found at i:74538361 original size:20 final size:20
Alignment explanation
Indices: 74538333--74538372 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
74538323 TATTAGTTCA
*
74538333 CTTCTCCATCGGTTCTTTCC
1 CTTCCCCATCGGTTCTTTCC
* *
74538353 CTTCCCCATTGGTTTTTTCC
1 CTTCCCCATCGGTTCTTTCC
74538373 TTCTCATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.38, G:0.10, T:0.47
Consensus pattern (20 bp):
CTTCCCCATCGGTTCTTTCC
Found at i:74549216 original size:20 final size:21
Alignment explanation
Indices: 74549178--74549216 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
74549168 ACAAAAATAA
74549178 ATAATAAAATATTTCTTAAAC
1 ATAATAAAATATTTCTTAAAC
*
74549199 ATAATAAATTATTT-TTAA
1 ATAATAAAATATTTCTTAA
74549217 TATTGTACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAATAAAATATTTCTTAAAC
Found at i:74555129 original size:11 final size:11
Alignment explanation
Indices: 74555115--74555148 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
74555105 GAGAGAAGAA
74555115 GAAACAAAATG
1 GAAACAAAATG
74555126 GAAACAAAATGG
1 GAAACAAAAT-G
*
74555138 GAAAAAAAATG
1 GAAACAAAATG
74555149 TTAAATAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.65, C:0.06, G:0.21, T:0.09
Consensus pattern (11 bp):
GAAACAAAATG
Found at i:74555146 original size:12 final size:12
Alignment explanation
Indices: 74555115--74555148 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
74555105 GAGAGAAGAA
74555115 GAAACAAAAT-G
1 GAAACAAAATGG
74555126 GAAACAAAATGG
1 GAAACAAAATGG
*
74555138 GAAAAAAAATG
1 GAAACAAAATG
74555149 TTAAATAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.21, T:0.09
Consensus pattern (12 bp):
GAAACAAAATGG
Found at i:74555866 original size:31 final size:31
Alignment explanation
Indices: 74555830--74555985 Score: 119
Period size: 31 Copynumber: 5.1 Consensus size: 31
74555820 GGAATTTTTT
*
74555830 ATTTGGGTTTAAGATTTGGAGGAGGTTTCCA
1 ATTTGGGTTTAAGATTTGGAGGAGGTTTTCA
*** *
74555861 ATTTGGGAGTTTTTTATTT--AGGA-GTTTTCG
1 ATTT-GG-GTTTAAGATTTGGAGGAGGTTTTCA
*
74555891 ATTTGGGTTTAAGATTTGGAAGAGGTTTTCA
1 ATTTGGGTTTAAGATTTGGAGGAGGTTTTCA
* * *
74555922 ATTTGGGAGTTCTTA-ATTT--AGGA-ATTTTCG
1 ATTT-GG-GTT-TAAGATTTGGAGGAGGTTTTCA
* *
74555952 ATTTGGGTTTAAGATTTGGAAGAGGTTTCCA
1 ATTTGGGTTTAAGATTTGGAGGAGGTTTTCA
74555983 ATT
1 ATT
74555986 AGAGAGTTCT
Statistics
Matches: 94, Mismatches: 19, Indels: 24
0.69 0.14 0.18
Matches are distributed among these distances:
27 2 0.02
28 15 0.16
29 4 0.04
30 24 0.26
31 28 0.30
32 4 0.04
33 15 0.16
34 2 0.02
ACGTcount: A:0.23, C:0.05, G:0.28, T:0.44
Consensus pattern (31 bp):
ATTTGGGTTTAAGATTTGGAGGAGGTTTTCA
Found at i:74556038 original size:60 final size:61
Alignment explanation
Indices: 74555792--74556039 Score: 365
Period size: 61 Copynumber: 4.1 Consensus size: 61
74555782 GTGATTTATG
* ** *
74555792 GGTTTCCAATTTGGGAGTTCTTTATTTAGGAATTTTTTATTTGGGTTTAAGATTTGGAGGA
1 GGTTTCCAATTTGGGAGTTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGATTTGGAAGA
* * *
74555853 GGTTTCCAATTTGGGAGTTTTTTATTTAGGAGTTTTCGATTTGGGTTTAAGATTTGGAAGA
1 GGTTTCCAATTTGGGAGTTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGATTTGGAAGA
*
74555914 GGTTTTCAATTTGGGAGTTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGATTTGGAAGA
1 GGTTTCCAATTTGGGAGTTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGATTTGGAAGA
* * * *
74555975 GGTTTCCAATTAGAGAGTTCTTAATTTAAG-ATTTTCGATTTGGGTTTAAGATCTT-GAGGA
1 GGTTTCCAATTTGGGAGTTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGAT-TTGGAAGA
74556035 GGTTT
1 GGTTT
74556040 TTCTTTATTT
Statistics
Matches: 172, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
60 31 0.18
61 141 0.82
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (61 bp):
GGTTTCCAATTTGGGAGTTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGATTTGGAAGA
Found at i:74556078 original size:122 final size:122
Alignment explanation
Indices: 74555809--74556078 Score: 280
Period size: 122 Copynumber: 2.2 Consensus size: 122
74555799 AATTTGGGAG
* *** * * * *
74555809 TTCTTTATTTAGGAATTTTTTATTTGGGTTTAAGATTTGGAGGAGGTTTCCAATTTGGGAGTTTT
1 TTCTTAATTTAGGAATTCAATATTTGGGTTTAAGATTTGGAAGAGGTTTCCAATTAGAGAGTTCT
* * * * *
74555874 TTATTTAGGAGTTTTCGATTTGGGTTTAAGATTTGGAAGAGGTTTTCAATTTGGGAG
66 TAATTTAAGAGTTTTCGATTTGGGTTTAAGATTTGGAAGAGGTTTTCAATTTAGAAA
****
74555931 TTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGATTTGGAAGAGGTTTCCAATTAGAGAGTTCT
1 TTCTTAATTTAGGAATTCAATATTTGGGTTTAAGATTTGGAAGAGGTTTCCAATTAGAGAGTTCT
* *
74555996 TAATTTAAGA-TTTTCGATTTGGGTTTAAGATCTT-GAGGAGGTTTTTCTTTATTTAGAAA
66 TAATTTAAGAGTTTTCGATTTGGGTTTAAGAT-TTGGAAGAGG-TTTTC--AATTTAGAAA
*
74556055 TT-TTCAATTT-GG-GTTCAATATTTG
1 TTCTT-AATTTAGGAATTCAATATTTG
74556079 AATTTTTTTA
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
121 27 0.22
122 80 0.65
123 4 0.03
124 13 0.10
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.47
Consensus pattern (122 bp):
TTCTTAATTTAGGAATTCAATATTTGGGTTTAAGATTTGGAAGAGGTTTCCAATTAGAGAGTTCT
TAATTTAAGAGTTTTCGATTTGGGTTTAAGATTTGGAAGAGGTTTTCAATTTAGAAA
Found at i:74581613 original size:14 final size:14
Alignment explanation
Indices: 74581594--74581646 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
74581584 CCCTTATCTG
74581594 TGTGAAATTGACTA
1 TGTGAAATTGACTA
* *
74581608 TGTGAAATCCCTTATCTG
1 TGTGAAAT---TGA-CTA
74581626 TGTGAAATTGACTA
1 TGTGAAATTGACTA
74581640 TGTGAAA
1 TGTGAAA
74581647 GATGTAACGA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 2 0.06
17 2 0.06
18 10 0.32
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (14 bp):
TGTGAAATTGACTA
Found at i:74581625 original size:32 final size:32
Alignment explanation
Indices: 74581584--74581646 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
74581574 ACTACTTAGA
74581584 CCCTTATCTGTGTGAAATTGACTATGTGAAAT
1 CCCTTATCTGTGTGAAATTGACTATGTGAAAT
74581616 CCCTTATCTGTGTGAAATTGACTATGTGAAA
1 CCCTTATCTGTGTGAAATTGACTATGTGAAA
74581647 GATGTAACGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (32 bp):
CCCTTATCTGTGTGAAATTGACTATGTGAAAT
Found at i:74581631 original size:18 final size:18
Alignment explanation
Indices: 74581584--74581633 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 18
74581574 ACTACTTAGA
74581584 CCCTTATCTGTGTGAAAT
1 CCCTTATCTGTGTGAAAT
* *
74581602 ---TGA-CTATGTGAAAT
1 CCCTTATCTGTGTGAAAT
74581616 CCCTTATCTGTGTGAAAT
1 CCCTTATCTGTGTGAAAT
74581634 TGACTATGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 8
0.67 0.11 0.22
Matches are distributed among these distances:
14 10 0.42
15 2 0.08
17 2 0.08
18 10 0.42
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (18 bp):
CCCTTATCTGTGTGAAAT
Found at i:74589588 original size:22 final size:22
Alignment explanation
Indices: 74589541--74589589 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
74589531 TACTTTAGCC
74589541 ATTT-TTTTTATTTTTACTGCA
1 ATTTATTTTTATTTTTACTGCA
* * **
74589562 TTTTATTTTTGTTTTTACTTTA
1 ATTTATTTTTATTTTTACTGCA
74589584 ATTTAT
1 ATTTAT
74589590 GAATTTCTCT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.71
Consensus pattern (22 bp):
ATTTATTTTTATTTTTACTGCA
Found at i:74592895 original size:41 final size:41
Alignment explanation
Indices: 74592836--74592927 Score: 107
Period size: 41 Copynumber: 2.2 Consensus size: 41
74592826 ATCACCCCAA
* * * *
74592836 TTTTATTTTATTTTATTTA-TTATTAATTGTTATACTATTTAT
1 TTTTATTTTATCTAATTTATTTATT-ATTCTTATACT-TATAT
74592878 TTTTATTTTA-CTAATTTATTTATTATTCTTATACTTATAT
1 TTTTATTTTATCTAATTTATTTATTATTCTTATACTTATAT
74592918 TTTTAATTTT
1 TTTT-ATTTT
74592928 TTTATATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
40 8 0.18
41 21 0.48
42 15 0.34
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.68
Consensus pattern (41 bp):
TTTTATTTTATCTAATTTATTTATTATTCTTATACTTATAT
Found at i:74592912 original size:23 final size:21
Alignment explanation
Indices: 74592838--74592912 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
74592828 CACCCCAATT
**
74592838 TTATTTTATTTTATTTA-TTA
1 TTATTTTATACTATTTATTTA
74592858 TTAATTGTTATACTATTTATTT-
1 TT-ATT-TTATACTATTTATTTA
74592880 TTA-TTT-TACTAATTTATTTA
1 TTATTTTATACT-ATTTATTTA
74592900 TTATTCTTATACT
1 TTATT-TTATACT
74592913 TATATTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
18 4 0.09
19 10 0.22
20 6 0.13
21 5 0.11
22 14 0.31
23 6 0.13
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (21 bp):
TTATTTTATACTATTTATTTA
Found at i:74592937 original size:8 final size:8
Alignment explanation
Indices: 74592912--74592959 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
74592902 ATTCTTATAC
74592912 TTATATTT
1 TTATATTT
*
74592920 TTAATTTTT
1 TT-ATATTT
74592929 TTATATTT
1 TTATATTT
*
74592937 TTATAATT
1 TTATATTT
74592945 TT-TATTT
1 TTATATTT
*
74592952 TTCTATTT
1 TTATATTT
74592960 CTTTTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
7 6 0.18
8 21 0.62
9 7 0.21
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATATTT
Found at i:74592946 original size:17 final size:17
Alignment explanation
Indices: 74592912--74592953 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
74592902 ATTCTTATAC
*
74592912 TTATATTTTTAATTTTT
1 TTATATTTTTAATATTT
74592929 TTATATTTTT-ATAATTT
1 TTATATTTTTAAT-ATTT
74592946 TTAT-TTTT
1 TTATATTTT
74592954 CTATTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATATTTTTAATATTT
Found at i:74592951 original size:32 final size:32
Alignment explanation
Indices: 74592875--74592953 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
74592865 TTATACTATT
74592875 TATTTTTATTTTACTAATTTATTTATTATTCTTA
1 TATTTTTATTTT--TAATTTATTTATTATTCTTA
* * * *
74592909 TACTTATATTTTTAATTTTTTTA-TATTTTTA
1 TATTTTTATTTTTAATTTATTTATTATTCTTA
74592940 TAATTTTTATTTTT
1 T-ATTTTTATTTTT
74592954 CTATTTCTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
31 8 0.21
32 20 0.53
34 10 0.26
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (32 bp):
TATTTTTATTTTTAATTTATTTATTATTCTTA
Found at i:74592973 original size:21 final size:20
Alignment explanation
Indices: 74592943--74592985 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
74592933 ATTTTTATAA
74592943 TTTTTATTTTTC-TATTTCTT
1 TTTTTATTTTTCGTATTT-TT
74592963 TTTTTATTTTTCGTATTTTT
1 TTTTTATTTTTCGTATTTTT
74592983 TTT
1 TTT
74592986 ACTATTATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTTATTTTTCGTATTTTT
Found at i:74592991 original size:21 final size:20
Alignment explanation
Indices: 74592943--74592991 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
74592933 ATTTTTATAA
74592943 TTTT-TATTTTTCTATTTCT
1 TTTTCTATTTTTCTATTTCT
*
74592962 TTTTTTATTTTTCGTATTT-T
1 TTTTCTATTTTTC-TATTTCT
74592982 TTTTACTATT
1 TTTT-CTATT
74592992 ATCATTACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 4 0.15
20 13 0.50
21 9 0.35
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTCTATTTTTCTATTTCT
Found at i:74595298 original size:24 final size:24
Alignment explanation
Indices: 74595263--74595310 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
74595253 TCATGGATTA
74595263 TCATGCAATGAATGTCTAAATTGT
1 TCATGCAATGAATGTCTAAATTGT
*
74595287 TCATGCAGTGAATGTCTAAATTGT
1 TCATGCAATGAATGTCTAAATTGT
74595311 CATACATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (24 bp):
TCATGCAATGAATGTCTAAATTGT
Found at i:74599168 original size:43 final size:42
Alignment explanation
Indices: 74599120--74599285 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 42
74599110 ATCGAAATGT
74599120 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATT-A
* * * * *
74599163 GATTACGTGTAAGACCATGTCTGGGACATTGACATCTTTAATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTA
* * * * *
74599206 GTTTTCGTGTAAGACCCTGTCTGGGACATTGGCATCG-ATATA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TA
* *
74599248 TGATTACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
74599286 TTGAGAATAT
Statistics
Matches: 99, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 86 0.87
44 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
Found at i:74610951 original size:43 final size:41
Alignment explanation
Indices: 74610839--74610959 Score: 118
Period size: 43 Copynumber: 2.9 Consensus size: 41
74610829 CATCAAAATG
* *
74610839 TGATTACATGTAAAACCATGTCTGGGACATTGGCATCATTAA
1 TGATTACATGTAAGACCATATCTGGGACA-TGGCATCATTAA
* * * * *
74610881 TCGATTTCGTGTAAGACCCTTTATGGGACAGTGGCATCGA-TATA
1 T-GATTACATGTAAGACCATATCTGGGACA-TGGCATC-ATTA-A
*
74610925 TGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGATTACATGTAAGACCATATCTGGGACATGGCAT
74610960 TGTTTGAACT
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 7 0.11
43 53 0.84
44 3 0.05
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (41 bp):
TGATTACATGTAAGACCATATCTGGGACATGGCATCATTAA
Found at i:74614746 original size:21 final size:21
Alignment explanation
Indices: 74614707--74614746 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
74614697 ATTTTTTAAA
*
74614707 AAATAATTTCTTATCATTTCT
1 AAATAATTTCTTATAATTTCT
74614728 AAATAATTT-TCTATAATTT
1 AAATAATTTCT-TATAATTT
74614747 TTCAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATAATTTCTTATAATTTCT
Found at i:74618932 original size:13 final size:14
Alignment explanation
Indices: 74618914--74618945 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
74618904 AAAAAAAATG
74618914 AAAATTTTCATT-A
1 AAAATTTTCATTGA
74618927 AAAA-TTTCATTGA
1 AAAATTTTCATTGA
74618940 AAAATT
1 AAAATT
74618946 CTTGAGAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.41
13 9 0.53
14 1 0.06
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (14 bp):
AAAATTTTCATTGA
Found at i:74618934 original size:12 final size:13
Alignment explanation
Indices: 74618912--74618945 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
74618902 TGAAAAAAAA
*
74618912 TGAAAATTTTCAT
1 TGAAAAATTTCAT
74618925 T-AAAAATTTCAT
1 TGAAAAATTTCAT
74618937 TGAAAAATT
1 TGAAAAATT
74618946 CTTGAGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (13 bp):
TGAAAAATTTCAT
Found at i:74620596 original size:2 final size:2
Alignment explanation
Indices: 74620591--74620640 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
74620581 TATATATATA
74620591 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
74620633 TG TG TG TG
1 TG TG TG TG
74620641 ACATTGAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:74626926 original size:14 final size:14
Alignment explanation
Indices: 74626907--74626933 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
74626897 CTATATAGTA
74626907 ATTAATTTCAAACT
1 ATTAATTTCAAACT
74626921 ATTAATTTCAAAC
1 ATTAATTTCAAAC
74626934 ATTTCACAAT
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:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAATTTCAAACT
Found at i:74628929 original size:19 final size:19
Alignment explanation
Indices: 74628884--74628936 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
74628874 TAAAAAGTTT
*
74628884 AAAAATATATATAATCTAGA
1 AAAAATATATA-AATATAGA
74628904 AATAAATATATAAATGATA-A
1 AA-AAATATATAAAT-ATAGA
*
74628924 AAAAATTTATAAA
1 AAAAATATATAAA
74628937 AATAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 10 0.34
20 8 0.28
21 11 0.38
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
AAAAATATATAAATATAGA
Found at i:74628957 original size:14 final size:14
Alignment explanation
Indices: 74628922--74628958 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
74628912 TATAAATGAT
*
74628922 AAAAAAATTTATAA
1 AAAAAAATTTACAA
74628936 AAATAAAATTTACAA
1 AAA-AAAATTTACAA
74628951 AAAAAAAT
1 AAAAAAAT
74628959 AAGATAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAAAATTTACAA
Found at i:74630754 original size:8 final size:8
Alignment explanation
Indices: 74630737--74630769 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
74630727 TATATATTTT
74630737 TTTTTA-A
1 TTTTTATA
74630744 TTTTTATA
1 TTTTTATA
74630752 TTTTTATA
1 TTTTTATA
74630760 TTTTTTATA
1 -TTTTTATA
74630769 T
1 T
74630770 AAACAAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 6 0.25
8 10 0.42
9 8 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTATA
Found at i:74639820 original size:18 final size:19
Alignment explanation
Indices: 74639799--74639844 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
74639789 CACATTCTAT
74639799 TTTCAATTCACT-ATATCA
1 TTTCAATTCACTCATATCA
* *
74639817 TTTCCATT-TCTCATATCA
1 TTTCAATTCACTCATATCA
*
74639835 TTTCATTTCA
1 TTTCAATTCA
74639845 ATATCAATTG
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTCAATTCACTCATATCA
Found at i:74640913 original size:13 final size:13
Alignment explanation
Indices: 74640878--74640919 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
74640868 AAACCCTAAA
* *
74640878 TTTTCTCCTTCCT
1 TTTTCTTCTTTCT
74640891 TTTTCTTTCTTTCT
1 TTTTC-TTCTTTCT
74640905 TTTTCTTCTTTCT
1 TTTTCTTCTTTCT
74640918 TT
1 TT
74640920 CCCATGTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTCTTCTTTCT
Found at i:74641150 original size:5 final size:5
Alignment explanation
Indices: 74641137--74641202 Score: 114
Period size: 5 Copynumber: 13.0 Consensus size: 5
74641127 TTTTATACTT
74641137 TAATCA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
*
74641188 TAACA TAATA TAATA
1 TAATA TAATA TAATA
74641203 ATATTTTCTT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
5 54 0.93
6 4 0.07
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (5 bp):
TAATA
Found at i:74649638 original size:31 final size:31
Alignment explanation
Indices: 74649603--74649667 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
74649593 AAAACATCTT
74649603 AGTGACTTAAATAAAAACTTTCAAATAATTC
1 AGTGACTTAAATAAAAACTTTCAAATAATTC
* * *
74649634 AGTGACTTAAATGAAAACTTTTAAATAGTTC
1 AGTGACTTAAATAAAAACTTTCAAATAATTC
74649665 AGT
1 AGT
74649668 AATCATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTCAAATAATTC
Found at i:74652042 original size:54 final size:54
Alignment explanation
Indices: 74651972--74652084 Score: 217
Period size: 54 Copynumber: 2.1 Consensus size: 54
74651962 GAGAATTGCC
*
74651972 AAAGTTAAGGGAGCAATTTGCAATTCTTAAAATATGTGGTGAATGTTTGAAGGG
1 AAAGCTAAGGGAGCAATTTGCAATTCTTAAAATATGTGGTGAATGTTTGAAGGG
74652026 AAAGCTAAGGGAGCAATTTGCAATTCTTAAAATATGTGGTGAATGTTTGAAGGG
1 AAAGCTAAGGGAGCAATTTGCAATTCTTAAAATATGTGGTGAATGTTTGAAGGG
74652080 AAAGC
1 AAAGC
74652085 AGCAACATGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.29
Consensus pattern (54 bp):
AAAGCTAAGGGAGCAATTTGCAATTCTTAAAATATGTGGTGAATGTTTGAAGGG
Found at i:74657156 original size:17 final size:16
Alignment explanation
Indices: 74657128--74657180 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
74657118 TTTGGTTCGC
74657128 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
74657144 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
*
74657161 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
74657177 TGTA
1 TGTA
74657181 ATAGCTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 19 0.54
17 16 0.46
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:74657437 original size:18 final size:17
Alignment explanation
Indices: 74657416--74657450 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74657406 TTATTATTAA
*
74657416 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
74657434 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
74657451 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:74657557 original size:18 final size:17
Alignment explanation
Indices: 74657536--74657570 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74657526 TTATTATTAA
*
74657536 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
74657554 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
74657571 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:74657612 original size:120 final size:120
Alignment explanation
Indices: 74657399--74658098 Score: 1028
Period size: 120 Copynumber: 5.8 Consensus size: 120
74657389 ATCATATTTA
74657399 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
74657464 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
74657519 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
74657584 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
74657639 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
74657704 TATTCTTATATTAATTTATTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
74657759 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
74657824 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
74657879 AACATAATTATTATTAAATATATTTTAATTAAAATATAT--TTTAATTAAATATAAT-TTAATAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA-TAAA-AT--TCTTAATAA
* * * * * * * *
74657941 -TAATATATAATT-TCATAAAATT-CTTGATAAT-A-AATTTTCTTATA-TG-AATTTATATAAT
62 TTAATAT-T-CTTAT-ATTAATTTAC-TGA-AATCATAA-TATATGATACTGTAA--AATATAAA
74657999 TT
119 TT
* * * * * *
74658001 AAAATAATTAATATTAAATATAATTTAA-TAATGATATATAATTTCATAAAATTCTTAATAATAA
1 AACATAATTATTATTAAATATATTTTAATTAA-AATATATAATTTAATAAAATTCTTAATAATTA
* *
74658065 ATATTCTTATA-TAATTTATTAAAATCATAATATA
65 ATATTCTTATATTAATTTACTGAAATCATAATATA
74658099 ATTTGAGAAT
Statistics
Matches: 532, Mismatches: 27, Indels: 43
0.88 0.04 0.07
Matches are distributed among these distances:
118 8 0.02
119 13 0.02
120 409 0.77
121 26 0.05
122 65 0.12
123 7 0.01
124 4 0.01
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:74657909 original size:15 final size:15
Alignment explanation
Indices: 74657891--74657948 Score: 80
Period size: 16 Copynumber: 3.7 Consensus size: 15
74657881 CATAATTATT
74657891 ATTAAATATATTTTA
1 ATTAAATATATTTTA
74657906 ATTAAAATATATTTTA
1 ATT-AAATATATTTTA
*
74657922 ATTAAATATAATTTA
1 ATTAAATATATTTTA
*
74657937 ATAATAATATAT
1 ATTA-AATATAT
74657949 AATTTCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 17 0.45
16 21 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAAATATATTTTA
Found at i:74657929 original size:31 final size:31
Alignment explanation
Indices: 74657875--74657948 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
74657865 GTAAAATATA
* *
74657875 AATTAACATA-ATTATTATTAAATATATTTT
1 AATTAAAATATATTATTATTAAATATAATTT
74657905 AATTAAAATATATT-TTAATTAAATATAATTT
1 AATTAAAATATATTATT-ATTAAATATAATTT
74657936 AA-TAATAATATAT
1 AATTAA-AATATAT
74657949 AATTTCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 14 0.36
31 25 0.64
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (31 bp):
AATTAAAATATATTATTATTAAATATAATTT
Found at i:74657950 original size:18 final size:18
Alignment explanation
Indices: 74657896--74657958 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
74657886 TTATTATTAA
*
74657896 ATATATTTTAATTAA-AAT
1 ATATAATTTAA-TAATAAT
74657914 ATAT--TTTAAT--TAA-
1 ATATAATTTAATAATAAT
74657927 ATATAATTTAATAATAAT
1 ATATAATTTAATAATAAT
*
74657945 ATATAATTTCATAA
1 ATATAATTTAATAA
74657959 AATTCTTGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 4 0.11
14 2 0.05
15 7 0.18
16 5 0.13
17 3 0.08
18 17 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATAATTTAATAATAAT
Found at i:74657975 original size:47 final size:46
Alignment explanation
Indices: 74657924--74658068 Score: 156
Period size: 47 Copynumber: 3.2 Consensus size: 46
74657914 ATATTTTAAT
*
74657924 TAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTAATAA
* * ** *
74657971 TAAAT-T-TTCTTATATGAATTTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTCATAAAATTCTTAATAA
74658015 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTAATAA
74658062 TAAATAT
1 TAAATAT
74658069 TCTTATATAA
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 25 0.32
45 7 0.09
46 7 0.09
47 33 0.42
48 3 0.04
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (46 bp):
TAAATATAATTTAATAATATATATAATTTCATAAAATTCTTAATAA
Found at i:74658039 original size:44 final size:43
Alignment explanation
Indices: 74657922--74658044 Score: 106
Period size: 44 Copynumber: 2.7 Consensus size: 43
74657912 ATATATTTTA
** *
74657922 ATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGAT
1 ATTAAATATAATTTAATAAT-ATATATAA-TT--TAAAATAATTAAT
* * *
74657969 AATAAAT-T-TTCTTATATGAATTTATATAATTTAAAATAATTAAT
1 ATTAAATATAAT-TTA-AT-AATATATATAATTTAAAATAATTAAT
74658013 ATTAAATATAATTTAATAATGATATATAATTT
1 ATTAAATATAATTTAATAAT-ATATATAATTT
74658045 CATAAAATTC
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
43 3 0.05
44 28 0.46
45 5 0.08
46 7 0.11
47 15 0.25
48 3 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (43 bp):
ATTAAATATAATTTAATAATATATATAATTTAAAATAATTAAT
Found at i:74658072 original size:16 final size:16
Alignment explanation
Indices: 74658046--74658079 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
74658036 ATATAATTTC
74658046 ATAAAATTCTTA-ATA
1 ATAAAATTCTTATATA
74658061 ATAAATATTCTTATATA
1 ATAAA-ATTCTTATATA
74658078 AT
1 AT
74658080 TTATTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAAATTCTTATATA
Found at i:74658426 original size:66 final size:66
Alignment explanation
Indices: 74658320--74658450 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
74658310 CGCAAATGTG
* *
74658320 ATTTGAGTTCAAATTAGATTCATAGTAAGCTCAAATTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
74658385 C
66 C
* *
74658386 ATTTGGGTTCAAATTATACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
74658451 AAACCTTTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (66 bp):
ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
C
Found at i:74673547 original size:9 final size:9
Alignment explanation
Indices: 74673533--74673559 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
74673523 ATACCTTCAC
74673533 CACCAGGAA
1 CACCAGGAA
74673542 CACCAGGAA
1 CACCAGGAA
74673551 CACCAGGAA
1 CACCAGGAA
74673560 GTTTTGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.33, G:0.22, T:0.00
Consensus pattern (9 bp):
CACCAGGAA
Found at i:74686749 original size:37 final size:37
Alignment explanation
Indices: 74686699--74686773 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
74686689 TCAGAAGATA
*
74686699 TGTAATTTGCCTTTATAGGAAAATATGCCAACTATCT
1 TGTAATTTGCCTTTACAGGAAAATATGCCAACTATCT
74686736 TGTAATTTGCCTTTACAGGAAAATATGCCAACTATCT
1 TGTAATTTGCCTTTACAGGAAAATATGCCAACTATCT
74686773 T
1 T
74686774 ATACGAAGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (37 bp):
TGTAATTTGCCTTTACAGGAAAATATGCCAACTATCT
Found at i:74693098 original size:42 final size:42
Alignment explanation
Indices: 74693039--74693266 Score: 217
Period size: 42 Copynumber: 5.1 Consensus size: 42
74693029 GGATTACTGG
* *
74693039 GATATGAGATTCATGTAAGACCATCTCTGGAACATTGGCATC
1 GATATGAGATTCGTGTAAGACCATGTCTGGAACATTGGCATC
*
74693081 GATATGAGATTCGTGTAAGATCATGTCTGGGACATTGGCATGGGATATTGGCATC
1 GATATGAGATTCGTGTAAGACCATGTCT-GGA-A----C-----AT--TGGCATC
* *
74693136 GATATGAGATTCATGTAAGACCATGTCTGGGACATTGGCATC
1 GATATGAGATTCGTGTAAGACCATGTCTGGAACATTGGCATC
* * *
74693178 GATATGAGATTCGTGTAAGACCATGTATGGGATATTGGCATC
1 GATATGAGATTCGTGTAAGACCATGTCTGGAACATTGGCATC
* *
74693220 GATATGAGATTCGTGTAAGACAAT-TGCTGG-GCTATTGGCATC
1 GATATGAGATTCGTGTAAGACCATGT-CTGGAAC-ATTGGCATC
74693262 GATAT
1 GATAT
74693267 ACTATAAAAT
Statistics
Matches: 158, Mismatches: 13, Indels: 30
0.79 0.06 0.15
Matches are distributed among these distances:
41 1 0.01
42 111 0.70
43 3 0.02
44 3 0.02
48 1 0.01
49 1 0.01
53 3 0.02
54 2 0.01
55 33 0.21
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (42 bp):
GATATGAGATTCGTGTAAGACCATGTCTGGAACATTGGCATC
Found at i:74693137 original size:55 final size:55
Alignment explanation
Indices: 74693072--74693176 Score: 192
Period size: 55 Copynumber: 1.9 Consensus size: 55
74693062 TCTCTGGAAC
* *
74693072 ATTGGCATCGATATGAGATTCGTGTAAGATCATGTCTGGGACATTGGCATGGGAT
1 ATTGGCATCGATATGAGATTCATGTAAGACCATGTCTGGGACATTGGCATGGGAT
74693127 ATTGGCATCGATATGAGATTCATGTAAGACCATGTCTGGGACATTGGCAT
1 ATTGGCATCGATATGAGATTCATGTAAGACCATGTCTGGGACATTGGCAT
74693177 CGATATGAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
ATTGGCATCGATATGAGATTCATGTAAGACCATGTCTGGGACATTGGCATGGGAT
Found at i:74693209 original size:97 final size:97
Alignment explanation
Indices: 74693039--74693218 Score: 315
Period size: 97 Copynumber: 1.9 Consensus size: 97
74693029 GGATTACTGG
*
74693039 GATATGAGATTCATGTAAGACCATCTCTGGAACATTGGCATCGATATGAGATTCGTGTAAGATCA
1 GATATGAGATTCATGTAAGACCATCTCTGGAACATTGGCATCGATATGAGATTCGTGTAAGACCA
*
74693104 TGTCTGGGACATTGGCATGGGATATTGGCATC
66 TGTATGGGACATTGGCATGGGATATTGGCATC
* *
74693136 GATATGAGATTCATGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCGTGTAAGACCA
1 GATATGAGATTCATGTAAGACCATCTCTGGAACATTGGCATCGATATGAGATTCGTGTAAGACCA
*
74693201 TGTATGGGATATTGGCAT
66 TGTATGGGACATTGGCAT
74693219 CGATATGAGA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 78 1.00
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (97 bp):
GATATGAGATTCATGTAAGACCATCTCTGGAACATTGGCATCGATATGAGATTCGTGTAAGACCA
TGTATGGGACATTGGCATGGGATATTGGCATC
Found at i:74693301 original size:84 final size:84
Alignment explanation
Indices: 74693120--74693310 Score: 221
Period size: 84 Copynumber: 2.3 Consensus size: 84
74693110 GGACATTGGC
*
74693120 ATGGGATATTGGCATCGATATGAGATTCATGTAAGACCATGTCTGGGACATTGGCATCGATATGA
1 ATGGGATATTGGCATCGATATGAGATTCATGTAAGACAATGTCTGGGACATTGGCATCGATATGA
*** *
74693185 GATTCGTGTAAGACCATGT
66 GATAAATGTAAGACCATAT
*
74693204 ATGGGATATTGGCATCGATATGAGATTCGTGTAAGACAAT-TGCTGGG-CTATTGGCATCGATAT
1 ATGGGATATTGGCATCGATATGAGATTCATGTAAGACAATGT-CTGGGAC-ATTGGCATCGATAT
* *
74693267 -ACTATAAAATGTGAGACCATAT
64 GA-GAT-AAATGTAAGACCATAT
* *
74693289 TTGGGATA-TGGCAT-GGTATGAG
1 ATGGGATATTGGCATCGATATGAG
74693311 TTATACGAGA
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
83 10 0.11
84 65 0.70
85 18 0.19
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (84 bp):
ATGGGATATTGGCATCGATATGAGATTCATGTAAGACAATGTCTGGGACATTGGCATCGATATGA
GATAAATGTAAGACCATAT
Found at i:74695383 original size:91 final size:91
Alignment explanation
Indices: 74695111--74695383 Score: 237
Period size: 91 Copynumber: 3.0 Consensus size: 91
74695101 TGAAATGTGC
* * * * * * ** *
74695111 TACTTAAATGTGATTTAAATGATGTTCGAAAGTGGTCAGATAATAACTTTAATT-CTTGAAAGTT
1 TACTTAAATGTGATTTAAATGATGTTCAAAAGTTGTTAAATGACAGTTTTAATTGC-TGAAAATT
* *
74695175 ATGGTATCTAATTGTATGCTTTAATGA
65 ATGGTATCTAATTGTATGTTTTGATGA
* * * * * * * *
74695202 TACTCAAAGGTGATTTAAATGATG-TCTAAAAGATATTAATATG-CGGTTTTAATAGTTGGAAAT
1 TACTTAAATGTGATTTAAATGATGTTC-AAAAGTTGTTAA-ATGACAGTTTTAATTGCTGAAAAT
* * * * *
74695265 TATGTTGTCTAAATGTATGTGTAGATGA
64 TATGGTATCTAATTGTATGTTTTGATGA
* * *
74695293 TGCTTAAATGTGATTTAAATGATGTTCAAAAGTTGTTAAATGACCGTTTTAATTGCTGAAAATTT
1 TACTTAAATGTGATTTAAATGATGTTCAAAAGTTGTTAAATGACAGTTTTAATTGCTGAAAATTA
* *
74695358 TGGTATTTGATTGTATGTTTTGATGA
66 TGGTATCTAATTGTATGTTTTGATGA
74695384 GGTTTAAAGG
Statistics
Matches: 136, Mismatches: 41, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
90 5 0.04
91 127 0.93
92 4 0.03
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.41
Consensus pattern (91 bp):
TACTTAAATGTGATTTAAATGATGTTCAAAAGTTGTTAAATGACAGTTTTAATTGCTGAAAATTA
TGGTATCTAATTGTATGTTTTGATGA
Found at i:74711275 original size:14 final size:15
Alignment explanation
Indices: 74711246--74711278 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
74711236 TTTTTACTAC
*
74711246 ATTTTTATTTCTTTT
1 ATTTTTATTACTTTT
74711261 ATTTTTATTAC-TTT
1 ATTTTTATTACTTTT
74711275 ATTT
1 ATTT
74711279 ATCTTGTTAC
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:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTATTACTTTT
Found at i:74715044 original size:32 final size:31
Alignment explanation
Indices: 74714998--74715061 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 31
74714988 CAAAATAGTG
74714998 AAAAGAACAACAAGAAAATAGTAACAAAACAAT
1 AAAAGAACAACAAGAAAATAGTAA-AAAA-AAT
*
74715031 AAAA-AACAGCAAGAAAATAGTAAAAAAAAT
1 AAAAGAACAACAAGAAAATAGTAAAAAAAAT
74715061 A
1 A
74715062 GTTTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 4 0.13
31 4 0.13
32 18 0.60
33 4 0.13
ACGTcount: A:0.72, C:0.09, G:0.09, T:0.09
Consensus pattern (31 bp):
AAAAGAACAACAAGAAAATAGTAAAAAAAAT
Found at i:74715622 original size:3 final size:3
Alignment explanation
Indices: 74715559--74715602 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
74715549 TGGCAATCTT
74715559 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
74715603 GAAAGCACCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:74724865 original size:26 final size:26
Alignment explanation
Indices: 74724829--74724912 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
74724819 CATGAAATTC
74724829 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
74724855 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
74724881 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
74724907 TTATCA
1 TTATCA
74724913 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:74729115 original size:25 final size:27
Alignment explanation
Indices: 74729078--74729130 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
74729068 TCAAACATGC
74729078 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
74729104 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
74729130 A
1 A
74729131 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:74730647 original size:26 final size:26
Alignment explanation
Indices: 74730618--74730701 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
74730608 CATGAAATTC
*
74730618 TTATAATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
74730644 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
74730670 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
74730696 TTATCA
1 TTATCA
74730702 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:74731646 original size:17 final size:16
Alignment explanation
Indices: 74731626--74731658 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
74731616 TTCATAAGCA
74731626 TATATCATTCATTTCAT
1 TATATCATT-ATTTCAT
74731643 TATATCATTATTTCAT
1 TATATCATTATTTCAT
74731659 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATCATTATTTCAT
Found at i:74731941 original size:46 final size:46
Alignment explanation
Indices: 74731879--74732153 Score: 417
Period size: 46 Copynumber: 6.0 Consensus size: 46
74731869 TTTGACATGA
* * * * * *
74731879 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
74731925 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
74731971 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
74732017 TGCCATGGTATCTTTCCAACCATGGTCTTACACATTTCATATCAAGC
1 TGCCATGGTATCTTT-CAACCATGGTCTTACACATTTCATATCAGGT
* *
74732064 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
74732110 TGCCACGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
74732154 AGAGCACACT
Statistics
Matches: 213, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 4 0.02
46 165 0.77
47 44 0.21
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:74732073 original size:93 final size:92
Alignment explanation
Indices: 74731879--74732152 Score: 415
Period size: 93 Copynumber: 3.0 Consensus size: 92
74731869 TTTGACATGA
* * * * * * *
74731879 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTACCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
* *
74731943 CCATGGTCTTACACATTTCATATCAGGT
65 CCATGGTCTTACACATTTCATATCAAGC
74731971 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTT-CAA
74732036 CCATGGTCTTACACATTTCATATCAAGC
65 CCATGGTCTTACACATTTCATATCAAGC
* * *
74732064 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGCTGCCACGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
74732129 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTACACATTTCATATCA
74732153 GAGAGCACAC
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
91 4 0.02
92 77 0.46
93 87 0.52
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.38
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAAGC
Found at i:74732149 original size:139 final size:138
Alignment explanation
Indices: 74731879--74732153 Score: 426
Period size: 139 Copynumber: 2.0 Consensus size: 138
74731869 TTTGACATGA
* * * * * *
74731879 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTACCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCAAGCTACCATGGTATCTTTCAAC
* *
74731944 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTACACATTTCATATCAGGCTGCCACGGTATCTTTCAACCATGGTCTTACACATTTCA
74732009 TATCAGGT
131 TATCAGGT
* *
74732017 TGCCATGGTATCTTTCCAACCATGGTCTTACACA-TTTCATATCAAGCTGCCATGGTATCTTTCA
1 TGCCATAGTATCTTT-CAACCATGGTCTTACACATTTTC-TATCAAGCTACCATGGTATCTTTCA
*
74732081 ACCATGGTCTTACACATTTCATATTAGGCTGCCACGGTATCTTTCAACCATGGTCTTACACATTT
64 ACCATGGTCTTACACATTTCATATCAGGCTGCCACGGTATCTTTCAACCATGGTCTTACACATTT
74732146 CATATCAG
129 CATATCAG
74732154 AGAGCACACT
Statistics
Matches: 124, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
138 17 0.14
139 107 0.86
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (138 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCAAGCTACCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGCTGCCACGGTATCTTTCAACCATGGTCTTACACATTTCA
TATCAGGT
Found at i:74734652 original size:30 final size:30
Alignment explanation
Indices: 74734585--74734652 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
74734575 CACCCTTAAA
* * *
74734585 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
74734615 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
74734644 AGTATTTAC
1 A-TATTTAC
74734653 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:74738580 original size:15 final size:15
Alignment explanation
Indices: 74738560--74738588 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
74738550 ACTAGATTAC
74738560 ACATAAATAAATAGA
1 ACATAAATAAATAGA
74738575 ACATAAATAAATAG
1 ACATAAATAAATAG
74738589 TCAAACAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (15 bp):
ACATAAATAAATAGA
Found at i:74738698 original size:15 final size:15
Alignment explanation
Indices: 74738678--74738707 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
74738668 GAACTCTCTT
74738678 CCATTTTCGTCTTAA
1 CCATTTTCGTCTTAA
74738693 CCATTTTCGTCTTAA
1 CCATTTTCGTCTTAA
74738708 GCCACAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (15 bp):
CCATTTTCGTCTTAA
Found at i:74745650 original size:6 final size:6
Alignment explanation
Indices: 74745639--74745666 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
74745629 TTTTACATAG
74745639 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
74745667 GCATTATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:74747537 original size:19 final size:20
Alignment explanation
Indices: 74747515--74747552 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
74747505 TTATTATAAA
*
74747515 ATGTTAAA-ATAATTATTTT
1 ATGTTAAATAAAATTATTTT
74747534 ATGTTAAATAAAATTATTT
1 ATGTTAAATAAAATTATTT
74747553 AATTCGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATGTTAAATAAAATTATTTT
Found at i:74751619 original size:21 final size:21
Alignment explanation
Indices: 74751585--74751627 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
74751575 ATGACACCAA
*
74751585 GAAAACACTAATCATA-AAGAT
1 GAAAACAATAATCA-ACAAGAT
*
74751606 GAAAACAATGATCAACAAGAT
1 GAAAACAATAATCAACAAGAT
74751627 G
1 G
74751628 TCCAATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.16
Consensus pattern (21 bp):
GAAAACAATAATCAACAAGAT
Done.