Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 224 of 253
Found at i:73357852 original size:16 final size:17
Alignment explanation
Indices: 73357827--73357863 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
73357817 TGATAAAATG
*
73357827 AAAAATTAAGT-GTTAA
1 AAAAAATAAGTGGTTAA
73357843 AAAAAATAAGTGGTTAA
1 AAAAAATAAGTGGTTAA
73357860 AAAA
1 AAAA
73357864 TTAGTATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (17 bp):
AAAAAATAAGTGGTTAA
Found at i:73357876 original size:15 final size:16
Alignment explanation
Indices: 73357827--73357889 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 16
73357817 TGATAAAATG
* *
73357827 AAAAATTAAGTGTTAA
1 AAAAATTAAGTATTGA
* *
73357843 AAAAAATAAGTGGTT-A
1 AAAAATTAAGT-ATTGA
73357859 AAAAATT-AGTATTG-
1 AAAAATTAAGTATTGA
*
73357873 AAAATTTAAGTATTGA
1 AAAAATTAAGTATTGA
73357889 A
1 A
73357890 TTATCAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 8 0.21
15 10 0.26
16 18 0.46
17 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (16 bp):
AAAAATTAAGTATTGA
Found at i:73378794 original size:20 final size:20
Alignment explanation
Indices: 73378771--73378809 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
73378761 AAGACTTTAC
* *
73378771 TTTATTTTTATTTTTATTTG
1 TTTACTTTTATCTTTATTTG
73378791 TTTACTTTTATCTTTATTT
1 TTTACTTTTATCTTTATTT
73378810 ATCTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTACTTTTATCTTTATTTG
Found at i:73383438 original size:43 final size:43
Alignment explanation
Indices: 73383371--73383494 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
73383361 TCTGAACTCA
* * **
73383371 TTCACTGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
73383413 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCAGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* * *
73383456 CTCACCGGTATTATAGCCTGTTAGGCCCGAAGCCCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
73383495 ATATTATTCA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 11 0.15
43 60 0.85
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:73393109 original size:16 final size:17
Alignment explanation
Indices: 73393080--73393113 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
73393070 AGAGAAGGGG
73393080 AAAGAAAGGAAGGAAAA
1 AAAGAAAGGAAGGAAAA
73393097 AAAGAAA-GAAGGAAAA
1 AAAGAAAGGAAGGAAAA
73393113 A
1 A
73393114 GGGGGAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAAGAAAGGAAGGAAAA
Found at i:73394788 original size:53 final size:50
Alignment explanation
Indices: 73394726--73394874 Score: 207
Period size: 53 Copynumber: 3.0 Consensus size: 50
73394716 CTGTTACCAT
73394726 TACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATG
1 TACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGT-A-G
*
73394778 TGACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACC---G
1 T-ACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAG
* *
73394826 TACTGTTACT-ATTCCGAATTTGTTCCGATGAGGTACTCTGTGTACCGTA
1 TACTGTTACTGTTTCAG-ATTTGTTCCGATGAGGTACTCTGTGTACCGTA
73394875 CAGCTACTAT
Statistics
Matches: 89, Mismatches: 3, Indels: 12
0.86 0.03 0.12
Matches are distributed among these distances:
46 4 0.04
47 38 0.43
48 2 0.02
52 1 0.01
53 44 0.49
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (50 bp):
TACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAG
Found at i:73394849 original size:47 final size:47
Alignment explanation
Indices: 73394726--73394885 Score: 196
Period size: 47 Copynumber: 3.3 Consensus size: 47
73394716 CTGTTACCAT
*
73394726 TACTGTTACTGTTTC-AGATTTGTTCCGATGAGGTACTCTGTGTACCGTAATG
1 TACTGTTACTATTTCGA-ATTTGTTCCGATGAGGTACTCTGTGTACC-----G
* *
73394778 TGACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
1 T-ACTGTTACTATTTCGAATTTGTTCCGATGAGGTACTCTGTGTACCG
*
73394826 TACTGTTACTATTCCGAATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTTACTATTTCGAATTTGTTCCGATGAGGTACTCTGTGTACCG
* *
73394873 TACAGCTACTATT
1 TACTGTTACTATT
73394886 ACTGTTATTG
Statistics
Matches: 100, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
47 54 0.54
48 2 0.02
52 1 0.01
53 43 0.43
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (47 bp):
TACTGTTACTATTTCGAATTTGTTCCGATGAGGTACTCTGTGTACCG
Found at i:73395035 original size:18 final size:18
Alignment explanation
Indices: 73395014--73395284 Score: 158
Period size: 18 Copynumber: 14.6 Consensus size: 18
73395004 TAACTGATTA
73395014 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* * *
73395032 TTACCGGATACTTGACTG
1 TTACTGAATAATTGACTG
*
73395050 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
73395068 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
73395086 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
73395104 TTACTGAATAAGTGATTG
1 TTACTGAATAATTGACTG
* *
73395122 TCACTGAATGAA-TGATTG
1 TTACTGAAT-AATTGACTG
* *
73395140 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
73395159 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
73395176 TTACTGAATAATTAACTG
1 TTACTGAATAATTGACTG
73395194 TTACTGGATAACCGATCAATTGA-TCG
1 TTACT-G---A---AT-AATTGACT-G
* * * *
73395220 ATACTGAATAACTGGCTA
1 TTACTGAATAATTGACTG
* *
73395238 TTATTGAATAATTGATTG
1 TTACTGAATAATTGACTG
* *
73395256 TTACCGAATAACTGACTG
1 TTACTGAATAATTGACTG
73395274 TTACTGAATAA
1 TTACTGAATAA
73395285 ATAATTGTTC
Statistics
Matches: 198, Mismatches: 35, Indels: 40
0.73 0.13 0.15
Matches are distributed among these distances:
17 18 0.09
18 141 0.71
19 23 0.12
22 2 0.01
25 4 0.02
26 10 0.05
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:73395292 original size:36 final size:36
Alignment explanation
Indices: 73395225--73395293 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
73395215 GATCGATACT
* * * *
73395225 GAATAACTGGCTATTATTGAATAATTGATTGTTACC
1 GAATAACTGACTATTACTGAATAAATAATTGTTACC
*
73395261 GAATAACTGACTGTTACTGAATAAATAATTGTT
1 GAATAACTGACTATTACTGAATAAATAATTGTT
73395294 CTGATTGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (36 bp):
GAATAACTGACTATTACTGAATAAATAATTGTTACC
Found at i:73401172 original size:175 final size:175
Alignment explanation
Indices: 73400983--73401365 Score: 615
Period size: 175 Copynumber: 2.2 Consensus size: 175
73400973 CTTCGACGGA
* * *
73400983 GAACAAATCGAAGACATAGCAGATCTGACTTTCGGATGTTCTCACATCAAAGCAGATCCAAGATA
1 GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAACAGATCCAAGATA
* ** * *
73401048 ACAAATTTGCCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGATG-TTT
66 ACAAATCTGCCATCTCCATTTAAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
*
73401112 ATACTGAAGCAGATCCAAGATGATTTGGCATTTTTGTGTTTACAAG
131 -TACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
73401158 GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAACAGATCCAAGATA
1 GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAACAGATCCAAGATA
* * *
73401223 ATAGATCTGGCATCTCCATTTAAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
66 ACAAATCTGCCATCTCCATTTAAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
73401288 TACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
131 TACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
* * *
73401333 GAGCAAATCGAAGACACAGCAGATTTGGCTTTC
1 GAACAAATCGAAGACATAGCAGATTTGACTTTC
73401366 ACGTGTTTAC
Statistics
Matches: 192, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
175 189 0.98
176 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (175 bp):
GAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAACAGATCCAAGATA
ACAAATCTGCCATCTCCATTTAAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
TACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
Found at i:73401197 original size:87 final size:87
Alignment explanation
Indices: 73401101--73401404 Score: 250
Period size: 87 Copynumber: 3.5 Consensus size: 87
73401091 AGGTCTAACC
*
73401101 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTTTTGTGTTTACAAGGAACAAAT
1 TTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTTTTGTGTTTACAAGGAACAAAT
73401166 CGAAGACATAGCAGATTTGACT
66 CGAAGACATAGCAGATTTGACT
* ** * * * ***
73401188 TTCGGATGTTCTCACACCAAAACAGATCCAAGATAATAGATCTGGCA--TCTCCATTTA-AACGG
1 TTCAGATGTT-T-ACACTGAAGCAGATCCAAG---AT-GATTTGGCATTTTTGTGTTTACAA-GG
* * * *
73401250 AGAGC--A--G-ATACATAGCAGATCTAACC
59 A-A-CAAATCGAAGACATAGCAGATTTGACT
* * *
73401276 TTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAA
1 TTCAGATG-TTTACACTGAAGCAGATCCAAGATGATTTGGCATTTTTGTGTTTACAAGGAACAAA
* *
73401340 TCGAAGACACAGCAGATTTGGCT
65 TCGAAGACATAGCAGATTTGACT
* *
73401363 TTCACG-TGTTTACGCTGAAGCAGATCTAAGATGATTTGGCAT
1 TTCA-GATGTTTACACTGAAGCAGATCCAAGATGATTTGGCAT
73401405 CTCTGTATTG
Statistics
Matches: 162, Mismatches: 35, Indels: 40
0.68 0.15 0.17
Matches are distributed among these distances:
82 9 0.06
83 2 0.01
84 9 0.06
85 2 0.01
86 18 0.11
87 55 0.34
88 25 0.15
89 18 0.11
90 2 0.01
91 10 0.06
92 3 0.02
93 9 0.06
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (87 bp):
TTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTTTTGTGTTTACAAGGAACAAAT
CGAAGACATAGCAGATTTGACT
Found at i:73404759 original size:29 final size:29
Alignment explanation
Indices: 73404726--73404783 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
73404716 AACACAAGGA
73404726 ACATATGTATATATATACAATCAAACATC
1 ACATATGTATATATATACAATCAAACATC
73404755 ACATATGTATATATATACAATCAAACATC
1 ACATATGTATATATATACAATCAAACATC
73404784 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:73406188 original size:31 final size:32
Alignment explanation
Indices: 73406148--73406209 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 32
73406138 CCCTTTTTGT
*
73406148 TTTATTAATTCTTATTTC-ATAT-TATAAAACA
1 TTTAATAATT-TTATTTCTATATATATAAAACA
73406179 TTTAATAATTTTATTTCTTATATATATAAAA
1 TTTAATAATTTTATTTC-TATATATATAAAA
73406210 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:73406424 original size:14 final size:15
Alignment explanation
Indices: 73406395--73406424 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
73406385 CGAAATTTAG
73406395 ACATGATACTTTCAC
1 ACATGATACTTTCAC
73406410 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
73406424 A
1 A
73406425 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:73411549 original size:249 final size:249
Alignment explanation
Indices: 73411233--73411723 Score: 901
Period size: 249 Copynumber: 2.0 Consensus size: 249
73411223 AATCAATACA
*
73411233 TATGTTCATGGCATTAACAAACTCTCTTGAAGCCAAAACAAGGATAACGCCCTACGATATATGGA
1 TATGTTCATGGCATTAACAAACTCTCTTGAAGCCAAAACAAGGATAACACCCTACGATATATGGA
*
73411298 GAAGAATGAAGCTTGCTATCAAATACTTTGATATTTTTAAAAGTATCTGTTACATTCTAAGAGAT
66 GAAGAATGAAGCTTGCTATCAAATACTTTGATATTTTTAAAAGTATCTATTACATTCTAAGAGAT
73411363 TGAACATACCATTGCTCAAATTTATGTAGATGACATCATATTTAGTTCTATTTATTTACAAGCAA
131 TGAACATACCATTGCTCAAATTTATGTAGATGACATCATATTTAGTTCTATTTATTTACAAGCAA
*
73411428 AAGATGGTTTTATGAAGGTGATGCAATAGAAATTTGAAGTTAGCATGATGGTTT
196 AAGATGGTTTTATGAAGGTGATGCAATAGAAATTTGAAATTAGCATGATGGTTT
*
73411482 TATGTTCATGGCATTAACAAACTCTCTTTAAGCCAAAACAAGGATAACACCCTACGATATATGGA
1 TATGTTCATGGCATTAACAAACTCTCTTGAAGCCAAAACAAGGATAACACCCTACGATATATGGA
* *
73411547 GAAGAATGAAGCTTGCTATCAAATACTTTGATATTTTTAAAAGTATCTATTCCATTTTAAGAGAT
66 GAAGAATGAAGCTTGCTATCAAATACTTTGATATTTTTAAAAGTATCTATTACATTCTAAGAGAT
* * *
73411612 TGAACATACCATTGCTCAAATTTGTGTAGATGACATCATCTTTAGTTCTATTTCTTTACAAGCAA
131 TGAACATACCATTGCTCAAATTTATGTAGATGACATCATATTTAGTTCTATTTATTTACAAGCAA
73411677 AAGATGGTTTTATGAAGGTGATGCAATAGAAATTTGAAATTAGCATG
196 AAGATGGTTTTATGAAGGTGATGCAATAGAAATTTGAAATTAGCATG
73411724 GTGGGAGAAC
Statistics
Matches: 233, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
249 233 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (249 bp):
TATGTTCATGGCATTAACAAACTCTCTTGAAGCCAAAACAAGGATAACACCCTACGATATATGGA
GAAGAATGAAGCTTGCTATCAAATACTTTGATATTTTTAAAAGTATCTATTACATTCTAAGAGAT
TGAACATACCATTGCTCAAATTTATGTAGATGACATCATATTTAGTTCTATTTATTTACAAGCAA
AAGATGGTTTTATGAAGGTGATGCAATAGAAATTTGAAATTAGCATGATGGTTT
Found at i:73414174 original size:15 final size:17
Alignment explanation
Indices: 73414132--73414168 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
73414122 TTTTATTGTT
73414132 TATTATA-ATAAT-TTTA
1 TATTATATA-AATGTTTA
73414148 TATTATATAAATGTTTA
1 TATTATATAAATGTTTA
73414165 TATT
1 TATT
73414169 TTAAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATTATATAAATGTTTA
Found at i:73414395 original size:122 final size:126
Alignment explanation
Indices: 73414223--73414462 Score: 353
Period size: 122 Copynumber: 1.9 Consensus size: 126
73414213 TTTGTTTGTA
* *
73414223 AAGATTATATTGGTGTTTAAGGTGTAGGGATATATTAAAATAGTTCTAATGTA-TG-GTTTTTTA
1 AAGATTATATTGATGTTTAAGGTGTAGGGATAGATTAAAATAGTTCTAATGTATTGTGTTTTTTA
*
73414286 GTTTGTAATAATAATTT-TTTATTATAATATTTTACATATAATATTT-AGATTTAATCTTT
66 GTTTGTAATAATAATTTGTATATTATAATATTTTACATATAATATTTAAGATTTAATCTTT
* * ** * *
73414345 AAGATTATATTTATGTTTAAGTTGTAGGGATAGATTAGGATAGTTTTAATGTATTGTTTTTTTTA
1 AAGATTATATTGATGTTTAAGGTGTAGGGATAGATTAAAATAGTTCTAATGTATTGTGTTTTTTA
* *
73414410 GTTTGTAATAATAATTTGTATATTATAATATTTTACATTTAATTTTTAAGATT
66 GTTTGTAATAATAATTTGTATATTATAATATTTTACATATAATATTTAAGATT
73414463 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:73416392 original size:16 final size:16
Alignment explanation
Indices: 73416371--73416409 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
73416361 CAACTCCTTC
73416371 ATGCATGAACGTCCCA
1 ATGCATGAACGTCCCA
73416387 ATGCATGAACGTCCCA
1 ATGCATGAACGTCCCA
73416403 ATGCATG
1 ATGCATG
73416410 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:73419643 original size:21 final size:21
Alignment explanation
Indices: 73419608--73419650 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
73419598 AATAAAATAT
** *
73419608 ATATTAGCTTTTATTACAAAA
1 ATATTAGCTCATATTAAAAAA
73419629 ATATTAGCTCATATTAAAAAA
1 ATATTAGCTCATATTAAAAAA
73419650 A
1 A
73419651 AAATATAGCA
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:73419933 original size:28 final size:29
Alignment explanation
Indices: 73419871--73419933 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
73419861 CTAACAGCTC
*
73419871 TTTTTTTCTCTCTTGGTTTCGTAAACCAA
1 TTTTTTTCTCTCTTCGTTTCGTAAACCAA
73419900 -TTTTTTCTCTC-TCGTATT-GCTAAA-CAA
1 TTTTTTTCTCTCTTCGT-TTCG-TAAACCAA
73419927 TTTTTTT
1 TTTTTTT
73419934 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:73425184 original size:119 final size:119
Alignment explanation
Indices: 73424840--73425220 Score: 455
Period size: 119 Copynumber: 3.2 Consensus size: 119
73424830 TCTTTGTGGC
* * * * *
73424840 AAACTTTGGATAGGAAAGCCTTTGTGGCAAGTACTGAATTTTAAGGAATGCATTTGTGGCAAAAC
1 AAACTCTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGCAAAAC
* * * **
73424905 TTAGGAAAGGTAAGCCTATGTAGTGAACCTTTGAAAGGAAATGACTCTATGTTA
66 TCAGGAAAGGTAAGCCTATGTGGTGAACCTTTGAAAGGAAATGCCTCTATGAAA
* * * * * * *
73424959 AAACTTTGGACAA-GAAAGCCTTTATGGTGAGTATTGAATGTTAAAGAATGCC--T-TCGAAAAA
1 AAACTCTGGA-AAGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGCAAAA
* *
73425020 CTCAGAAAAGGTAAGCCTATGTGGTGAACCTTTGAAAGGAAATGCCTTTATGAAA
65 CTCAGGAAAGGTAAGCCTATGTGGTGAACCTTTGAAAGGAAATGCCTCTATGAAA
*
73425075 AAACTCTGGAAAGGAAAGCCTTTGTGGCGAGTACTAAATGTTAAGGAATGCCTTTGTGGCAAAAC
1 AAACTCTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGCAAAAC
* * * * * **
73425140 TCAGGAAAGGTAAGCCTATGCGGCGAATCTCTGAAAGGAAATGCCTCTGTGGCA
66 TCAGGAAAGGTAAGCCTATGTGGTGAACCTTTGAAAGGAAATGCCTCTATGAAA
* * *
73425194 AAACTCTAGACACGAAAGCCTTTGTGG
1 AAACTCTGGAAAGGAAAGCCTTTGTGG
73425221 TTATCTCTAA
Statistics
Matches: 220, Mismatches: 37, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
115 2 0.01
116 97 0.44
117 1 0.00
118 1 0.00
119 118 0.54
120 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.26
Consensus pattern (119 bp):
AAACTCTGGAAAGGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGCAAAAC
TCAGGAAAGGTAAGCCTATGTGGTGAACCTTTGAAAGGAAATGCCTCTATGAAA
Found at i:73425219 original size:29 final size:29
Alignment explanation
Indices: 73425053--73425220 Score: 106
Period size: 29 Copynumber: 5.7 Consensus size: 29
73425043 GTGAACCTTT
* ** *
73425053 GAAAGGAAATGCCTTTATGAAAAAACTCTG
1 GAAAGGAAA-GCCTTTGTGGCAAAACTCTA
** **
73425083 GAAAGGAAAGCCTTTGTGGCGAGTACTAAA
1 GAAAGGAAAGCCTTTGTGGC-AAAACTCTA
* *
73425113 TGTTAAGGAATGCCTTTGTGGCAAAACTC-A
1 -G-AAAGGAAAGCCTTTGTGGCAAAACTCTA
* * * * *
73425143 GGAAAGGTAAGCCTATGCGGCGAATCTCT-
1 -GAAAGGAAAGCCTTTGTGGCAAAACTCTA
*
73425172 GAAAGGAAATGCCTCTGTGGCAAAACTCTA
1 GAAAGGAAA-GCCTTTGTGGCAAAACTCTA
* *
73425202 GACACGAAAGCCTTTGTGG
1 GAAAGGAAAGCCTTTGTGG
73425221 TTATCTCTAA
Statistics
Matches: 103, Mismatches: 29, Indels: 13
0.71 0.20 0.09
Matches are distributed among these distances:
28 8 0.08
29 51 0.50
30 22 0.21
31 5 0.05
32 17 0.17
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (29 bp):
GAAAGGAAAGCCTTTGTGGCAAAACTCTA
Found at i:73434027 original size:51 final size:51
Alignment explanation
Indices: 73433967--73434068 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
73433957 TTTGAGTTTG
73433967 ACTCACTCACCAAGTCGTAACC-CCACTATTATACTTTACTCTAAACCACTC
1 ACTCACTCACCAAGTCGTAACCTCCA-TATTATACTTTACTCTAAACCACTC
* *
73434018 ACTCACTCACCAAGTCGTAACCTCGATCTTATACTTTACTCTAAACCACTC
1 ACTCACTCACCAAGTCGTAACCTCCATATTATACTTTACTCTAAACCACTC
73434069 TCCCGTTAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 46 0.96
52 2 0.04
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.28
Consensus pattern (51 bp):
ACTCACTCACCAAGTCGTAACCTCCATATTATACTTTACTCTAAACCACTC
Found at i:73434904 original size:21 final size:22
Alignment explanation
Indices: 73434870--73434916 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
73434860 ATAACCATAA
73434870 AAAACCAACAAACAACTTT-AAC
1 AAAACCAACAAACAA-TTTCAAC
*
73434892 AAAA-CAATAAACAATTTCAAC
1 AAAACCAACAAACAATTTCAAC
73434913 AAAA
1 AAAA
73434917 AAAAAACTCA
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:73436802 original size:124 final size:122
Alignment explanation
Indices: 73436578--73436838 Score: 398
Period size: 124 Copynumber: 2.1 Consensus size: 122
73436568 TTCATTCACC
* *
73436578 CAATATAATCCTATCTCATGTTAACCATTACATCTTTTATGAAAATGTCAATTACTAACAAATAG
1 CAATGTAATCCTATCTCATATTAACCATTACATCTTTTATGAAAATGTCAATTACTAACAAATAG
73436643 TAATTAAATCAATTGTCCTAGACAAATGACCTGTGGTCACGTTAC-TTTTCCATCAA
66 TAATTAAATCAATTGTCCTAGACAAATGACCTGTGGTCACGTTACTTTTTCCATCAA
* *
73436699 CCATGTAATCCTATCTCATATTAACCATTACATCTTCTTTTATGAAAATGTCAATTATTAACAAA
1 CAATGTAATCCTATCTCATATTAACCATTACA---TCTTTTATGAAAATGTCAATTACTAACAAA
* * * * *
73436764 TAGTAATTAAATCATTTGTTCTAGACAAATTACTTGTGGTCACGTTACTTTTTTCATCAA
63 TAGTAATTAAATCAATTGTCCTAGACAAATGACCTGTGGTCACGTTACTTTTTCCATCAA
73436824 CAATGTAATGCCTAT
1 CAATGTAAT-CCTAT
73436839 GAAAGGATAC
Statistics
Matches: 125, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
121 29 0.23
124 73 0.58
125 18 0.14
126 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.38
Consensus pattern (122 bp):
CAATGTAATCCTATCTCATATTAACCATTACATCTTTTATGAAAATGTCAATTACTAACAAATAG
TAATTAAATCAATTGTCCTAGACAAATGACCTGTGGTCACGTTACTTTTTCCATCAA
Found at i:73437720 original size:21 final size:21
Alignment explanation
Indices: 73437696--73437736 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
73437686 GTTATAAAGT
*
73437696 GTCATGTG-TCAAGGTAAAATC
1 GTCATG-GATCAAGCTAAAATC
73437717 GTCATGGATCAAGCTAAAAT
1 GTCATGGATCAAGCTAAAAT
73437737 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:73443186 original size:3 final size:3
Alignment explanation
Indices: 73443178--73443205 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
73443168 CCTCTCCGGT
73443178 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
73443206 CTTTTAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:73446278 original size:20 final size:20
Alignment explanation
Indices: 73446253--73446295 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
73446243 AATTTGAAAT
73446253 AGATGTTCACAAGATTATTA
1 AGATGTTCACAAGATTATTA
73446273 AGATGTTCACAAGATTATTA
1 AGATGTTCACAAGATTATTA
73446293 AGA
1 AGA
73446296 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:73460962 original size:47 final size:46
Alignment explanation
Indices: 73460792--73461106 Score: 168
Period size: 47 Copynumber: 6.7 Consensus size: 46
73460782 ATTGGGTTAT
* * * * *
73460792 GTGAG-AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGA
1 GTGAGTAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACGTAGA
* * * * * *
73460839 GACGAGGA-CTAGTGTAAGACATGCCTGGGACATGCATCAGCCGCATCA
1 G-TGAGTAGCTAGTGTAAGACATGTCTGGGACATGCATC-GACGTA-GA
** * * * *
73460887 -TGA-TAGCCCGTATAAAACCACGTTTGGGACATGGCATCGACGTAGA
1 GTGAGTAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACGTAGA
* *
73460933 GGTGAGTA-CTAGTGTAAGACATGTCTGGGACATGCATC-AGCCTCGA
1 -GTGAGTAGCTAGTGTAAGACATGTCTGGGACATGCATCGA-CGTAGA
*
73460979 -TGATGTTAGCTAGTGTAAGACGTGTCTGGGACATGCATC-A-GCTA-A
1 GTGA-G-TAGCTAGTGTAAGACATGTCTGGGACATGCATCGACG-TAGA
** *
73461024 GTTTCGT-GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATAA
1 G-TGAGTAGCTAGTGTAAGACATGTCTGGGACATGCATC-G-ACGTA-GA
* *
73461073 ATGAG-AGCTAGTGTAAGACCATGTCTAGGACATG
1 GTGAGTAGCTAGTGTAAGA-CATGTCTGGGACATG
73461107 GTATCGGCCT
Statistics
Matches: 204, Mismatches: 39, Indels: 48
0.70 0.13 0.16
Matches are distributed among these distances:
44 33 0.16
45 5 0.02
46 28 0.14
47 77 0.38
48 43 0.21
49 18 0.09
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GTGAGTAGCTAGTGTAAGACATGTCTGGGACATGCATCGACGTAGA
Found at i:73461009 original size:94 final size:94
Alignment explanation
Indices: 73460797--73461112 Score: 291
Period size: 94 Copynumber: 3.4 Consensus size: 94
73460787 GTTATGTGAG
* * * * * *
73460797 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGACTAGTGTAAGACATG
1 AGCCAGTATAAAACCATGTCTGGGACATGGCATCGACGTAGAGATGAGTACTAGTGTAAGACATG
*
73460862 CCTGGGACATGCATCAGCCGCATCATGAT
66 TCTGGGACATGCATCAGCCGCATCATGAT
* * * *
73460891 AGCCCGTATAAAACCACGTTTGGGACATGGCATCGACGTAGAGGTGAGTACTAGTGTAAGACATG
1 AGCCAGTATAAAACCATGTCTGGGACATGGCATCGACGTAGAGATGAGTACTAGTGTAAGACATG
* * *
73460956 TCTGGGACATGCATCAGCCTCGATGATGTT
66 TCTGGGACATGCATCAGCCGC-ATCATGAT
* * * * * ** *
73460986 AGCTAGTGTAAGA-CGTGTCTGGGACAT-GCATC-A-GCTA-AGTTTCGTGCTAGTGTAAGACAT
1 AGCCAGTATAAAACCATGTCTGGGACATGGCATCGACG-TAGAGATGAGTACTAGTGTAAGACAT
* * *
73461046 GTCTGGGACATGCATCAGCACGTATAAATGAG
65 GTCTGGGACATGCATCAGC-CGCAT-CATGAT
* * * * *
73461078 AGCTAGTGTAAGACCATGTCTAGGACATGGTATCG
1 AGCCAGTATAAAACCATGTCTGGGACATGGCATCG
73461113 GCCTCGATGG
Statistics
Matches: 182, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
91 41 0.23
92 20 0.11
93 17 0.09
94 89 0.49
95 15 0.08
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
AGCCAGTATAAAACCATGTCTGGGACATGGCATCGACGTAGAGATGAGTACTAGTGTAAGACATG
TCTGGGACATGCATCAGCCGCATCATGAT
Found at i:73461050 original size:44 final size:45
Alignment explanation
Indices: 73460941--73461106 Score: 167
Period size: 44 Copynumber: 3.6 Consensus size: 45
73460931 GAGGTGAGTA
*
73460941 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGTTAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAG-CTC-AAGATGTTAG
* *
73460988 CTAGTGTAAGACGTGTCTGGGACATGCATCAGCT-AAG-T-TTCGTG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCTCAAGATGTT--AG
* * **
73461032 CTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATAAATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCTC--A-AGATGTTAG
*
73461080 CTAGTGTAAGACCATGTCTAGGACATG
1 CTAGTGTAAGA-CATGTCTGGGACATG
73461107 GTATCGGCCT
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 35 0.35
46 2 0.02
47 32 0.32
48 13 0.13
49 15 0.15
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCTCAAGATGTTAG
Found at i:73464289 original size:18 final size:18
Alignment explanation
Indices: 73464266--73464300 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
73464256 TCCAACATGT
73464266 GTTGCGAATTCTCTGAAG
1 GTTGCGAATTCTCTGAAG
*
73464284 GTTGCGAATTCTTTGAA
1 GTTGCGAATTCTCTGAA
73464301 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:73468822 original size:12 final size:12
Alignment explanation
Indices: 73468805--73468837 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
73468795 AAAAATAAAT
*
73468805 AAAATAGAATTA
1 AAAATAAAATTA
73468817 AAAATAAAATTA
1 AAAATAAAATTA
73468829 AAAATAAAA
1 AAAATAAAA
73468838 GTAGTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
AAAATAAAATTA
Found at i:73471312 original size:110 final size:110
Alignment explanation
Indices: 73471198--73471407 Score: 339
Period size: 110 Copynumber: 1.9 Consensus size: 110
73471188 GTGTGCGTTT
* * *
73471198 CACGGCCGTGTGGATTTATCGTAGGCTGTGTGCATGTCGATTTTTGGGAAATTTTAGCCCTACTT
1 CACGGCCGTGTGGATTTATCGCAGGCTGTATGCATGTCGATTTTTGGGAAATTTCAGCCCTACTT
73471263 CCACACAGCCAAAGACACACCCATGTGTCCAAGCCGTGTGCTTCC
66 CCACACAGCCAAAGACACACCCATGTGTCCAAGCCGTGTGCTTCC
**
73471308 CACGGCCGTGTGGATTTATCGCAGGCTGTATGCATGTCGATTTTTGGGAAATTTCAGCCCTGTTT
1 CACGGCCGTGTGGATTTATCGCAGGCTGTATGCATGTCGATTTTTGGGAAATTTCAGCCCTACTT
* * * *
73471373 CCACACGGCGAAGGACACTCCCATGTGTCCAAGCC
66 CCACACAGCCAAAGACACACCCATGTGTCCAAGCC
73471408 ATATGGGTCA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 91 1.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (110 bp):
CACGGCCGTGTGGATTTATCGCAGGCTGTATGCATGTCGATTTTTGGGAAATTTCAGCCCTACTT
CCACACAGCCAAAGACACACCCATGTGTCCAAGCCGTGTGCTTCC
Found at i:73477716 original size:16 final size:17
Alignment explanation
Indices: 73477692--73477724 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
73477682 ACTTAAGGGA
73477692 CTCAATTAA-TAATTTT
1 CTCAATTAACTAATTTT
*
73477708 CTCATTTAACTAATTTT
1 CTCAATTAACTAATTTT
73477725 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:73479504 original size:13 final size:13
Alignment explanation
Indices: 73479488--73479523 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
73479478 TCGGACTTAT
73479488 AAATATTTATTAA
1 AAATATTTATTAA
73479501 AAATATTTATTAA
1 AAATATTTATTAA
73479514 AAATATTTAT
1 AAATATTTAT
73479524 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:73479843 original size:28 final size:28
Alignment explanation
Indices: 73479812--73479873 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
73479802 AGAAATAAAT
*
73479812 AAAGACAAAAGAAAAA-TGAAACAAAAAG
1 AAAGA-AAAAGAAAAAGAGAAACAAAAAG
* *
73479840 AAAGAAAAAGAAAAAGAGAAAGAGAAAG
1 AAAGAAAAAGAAAAAGAGAAACAAAAAG
73479868 AAAGAA
1 AAAGAA
73479874 GAACCCACGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 10 0.33
28 20 0.67
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.02
Consensus pattern (28 bp):
AAAGAAAAAGAAAAAGAGAAACAAAAAG
Found at i:73479851 original size:6 final size:6
Alignment explanation
Indices: 73479799--73479876 Score: 59
Period size: 6 Copynumber: 12.2 Consensus size: 6
73479789 TTATAGTAAT
* *
73479799 AAAAGA AATAA-A TAAAGA CAAAAGA AAAATGA AACAAAA AGAAAGA AAAAGA
1 AAAAGA AA-AAGA AAAAGA -AAAAGA AAAA-GA AA-AAGA A-AAAGA AAAAGA
* *
73479851 AAAAGA GAAAGA GAAAGA AAGAAGA A
1 AAAAGA AAAAGA AAAAGA AA-AAGA A
73479877 CCCACGACTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
5 2 0.03
6 32 0.54
7 22 0.37
8 3 0.05
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:73480307 original size:19 final size:20
Alignment explanation
Indices: 73480283--73480323 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
73480273 GAATTTAGGC
*
73480283 AAATATTGAATA-AAAATTG
1 AAATATTAAATATAAAATTG
73480302 AAATATTAAATATAAAATTG
1 AAATATTAAATATAAAATTG
73480322 AA
1 AA
73480324 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:73482691 original size:24 final size:25
Alignment explanation
Indices: 73482664--73482729 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
73482654 AGCTCATACG
* *
73482664 AGCCAATAAT-GGGTAGCTCCGAAT
1 AGCCAATAATCAGGAAGCTCCGAAT
* *
73482688 AGCCATTAATCAGGAAGCTCCGGAT
1 AGCCAATAATCAGGAAGCTCCGAAT
73482713 AGCC-ATATATCAGGAAG
1 AGCCAATA-ATCAGGAAG
73482730 TTCAAGTGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 11 0.31
25 24 0.69
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (25 bp):
AGCCAATAATCAGGAAGCTCCGAAT
Found at i:73482714 original size:25 final size:25
Alignment explanation
Indices: 73482678--73482729 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
73482668 AATAATGGGT
73482678 AGCTCCGAATAGCCAT-TAATCAGGA
1 AGCTCCGAATAGCCATAT-ATCAGGA
*
73482703 AGCTCCGGATAGCCATATATCAGGA
1 AGCTCCGAATAGCCATATATCAGGA
73482728 AG
1 AG
73482730 TTCAAGTGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (25 bp):
AGCTCCGAATAGCCATATATCAGGA
Found at i:73482789 original size:24 final size:26
Alignment explanation
Indices: 73482762--73482817 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
73482752 AGCTCTGGAG
*
73482762 AGCCATTAA-CGGGAAGCTCAC-AAA
1 AGCCATTAATCAGGAAGCTCACGAAA
* * *
73482786 AGCCTTTAATTAGGAAGCTCACGAAG
1 AGCCATTAATCAGGAAGCTCACGAAA
73482812 AGCCAT
1 AGCCAT
73482818 ATATTGGGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 8 0.32
25 10 0.40
26 7 0.28
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
AGCCATTAATCAGGAAGCTCACGAAA
Found at i:73482917 original size:24 final size:24
Alignment explanation
Indices: 73482886--73482955 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
73482876 ATCCGGATGC
73482886 TTCG-AAGAGCTATTAACGGGAAG
1 TTCGAAAGAGCTATTAACGGGAAG
* * *
73482909 CTT-GCAAGAACCATATAACGGGAAG
1 -TTCGAAAGAGCTAT-TAACGGGAAG
* *
73482934 TTCGAAAGGGCTAGTAACGGGA
1 TTCGAAAGAGCTATTAACGGGA
73482956 CGCTCTTTCG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
23 1 0.03
24 19 0.53
25 16 0.44
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.19
Consensus pattern (24 bp):
TTCGAAAGAGCTATTAACGGGAAG
Found at i:73485317 original size:16 final size:16
Alignment explanation
Indices: 73485296--73485326 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
73485286 ATCGAGTTGA
73485296 GAAAATTAATTAATTG
1 GAAAATTAATTAATTG
73485312 GAAAATTAATTAATT
1 GAAAATTAATTAATT
73485327 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:73485324 original size:20 final size:18
Alignment explanation
Indices: 73485299--73485340 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
73485289 GAGTTGAGAA
73485299 AATTAATTAATTGGAAAATT
1 AATTAATTAATT--AAAATT
73485319 AATTAATTAATTAAAATT
1 AATTAATTAATTAAAATT
73485337 AATT
1 AATT
73485341 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:73487771 original size:34 final size:34
Alignment explanation
Indices: 73487728--73487796 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
73487718 CAATTCATAC
*
73487728 AGATATGACACTATTTGTTTTATATGCCATGCTA
1 AGATATGACACTATTTGTTTTATATACCATGCTA
73487762 AGATATGACACTATTTGTTTTATATACCATGCTA
1 AGATATGACACTATTTGTTTTATATACCATGCTA
73487796 A
1 A
73487797 CAAATAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (34 bp):
AGATATGACACTATTTGTTTTATATACCATGCTA
Found at i:73495479 original size:5 final size:5
Alignment explanation
Indices: 73495469--73495494 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
73495459 AACAAAAAAT
73495469 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
73495495 TAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:73495678 original size:11 final size:11
Alignment explanation
Indices: 73495661--73495720 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
73495651 AGATTGAACT
73495661 GAGAGAATTGA
1 GAGAGAATTGA
*
73495672 GTA-AGAATTAA
1 G-AGAGAATTGA
*
73495683 TAGAGAATTGA
1 GAGAGAATTGA
*
73495694 GAGAGGATTGA
1 GAGAGAATTGA
73495705 GA-ATGAATTGA
1 GAGA-GAATTGA
73495716 GAGAG
1 GAGAG
73495721 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:73495731 original size:20 final size:21
Alignment explanation
Indices: 73495687--73495735 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
73495677 AATTAATAGA
73495687 GAATTGAGAGAGGATTGAGAAT
1 GAATTGAGAGAGGATTGAG-AT
**
73495709 GAATTGAGAGAGTTTTGAG-T
1 GAATTGAGAGAGGATTGAGAT
73495729 GAATTGA
1 GAATTGA
73495736 AAAAGTGGGA
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:73504935 original size:30 final size:30
Alignment explanation
Indices: 73504871--73504935 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
73504861 GGCCTTTTGG
* * * * *
73504871 ATTTCTTGTTGGTTGGCTGGAGCATTCGAG
1 ATTTCTTGCTAGTTGGCTAGAGCATCCGAA
*
73504901 ATTTCTTGCTAGTTGGCTAGAGTATCCGAA
1 ATTTCTTGCTAGTTGGCTAGAGCATCCGAA
73504931 ATTTC
1 ATTTC
73504936 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:73506629 original size:40 final size:40
Alignment explanation
Indices: 73506566--73506643 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 40
73506556 TGGCCCGTTA
* * *
73506566 CAGATTTAGTTTAGGCCTTGGCCCAT-TCGGATACAATCT
1 CAGATATAATTTAGGCCTTGGCCCATCTCAGATACAATCT
73506605 CAGATATAATTTAGAGCCTTGGCCCATCTCAGATACAAT
1 CAGATATAATTTAG-GCCTTGGCCCATCTCAGATACAAT
73506644 ATGCAATAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 12 0.35
40 12 0.35
41 10 0.29
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (40 bp):
CAGATATAATTTAGGCCTTGGCCCATCTCAGATACAATCT
Found at i:73514579 original size:20 final size:20
Alignment explanation
Indices: 73514551--73514590 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
73514541 TATCAGTTCA
*
73514551 CTTCTCCATCGGTTCTTTCC
1 CTTCCCCATCGGTTCTTTCC
* *
73514571 CTTCCCCATTGGTTTTTTCC
1 CTTCCCCATCGGTTCTTTCC
73514591 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:73517441 original size:29 final size:30
Alignment explanation
Indices: 73517382--73517439 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
73517372 TCCGAGCCTT
*
73517382 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
73517412 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
73517440 AGAGTCGAGG
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:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:73517669 original size:13 final size:13
Alignment explanation
Indices: 73517651--73517682 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
73517641 TTTCCAGCAA
73517651 TTATGAATTTATT
1 TTATGAATTTATT
73517664 TTATGAATTTATT
1 TTATGAATTTATT
*
73517677 TGATGA
1 TTATGA
73517683 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:73517890 original size:50 final size:50
Alignment explanation
Indices: 73517777--73518018 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
73517767 ATTTGGGTAA
* * *
73517777 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
73517833 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
73517883 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
73517933 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
73517983 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
73518019 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:73517966 original size:100 final size:103
Alignment explanation
Indices: 73517777--73518026 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
73517767 ATTTGGGTAA
73517777 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
73517842 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
73517883 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
73517945 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
73517983 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
73518027 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:73521083 original size:30 final size:30
Alignment explanation
Indices: 73521048--73521104 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
73521038 TAGGCACTTT
*
73521048 CACACGGGTAAACCACACGCCCATGTGAGA
1 CACACGGGCAAACCACACGCCCATGTGAGA
***
73521078 CACACGGGCAGGTCACACGCCCATGTG
1 CACACGGGCAAACCACACGCCCATGTG
73521105 GCATGGTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.35, G:0.26, T:0.11
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCATGTGAGA
Found at i:73528218 original size:20 final size:21
Alignment explanation
Indices: 73528180--73528218 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
73528170 ACAAAAATAA
73528180 ATAATAAAATATTTCTTAAAC
1 ATAATAAAATATTTCTTAAAC
*
73528201 ATAATAAATTATTT-TTAA
1 ATAATAAAATATTTCTTAA
73528219 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:73534148 original size:11 final size:11
Alignment explanation
Indices: 73534118--73534147 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
73534108 GAGAGAAGAA
73534118 GAAACAAAATG
1 GAAACAAAATG
73534129 GAAACAAAATG
1 GAAACAAAATG
73534140 GAAA-AAAA
1 GAAACAAAA
73534148 AAAGTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.70, C:0.07, G:0.17, T:0.07
Consensus pattern (11 bp):
GAAACAAAATG
Found at i:73534868 original size:31 final size:31
Alignment explanation
Indices: 73534832--73534989 Score: 132
Period size: 31 Copynumber: 5.2 Consensus size: 31
73534822 GGAATTTTTT
73534832 ATTTGGGTTTAAGATTTGGAGGAGGTTTCCA
1 ATTTGGGTTTAAGATTTGGAGGAGGTTTCCA
*** *
73534863 ATTTGGGAGTTTTTTATTT--AGGA-GTTTTCA
1 ATTT-GG-GTTTAAGATTTGGAGGAGGTTTCCA
*
73534893 ATTTGGGTTTAAGATTTGGAAGAGGTTTCCA
1 ATTTGGGTTTAAGATTTGGAGGAGGTTTCCA
* * * *
73534924 ATTTGGGAGTTCTTA-ATTT--AGGA-ATTTTCG
1 ATTT-GG-GTT-TAAGATTTGGAGGAGGTTTCCA
*
73534954 ATTTGGGTTTAAGATTTGGAAGAGGTTTCCA
1 ATTTGGGTTTAAGATTTGGAGGAGGTTTCCA
73534985 ATTTG
1 ATTTG
73534990 AGAGTTCTTA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
27 2 0.02
28 15 0.16
29 4 0.04
30 24 0.25
31 30 0.31
32 4 0.04
33 15 0.16
34 2 0.02
ACGTcount: A:0.23, C:0.06, G:0.27, T:0.44
Consensus pattern (31 bp):
ATTTGGGTTTAAGATTTGGAGGAGGTTTCCA
Found at i:73535040 original size:60 final size:61
Alignment explanation
Indices: 73534794--73535041 Score: 374
Period size: 61 Copynumber: 4.1 Consensus size: 61
73534784 GTGATTTATG
* ** *
73534794 GGTTTCCAATTTGGGAGTTCTTTATTTAGGAATTTTTTATTTGGGTTTAAGATTTGGAGGA
1 GGTTTCCAATTTGGGAGTTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGATTTGGAAGA
* * * *
73534855 GGTTTCCAATTTGGGAGTTTTTTATTTAGGAGTTTTCAATTTGGGTTTAAGATTTGGAAGA
1 GGTTTCCAATTTGGGAGTTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGATTTGGAAGA
73534916 GGTTTCCAATTTGGGAGTTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGATTTGGAAGA
1 GGTTTCCAATTTGGGAGTTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGATTTGGAAGA
* * *
73534977 GGTTTCCAATTTGAGAGTTCTTAATTTAAG-ATTTTCGATTTGGGTTTAAGATCTT-GAGGA
1 GGTTTCCAATTTGGGAGTTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGAT-TTGGAAGA
73535037 GGTTT
1 GGTTT
73535042 TTCTTTATTT
Statistics
Matches: 174, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
60 31 0.18
61 143 0.82
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (61 bp):
GGTTTCCAATTTGGGAGTTCTTAATTTAGGAATTTTCGATTTGGGTTTAAGATTTGGAAGA
Found at i:73571824 original size:180 final size:180
Alignment explanation
Indices: 73571522--73571879 Score: 698
Period size: 180 Copynumber: 2.0 Consensus size: 180
73571512 CTGGACACAC
73571522 GGGCATGTCCTAAGCCGTGTGAAACCTGGAGCTAATTTTTTTCAAAGTCAGAGAGTTACACAGGT
1 GGGCATGTCCTAAGCCGTGTGAAACCTGGAGCTAATTTTTTTCAAAGTCAGAGAGTTACACAGGT
*
73571587 AAGGCATACAGCCGTGTGACCCACACGGCCTGGCCATACAGGCATGTGGGATCTCACATGGGCGT
66 AAGGCATACAGCCATGTGACCCACACGGCCTGGCCATACAGGCATGTGGGATCTCACATGGGCGT
73571652 GAGAGAAGCGAAGGAAAACACACATGGTCTGGCACATGGCCGTGTGACAG
131 GAGAGAAGCGAAGGAAAACACACATGGTCTGGCACATGGCCGTGTGACAG
73571702 GGGCATGTCCTAAGCCGTGTGAAACCTGGAGCTAATTTTTTTCAAAGTCAGAGAGTTACACAGGT
1 GGGCATGTCCTAAGCCGTGTGAAACCTGGAGCTAATTTTTTTCAAAGTCAGAGAGTTACACAGGT
*
73571767 AAGGCATACAGCCATGTGACCCACACGGCCTGGCCATACGGGCATGTGGGATCTCACATGGGCGT
66 AAGGCATACAGCCATGTGACCCACACGGCCTGGCCATACAGGCATGTGGGATCTCACATGGGCGT
73571832 GAGAGAAGCGAAGGAAAACACACATGGTCTGGCACATGGCCGTGTGAC
131 GAGAGAAGCGAAGGAAAACACACATGGTCTGGCACATGGCCGTGTGAC
73571880 CCATACGGCC
Statistics
Matches: 176, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
180 176 1.00
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.20
Consensus pattern (180 bp):
GGGCATGTCCTAAGCCGTGTGAAACCTGGAGCTAATTTTTTTCAAAGTCAGAGAGTTACACAGGT
AAGGCATACAGCCATGTGACCCACACGGCCTGGCCATACAGGCATGTGGGATCTCACATGGGCGT
GAGAGAAGCGAAGGAAAACACACATGGTCTGGCACATGGCCGTGTGACAG
Found at i:73572000 original size:19 final size:19
Alignment explanation
Indices: 73571974--73572010 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
73571964 TTAATTGTTA
73571974 TACTATTTATTT-TTATTT
1 TACTATTTATTTATTATTT
73571992 TACTGATTTATTTATTATT
1 TACT-ATTTATTTATTATT
73572011 CTTATACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (19 bp):
TACTATTTATTTATTATTT
Found at i:73572001 original size:41 final size:41
Alignment explanation
Indices: 73571942--73572033 Score: 107
Period size: 41 Copynumber: 2.2 Consensus size: 41
73571932 ATCACCCCAA
* * * *
73571942 TTTTATTTTATTTTATTTA-TTATTAATTGTTATACTATTTAT
1 TTTTATTTTATCTGATTTATTTATT-ATTCTTATACT-TATAT
73571984 TTTTATTTTA-CTGATTTATTTATTATTCTTATACTTATAT
1 TTTTATTTTATCTGATTTATTTATTATTCTTATACTTATAT
73572024 TTTTAATTTT
1 TTTT-ATTTT
73572034 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:0.25, C:0.04, G:0.02, T:0.68
Consensus pattern (41 bp):
TTTTATTTTATCTGATTTATTTATTATTCTTATACTTATAT
Found at i:73572018 original size:23 final size:21
Alignment explanation
Indices: 73571944--73572018 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
73571934 CACCCCAATT
**
73571944 TTATTTTATTTTATTTA-TTA
1 TTATTTTATACTATTTATTTA
73571964 TTAATTGTTATACTATTTATTT-
1 TT-ATT-TTATACTATTTATTTA
73571986 TTA-TTT-TACTGATTTATTTA
1 TTATTTTATACT-ATTTATTTA
73572006 TTATTCTTATACT
1 TTATT-TTATACT
73572019 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:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (21 bp):
TTATTTTATACTATTTATTTA
Found at i:73572038 original size:17 final size:16
Alignment explanation
Indices: 73572018--73572089 Score: 71
Period size: 15 Copynumber: 4.6 Consensus size: 16
73572008 ATTCTTATAC
73572018 TTATATTTTTAATTTTT
1 TTATATTTTT-ATTTTT
**
73572035 TTATATTTTTATAATT
1 TTATATTTTTATTTTT
73572051 TT-TATTTTTATTTTT
1 TTATATTTTTATTTTT
*
73572066 CTAT-TTCTTT-TTTTT
1 TTATATT-TTTATTTTT
73572081 TT-TATTTTT
1 TTATATTTTT
73572090 CGTTTTTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
14 4 0.09
15 22 0.48
16 10 0.22
17 10 0.22
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATATTTTTATTTTT
Found at i:73572043 original size:8 final size:8
Alignment explanation
Indices: 73572018--73572065 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
73572008 ATTCTTATAC
73572018 TTATATTT
1 TTATATTT
*
73572026 TTAATTTTT
1 TT-ATATTT
73572035 TTATATTT
1 TTATATTT
*
73572043 TTATAATT
1 TTATATTT
73572051 TT-TATTT
1 TTATATTT
73572058 TTAT-TTT
1 TTATATTT
73572065 T
1 T
73572066 CTATTTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
7 10 0.29
8 17 0.50
9 7 0.21
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATATTT
Found at i:73572064 original size:5 final size:6
Alignment explanation
Indices: 73571979--73572102 Score: 56
Period size: 6 Copynumber: 19.7 Consensus size: 6
73571969 TGTTATACTA
* * * *
73571979 TTTATT TTTA-T TTTACTGA TTTATT TATTATT CTTATACT TATATT TTTAAT
1 TTTATT TTTATT TTTA-T-T TTTATT T-TTATT -TT-TATT TTTATT TTTATT
* * * * *
73572031 TTT-TT TATATTT TTATAATT TTTATT TTTATT TTTCTA TTTCTT TTTTTT
1 TTTATT TTTA-TT TT-T-ATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
73572081 TTTATT TTTCGTT TTT-TT TTTA
1 TTTATT TTT-ATT TTTATT TTTA
73572103 CTATTATCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 24
0.69 0.12 0.18
Matches are distributed among these distances:
5 13 0.14
6 46 0.51
7 17 0.19
8 13 0.14
9 1 0.01
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:73572070 original size:8 final size:7
Alignment explanation
Indices: 73572021--73572089 Score: 50
Period size: 8 Copynumber: 9.0 Consensus size: 7
73572011 CTTATACTTA
73572021 TATTTTT
1 TATTTTT
*
73572028 AATTTTTT
1 TA-TTTTT
73572036 TATATTTT
1 TAT-TTTT
73572044 TATAATTTT
1 TAT--TTTT
73572053 TA-TTTT
1 TATTTTT
73572059 TATTTTT
1 TATTTTT
73572066 CTATTTCTTT
1 -TA-TT-TTT
*
73572076 TTTTTTT
1 TATTTTT
73572083 TATTTTT
1 TATTTTT
73572090 CGTTTTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
6 6 0.12
7 15 0.29
8 17 0.33
9 10 0.20
10 3 0.06
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (7 bp):
TATTTTT
Found at i:73572107 original size:21 final size:18
Alignment explanation
Indices: 73572048--73572102 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
73572038 TATTTTTATA
* *
73572048 ATTTTTATTTTTATTTTT
1 ATTTTTCTTTTTTTTTTT
* *
73572066 CTATTTCTTTTTTTTTTT
1 ATTTTTCTTTTTTTTTTT
*
73572084 ATTTTTCGTTTTTTTTTT
1 ATTTTTCTTTTTTTTTTT
73572102 A
1 A
73572103 CTATTATCAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.11, C:0.05, G:0.02, T:0.82
Consensus pattern (18 bp):
ATTTTTCTTTTTTTTTTT
Found at i:73574415 original size:24 final size:24
Alignment explanation
Indices: 73574380--73574427 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
73574370 TCATGGATTA
73574380 TCATGCAATGAATGTCTAAATTGT
1 TCATGCAATGAATGTCTAAATTGT
*
73574404 TCATGCAGTGAATGTCTAAATTGT
1 TCATGCAATGAATGTCTAAATTGT
73574428 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:73578286 original size:43 final size:42
Alignment explanation
Indices: 73578238--73578403 Score: 165
Period size: 43 Copynumber: 3.9 Consensus size: 42
73578228 ATCGAAATGT
*
73578238 GATTACATGTAAGACCATGTCTGGGACATTGGTATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATT-A
* * * * *
73578281 GATTACGTGTAAGACCATGTCTGGGACATTGACATCTTTAATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTA
* * * * *
73578324 GTTTTCGTGTAAGACCCTGTCTGGGACATTGGCATCG-ATATA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TA
* *
73578366 TGATTACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
73578404 TTGAGAATAT
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 85 0.87
44 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
Found at i:73589996 original size:43 final size:42
Alignment explanation
Indices: 73589940--73590060 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 42
73589930 CATCAAAATG
*
73589940 TGATTACATGTAAGACCATGTCTGGGACATTGGCATC-AT-TAA
1 TGATTACATGTAAGACCATATCTGGGACA-TGGCATCGATAT-A
* * * * *
73589982 TCGATTTCGTGTAAGACCCTTTATGGGACAGTGGCATCGATATA
1 T-GATTACATGTAAGACCATATCTGGGACA-TGGCATCGATATA
*
73590026 TGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGATTACATGTAAGACCATATCTGGGACATGGCAT
73590061 TGTTTGAACT
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 7 0.11
43 52 0.81
44 4 0.06
45 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
TGATTACATGTAAGACCATATCTGGGACATGGCATCGATATA
Found at i:73593860 original size:21 final size:21
Alignment explanation
Indices: 73593821--73593860 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
73593811 ATTTTTTAAA
*
73593821 AAATAATTTCTTATCATTTCT
1 AAATAATTTCTTATAATTTCT
73593842 AAATAATTT-TCTATAATTT
1 AAATAATTTCT-TATAATTT
73593861 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:73596672 original size:11 final size:11
Alignment explanation
Indices: 73596656--73596680 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
73596646 TCAAGTATTC
73596656 TTTTTTCTTTT
1 TTTTTTCTTTT
73596667 TTTTTTCTTTT
1 TTTTTTCTTTT
73596678 TTT
1 TTT
73596681 GTCATTAGTA
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:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:73597737 original size:13 final size:14
Alignment explanation
Indices: 73597719--73597750 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
73597709 AAAAAAAATG
73597719 AAAATTTTCATT-A
1 AAAATTTTCATTGA
73597732 AAAA-TTTCATTGA
1 AAAATTTTCATTGA
73597745 AAAATT
1 AAAATT
73597751 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:73597739 original size:12 final size:13
Alignment explanation
Indices: 73597717--73597750 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
73597707 TTAAAAAAAA
*
73597717 TGAAAATTTTCAT
1 TGAAAAATTTCAT
73597730 T-AAAAATTTCAT
1 TGAAAAATTTCAT
73597742 TGAAAAATT
1 TGAAAAATT
73597751 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:73599400 original size:2 final size:2
Alignment explanation
Indices: 73599395--73599452 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
73599385 AATATATATA
*
73599395 TG TG TG TG TG TG TG TG TG TG TG TG TG TG CG 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
*
73599437 CG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG
73599453 ACATTGAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:73605749 original size:14 final size:14
Alignment explanation
Indices: 73605730--73605756 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
73605720 CTATATAGTA
73605730 ATTAATTTCAAACT
1 ATTAATTTCAAACT
73605744 ATTAATTTCAAAC
1 ATTAATTTCAAAC
73605757 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:73607755 original size:19 final size:19
Alignment explanation
Indices: 73607710--73607762 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
73607700 TAAAAAGTTT
*
73607710 AAAAATATATATAATCTAGA
1 AAAAATATATA-AATATAGA
73607730 AATAAATATATAAATGATA-A
1 AA-AAATATATAAAT-ATAGA
*
73607750 AAAAATTTATAAA
1 AAAAATATATAAA
73607763 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:73607783 original size:14 final size:14
Alignment explanation
Indices: 73607748--73607784 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
73607738 TATAAATGAT
*
73607748 AAAAAAATTTATAA
1 AAAAAAATTTACAA
73607762 AAATAAAATTTACAA
1 AAA-AAAATTTACAA
73607777 AAAAAAAT
1 AAAAAAAT
73607785 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:73609569 original size:7 final size:8
Alignment explanation
Indices: 73609554--73609590 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
73609544 TATATATATA
73609554 TATATTTT
1 TATATTTT
73609562 TA-ATTTT
1 TATATTTT
73609569 TATATTTT
1 TATATTTT
73609577 TATATTTTT
1 TATA-TTTT
73609586 TATAT
1 TATAT
73609591 AAACAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.26
8 12 0.44
9 8 0.30
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TATATTTT
Found at i:73609572 original size:23 final size:23
Alignment explanation
Indices: 73609541--73609585 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
73609531 TGTACTTGAC
73609541 ATTTATATATATATATATTTTTA
1 ATTTATATATATATATATTTTTA
* * *
73609564 ATTTTTATATTTTTATATTTTT
1 ATTTATATATATATATATTTTT
73609586 TATATAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
ATTTATATATATATATATTTTTA
Found at i:73609574 original size:15 final size:17
Alignment explanation
Indices: 73609554--73609590 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
73609544 TATATATATA
73609554 TATATTTTTA-A-TTTT
1 TATATTTTTATATTTTT
73609569 TATATTTTTATATTTTT
1 TATATTTTTATATTTTT
73609586 TATAT
1 TATAT
73609591 AAACAAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.50
16 1 0.05
17 9 0.45
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TATATTTTTATATTTTT
Found at i:73618761 original size:18 final size:19
Alignment explanation
Indices: 73618740--73618785 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
73618730 CACATTCTAT
73618740 TTTCAATTCACT-ATATCA
1 TTTCAATTCACTCATATCA
* *
73618758 TTTCCATT-TCTCATATCA
1 TTTCAATTCACTCATATCA
*
73618776 TTTCATTTCA
1 TTTCAATTCA
73618786 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:73619974 original size:18 final size:18
Alignment explanation
Indices: 73619951--73619986 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
73619941 TATATATATT
73619951 TTACTTATACAATAAGAA
1 TTACTTATACAATAAGAA
73619969 TTACTTATACAATAAGAA
1 TTACTTATACAATAAGAA
73619987 ATACATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
TTACTTATACAATAAGAA
Found at i:73620109 original size:5 final size:5
Alignment explanation
Indices: 73620096--73620141 Score: 74
Period size: 5 Copynumber: 9.0 Consensus size: 5
73620086 TTTTATACTT
*
73620096 TAATCA TAATA TAATA TAATA TAATA TAATA TAACA TAATA TAATA
1 TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
73620142 ATATTTTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 34 0.89
6 4 0.11
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (5 bp):
TAATA
Found at i:73626820 original size:15 final size:15
Alignment explanation
Indices: 73626786--73626819 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
73626776 AAGTTTAAAC
73626786 AAAAATATAGGTTCG
1 AAAAATATAGGTTCG
*
73626801 AAAAATA-AGTTTCG
1 AAAAATATAGGTTCG
73626815 AAAAA
1 AAAAA
73626820 AATAAAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.24
Consensus pattern (15 bp):
AAAAATATAGGTTCG
Found at i:73627434 original size:17 final size:17
Alignment explanation
Indices: 73627386--73627441 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
73627376 TTAATTTTTA
* *
73627386 TTATTTTTATGAACTTT
1 TTATTTTTATTAAATTT
73627403 TTATATTATCT-TTAAATTT
1 TTAT-TT-T-TATTAAATTT
73627422 TTATTTTTATTAAATATT
1 TTATTTTTATTAAAT-TT
73627440 TT
1 TT
73627442 CAAAATCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 1 0.03
17 11 0.34
18 8 0.25
19 11 0.34
20 1 0.03
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (17 bp):
TTATTTTTATTAAATTT
Found at i:73628568 original size:31 final size:31
Alignment explanation
Indices: 73628530--73628594 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
73628520 AAAACATCTT
73628530 AGTGACTTAAATAAAAACTTTCAAATAATTC
1 AGTGACTTAAATAAAAACTTTCAAATAATTC
* * *
73628561 AGTGACTTAAATGAAAACTTTTAAATAGTTC
1 AGTGACTTAAATAAAAACTTTCAAATAATTC
73628592 AGT
1 AGT
73628595 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:73630968 original size:54 final size:54
Alignment explanation
Indices: 73630898--73631010 Score: 217
Period size: 54 Copynumber: 2.1 Consensus size: 54
73630888 GAGAATTGCC
*
73630898 AAAGTTAAGGGAGCAATTTGCAATTCTTAAAATATGTGGTGAATGTTTGAAGGG
1 AAAGCTAAGGGAGCAATTTGCAATTCTTAAAATATGTGGTGAATGTTTGAAGGG
73630952 AAAGCTAAGGGAGCAATTTGCAATTCTTAAAATATGTGGTGAATGTTTGAAGGG
1 AAAGCTAAGGGAGCAATTTGCAATTCTTAAAATATGTGGTGAATGTTTGAAGGG
73631006 AAAGC
1 AAAGC
73631011 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:73636639 original size:21 final size:22
Alignment explanation
Indices: 73636613--73636659 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
73636603 CTCTGCTCAA
*
73636613 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
73636634 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
73636656 ACTC
1 ACTC
73636660 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:73640471 original size:17 final size:17
Alignment explanation
Indices: 73640440--73640473 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
73640430 ATTTTGCTTT
73640440 AAGAACTTTGGCAACTA
1 AAGAACTTTGGCAACTA
73640457 AAGAA-TTTGGACAACTA
1 AAGAACTTTGG-CAACTA
73640474 GCGTCATCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.24
Consensus pattern (17 bp):
AAGAACTTTGGCAACTA
Found at i:73643319 original size:24 final size:24
Alignment explanation
Indices: 73643286--73643331 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
73643276 ACGTAGCCAA
*
73643286 ATACTGTTTATAGTTAAGGCTCAG
1 ATACTATTTATAGTTAAGGCTCAG
73643310 ATACTATTTATAGTTAAGGCTC
1 ATACTATTTATAGTTAAGGCTC
73643332 TTCGGGATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (24 bp):
ATACTATTTATAGTTAAGGCTCAG
Found at i:73649422 original size:37 final size:37
Alignment explanation
Indices: 73649372--73649446 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
73649362 TCAGAAGATA
*
73649372 TGTAATTTGCCTTTATAGGAAAATATGCCAACTATCT
1 TGTAATTTGCCTTTACAGGAAAATATGCCAACTATCT
73649409 TGTAATTTGCCTTTACAGGAAAATATGCCAACTATCT
1 TGTAATTTGCCTTTACAGGAAAATATGCCAACTATCT
73649446 T
1 T
73649447 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:73655771 original size:42 final size:42
Alignment explanation
Indices: 73655712--73655939 Score: 235
Period size: 42 Copynumber: 5.1 Consensus size: 42
73655702 GGATTACTGG
* *
73655712 GATATGAGATTCATGTAAGACCATCTCTGGAACATTGGCATC
1 GATATGAGATTCGTGTAAGACCATGTCTGGAACATTGGCATC
* *
73655754 GATATGAGATTCGTGTAAGATCATGTATGGGACATTGGCATGGGATATTGGCATC
1 GATATGAGATTCGTGTAAGACCATGTCT-GGA-A----C-----AT--TGGCATC
*
73655809 GATATGAGATTCGTGTAAGACCATGTCTGGGACATTGGCATC
1 GATATGAGATTCGTGTAAGACCATGTCTGGAACATTGGCATC
* *
73655851 GATATGAGATTCGTGTAAGACCATGTCTGGGATATTGGCATC
1 GATATGAGATTCGTGTAAGACCATGTCTGGAACATTGGCATC
*
73655893 GATATGAGATTCGTGTAAGACCATAG-CTGG-GCTATTGGCATC
1 GATATGAGATTCGTGTAAGACCAT-GTCTGGAAC-ATTGGCATC
73655935 GATAT
1 GATAT
73655940 ACTATAAAAT
Statistics
Matches: 161, Mismatches: 10, Indels: 30
0.80 0.05 0.15
Matches are distributed among these distances:
42 114 0.71
43 4 0.02
44 3 0.02
48 1 0.01
49 1 0.01
53 3 0.02
54 2 0.01
55 33 0.20
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (42 bp):
GATATGAGATTCGTGTAAGACCATGTCTGGAACATTGGCATC
Found at i:73655809 original size:55 final size:55
Alignment explanation
Indices: 73655745--73655849 Score: 192
Period size: 55 Copynumber: 1.9 Consensus size: 55
73655735 TCTCTGGAAC
*
73655745 ATTGGCATCGATATGAGATTCGTGTAAGATCATGTATGGGACATTGGCATGGGAT
1 ATTGGCATCGATATGAGATTCGTGTAAGACCATGTATGGGACATTGGCATGGGAT
*
73655800 ATTGGCATCGATATGAGATTCGTGTAAGACCATGTCTGGGACATTGGCAT
1 ATTGGCATCGATATGAGATTCGTGTAAGACCATGTATGGGACATTGGCAT
73655850 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:0.13, G:0.30, T:0.30
Consensus pattern (55 bp):
ATTGGCATCGATATGAGATTCGTGTAAGACCATGTATGGGACATTGGCATGGGAT
Found at i:73655882 original size:97 final size:97
Alignment explanation
Indices: 73655712--73655891 Score: 306
Period size: 97 Copynumber: 1.9 Consensus size: 97
73655702 GGATTACTGG
*
73655712 GATATGAGATTCATGTAAGACCATCTCTGGAACATTGGCATCGATATGAGATTCGTGTAAGATCA
1 GATATGAGATTCATGTAAGACCATCTCTGGAACATTGGCATCGATATGAGATTCGTGTAAGACCA
73655777 TGTATGGGACATTGGCATGGGATATTGGCATC
66 TGTATGGGACATTGGCATGGGATATTGGCATC
* * *
73655809 GATATGAGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCGTGTAAGACCA
1 GATATGAGATTCATGTAAGACCATCTCTGGAACATTGGCATCGATATGAGATTCGTGTAAGACCA
* *
73655874 TGTCTGGGATATTGGCAT
66 TGTATGGGACATTGGCAT
73655892 CGATATGAGA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 77 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (97 bp):
GATATGAGATTCATGTAAGACCATCTCTGGAACATTGGCATCGATATGAGATTCGTGTAAGACCA
TGTATGGGACATTGGCATGGGATATTGGCATC
Found at i:73655974 original size:84 final size:84
Alignment explanation
Indices: 73655794--73655983 Score: 237
Period size: 84 Copynumber: 2.3 Consensus size: 84
73655784 GACATTGGCA
73655794 TGGGATATTGGCATCGATATGAGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAG
1 TGGGATATTGGCATCGATATGAGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAG
*** *
73655859 ATTCGTGTAAGACCATGTC
66 ATAAATGTAAGACCATATC
73655878 TGGGATATTGGCATCGATATGAGATTCGTGTAAGACCATAG-CTGGG-CTATTGGCATCGATAT-
1 TGGGATATTGGCATCGATATGAGATTCGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATATG
* * *
73655940 ACTATAAAATGTGAGACCATATT
64 A-GAT-AAATGTAAGACCATATC
*
73655963 TGGGATA-TGGCAT-GGTATGAG
1 TGGGATATTGGCATCGATATGAG
73655984 TTATACGAGA
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
83 9 0.10
84 66 0.70
85 19 0.20
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (84 bp):
TGGGATATTGGCATCGATATGAGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAG
ATAAATGTAAGACCATATC
Found at i:73658046 original size:91 final size:90
Alignment explanation
Indices: 73657784--73658048 Score: 230
Period size: 91 Copynumber: 2.9 Consensus size: 90
73657774 TGAAATGTGC
* * * * * * ** *
73657784 TACTTAAATGTGATTTAAATGATGTTCGAAAGTGGTCAGATAATAACTTTAATT-CTTGAAAGTT
1 TACTTAAATGTGATTTAAATGATGTTCAAAAGTTGTTAAATGACAGTTTTAATTGC-TGAAAATT
*
73657848 ATGGTATCTAATTGTATGCTTTAATGA
65 ATGGTATCTAATTGTATG-TGTAATGA
* * * * * * * *
73657875 TACTCAAAGGTGATTTAAATGATG-TCTAAAAGATATTAATATG-CGGTTTTAATAGTTGGAAAT
1 TACTTAAATGTGATTTAAATGATGTTC-AAAAGTTGTTAA-ATGACAGTTTTAATTGCTGAAAAT
* * *
73657938 TATGTTGTCTAAATGTATGTGTAGATGA
64 TATGGTATCTAATTGTATGTGTA-ATGA
* * *
73657966 TGCTTAAATGTGATTTAAATGATGTTCAAAAGTTGTTAAATGACCGTTTTAATTGCTGAAAATTT
1 TACTTAAATGTGATTTAAATGATGTTCAAAAGTTGTTAAATGACAGTTTTAATTGCTGAAAATTA
* *
73658031 TGGTATTTGATTGTATGT
66 TGGTATCTAATTGTATGT
73658049 TTTGACGAGG
Statistics
Matches: 132, Mismatches: 36, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
90 8 0.06
91 120 0.91
92 4 0.03
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.41
Consensus pattern (90 bp):
TACTTAAATGTGATTTAAATGATGTTCAAAAGTTGTTAAATGACAGTTTTAATTGCTGAAAATTA
TGGTATCTAATTGTATGTGTAATGA
Found at i:73665097 original size:22 final size:21
Alignment explanation
Indices: 73665049--73665090 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
73665039 TTATTTATTT
*
73665049 TATTTTATTTTACCATTTTAC
1 TATTATATTTTACCATTTTAC
*
73665070 TATTATATTATTACTATTTTA
1 TATTATATT-TTACCATTTTA
73665091 TTTTTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATATTTTACCATTTTAC
Found at i:73665101 original size:14 final size:14
Alignment explanation
Indices: 73665064--73665102 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
73665054 TATTTTACCA
*
73665064 TTTTACTATTATAT
1 TTTTACTATTTTAT
*
73665078 TATTACTATTTTAT
1 TTTTACTATTTTAT
*
73665092 TTTTATTATTT
1 TTTTACTATTT
73665103 GGATATTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTACTATTTTAT
Found at i:73673751 original size:12 final size:12
Alignment explanation
Indices: 73673723--73673761 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
73673713 TTTATAGATC
73673723 TTATATATATTATT
1 TTATATAT-TTA-T
*
73673737 TTATTTATTTAT
1 TTATATATTTAT
73673749 TTATATATTTAT
1 TTATATATTTAT
73673761 T
1 T
73673762 ATCTTTTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 13 0.57
13 3 0.13
14 7 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATATATTTAT
Found at i:73674019 original size:14 final size:15
Alignment explanation
Indices: 73673990--73674022 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
73673980 TTTTTACTAC
*
73673990 ATTTTTATTTCTTTT
1 ATTTTTATTACTTTT
73674005 ATTTTTATTAC-TTT
1 ATTTTTATTACTTTT
73674019 ATTT
1 ATTT
73674023 ATTTTGTTAC
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:73677774 original size:32 final size:31
Alignment explanation
Indices: 73677728--73677791 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 31
73677718 CAAAATAGTG
73677728 AAAAGAACAACAAGAAAATAGTAACAAAACAAT
1 AAAAGAACAACAAGAAAATAGTAA-AAAA-AAT
*
73677761 AAAA-AACAGCAAGAAAATAGTAAAAAAAAT
1 AAAAGAACAACAAGAAAATAGTAAAAAAAAT
73677791 A
1 A
73677792 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:73678348 original size:3 final size:3
Alignment explanation
Indices: 73678288--73678328 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
73678278 TGGCAATCTT
73678288 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
73678329 GAAAGCACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:73678454 original size:27 final size:27
Alignment explanation
Indices: 73678423--73678480 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
73678413 ATTAATTATT
73678423 TATTAGTTA-AAAAATTATCATTTTGTA
1 TATTA-TTATAAAAATTATCATTTTGTA
* ** *
73678450 TATTATTATTATTATTATCATTTTTTA
1 TATTATTATAAAAATTATCATTTTGTA
73678477 TATT
1 TATT
73678481 TTAATAGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (27 bp):
TATTATTATAAAAATTATCATTTTGTA
Found at i:73686817 original size:46 final size:46
Alignment explanation
Indices: 73686753--73687021 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
73686743 TTTGAGTACT
* *
73686753 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
73686799 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
73686845 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
73686897 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
73686949 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
73686995 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
73687022 GCTACACTTA
Statistics
Matches: 207, Mismatches: 10, Indels: 12
0.90 0.04 0.05
Matches are distributed among these distances:
46 113 0.55
52 94 0.45
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:73686872 original size:98 final size:92
Alignment explanation
Indices: 73686753--73687058 Score: 351
Period size: 98 Copynumber: 3.3 Consensus size: 92
73686743 TTTGAGTACT
* * *
73686753 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
73686818 GATAAGTGATAGCTTCAGCTACACTTA
66 GATAAGTGATAGCTTCAGCTACACTTA
*
73686845 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGAGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
73686910 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 C------AAAGTGATAAGTGATAGCTTCAGCTACACTTA
** *
73686949 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
73687014 GATAA--G-T-G-----GCTACACTTA
66 GATAAGTGATAGCTTCAGCTACACTTA
*
73687032 TCTGATCAAGAAACAAAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
73687059 GCTACACTTA
Statistics
Matches: 192, Mismatches: 10, Indels: 33
0.82 0.04 0.14
Matches are distributed among these distances:
83 35 0.18
88 1 0.01
89 1 0.01
90 1 0.01
92 23 0.12
98 88 0.46
104 43 0.22
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (92 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGATAGCTTCAGCTACACTTA
Found at i:73686878 original size:52 final size:51
Alignment explanation
Indices: 73686813--73687021 Score: 293
Period size: 52 Copynumber: 4.1 Consensus size: 51
73686803 ATCAAGTGAC
*
73686813 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
73686865 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
73686916 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
73686963 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTG
73687015 ATAAGTG
1 A-AAGTG
73687022 GCTACACTTA
Statistics
Matches: 143, Mismatches: 6, Indels: 15
0.87 0.04 0.09
Matches are distributed among these distances:
46 43 0.30
51 1 0.01
52 94 0.66
53 5 0.03
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:73687029 original size:37 final size:37
Alignment explanation
Indices: 73686985--73687130 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
73686975 GATAGCTTTA
*
73686985 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
73687022 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
73687059 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
73687096 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
73687131 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:73689032 original size:25 final size:27
Alignment explanation
Indices: 73688995--73689047 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
73688985 TCAAACATGC
73688995 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
73689021 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
73689047 A
1 A
73689048 AAACTATAAA
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:73690563 original size:26 final size:26
Alignment explanation
Indices: 73690527--73690584 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
73690517 CATGAAATTC
73690527 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
73690553 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
73690579 TTATCA
1 TTATCA
73690585 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:73696327 original size:26 final size:26
Alignment explanation
Indices: 73696291--73696374 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
73696281 CATGAAATTC
73696291 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
73696317 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
73696343 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
73696369 TTATCA
1 TTATCA
73696375 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:73697614 original size:46 final size:46
Alignment explanation
Indices: 73697552--73697734 Score: 278
Period size: 46 Copynumber: 4.0 Consensus size: 46
73697542 TTTGACATGA
* * * * * *
73697552 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
73697598 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
73697644 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
73697690 TGCCATGGTATCTTTCCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTT-CAACCATGGTCTTACACATTTCATATCAG
73697735 AGAGCACACT
Statistics
Matches: 127, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
45 4 0.03
46 94 0.74
47 29 0.23
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:73700226 original size:30 final size:30
Alignment explanation
Indices: 73700159--73700226 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
73700149 CACCCTTAAA
* * *
73700159 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
73700189 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
73700218 AGTATTTAC
1 A-TATTTAC
73700227 TCTTGGACCA
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:73704192 original size:15 final size:15
Alignment explanation
Indices: 73704172--73704200 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
73704162 ACTAGATTAC
73704172 ACATAAATAAATAGA
1 ACATAAATAAATAGA
73704187 ACATAAATAAATAG
1 ACATAAATAAATAG
73704201 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:73704310 original size:15 final size:15
Alignment explanation
Indices: 73704290--73704319 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
73704280 GAACTCTCTT
73704290 CCATTTTCGTCTTAA
1 CCATTTTCGTCTTAA
73704305 CCATTTTCGTCTTAA
1 CCATTTTCGTCTTAA
73704320 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:73711321 original size:15 final size:15
Alignment explanation
Indices: 73711290--73711335 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
73711280 TTGGAGAAGT
73711290 TGAAAAAAAATGAAAA
1 TGAAAAAAAAT-AAAA
*
73711306 AGAAAAATAAATAAAA
1 TGAAAAA-AAATAAAA
*
73711322 TGAAATAAAATAAA
1 TGAAAAAAAATAAA
73711336 CTGATGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 7 0.27
16 15 0.58
17 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (15 bp):
TGAAAAAAAATAAAA
Found at i:73712017 original size:25 final size:26
Alignment explanation
Indices: 73711971--73712025 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
73711961 AGAGGTGGGG
* * *
73711971 TTATTTTATTTTAATAAAAAATATTT
1 TTATTTAATATTAATAAAAAATATTA
*
73711997 TTATTTAATATTAAT-ATAAATATTA
1 TTATTTAATATTAATAAAAAATATTA
73712022 TTAT
1 TTAT
73712026 AAAATTTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TTATTTAATATTAATAAAAAATATTA
Done.