Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 107 of 141
Found at i:30617281 original size:19 final size:20
Alignment explanation
Indices: 30617250--30617287 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
30617240 CATATAAAAG
30617250 AATGTGAATAAATA-AATAT
1 AATGTGAATAAATAGAATAT
30617269 AATGTG-ATAAAATAGAATA
1 AATGTGAAT-AAATAGAATA
30617288 GATGTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 11 0.65
20 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (20 bp):
AATGTGAATAAATAGAATAT
Found at i:30618460 original size:17 final size:19
Alignment explanation
Indices: 30618438--30618474 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
30618428 TTGTTATAAA
30618438 TTTTTTTTGT-TTT-GGTT
1 TTTTTTTTGTCTTTAGGTT
30618455 TTTTTTTTGTCTTTAGGTT
1 TTTTTTTTGTCTTTAGGTT
30618474 T
1 T
30618475 CTGTTTGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 3 0.17
19 5 0.28
ACGTcount: A:0.03, C:0.03, G:0.16, T:0.78
Consensus pattern (19 bp):
TTTTTTTTGTCTTTAGGTT
Found at i:30618716 original size:44 final size:44
Alignment explanation
Indices: 30618679--30619320 Score: 498
Period size: 44 Copynumber: 14.5 Consensus size: 44
30618669 CTTCGACCCA
* * **
30618679 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCGATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * * * * *
30618723 TTCCACTGTAATTTCAAGGAGACAAGACTTATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * * * *
30618767 CTCCACTACAACTTTAGGGAGACAATATTTGTAACTTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC-TTCAATCTG
* * * * *
30618812 CTCCACTAG-AACTTTAGAGAGATAAAACTTGTAATTTCAATCTA
1 CTCCACT-GCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * ** **
30618856 CTTCACTGTAACTTCAGGGAGATGAGGTTTGTGTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * *
30618900 CTCCACTGCGACCTCAAGGAGATAAGA-TCTATAACTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGTAACTTCAATCTG
* * * *
30618944 CTCCACTGTAACTTCAGGGAGATAAGATTTGTAATTTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAA-CTTCAATCTG
*
30618989 CTCCACTGCAACTTCAGGGAGATAATACTTGTAACTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * * **
30619033 CTCCGCTGCAACTTCAAGGAGATGAGATTTGTGTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * * *
30619077 CTCCACTACGACTTCAGAGAGATAAGA-TCTATAACTTAAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGTAACTTCAATCTG
* * * * * * * * * **
30619121 TTCTATTGTAATTTTAAGGAGATAAGATTTATGTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * ** * *
30619165 CTCCACTACAACTTTAGGAAGATAAGACTTACAACTTCAATATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * * * * * * *
30619209 CTCCGCTACAACTTCAAGAAGATGAGATTTGTAATTTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAA-CTTCAATCTG
*
30619254 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
* * *
30619298 TTCCGCTGCAACTTCAAGGAGAT
1 CTCCACTGCAACTTCAGGGAGAT
30619321 GAGATTCGCC
Statistics
Matches: 461, Mismatches: 128, Indels: 18
0.76 0.21 0.03
Matches are distributed among these distances:
43 3 0.01
44 347 0.75
45 111 0.24
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG
Found at i:30618985 original size:177 final size:176
Alignment explanation
Indices: 30618735--30619326 Score: 636
Period size: 177 Copynumber: 3.3 Consensus size: 176
30618725 CCACTGTAAT
* * * * * * *
30618735 TTCAAGGAGACAAGACTTATAGCTTCAATCTGCTCCACTACAACTTTAGGGAGACAATATTTGTA
1 TTCAAGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA
* * * * *
30618800 ACTTTCAGTCTGCTCCACTAGAACTTTAGAGAGATAAAACTTGTAATTTCAATCTACTTCACTGT
66 ATTTTCAGTCTGCTCCACTAGAACTTTAG-GAGATAAAACTTGTAACTTCAATCTACTCCGCTGC
* *
30618865 AACTTCAGGGAGATGAGGTTTGTGTCTTCAATCTGCTCCACTGCGAC
130 AACTTCAAGGAGATGAGATTTGTGTCTTCAATCTGCTCCACTGCGAC
* * *
30618912 CTCAAGGAGATAAGA-TCTATAACTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT
1 TTCAAGGAGATAAGACT-TATAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGT
* * *
30618976 AATTTTCAGTCTGCTCCACT-GCAACTTCAGGGAGATAATACTTGTAACTTCAATCTGCTCCGCT
65 AATTTTCAGTCTGCTCCACTAG-AACTTTA-GGAGATAAAACTTGTAACTTCAATCTACTCCGCT
*
30619040 GCAACTTCAAGGAGATGAGATTTGTGTCTTCAATCTGCTCCACTACGAC
128 GCAACTTCAAGGAGATGAGATTTGTGTCTTCAATCTGCTCCACTGCGAC
* * * * * * * *
30619089 TTC-AGAGAGATAAGA-TCTATAACTTAAATCTGTTCTATTGTAATTTTAAGGAGATAAGATTTA
1 TTCAAG-GAGATAAGACT-TATAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTG
* * * * * ** *
30619152 T-GTCTTCAATCTGCTCCACTACAACTTTAGGAAGATAAGACTTACAACTTCAATATACTCCGCT
64 TAATTTTCAGTCTGCTCCACTAGAACTTTAGG-AGATAAAACTTGTAACTTCAATCTACTCCGCT
* * * * * *
30619216 ACAACTTCAAGAAGATGAGATTTGTAATTTTCAGTCTGCTCCACTGCAAC
128 GCAACTTCAAGGAGATGAGATTTGT-GTCTTCAATCTGCTCCACTGCGAC
* * * * * *
30619266 TTCAGGGAGATAAGACTTGTAACTTCAATATGTTCCGCTGCAACTTCAAGGAGATGAGATT
1 TTCAAGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT
30619327 CGCCATAATG
Statistics
Matches: 350, Mismatches: 56, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
175 2 0.01
176 76 0.22
177 269 0.77
178 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (176 bp):
TTCAAGGAGATAAGACTTATAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA
ATTTTCAGTCTGCTCCACTAGAACTTTAGGAGATAAAACTTGTAACTTCAATCTACTCCGCTGCA
ACTTCAAGGAGATGAGATTTGTGTCTTCAATCTGCTCCACTGCGAC
Found at i:30619165 original size:265 final size:266
Alignment explanation
Indices: 30618678--30619326 Score: 729
Period size: 265 Copynumber: 2.4 Consensus size: 266
30618668 GCTTCGACCC
* ** *** * * *
30618678 ACTCCACTGCAACTTCAGGGAGATAAGACTTGT-AGCTTC-GATCCATTCCACTGTAATTTCAAG
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTCAG-TCTGCTCCACTGCAACTTCAGG
* * * * * * * ** *
30618741 GAGACAAGACTTATAGCTTCAATCTGCTCCACTACAACTTTAGGGAGACAATATTTGTAACTTTC
65 GAGATAAGACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATTTGTAACTTTC
* * * * *
30618806 AGTCTGCTCCACTAGAACTTTAGAGAGATAAAACTTGTAATTTCAATCTACTTCACTGTAACTTC
130 AATCTGCTCCACTAGAACTTCAGAGAGATAAAACTTATAACTTAAATCTACTTCACTGTAACTTC
* * * * * * *
30618871 AGGGAGATGAGGTTTGTGTCTTCAATCTGCTCCACTGCGACCTCAAGG-AGATAAGA-TCTATAA
195 AAGGAGATAAGATTTATGTCTTCAATCTGCTCCACTAC-AACTCAAGGAAGATAAGACT-TACAA
*
30618934 CTTCAATCT
258 CTTCAATAT
* *
30618943 GCTCCACTGTAACTTCAGGGAGATAAGATTTGTAATTTTCAGTCTGCTCCACTGCAACTTCAGGG
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTCAGTCTGCTCCACTGCAACTTCAGGG
* **
30619008 AGATAATACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATTTGTGTC-TTCA
66 AGATAAGACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATTTGTAACTTTCA
* * * *
30619072 ATCTGCTCCACTACG-ACTTCAGAGAGATAAGA-TCTATAACTTAAATCT-GTTCTATTGTAATT
131 ATCTGCTCCACTA-GAACTTCAGAGAGATAAAACT-TATAACTTAAATCTACTTC-ACTGTAACT
* **
30619134 TTAAGGAGATAAGATTTATGTCTTCAATCTGCTCCACTACAACTTTAGGAAGATAAGACTTACAA
193 TCAAGGAGATAAGATTTATGTCTTCAATCTGCTCCACTACAACTCAAGGAAGATAAGACTTACAA
30619199 CTTCAATAT
258 CTTCAATAT
* * * * *
30619208 ACTCCGCTACAACTTCAAGAAGATGAGATTTGTAATTTTCAGTCTGCTCCACTGCAACTTCAGGG
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTCAGTCTGCTCCACTGCAACTTCAGGG
* *
30619273 AGATAAGACTTGTAACTTCAATATGTTCCGCTGCAACTTCAAGGAGATGAGATT
66 AGATAAGACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATT
30619327 CGCCATAATG
Statistics
Matches: 323, Mismatches: 54, Indels: 14
0.83 0.14 0.04
Matches are distributed among these distances:
264 10 0.03
265 242 0.75
266 70 0.22
267 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (266 bp):
ACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTTCAGTCTGCTCCACTGCAACTTCAGGG
AGATAAGACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAAGGAGATGAGATTTGTAACTTTCA
ATCTGCTCCACTAGAACTTCAGAGAGATAAAACTTATAACTTAAATCTACTTCACTGTAACTTCA
AGGAGATAAGATTTATGTCTTCAATCTGCTCCACTACAACTCAAGGAAGATAAGACTTACAACTT
CAATAT
Found at i:30619939 original size:44 final size:44
Alignment explanation
Indices: 30619889--30619977 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
30619879 ATTTGAGAAG
30619889 AATAAATTAATCAAAGAAAGCAGACATTGGTAAAATACAAAATT
1 AATAAATTAATCAAAGAAAGCAGACATTGGTAAAATACAAAATT
* *
30619933 AATAAATTAATCAACGAAAGCAGACATTGGTGAAATACAAAATT
1 AATAAATTAATCAAAGAAAGCAGACATTGGTAAAATACAAAATT
30619977 A
1 A
30619978 GTAAGAAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.22
Consensus pattern (44 bp):
AATAAATTAATCAAAGAAAGCAGACATTGGTAAAATACAAAATT
Found at i:30624073 original size:50 final size:49
Alignment explanation
Indices: 30623961--30624208 Score: 253
Period size: 50 Copynumber: 4.8 Consensus size: 49
30623951 ATTTGGGTAA
* * *
30623961 AGAGATCCAATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCC-ATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
30624017 AGAGGTCACATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
30624067 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGT-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * ** *
30624117 AGAGGTTCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTTATATG
1 AGAGG-TCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
30624167 AGAATTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTC-CATGTAAGACCATGTCTGGGACATGGCATTGGCA
30624209 GTACAAGAAA
Statistics
Matches: 169, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
49 2 0.01
50 123 0.73
51 2 0.01
53 3 0.02
55 1 0.01
56 37 0.22
57 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
AGAGGTCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:30624149 original size:100 final size:102
Alignment explanation
Indices: 30623961--30624208 Score: 279
Period size: 100 Copynumber: 2.4 Consensus size: 102
30623951 ATTTGGGTAA
* * *
30623961 AGAGATCCAATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCAC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-T-AG--TATGAGAGGTCAC
* * *
30624026 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
62 ACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
30624067 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AG-ATGAGAGGTTC-CCCG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGAGAGG-TCACACG
** *
30624129 TAAGACCATGTCTGGGACATGGCATGGGCACTTATATG
65 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
30624167 AGA-ATTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30624209 GTACAAGAAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
100 79 0.64
101 2 0.02
103 2 0.02
106 40 0.33
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGAGAGGTCACACGT
AAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:30624201 original size:150 final size:153
Alignment explanation
Indices: 30623972--30624257 Score: 357
Period size: 150 Copynumber: 1.9 Consensus size: 153
30623962 GAGATCCAAT
* * *
30623972 GTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCACATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCATT--GATTATGAGAAGTCACATGTAAGACCA
* * * * * ** *
30624037 TGTCTGGGACATGGCGTTGGCACCG-AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGG
64 TATCTGGGACATGGCATTGGCA--GTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATAG
30624101 CGTTGGCACCAAGATGAGAGGTTCCCC
127 CGTTGGCACCAAGATGAGAGGTTCCCC
* *
30624128 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-TT-A-TATGAGAATTCTCATGTAAGACCATA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCATTGATTATGAGAAGTCACATGTAAGACCATA
* * *
30624189 TCTGGGATATGGCATTGGCAGTACAAGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTT
66 TCTGGGACATGGCATTGGCAGTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATAGCGTT
30624254 GGCA
131 GGCA
30624258 TGTTATATTC
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
148 1 0.01
149 39 0.35
150 40 0.35
151 1 0.01
154 2 0.02
155 1 0.01
156 29 0.26
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (153 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCATTGATTATGAGAAGTCACATGTAAGACCATA
TCTGGGACATGGCATTGGCAGTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATAGCGTT
GGCACCAAGATGAGAGGTTCCCC
Found at i:30628797 original size:3 final size:3
Alignment explanation
Indices: 30628789--30628849 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
30628779 GGGTTTTAAA
* * * * *
30628789 AAT AAT AAT ACT AAT AAT AAT GAG AAT AAT -AT GAAT GAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
30628834 AAT AAT AAT GAAT AAT
1 AAT AAT AAT -AAT AAT
30628850 CTAAGGTTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.84
4 5 0.11
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30628905 original size:19 final size:20
Alignment explanation
Indices: 30628874--30628911 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
30628864 CATATAAAAG
30628874 AATGTGAATAAATA-AATAT
1 AATGTGAATAAATAGAATAT
30628893 AATGTG-ATAAAATAGAATA
1 AATGTGAAT-AAATAGAATA
30628912 GATGTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 11 0.65
20 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (20 bp):
AATGTGAATAAATAGAATAT
Found at i:30629718 original size:23 final size:23
Alignment explanation
Indices: 30629692--30629735 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
30629682 AAAGTTTTTA
*
30629692 TTTTTATTTTTAT-TTTTGTATTC
1 TTTTT-TTTATATCTTTTGTATTC
30629715 TTTTTTTTATATCTTTTGTAT
1 TTTTTTTTATATCTTTTGTAT
30629736 ATAAATGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTTTTTATATCTTTTGTATTC
Found at i:30629721 original size:20 final size:19
Alignment explanation
Indices: 30629686--30629724 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
30629676 GGTGAAAAAG
30629686 TTTTTATTTTTATTTTTAT
1 TTTTTATTTTTATTTTTAT
30629705 TTTTGTATTCTTT-TTTTTAT
1 TTTT-TATT-TTTATTTTTAT
30629725 ATCTTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 11 0.61
21 3 0.17
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTTATTTTTAT
Found at i:30635613 original size:20 final size:20
Alignment explanation
Indices: 30635584--30635637 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
30635574 CATATATCAT
* *
30635584 AATTTTATTTGATTCCAATC
1 AATTTGATTTAATTCCAATC
**
30635604 AATTTGATTTAATTTTAATC
1 AATTTGATTTAATTCCAATC
*
30635624 AAATTGATTTAATT
1 AATTTGATTTAATT
30635638 GCTCATTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (20 bp):
AATTTGATTTAATTCCAATC
Found at i:30636389 original size:86 final size:84
Alignment explanation
Indices: 30636242--30636403 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 84
30636232 AATAAAAATA
* * *
30636242 AAAATTGAATAAAATCTGTTTCGGGGTTTATTCCCGTCGTTCAACAAATTTTATTCCATCTTTGA
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTACCGTCGTTCAACAAATTTTATTCCATC-TTGA
*
30636307 TTTATTTTCCAAACGAATATT
65 TTT-GTTTCCAAACGAATATT
* ** * * *
30636328 AAAATTAAATAAATTCTGTTTCGGGATTTATTACTTTCGTTTAACAGATTTTATTCGATCTTGAT
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTACCGTCGTTCAACAAATTTTATTCCATCTTGAT
30636393 TTGTTTCCAAA
66 TTGTTTCCAAA
30636404 TGAAAACTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
84 8 0.12
85 7 0.11
86 51 0.77
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (84 bp):
AAAATTAAATAAAATCTGTTTCGGGATTTATTACCGTCGTTCAACAAATTTTATTCCATCTTGAT
TTGTTTCCAAACGAATATT
Found at i:30638241 original size:30 final size:30
Alignment explanation
Indices: 30638205--30638264 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
30638195 ATATTTAAGA
*
30638205 AGCCACATGGGCTAGACACACGACCATGTG
1 AGCCACACGGGCTAGACACACGACCATGTG
* * * *
30638235 AGCCACACGGTCTGGACACATGGCCATGTG
1 AGCCACACGGGCTAGACACACGACCATGTG
30638265 CTAGACCGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.30, G:0.28, T:0.15
Consensus pattern (30 bp):
AGCCACACGGGCTAGACACACGACCATGTG
Found at i:30646872 original size:17 final size:18
Alignment explanation
Indices: 30646850--30646883 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
30646840 TATTCAGCTT
30646850 GTTATTGAATT-TTTAAC
1 GTTATTGAATTGTTTAAC
30646867 GTTATTGAATTGTTTAA
1 GTTATTGAATTGTTTAA
30646884 TTGCTTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (18 bp):
GTTATTGAATTGTTTAAC
Found at i:30653949 original size:20 final size:20
Alignment explanation
Indices: 30653926--30653977 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
30653916 TTTATTCCAG
30653926 TCAATTTGATTTGATTTTAA
1 TCAATTTGATTTGATTTTAA
30653946 TCAAATTT-ATTTGATTTTAA
1 TC-AATTTGATTTGATTTTAA
*
30653966 TCAAATTGATTT
1 TCAATTTGATTT
30653978 AATTGCTCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 4 0.14
20 20 0.69
21 5 0.17
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.54
Consensus pattern (20 bp):
TCAATTTGATTTGATTTTAA
Found at i:30654465 original size:22 final size:23
Alignment explanation
Indices: 30654424--30654470 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
30654414 TTCAATTTAT
30654424 TTTATTTTATACTTAAATATTTG
1 TTTATTTTATACTTAAATATTTG
* *
30654447 TTTA-TTTATATTTATATATTTG
1 TTTATTTTATACTTAAATATTTG
30654469 TT
1 TT
30654471 AGCTAACGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTATTTTATACTTAAATATTTG
Found at i:30666024 original size:12 final size:12
Alignment explanation
Indices: 30666004--30666043 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
30665994 AATTATTTCT
*
30666004 ATTAGTTTTTTA
1 ATTAATTTTTTA
30666016 ATTAA-TTTTTA
1 ATTAATTTTTTA
30666027 ATTAATTTTTTA
1 ATTAATTTTTTA
30666039 TATTA
1 -ATTA
30666044 CAGTAAGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 11 0.44
12 10 0.40
13 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (12 bp):
ATTAATTTTTTA
Found at i:30687592 original size:3 final size:3
Alignment explanation
Indices: 30687567--30687660 Score: 92
Period size: 3 Copynumber: 33.0 Consensus size: 3
30687557 ACTGGGTAGT
* * * * *
30687567 AGA AGA GGA AG- AGA AAA AAA AGA AGA ATA AG- CGA AGA A-A TAG-
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA
30687609 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA AG- AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
30687655 AGA AGA
1 AGA AGA
30687661 TGAGAAAATG
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
2 10 0.13
3 66 0.87
ACGTcount: A:0.66, C:0.01, G:0.31, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:30689280 original size:29 final size:28
Alignment explanation
Indices: 30689247--30689318 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 28
30689237 AGCTTACACT
30689247 TTGGTCACTCAATTTTAAAAAGTTACAAG
1 TTGGTCACTCAATTTT-AAAAGTTACAAG
* * *
30689276 TTGGTCACTAAACTACTTGAAAGTTACAAG
1 TTGGTCACTCAA-T-TTTAAAAGTTACAAG
*
30689306 TTGTTCA-TCAATT
1 TTGGTCACTCAATT
30689319 GTAATGGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
28 1 0.03
29 14 0.40
30 18 0.51
31 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (28 bp):
TTGGTCACTCAATTTTAAAAGTTACAAG
Found at i:30692805 original size:62 final size:62
Alignment explanation
Indices: 30692736--30692859 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
30692726 AAAGTTCAAG
*
30692736 AAAAACATGAAAAATTGTGAAAACAAGGGTCACATGGTAGTGTAGGAATCCGAACTATGGGA
1 AAAAACATGAAAAATTGTGAAAACAAGGGTCACATGATAGTGTAGGAATCCGAACTATGGGA
*
30692798 AAAAACATGAAAAATTGTGAAAACAAGGGTCACATGATCGTGTAGGAATCCGAACTATGGGA
1 AAAAACATGAAAAATTGTGAAAACAAGGGTCACATGATAGTGTAGGAATCCGAACTATGGGA
30692860 CACATGGCCG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (62 bp):
AAAAACATGAAAAATTGTGAAAACAAGGGTCACATGATAGTGTAGGAATCCGAACTATGGGA
Found at i:30694414 original size:41 final size:41
Alignment explanation
Indices: 30694369--30694506 Score: 161
Period size: 41 Copynumber: 3.4 Consensus size: 41
30694359 TAATTCACCG
** * *
30694369 GCACAAAGCTTGCTAGGCTTAAGGCTTGATAATATACACTA
1 GCACAAAGCTTGCTAGGCACAAAGCCTGATAATATACACTA
* * *
30694410 GCACAAAGCCTGCTAGGCACAAAGCCTAATAATATACAC-C
1 GCACAAAGCTTGCTAGGCACAAAGCCTGATAATATACACTA
* * *
30694450 GACACAAAGCTTGCTAGACACAAAACCTGATAATATACACTG
1 G-CACAAAGCTTGCTAGGCACAAAGCCTGATAATATACACTA
*
30694492 GCACAAAGCTAGCTA
1 GCACAAAGCTTGCTA
30694507 ATATCTCATT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 1 0.01
41 80 0.98
42 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (41 bp):
GCACAAAGCTTGCTAGGCACAAAGCCTGATAATATACACTA
Found at i:30700393 original size:45 final size:45
Alignment explanation
Indices: 30700315--30700416 Score: 163
Period size: 46 Copynumber: 2.3 Consensus size: 45
30700305 TACGTATGAT
*
30700315 CACTTATCAC-TTGTCCCTGATTAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCCCTGATCAGATAAGTGTAGCTAAGGCTAC
*
30700358 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTAC
30700404 CACTTATCACTTT
1 CACTTATCACTTT
30700417 CAATTTTGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
43 10 0.19
44 5 0.09
45 19 0.35
46 20 0.37
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCCCTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:30700659 original size:301 final size:301
Alignment explanation
Indices: 30700117--30700717 Score: 1184
Period size: 301 Copynumber: 2.0 Consensus size: 301
30700107 TGAAATTCTT
30700117 AATTTTGCAATGAAAATATCACTTTAGCTTGAATAACAACATCGTCCTGATATAAATACACTACC
1 AATTTTGCAATGAAAATATCACTTTAGCTTGAATAACAACATCGTCCTGATATAAATACACTACC
30700182 ACTTATCCATTTACTTTAATTCTTTTGGGCCCATTTGTCACTTACCATCCTTAATCAAATTAGGG
66 ACTTATCCATTTACTTTAATTCTTTTGGGCCCATTTGTCACTTACCATCCTTAATCAAATTAGGG
30700247 AACGGTTACGGAAAATTGAGTACTTCACTTTTACTTTGCCATAGTATAACTATGGTCTTACGTAT
131 AACGGTTACGGAAAATTGAGTACTTCACTTTTACTTTGCCATAGTATAACTATGGTCTTACGTAT
30700312 GATCACTTATCACTTGTCCCTGATTAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACT
196 GATCACTTATCACTTGTCCCTGATTAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACT
*
30700377 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTC
261 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTC
30700418 AATTTTGCAATGAAAATATCACTTTAGCTTGAATAACAACATCGTCCTGATATAAATACACTACC
1 AATTTTGCAATGAAAATATCACTTTAGCTTGAATAACAACATCGTCCTGATATAAATACACTACC
30700483 ACTTATCCATTTACTTTAATTCTTTTGGGCCCATTTGTCACTTACCATCCTTAATCAAATTAGGG
66 ACTTATCCATTTACTTTAATTCTTTTGGGCCCATTTGTCACTTACCATCCTTAATCAAATTAGGG
30700548 AACGGTTACGGAAAATTGAGTACTTCACTTTTACTTTGCCATAGTATAACTATGGTCTTACGTAT
131 AACGGTTACGGAAAATTGAGTACTTCACTTTTACTTTGCCATAGTATAACTATGGTCTTACGTAT
30700613 GATCACTTATCACTTGTCCCTGATTAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACT
196 GATCACTTATCACTTGTCCCTGATTAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACT
*
30700678 TGATCAGATAAGTGTAGCTAAAGCTACCATTTATCACTTT
261 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
30700718 ATCACTTGAT
Statistics
Matches: 298, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
301 298 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (301 bp):
AATTTTGCAATGAAAATATCACTTTAGCTTGAATAACAACATCGTCCTGATATAAATACACTACC
ACTTATCCATTTACTTTAATTCTTTTGGGCCCATTTGTCACTTACCATCCTTAATCAAATTAGGG
AACGGTTACGGAAAATTGAGTACTTCACTTTTACTTTGCCATAGTATAACTATGGTCTTACGTAT
GATCACTTATCACTTGTCCCTGATTAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTC
Found at i:30700694 original size:45 final size:46
Alignment explanation
Indices: 30700616--30700731 Score: 166
Period size: 46 Copynumber: 2.6 Consensus size: 46
30700606 TACGTATGAT
* * *
30700616 CACTTATCAC-TTGTC-CCTGATTAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
30700659 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
30700705 CATTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
30700732 AGTACTCAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
43 10 0.15
44 5 0.08
45 19 0.29
46 31 0.48
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:30713627 original size:28 final size:27
Alignment explanation
Indices: 30713565--30713716 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
30713555 TAAATTGTGC
* * *
30713565 AGCACTAAGTGTGCGAATCGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
30713592 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
30713620 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
30713647 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
30713675 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
30713702 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30713717 GACTTAATAA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 66 0.56
28 51 0.44
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:30713630 original size:55 final size:55
Alignment explanation
Indices: 30713565--30713716 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
30713555 TAAATTGTGC
* * *
30713565 AGCACTAAGTGTGCGAATCGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
30713620 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
30713675 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
30713717 GACTTAATAA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:30714394 original size:74 final size:74
Alignment explanation
Indices: 30714307--30714455 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
30714297 TTTCGGCATG
*
30714307 TATAGGCTATTATGTTGTGTTTGAACTTTGGTATTTAATCTTTTAGCCATGCGAAAATGGCATAA
1 TATAGGCTATTATGTTGTGTTTGAACTTTGGTATGTAATCTTTTAGCCATGCGAAAATGGCATAA
30714372 ATGTTCGGT
66 ATGTTCGGT
30714381 TATAGGCTATTATGTTGTGTTTGAACTTTGGTATGTAATCTTTTAGCCATGCGAAAATGGCATAA
1 TATAGGCTATTATGTTGTGTTTGAACTTTGGTATGTAATCTTTTAGCCATGCGAAAATGGCATAA
30714446 ATGTTCGGT
66 ATGTTCGGT
30714455 T
1 T
30714456 GGGTTTGGAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.42
Consensus pattern (74 bp):
TATAGGCTATTATGTTGTGTTTGAACTTTGGTATGTAATCTTTTAGCCATGCGAAAATGGCATAA
ATGTTCGGT
Found at i:30715616 original size:68 final size:68
Alignment explanation
Indices: 30715537--30715672 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
30715527 TATATCCATA
30715537 AACCCGATTTATGCTTGTTATGAGGTGGAAATTAAGGGTTAAATGTATGAAATTTGATGTATATT
1 AACCCGATTTATGCTTGTTATGAGGTGGAAATTAAGGGTTAAATGTATGAAATTTGATGTATATT
30715602 AAC
66 AAC
*
30715605 AACCCGATTTATGCTTGTTATGTGGTGGAAATTAAGGGTTAAATGTATGAAATTTGATGTATATT
1 AACCCGATTTATGCTTGTTATGAGGTGGAAATTAAGGGTTAAATGTATGAAATTTGATGTATATT
30715670 AAC
66 AAC
30715673 TATAGGTAAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (68 bp):
AACCCGATTTATGCTTGTTATGAGGTGGAAATTAAGGGTTAAATGTATGAAATTTGATGTATATT
AAC
Found at i:30720459 original size:39 final size:38
Alignment explanation
Indices: 30720411--30720497 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
30720401 TGTAATTGCC
* *
30720411 ATAACTATAATAATGTTTGACCA-AAAAATTACAATTACA
1 ATAATTATAATAATATTTGA--ATAAAAATTACAATTACA
** *
30720450 ATAATTATAATAATATTTGAATGTAAATTATAATTACA
1 ATAATTATAATAATATTTGAATAAAAATTACAATTACA
30720488 ATAATTATAA
1 ATAATTATAA
30720498 CAAAGATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.02
38 23 0.55
39 18 0.43
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.37
Consensus pattern (38 bp):
ATAATTATAATAATATTTGAATAAAAATTACAATTACA
Found at i:30726692 original size:56 final size:50
Alignment explanation
Indices: 30726596--30726835 Score: 184
Period size: 50 Copynumber: 4.7 Consensus size: 50
30726586 ATTTGTGTAA
*
30726596 AGAGATCCCATGTAAGACCATGTCT-TGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGT-GACATGGCATTGGCA-CC--GAG---ATG
30726652 AGAGGTCCCATGTAAGACCATGTCTGTGACATGG-AGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCA-TTGGCACCGAGATG
** * * * *
30726702 AGAGGTCCCCCGTAAGACCATGTCTGGGACATAGCA-TGAGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCATTG-GCACCGAGATG
** * * * * *
30726752 AGAACTCCCATGTAAGACCATATATGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCATTGGCACCG-AGATG
* ** * *
30726801 AAACATCCCATGTAAGACCATGCCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGC
30726836 TTTAGCATGT
Statistics
Matches: 155, Mismatches: 23, Indels: 19
0.79 0.12 0.10
Matches are distributed among these distances:
48 1 0.01
49 34 0.22
50 73 0.47
51 3 0.02
53 3 0.02
55 3 0.02
56 37 0.24
57 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCATTGGCACCGAGATG
Found at i:30734560 original size:27 final size:27
Alignment explanation
Indices: 30734529--30734597 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
30734519 TTCTGACCCA
*
30734529 TAGCTCGTGTAAGTAGGACCAATTTCAC
1 TAGCTCGTGTAAGCAGGACCAATTTC-C
* * *
30734557 -AGCTCGTGTGAGCAGGCCCATTTTCC
1 TAGCTCGTGTAAGCAGGACCAATTTCC
*
30734583 TAGCTCGTGTGAGCA
1 TAGCTCGTGTAAGCA
30734598 TACACTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.28
Consensus pattern (27 bp):
TAGCTCGTGTAAGCAGGACCAATTTCC
Found at i:30734613 original size:26 final size:27
Alignment explanation
Indices: 30734551--30734625 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
30734541 GTAGGACCAA
** *
30734551 TTTCACAGCTCGTGTGAGCAGGCCCAT
1 TTTCACAGCTCGTGTGAGCATACACAT
30734578 TTTC-CTAGCTCGTGTGAGCATACAC-T
1 TTTCAC-AGCTCGTGTGAGCATACACAT
30734604 TTTCACAGCTTC-TGTGAGCATA
1 TTTCACAGC-TCGTGTGAGCATA
30734626 TATGTAAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 19 0.45
27 23 0.55
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (27 bp):
TTTCACAGCTCGTGTGAGCATACACAT
Found at i:30735487 original size:16 final size:16
Alignment explanation
Indices: 30735468--30735501 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30735458 GGAAAAGTTA
30735468 AAAATTTTCATACTGC
1 AAAATTTTCATACTGC
30735484 AAAATTTTCATACTGC
1 AAAATTTTCATACTGC
30735500 AA
1 AA
30735502 TGCCTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (16 bp):
AAAATTTTCATACTGC
Found at i:30737473 original size:21 final size:20
Alignment explanation
Indices: 30737445--30737483 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30737435 TTTACCCTAT
*
30737445 TTTTAACCCTAAAAATACCC
1 TTTTAAACCTAAAAATACCC
30737465 TTTTAAACCTAAAAATACC
1 TTTTAAACCTAAAAATACC
30737484 TTCTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.31
Consensus pattern (20 bp):
TTTTAAACCTAAAAATACCC
Found at i:30758319 original size:27 final size:26
Alignment explanation
Indices: 30758285--30758510 Score: 162
Period size: 27 Copynumber: 8.5 Consensus size: 26
30758275 GGGCAAAATA
30758285 GTCA-TTTACCTTCTAAGGGCATTACG
1 GTCATTTTACC-TCTAAGGGCATTACG
* * * *
30758311 GTTATTTTACC-CTATTGGGGTATTATG
1 GTCATTTTACCTCTA--AGGGCATTACG
*
30758338 GTCATTTTACC-CTAAGGGGTATTACG
1 GTCATTTTACCTCTAA-GGGCATTACG
30758364 GTCATTTTACC-CTATAGGGGCATTACG
1 GTCATTTTACCTCTA-A-GGGCATTACG
* **
30758391 GTCATTTTACC-CTATAGAGGTATTATA
1 GTCATTTTACCTCTA-AG-GGCATTACG
30758418 GTCATTTTACCATGC-AAGGGCATTACG
1 GTCATTTTACC-T-CTAAGGGCATTACG
30758445 GTCATTTTACC-CTACAGGGGCATTACG
1 GTCATTTTACCTCTA-A-GGGCATTACG
* *
30758472 GCCTTTTTACC-CTATAGGGGCATTACG
1 GTCATTTTACCTCTA-A-GGGCATTACG
* *
30758499 GTTATTATACCT
1 GTCATTTTACCT
30758511 ATTTTAAGGT
Statistics
Matches: 166, Mismatches: 21, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
24 1 0.01
25 4 0.02
26 28 0.17
27 129 0.78
28 2 0.01
29 1 0.01
30 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTCTAAGGGCATTACG
Found at i:30758472 original size:81 final size:80
Alignment explanation
Indices: 30758301--30758488 Score: 270
Period size: 81 Copynumber: 2.3 Consensus size: 80
30758291 TACCTTCTAA
* * * * * *
30758301 GGGCATTACGGTTATTTTACCCTATTGGGGTATTATGGTCATTTTACCCTAAGGGGTATTACGGT
1 GGGCATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTACCATAAGGGGCATTACGGT
*
30758366 CATTTTACCCTATAG
66 CATTTTACCCTACAG
30758381 GGGCATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTACCATGCAA-GGGCATTACG
1 GGGCATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTACCAT--AAGGGGCATTACG
30758445 GTCATTTTACCCTACAG
64 GTCATTTTACCCTACAG
* *
30758462 GGGCATTACGGCCTTTTTACCCTATAG
1 GGGCATTACGGTCATTTTACCCTATAG
30758489 GGGCATTACG
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 45 0.46
81 50 0.52
82 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (80 bp):
GGGCATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTACCATAAGGGGCATTACGGT
CATTTTACCCTACAG
Found at i:30760858 original size:44 final size:44
Alignment explanation
Indices: 30760795--30760882 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
30760785 GATTCTTGAA
* *
30760795 GCTAACTTTAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
1 GCTAACCTCAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
**
30760839 GCTAACCTCAGTGCAATGGCAATACTCAATAATGTGTAAAGTGG
1 GCTAACCTCAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
30760883 CAATGTGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (44 bp):
GCTAACCTCAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
Found at i:30771649 original size:21 final size:23
Alignment explanation
Indices: 30771605--30771649 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
30771595 ACAATTTATC
*
30771605 TTAATTCTATAACAAGTATTCAA
1 TTAATTCTATAACAAGTATACAA
*
30771628 TTAATT-TATAA-ACGTATACAA
1 TTAATTCTATAACAAGTATACAA
30771649 T
1 T
30771650 ATCATAGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 5 0.25
23 6 0.30
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (23 bp):
TTAATTCTATAACAAGTATACAA
Found at i:30772188 original size:56 final size:56
Alignment explanation
Indices: 30772102--30772221 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
30772092 ACAAGGGATG
30772102 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
30772158 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
30772214 ATGGGCAA
1 ATGGGCAA
30772222 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:30773581 original size:40 final size:40
Alignment explanation
Indices: 30773350--30773574 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
30773340 TCGAATGATG
* * * *
30773350 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
30773390 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30773430 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30773469 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30773509 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
30773550 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30773575 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30773581 original size:80 final size:79
Alignment explanation
Indices: 30773350--30773607 Score: 256
Period size: 79 Copynumber: 3.3 Consensus size: 79
30773340 TCGAATGATG
* * * * * * * *
30773350 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCAAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
30773413 TTGTGCGAGATACTAAT
64 TTGTGCGAG-TACTAAA
* *
30773430 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
30773494 GTGCGAGTTACTAAA
66 GTGCGAG-TACTAAA
* * *
30773509 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CTGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
** *
30773573 TGAACGAGTAGCTATA
65 TGTGCGAGTA-CTAAA
* *
30773589 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
30773608 TACGTGATTT
Statistics
Matches: 153, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 75 0.49
80 75 0.49
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTACTAAA
Found at i:30775085 original size:42 final size:42
Alignment explanation
Indices: 30775033--30775127 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 42
30775023 AGGCCGTGTA
* * * *
30775033 ACTCTCTGACTAAATACACACGTTCGTACCACAGACTGTGTG
1 ACTCACTGACTAAATACACACGGTCGTACCACACACTGTCTG
* ** * * *
30775075 ACTCATTGACTTGATAGACACGGTCGTGCCATACACTGTCTG
1 ACTCACTGACTAAATACACACGGTCGTACCACACACTGTCTG
30775117 ACTCACTGACT
1 ACTCACTGACT
30775128 TGATATGCAC
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (42 bp):
ACTCACTGACTAAATACACACGGTCGTACCACACACTGTCTG
Found at i:30788855 original size:20 final size:19
Alignment explanation
Indices: 30788832--30788874 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
30788822 ACACCCATTC
*
30788832 CATATGCATAACACACAAGT
1 CATAAGCATAACACACAA-T
* *
30788852 CATAAGCATATCATACAAT
1 CATAAGCATAACACACAAT
30788871 CATA
1 CATA
30788875 GCCACAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (19 bp):
CATAAGCATAACACACAAT
Found at i:30790506 original size:20 final size:19
Alignment explanation
Indices: 30790477--30790516 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
30790467 TAAAAGATGA
*
30790477 TATCTTTAATGTATTTTAT
1 TATCTTTAATATATTTTAT
*
30790496 TATCATTTAATATGTTTTAT
1 TATC-TTTAATATATTTTAT
30790516 T
1 T
30790517 TTAATTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TATCTTTAATATATTTTAT
Found at i:30804400 original size:18 final size:20
Alignment explanation
Indices: 30804374--30804410 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
30804364 ACACATCAAA
30804374 TAAACATAT-CCAA-TTCAT
1 TAAACATATACCAACTTCAT
*
30804392 TAAATATATACCAACTTCA
1 TAAACATATACCAACTTCA
30804411 CAGAAATCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 4 0.25
20 4 0.25
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAACATATACCAACTTCAT
Found at i:30807602 original size:28 final size:28
Alignment explanation
Indices: 30807564--30807708 Score: 150
Period size: 28 Copynumber: 5.1 Consensus size: 28
30807554 AATGCAACAT
30807564 TTTAAAAGAGATAGCCACAGAA-GCTTCC
1 TTTAAAAGAGATAGCCACA-AAGGCTTCC
* * *
30807592 TTTAACAGAGATCGCCACAAAGGGTTCC
1 TTTAAAAGAGATAGCCACAAAGGCTTCC
* * * *
30807620 TTTTAATAGAAATAGCCACAATGGCTTCAA
1 -TTTAAAAGAGATAGCCACAAAGGCTTC-C
* *
30807650 TTTATCAA-AGATAGCCACAAAGGCTTCA
1 TTTA-AAAGAGATAGCCACAAAGGCTTCC
*
30807678 TTTAAAAGAGATAGTCACAAAGGCTTCC
1 TTTAAAAGAGATAGCCACAAAGGCTTCC
30807706 TTT
1 TTT
30807709 TAGCCTTCAA
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
27 4 0.04
28 48 0.50
29 43 0.45
30 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (28 bp):
TTTAAAAGAGATAGCCACAAAGGCTTCC
Found at i:30807611 original size:57 final size:56
Alignment explanation
Indices: 30807535--30807708 Score: 170
Period size: 57 Copynumber: 3.1 Consensus size: 56
30807525 AACGCATTAA
* * * **
30807535 TTTAACTAAGATATCCACAAATGCAACATTTTAAAAGAGATAGCCACAGAAGCTTCC
1 TTTAACAAAGATAGCCACAAAGGCTTCATTTTAAAAGAGATAGCCACA-AAGCTTCC
* * * * * * * *
30807592 TTTAACAGAGATCGCCACAAAGGGTTCCTTTTAATAGAAATAGCCACAATGGCTTCAA
1 TTTAACAAAGATAGCCACAAAGGCTTCATTTTAAAAGAGATAGCCACAA-AGCTTC-C
* *
30807650 TTTATCAAAGATAGCCACAAAGGCTTCA-TTTAAAAGAGATAGTCACAAAGGCTTCC
1 TTTAACAAAGATAGCCACAAAGGCTTCATTTTAAAAGAGATAGCCACAAA-GCTTCC
30807706 TTT
1 TTT
30807709 TAGCCTTCAA
Statistics
Matches: 91, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
56 4 0.04
57 64 0.70
58 23 0.25
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (56 bp):
TTTAACAAAGATAGCCACAAAGGCTTCATTTTAAAAGAGATAGCCACAAAGCTTCC
Found at i:30808821 original size:16 final size:16
Alignment explanation
Indices: 30808797--30808834 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
30808787 TTTGGTTCGC
*
30808797 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
30808813 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
30808829 TGTAAT
1 TGTAAT
30808835 AGCAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:30809028 original size:14 final size:15
Alignment explanation
Indices: 30808989--30809030 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30808979 TAACAACATA
*
30808989 ATTATTATTAAATAT
1 ATTATAATTAAATAT
30809004 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
30809018 A-TATAATTTAATA
1 ATTATAATTAAATA
30809031 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:30809132 original size:119 final size:119
Alignment explanation
Indices: 30808983--30809391 Score: 755
Period size: 119 Copynumber: 3.4 Consensus size: 119
30808973 GAGGTGTAAC
30808983 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
**
30809048 TATTCTTATATGAATTTCTCAAATCATAATATAAAATACTATAAAATATAAATT
66 TATTCTTATATGAATTTCTCAAATCATAATATATGATACTATAAAATATAAATT
30809102 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
30809167 TATTCTTATATGAATTTCTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTCTCAAATCATAATATATGATACTATAAAATATAAATT
**
30809221 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTTA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
30809286 TATTCGTATATGAATTTACTCAATTCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTT-CTCAAATCATAATATATGATACTATAAAATATAAATT
30809341 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAA
30809392 NTGTTCTTAT
Statistics
Matches: 283, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
119 196 0.69
120 87 0.31
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (119 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTCTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:30809147 original size:14 final size:15
Alignment explanation
Indices: 30809098--30809149 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30809088 ATAAAATATA
30809098 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
30809113 TATTAAATATATTAT
1 AATTAAATATATTAT
30809128 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
30809141 AATTTAATA
1 AATTAAATA
30809150 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:30809266 original size:14 final size:15
Alignment explanation
Indices: 30809217--30809268 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30809207 ATAAAATATA
30809217 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
30809232 TATTAAATATATTAT
1 AATTAAATATATTAT
30809247 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
30809260 AATTTAATA
1 AATTAAATA
30809269 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:30809386 original size:14 final size:15
Alignment explanation
Indices: 30809337--30809388 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30809327 ATAAAATATA
30809337 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
30809352 TATTAAATATATTAT
1 AATTAAATATATTAT
30809367 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
30809380 AATTTAATA
1 AATTAAATA
30809389 AAANTGTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:30809461 original size:238 final size:238
Alignment explanation
Indices: 30808983--30809425 Score: 685
Period size: 239 Copynumber: 1.9 Consensus size: 238
30808973 GAGGTGTAAC
30808983 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
30809048 TATTCTTATATGAATTTCTCAAATCATAATATAAAATACTATAAAATATAAATTAACATAATTAT
66 TATTCGTATATGAATTTCTCAAATCATAATATAAAATACTATAAAATATAAATTAACATAATTAT
* *
30809113 TATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATAT
131 TATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTAAAAT
* ** * * *
30809178 GAATTTCTCAAATCATAATATATGATACTATAAAATATAAATT
196 CAAAATATCAAATCAGAATATATGATACTATAAAACATAAATT
**
30809221 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTTA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* **
30809286 TATTCGTATATGAATTTACTCAATTCATAATATATGATACTATAAAATATAAATTAACATAATTA
66 TATTCGTATATGAATTT-CTCAAATCATAATATAAAATACTATAAAATATAAATTAACATAATTA
*
30809351 TTATTAAATATATTATAATTAAAATATATAATTTAATAAAANTGTTCTT-AT-ATGAAT-TTACT
130 TTATTAAATATATTATAATTAAAATATATAATTTAATAAAA---TTCTTAATAATCAATATT-CT
30809413 AAAATCAAAATAT
191 AAAATCAAAATAT
30809426 AACTTGAGAA
Statistics
Matches: 187, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
238 79 0.42
239 87 0.47
240 14 0.07
241 2 0.01
242 5 0.03
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (238 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCGTATATGAATTTCTCAAATCATAATATAAAATACTATAAAATATAAATTAACATAATTAT
TATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTAAAAT
CAAAATATCAAATCAGAATATATGATACTATAAAACATAAATT
Found at i:30824643 original size:124 final size:123
Alignment explanation
Indices: 30824403--30824636 Score: 405
Period size: 124 Copynumber: 1.9 Consensus size: 123
30824393 CCGTGTACCG
*
30824403 GGCCTGTGAAAAATATTAAGCATTCTTTTTTTGATTTTAATGATGCAGGGGAACACGGCCAGATC
1 GGCCTGTGAAAAATATTAAGCATTCTTTTTTGGATTTTAATGATGCAGGGGAACACGGCCAGATC
*
30824468 ACACGCCTATGTGCTAGGTCGTGTGTCACACACGGCTGACACACAAGCCCGTATGTCA
66 ACACGCCTATGTGCTAGGTCATGTGTCACACACGGCTGACACACAAGCCCGTATGTCA
* * *
30824526 GGCCTGTGAAAAATATTAGGTATTCTTTTTTGGATTTTAATGATGCAGGGGACACACGGCTAGAT
1 GGCCTGTGAAAAATATTAAGCATTCTTTTTTGGATTTTAATGATGCAGGGGA-ACACGGCCAGAT
*
30824591 CACACGCCTATGTGCTAGGTCATGTGTCACACACGGCTGAGACACA
65 CACACGCCTATGTGCTAGGTCATGTGTCACACACGGCTGACACACA
30824637 CACCCGTTTC
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
123 49 0.47
124 55 0.53
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (123 bp):
GGCCTGTGAAAAATATTAAGCATTCTTTTTTGGATTTTAATGATGCAGGGGAACACGGCCAGATC
ACACGCCTATGTGCTAGGTCATGTGTCACACACGGCTGACACACAAGCCCGTATGTCA
Found at i:30825842 original size:24 final size:24
Alignment explanation
Indices: 30825815--30825879 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 24
30825805 GATGCTCCGA
30825815 AGAGCTATTAATGGGAAGCTCATG
1 AGAGCTATTAATGGGAAGCTCATG
* * * *
30825839 AGAGCCAAATATTGGGATGCTCATG
1 AGAG-CTATTAATGGGAAGCTCATG
*
30825864 AGAGCTATTAACGGGA
1 AGAGCTATTAATGGGA
30825880 CACTCTTCCG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 12 0.38
25 20 0.62
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (24 bp):
AGAGCTATTAATGGGAAGCTCATG
Found at i:30831561 original size:21 final size:19
Alignment explanation
Indices: 30831527--30831582 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 19
30831517 GCTAAATATT
**
30831527 ATAAAAATAATATATTGATTA
1 ATAAAAATGTTATATT-A-TA
30831548 ATAAAAATGTTATAATTATA
1 ATAAAAATGTTAT-ATTATA
*
30831568 A-AAATATGTTATATT
1 ATAAAAATGTTATATT
30831583 TTTTTATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 3 0.10
21 12 0.39
22 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
ATAAAAATGTTATATTATA
Found at i:30835397 original size:82 final size:82
Alignment explanation
Indices: 30835280--30835571 Score: 584
Period size: 82 Copynumber: 3.6 Consensus size: 82
30835270 ATTGAATTGG
30835280 ATATGAAATGTGTTAAATTGATGTTAAATTTATTTATATAGATTCAATTTATATAAAATTGGATT
1 ATATGAAATGTGTTAAATTGATGTTAAATTTATTTATATAGATTCAATTTATATAAAATTGGATT
30835345 GGATTGATGTTAAATTT
66 GGATTGATGTTAAATTT
30835362 ATATGAAATGTGTTAAATTGATGTTAAATTTATTTATATAGATTCAATTTATATAAAATTGGATT
1 ATATGAAATGTGTTAAATTGATGTTAAATTTATTTATATAGATTCAATTTATATAAAATTGGATT
30835427 GGATTGATGTTAAATTT
66 GGATTGATGTTAAATTT
30835444 ATATGAAATGTGTTAAATTGATGTTAAATTTATTTATATAGATTCAATTTATATAAAATTGGATT
1 ATATGAAATGTGTTAAATTGATGTTAAATTTATTTATATAGATTCAATTTATATAAAATTGGATT
30835509 GGATTGATGTTAAATTT
66 GGATTGATGTTAAATTT
30835526 ATATGAAATGTGTTAAATTGATGTTAAATTTATTTATATAGATTCA
1 ATATGAAATGTGTTAAATTGATGTTAAATTTATTTATATAGATTCA
30835572 GAAAGATCAA
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 210 1.00
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.46
Consensus pattern (82 bp):
ATATGAAATGTGTTAAATTGATGTTAAATTTATTTATATAGATTCAATTTATATAAAATTGGATT
GGATTGATGTTAAATTT
Found at i:30836445 original size:22 final size:22
Alignment explanation
Indices: 30836420--30836465 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
30836410 ATGGAAATGT
30836420 ATATGTTATGTGCAAATATGAC
1 ATATGTTATGTGCAAATATGAC
*
30836442 ATATGTTATGTGGAAATATGAC
1 ATATGTTATGTGCAAATATGAC
30836464 AT
1 AT
30836466 GGAAAACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (22 bp):
ATATGTTATGTGCAAATATGAC
Found at i:30847952 original size:18 final size:19
Alignment explanation
Indices: 30847906--30847952 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
30847896 TATTCTAATT
* **
30847906 TTAATCATTTAAAAAATTTG
1 TTAA-CATTAAAAAAATTAA
30847926 TTAACATTAAAAAAATTAA
1 TTAACATTAAAAAAATTAA
30847945 TTAA-ATTA
1 TTAACATTA
30847953 TTCACTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.17
19 16 0.67
20 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
TTAACATTAAAAAAATTAA
Found at i:30850832 original size:2 final size:2
Alignment explanation
Indices: 30850820--30850879 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
30850810 TTCACTATAA
30850820 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
30850861 TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC T
30850880 TTAACTTTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:30861990 original size:10 final size:12
Alignment explanation
Indices: 30861960--30861984 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30861950 CATGTGTATC
30861960 AATGAAATGTTT
1 AATGAAATGTTT
30861972 AATGAAATGTTT
1 AATGAAATGTTT
30861984 A
1 A
30861985 GAAATGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
AATGAAATGTTT
Found at i:30862188 original size:38 final size:38
Alignment explanation
Indices: 30862129--30862312 Score: 215
Period size: 38 Copynumber: 4.8 Consensus size: 38
30862119 ACATGGGCAA
* *
30862129 TAAGCCTACTAGGCACTAAGCCTGAATAACATCGACAC
1 TAAGCCTACTAGACACAAAGCCTGAATAACATCGACAC
* *
30862167 TAAGCCTACTAGACACAAAGCCTGAATAACACCGGCAC
1 TAAGCCTACTAGACACAAAGCCTGAATAACATCGACAC
* * * *
30862205 TAATCCTACTAGAAACAAAGCCTGAATAGCAGCGACAC
1 TAAGCCTACTAGACACAAAGCCTGAATAACATCGACAC
* * * * * *
30862243 TAAGCTTGCTAGAGACAAAGCCTGAATAACATAGGCAT
1 TAAGCCTACTAGACACAAAGCCTGAATAACATCGACAC
* * *
30862281 TAAGCCTGCTAGGCACAAAGCCTTAATAACAT
1 TAAGCCTACTAGACACAAAGCCTGAATAACAT
30862313 TCTGATTCAA
Statistics
Matches: 124, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 124 1.00
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.18
Consensus pattern (38 bp):
TAAGCCTACTAGACACAAAGCCTGAATAACATCGACAC
Found at i:30862299 original size:76 final size:76
Alignment explanation
Indices: 30862119--30862311 Score: 242
Period size: 76 Copynumber: 2.5 Consensus size: 76
30862109 AACCTTTATT
* * *
30862119 ACATGGGCAATAAGCCTACTAGGCACTAAGCCTGAATAACATCGACACTAAGCCTACTAGACACA
1 ACATAGGCAATAAGCCTACTAGGCACAAAGCCTGAATAACAGCGACACTAAGCCTACTAGACACA
30862184 AAGCCTGAATA
66 AAGCCTGAATA
** * * ** * * * *
30862195 ACACCGGCACTAATCCTACTAGAAACAAAGCCTGAATAGCAGCGACACTAAGCTTGCTAGAGACA
1 ACATAGGCAATAAGCCTACTAGGCACAAAGCCTGAATAACAGCGACACTAAGCCTACTAGACACA
30862260 AAGCCTGAATA
66 AAGCCTGAATA
* * *
30862271 ACATAGGCATTAAGCCTGCTAGGCACAAAGCCTTAATAACA
1 ACATAGGCAATAAGCCTACTAGGCACAAAGCCTGAATAACA
30862312 TTCTGATTCA
Statistics
Matches: 96, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
76 96 1.00
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (76 bp):
ACATAGGCAATAAGCCTACTAGGCACAAAGCCTGAATAACAGCGACACTAAGCCTACTAGACACA
AAGCCTGAATA
Found at i:30875276 original size:9 final size:9
Alignment explanation
Indices: 30875249--30875285 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
30875239 TGAGTTTTCG
30875249 AATTCGAAT
1 AATTCGAAT
* *
30875258 AACTCTAAT
1 AATTCGAAT
30875267 AATTCGAAT
1 AATTCGAAT
30875276 AATTCGAAT
1 AATTCGAAT
30875285 A
1 A
30875286 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30875533 original size:30 final size:31
Alignment explanation
Indices: 30875499--30875558 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
30875489 AAACCTTTTA
*
30875499 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
30875529 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
30875559 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:30879896 original size:29 final size:28
Alignment explanation
Indices: 30879864--30880098 Score: 186
Period size: 29 Copynumber: 8.1 Consensus size: 28
30879854 CTTTTGACTT
* * **
30879864 TCAACTATGGAAAGTGATGGTGACGACCA
1 TCAA-TATGAAAAGGGATGGTTTCGACCA
* * * **
30879893 TCAAATACGAAAAGGGATAGTTTTGAGTA
1 TC-AATATGAAAAGGGATGGTTTCGACCA
**
30879922 TCAACTATGAAAAGGGATGGTCACGACCA
1 TCAA-TATGAAAAGGGATGGTTTCGACCA
*
30879951 TCAACTATGAAAAGCGATGGTTTCGACCA
1 TCAA-TATGAAAAGGGATGGTTTCGACCA
* *
30879980 TCGATATGAAAAGGGATGGTTTCGACCCT
1 TCAATATGAAAAGGGATGGTTTCGA-CCA
* *
30880009 TGAATATGAAAAGGGATGGTGAT-GACCA
1 TCAATATGAAAAGGGATGGT-TTCGACCA
30880037 TCGAATATGGAAAAGGGATGGTTTCGACCA
1 TC-AATAT-GAAAAGGGATGGTTTCGACCA
* * *
30880067 TTGATTAAAGAAAAGGGATGGTTAT-GACCA
1 -TCAAT-ATGAAAAGGGATGGTT-TCGACCA
30880097 TC
1 TC
30880099 GTTTGACAAG
Statistics
Matches: 164, Mismatches: 32, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
28 25 0.15
29 94 0.57
30 42 0.26
31 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (28 bp):
TCAATATGAAAAGGGATGGTTTCGACCA
Found at i:30880096 original size:60 final size:57
Alignment explanation
Indices: 30879927--30880099 Score: 206
Period size: 57 Copynumber: 3.0 Consensus size: 57
30879917 GAGTATCAAC
** * * *
30879927 TATGAAAAGGGATGGTCACGACCA-TCAACTATGAAAAGCGATGGTT-TCGACCATCGA
1 TATGAAAAGGGATGGTTTCGACCATTGAA-TAAGAAAAGGGATGGTTAT-GACCATCGA
* * *
30879984 TATGAAAAGGGATGGTTTCGACCCTTGAATATGAAAAGGGATGGTGATGACCATCGAA
1 TATGAAAAGGGATGGTTTCGACCATTGAATAAGAAAAGGGATGGTTATGACCATCG-A
*
30880042 TATGGAAAAGGGATGGTTTCGACCATTGATTAAAGAAAAGGGATGGTTATGACCATCG
1 TAT-GAAAAGGGATGGTTTCGACCATTGAAT-AAGAAAAGGGATGGTTATGACCATCG
30880100 TTTGACAAGC
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
57 44 0.44
58 8 0.08
59 25 0.25
60 24 0.24
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.24
Consensus pattern (57 bp):
TATGAAAAGGGATGGTTTCGACCATTGAATAAGAAAAGGGATGGTTATGACCATCGA
Found at i:30883718 original size:29 final size:28
Alignment explanation
Indices: 30883686--30883783 Score: 133
Period size: 29 Copynumber: 3.3 Consensus size: 28
30883676 TATCGATTAG
*
30883686 GAAAACGGATGGTGACGAACATCAATAAT
1 GAAAA-GGATGGTGACGACCATCAATAAT
30883715 GAAAATGGATGGTGACGACCATCAATAAT
1 GAAAA-GGATGGTGACGACCATCAATAAT
*
30883744 GAAAAGGTATGGTGACGACCATCAAAATAT
1 GAAAAGG-ATGGTGACGACCATCAATA-AT
30883774 GAAAAAGGAT
1 G-AAAAGGAT
30883784 AGCTTCGGCT
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.03
29 50 0.79
30 5 0.08
31 6 0.10
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.18
Consensus pattern (28 bp):
GAAAAGGATGGTGACGACCATCAATAAT
Found at i:30883907 original size:149 final size:149
Alignment explanation
Indices: 30883713--30884034 Score: 382
Period size: 149 Copynumber: 2.2 Consensus size: 149
30883703 AACATCAATA
* * * *
30883713 ATGAAAATGGATGGTGACGACCATCAATAATGAAAAGGTATGGTGACGACCATCAAAATATGAAA
1 ATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACAACCATCAAAATATGAAA
* * * *
30883778 AAGGATAGCTTCGGCTATTGAAAT-ATGGAAACGGATAGCTTCA-G-CTATCGAAATATGAAAAG
66 AAGGATAGCTTCGACTA-TCAAATAATGAAAACGGAT-G-GTCACGACTATCGAAATATGAAAAG
* * *
30883840 GTATTGCTTCGGCTATCGAATT
128 GGATAGCTTCGGCTATCGAACT
* *
30883862 ATGAACAA-GGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACAACCATCGAATTATGAA
1 ATGAA-AAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACAACCATCAAAATATGAA
** * * * *
30883926 ATGGGATAGCTTTGACTATCAAATAATGAAAAGGGATGGTGACGACTATCGAATTATGAAAAGGG
65 AAAGGATAGCTTCGACTATCAAATAATGAAAACGGATGGTCACGACTATCGAAATATGAAAAGGG
30883991 ATAGCTTCGGCTATCGAACT
130 ATAGCTTCGGCTATCGAACT
* * *
30884011 AGGAAAAGGGATGGTTACTACCAT
1 ATGAAAAGGGATGGTGACGACCAT
30884035 TGGGATTCCA
Statistics
Matches: 147, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
147 2 0.01
148 9 0.06
149 134 0.91
150 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (149 bp):
ATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACAACCATCAAAATATGAAA
AAGGATAGCTTCGACTATCAAATAATGAAAACGGATGGTCACGACTATCGAAATATGAAAAGGGA
TAGCTTCGGCTATCGAACT
Found at i:30883955 original size:89 final size:90
Alignment explanation
Indices: 30883824--30883992 Score: 216
Period size: 89 Copynumber: 1.9 Consensus size: 90
30883814 AGCTTCAGCT
* * * * *
30883824 ATCGAAATATGAAAAGGTATTGCTTCGGCTATCGAATTATGAACAA-GGATGGTGACGACCATC-
1 ATCGAAATATGAAAAGGGATAGCTTCGACTATCAAATAATGAA-AAGGGATGGTGACGACCATCG
30883887 AACAATGAAAAGGGATGGTGACAACC
65 AACAATGAAAAGGGATGGTGACAACC
* * * *
30883913 ATCGAATTATGAAATGGGATAGCTTTGACTATCAAATAATGAAAAGGGATGGTGACGACTATCGA
1 ATCGAAATATGAAAAGGGATAGCTTCGACTATCAAATAATGAAAAGGGATGGTGACGACCATCGA
**
30883978 ATTATGAAAAGGGAT
66 ACAATGAAAAGGGAT
30883993 AGCTTCGGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
88 2 0.03
89 51 0.76
90 14 0.21
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (90 bp):
ATCGAAATATGAAAAGGGATAGCTTCGACTATCAAATAATGAAAAGGGATGGTGACGACCATCGA
ACAATGAAAAGGGATGGTGACAACC
Found at i:30883967 original size:60 final size:61
Alignment explanation
Indices: 30883890--30884034 Score: 195
Period size: 60 Copynumber: 2.4 Consensus size: 61
30883880 GACCATCAAC
* *
30883890 AATGAAAAGGGATGGTGACAACCATCGAATTATGAAATGGGATAGCTTTGACTATC-AAAT
1 AATGAAAAGGGATGGTGACAACCATCGAATTATGAAAAGGGATAGCTTCGACTATCGAAAT
* * * *
30883950 AATGAAAAGGGATGGTGACGACTATCGAATTATGAAAAGGGATAGCTTCGGCTATCGAACT
1 AATGAAAAGGGATGGTGACAACCATCGAATTATGAAAAGGGATAGCTTCGACTATCGAAAT
* * *
30884011 -AGGAAAAGGGATGGTTACTACCAT
1 AATGAAAAGGGATGGTGACAACCAT
30884035 TGGGATTCCA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
60 71 0.96
61 3 0.04
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.23
Consensus pattern (61 bp):
AATGAAAAGGGATGGTGACAACCATCGAATTATGAAAAGGGATAGCTTCGACTATCGAAAT
Found at i:30884005 original size:30 final size:30
Alignment explanation
Indices: 30883625--30884022 Score: 174
Period size: 30 Copynumber: 13.4 Consensus size: 30
30883615 TCATCGACCA
* *
30883625 ATGAAAAGGGATAGCTTCGTCTATTGAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * **
30883655 ATGAAAAAGGATAGCTTTGGTTATCG-ATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * * * *
30883684 AGGAAAACGGAT-GGTGACGAAC-ATC-AATA
1 ATGAAAAGGGATAGCT-TCG-ACTATCGAATT
* * * * *
30883713 ATGAAAATGGAT-GGTGACGACCATC-AATA
1 ATGAAAAGGGATAGCT-TCGACTATCGAATT
* * * * * *
30883742 ATGAAAAGGTAT-GGTGACGACCATCAAAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGAATT
* * * *
30883772 ATGAAAAAGGATAGCTTCGGCTATTGAAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * *
30883802 ATGGAAACGGATAGCTTC-AGCTATCGAAAT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAATT
* * *
30883832 ATGAAAAGGTATTGCTTCGGCTATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * * **
30883862 ATGAACAA-GGAT-GGTGACGACCATC-AACA
1 ATGAA-AAGGGATAGCT-TCGACTATCGAATT
* * * *
30883891 ATGAAAAGGGAT-GGTGACAACCATCGAATT
1 ATGAAAAGGGATAGCT-TCGACTATCGAATT
* * * *
30883921 ATGAAATGGGATAGCTTTGACTATCAAATA
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* *
30883951 ATGAAAAGGGAT-GGTGACGACTATCGAATT
1 ATGAAAAGGGATAGCT-TCGACTATCGAATT
* *
30883981 ATGAAAAGGGATAGCTTCGGCTATCGAACT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
*
30884011 AGGAAAAGGGAT
1 ATGAAAAGGGAT
30884023 GGTTACTACC
Statistics
Matches: 287, Mismatches: 66, Indels: 30
0.75 0.17 0.08
Matches are distributed among these distances:
28 6 0.02
29 93 0.32
30 180 0.63
31 8 0.03
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATT
Found at i:30886828 original size:20 final size:20
Alignment explanation
Indices: 30886805--30886858 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
30886795 AGTTTTTCCC
*
30886805 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
30886825 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
30886845 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
30886859 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:30886840 original size:30 final size:30
Alignment explanation
Indices: 30886805--30886878 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
30886795 AGTTTTTCCC
30886805 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
30886835 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
30886865 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
30886879 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:30886868 original size:20 final size:20
Alignment explanation
Indices: 30886805--30886869 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
30886795 AGTTTTTCCC
* * * *
30886805 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
30886825 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
30886844 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
30886865 AGCTC
1 AGCTC
30886870 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:30888486 original size:13 final size:13
Alignment explanation
Indices: 30888468--30888554 Score: 52
Period size: 13 Copynumber: 6.7 Consensus size: 13
30888458 TTGGAGTAAC
30888468 AAAAAAAAATCAA
1 AAAAAAAAATCAA
*
30888481 AAAAAAAATTCGAA
1 AAAAAAAAATC-AA
* **
30888495 AAAAAAATGATTGA
1 AAAAAAA-AATCAA
* *
30888509 AAAAACAATTCAA
1 AAAAAAAAATCAA
*
30888522 AAAAAAAGA--AA
1 AAAAAAAAATCAA
** *
30888533 AAAAAACGAGCAA
1 AAAAAAAAATCAA
30888546 AAAAAAAAA
1 AAAAAAAAA
30888555 AAGGTGACCA
Statistics
Matches: 54, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
11 10 0.19
13 27 0.50
14 16 0.30
15 1 0.02
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.09
Consensus pattern (13 bp):
AAAAAAAAATCAA
Found at i:30888510 original size:15 final size:14
Alignment explanation
Indices: 30888468--30888528 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
30888458 TTGGAGTAAC
30888468 AAAAAAAAA-TC-A
1 AAAAAAAAATTCGA
30888480 AAAAAAAAATTCGA
1 AAAAAAAAATTCGA
30888494 AAAAAAAATGATT-G-
1 AAAAAAAA--ATTCGA
*
30888508 AAAAAACAATTC-A
1 AAAAAAAAATTCGA
30888521 AAAAAAAA
1 AAAAAAAA
30888529 GAAAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
12 12 0.29
13 9 0.22
14 16 0.39
15 1 0.02
16 3 0.07
ACGTcount: A:0.75, C:0.07, G:0.05, T:0.13
Consensus pattern (14 bp):
AAAAAAAAATTCGA
Found at i:30889650 original size:17 final size:18
Alignment explanation
Indices: 30889618--30889651 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30889608 AAAAGAGAGT
*
30889618 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
30889636 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
30889652 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:30891075 original size:20 final size:20
Alignment explanation
Indices: 30891052--30891105 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
30891042 AGTTTTTCCC
*
30891052 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
30891072 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
30891092 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
30891106 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:30891087 original size:30 final size:30
Alignment explanation
Indices: 30891052--30891125 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
30891042 AGTTTTTCCC
30891052 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
30891082 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
30891112 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
30891126 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:30891115 original size:20 final size:20
Alignment explanation
Indices: 30891052--30891116 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
30891042 AGTTTTTCCC
* * * *
30891052 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
30891072 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
30891091 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
30891112 AGCTC
1 AGCTC
30891117 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:30898774 original size:27 final size:27
Alignment explanation
Indices: 30898744--30898864 Score: 125
Period size: 27 Copynumber: 4.4 Consensus size: 27
30898734 ATTGAGCCCT
* *
30898744 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAATCAACTCG
* *
30898771 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAATCAACTCG
* * *
30898798 CACACTTAGTGCCACATAGTCCATCTCG
1 CACACTTAGTGCTACATAAT-CAACTCG
** ** *
30898826 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAATCAACTCG
30898853 CACACTTAGTGC
1 CACACTTAGTGC
30898865 ATCATATCCA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 57 0.71
28 23 0.29
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.26
Consensus pattern (27 bp):
CACACTTAGTGCTACATAATCAACTCG
Found at i:30899302 original size:27 final size:27
Alignment explanation
Indices: 30899263--30899440 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
30899253 GCACACAGTC
* * * *
30899263 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
30899290 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30899317 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30899345 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30899372 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
30899399 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
30899426 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
30899441 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30899402 original size:82 final size:81
Alignment explanation
Indices: 30899284--30899439 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30899274 TGCTATATAA
* *
30899284 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTGAGTGCAACATAGTCAAA-TCGCA
30899349 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30899366 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
30899430 CCCTTAGTGC
65 CACTTAGTGC
30899440 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30905727 original size:768 final size:768
Alignment explanation
Indices: 30904220--30905968 Score: 3340
Period size: 768 Copynumber: 2.3 Consensus size: 768
30904210 AATTAAATAG
* * ** * * *
30904220 AAGTCCTAGGAATCCTTGAAATCTTG-AAGACTTCACAAATCCCTTCAAACGGCTCTAATCTTCC
1 AAGTCCTAAGAACCCTTGAAATCCCGAAAGAATTCACAAATTCCTTCAAACGGCTCTAATCTCCC
* *
30904284 CTCCAAAGAATATCGATGGTAAGAAGAAGGTTGAAGAAGGCTCCCACAATCACAAGATTGTTAAA
66 CTCCAAAGAATATCGATGGTAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAA
* * *
30904349 GCAACTTCTAAAGAAAGCTCAAGAGAGAACTCTTGGAGAAAACCCCAAAGAAAATTCTACACTTT
131 ACAACTTCTAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTACACTTT
30904414 AACAAAACTAAAATTTGATAAATTCTAAGTAGTGAATTACAAGGGGTGGCCGGCCATCACTTATA
196 AACAAAACTAAAATTTGATAAATTCTAAGTAGTGAATTACAAGGGGTGGCCGGCCATCACTTATA
30904479 TAGTGATCGAGGAATGCGCGTGGACCAAGATCGAGTCGTCAAGTCACGGGAAACTCCTACGAAAG
261 TAGTGATCGAGGAATGCGCGTGGACCAAGATCGAGTCGTCAAGTCACGGGAAACTCCTACGAAAG
30904544 CTCTAAACGAACAGATCTGAAAATTAAAACAAATAACAAGATTAAACTAATCAGACTTGAAATTA
326 CTCTAAACGAACAGATCTGAAAATTAAAACAAATAACAAGATTAAACTAATCAGACTTGAAATTA
30904609 AATCCCCAAATTCAATTAAATGAGCAGCAAGAAACAAAGAAATAGAATAAGCGAATCAAACGGAA
391 AATCCCCAAATTCAATTAAATGAGCAGCAAGAAACAAAGAAATAGAATAAGCGAATCAAACGGAA
30904674 TCGAAAGAAAGGAAAGGATGTGAATCTGCCAAGGGATTGATTCGGCCAAGAATGCCTAATTTCCA
456 TCGAAAGAAAGGAAAGGATGTGAATCTGCCAAGGGATTGATTCGGCCAAGAATGCCTAATTTCCA
30904739 GCAATCAATTGATCCCCAAATTGAAAGAGATTCAATCGGCCAAACCCTAGGAATTGGGGATTTTT
521 GCAATCAATTGATCCCCAAATTGAAAGAGATTCAATCGGCCAAACCCTAGGAATTGGGGATTTTT
30904804 GAGAACGACTCTTTGCTGCCAATGAATGATGATTTAATTCGATTCTTTGAGTTGAATATGGCTGG
586 GAGAACGACTCTTTGCTGCCAATGAATGATGATTTAATTCGATTCTTTGAGTTGAATATGGCTGG
30904869 AAAAGCAAAAGAAGAACAGCAAACAAATGAGATAAAGAATCGGCACAAGTAGGAATAAAGAAATA
651 AAAAGCAAAAGAAGAACAGCAAACAAATGAGATAAAGAATCGGCACAAGTAGGAATAAAGAAATA
30904934 AAACGAAACAGCAAGAAATAAAGAAAAGAAATTGAACAGCAAGAATAAAAGAT
716 AAACGAAACAGCAAGAAATAAAGAAAAGAAATTGAACAGCAAGAATAAAAGAT
30904987 AAGTCCTAAGAACCCTTGAAATCCCGAAAGAATTCACAAATTCCTTCAAACGGCTCTAATCTCCC
1 AAGTCCTAAGAACCCTTGAAATCCCGAAAGAATTCACAAATTCCTTCAAACGGCTCTAATCTCCC
30905052 CTCCAAAGAATATCGATGGTAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAA
66 CTCCAAAGAATATCGATGGTAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAA
30905117 ACAACTTCTAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTACACTTT
131 ACAACTTCTAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTACACTTT
30905182 AACAAAACTAAAATTTGATAAATTCTAAGTAGTGAATTACAAGGGGTGGCCGGCCATCACTTATA
196 AACAAAACTAAAATTTGATAAATTCTAAGTAGTGAATTACAAGGGGTGGCCGGCCATCACTTATA
30905247 TAGTGATCGAGGAATGCGCGTGGACCAAGATCGAGTCGTCAAGTCACGGGAAACTCCTACGAAAG
261 TAGTGATCGAGGAATGCGCGTGGACCAAGATCGAGTCGTCAAGTCACGGGAAACTCCTACGAAAG
30905312 CTCTAAACGAACAGATCTGAAAATTAAAACAAATAACAAGATTAAACTAATCAGACTTGAAATTA
326 CTCTAAACGAACAGATCTGAAAATTAAAACAAATAACAAGATTAAACTAATCAGACTTGAAATTA
30905377 AATCCCCAAATTCAATTAAATGAGCAGCAAGAAACAAAGAAATAGAATAAGCGAATCAAACGGAA
391 AATCCCCAAATTCAATTAAATGAGCAGCAAGAAACAAAGAAATAGAATAAGCGAATCAAACGGAA
30905442 TCGAAAGAAAGGAAAGGATGTGAATCTGCCAAGGGATTGATTCGGCCAAGAATGCCTAATTTCCA
456 TCGAAAGAAAGGAAAGGATGTGAATCTGCCAAGGGATTGATTCGGCCAAGAATGCCTAATTTCCA
30905507 GCAATCAATTGATCCCCAAATTGAAAGAGATTCAATCGGCCAAACCCTAGGAATTGGGGATTTTT
521 GCAATCAATTGATCCCCAAATTGAAAGAGATTCAATCGGCCAAACCCTAGGAATTGGGGATTTTT
30905572 GAGAACGACTCTTTGCTGCCAATGAATGATGATTTAATTCGATTCTTTGAGTTGAATATGGCTGG
586 GAGAACGACTCTTTGCTGCCAATGAATGATGATTTAATTCGATTCTTTGAGTTGAATATGGCTGG
30905637 AAAAGCAAAAGAAGAACAGCAAACAAATGAGATAAAGAATCGGCACAAGTAGGAATAAAGAAATA
651 AAAAGCAAAAGAAGAACAGCAAACAAATGAGATAAAGAATCGGCACAAGTAGGAATAAAGAAATA
30905702 AAACGAAACAGCAAGAAATAAAGAAAAGAAATTGAACAGCAAGAATAAAAGAT
716 AAACGAAACAGCAAGAAATAAAGAAAAGAAATTGAACAGCAAGAATAAAAGAT
30905755 AAGTCCTAAGAACCCTTGAAATCCCGAAAGAATTCACAAATTCCTTCAAACGGCTCTAATCTCCC
1 AAGTCCTAAGAACCCTTGAAATCCCGAAAGAATTCACAAATTCCTTCAAACGGCTCTAATCTCCC
30905820 CTCCAAAGAATATCGATGGTAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAA
66 CTCCAAAGAATATCGATGGTAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAA
* *
30905885 ACAACTTCTAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCAC-TC
131 ACAACTTCTAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTACACTTT
* *
30905949 AACAAATCTGAAATTTGATA
196 AACAAAACTAAAATTTGATA
30905969 GAAAAAAATA
Statistics
Matches: 965, Mismatches: 16, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
767 41 0.04
768 924 0.96
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.21
Consensus pattern (768 bp):
AAGTCCTAAGAACCCTTGAAATCCCGAAAGAATTCACAAATTCCTTCAAACGGCTCTAATCTCCC
CTCCAAAGAATATCGATGGTAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAA
ACAACTTCTAAAGAAAACTCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTACACTTT
AACAAAACTAAAATTTGATAAATTCTAAGTAGTGAATTACAAGGGGTGGCCGGCCATCACTTATA
TAGTGATCGAGGAATGCGCGTGGACCAAGATCGAGTCGTCAAGTCACGGGAAACTCCTACGAAAG
CTCTAAACGAACAGATCTGAAAATTAAAACAAATAACAAGATTAAACTAATCAGACTTGAAATTA
AATCCCCAAATTCAATTAAATGAGCAGCAAGAAACAAAGAAATAGAATAAGCGAATCAAACGGAA
TCGAAAGAAAGGAAAGGATGTGAATCTGCCAAGGGATTGATTCGGCCAAGAATGCCTAATTTCCA
GCAATCAATTGATCCCCAAATTGAAAGAGATTCAATCGGCCAAACCCTAGGAATTGGGGATTTTT
GAGAACGACTCTTTGCTGCCAATGAATGATGATTTAATTCGATTCTTTGAGTTGAATATGGCTGG
AAAAGCAAAAGAAGAACAGCAAACAAATGAGATAAAGAATCGGCACAAGTAGGAATAAAGAAATA
AAACGAAACAGCAAGAAATAAAGAAAAGAAATTGAACAGCAAGAATAAAAGAT
Found at i:30917551 original size:21 final size:21
Alignment explanation
Indices: 30917525--30917587 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
30917515 TTGGTATTTG
30917525 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
30917546 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
30917567 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
30917588 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:30944266 original size:24 final size:25
Alignment explanation
Indices: 30944239--30944285 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
30944229 ACTAGTCACA
30944239 GAGAGAATTGAGGAG-GAATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
*
30944263 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAGAGAATATT
30944286 GGGATTTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:30944998 original size:27 final size:27
Alignment explanation
Indices: 30944968--30945247 Score: 321
Period size: 27 Copynumber: 10.4 Consensus size: 27
30944958 ACCCTCAAAA
* * *
30944968 GGTAAAATGACTGAAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
30944995 GGTAAAATGACCGAAATATCCCC-GTAG
1 GGTAAAATGACCGTAAT-GCCCCTGTAG
* * * * *
30945022 GGTAGAAT-ACCGAAATACCCCTATAA
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
30945048 GGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
30945075 GGTAAAATAACCATAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
30945102 GGTGAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
30945129 GGTGAAATGACTGTAATGCCCGTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
30945156 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* ** *
30945183 GTTAAAATGTTCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
30945210 GGTAAAATGACCGTAATGTCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
30945237 GGTAAAATGAC
1 GGTAAAATGAC
30945248 GATATACTGC
Statistics
Matches: 215, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
25 4 0.02
26 17 0.08
27 190 0.88
28 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:30945412 original size:32 final size:32
Alignment explanation
Indices: 30945371--30945633 Score: 173
Period size: 32 Copynumber: 8.3 Consensus size: 32
30945361 GTGATGCTAT
*
30945371 TGATGGCTTTGTGCCGATCATAGTACCGTTAC
1 TGATGGCTTTGTGCCGATCATAGTACTGTTAC
* * * * *
30945403 TGATGGCTTTATGGCAATCATAGTATTATTAC
1 TGATGGCTTTGTGCCGATCATAGTACTGTTAC
* * * * *
30945435 TGATGCCTTTGTGTCGATCATATTACCGTTAT
1 TGATGGCTTTGTGCCGATCATAGTACTGTTAC
* * *
30945467 TGATGG-TTGTGTGCTGATCAT-TTCACTATTAC
1 TGATGGCTT-TGTGCCGATCATAGT-ACTGTTAC
* * *
30945499 GGATGGCTGTGTGCTGATCATA-TCACTGTTAC
1 TGATGGCTTTGTGCCGATCATAGT-ACTGTTAC
* **
30945531 TGATGGCTTTGTGCTGATCAT-GTTACCATTAC
1 TGATGGCTTTGTGCCGATCATAG-TACTGTTAC
* * *
30945563 TAATGG-TTGTGTGCCAATCATA-TCACTGCTAC
1 TGATGGCTT-TGTGCCGATCATAGT-ACTGTTAC
* * *
30945595 TAATGGCTTTGTGCC-ATCACATTACTG-TAC
1 TGATGGCTTTGTGCCGATCATAGTACTGTTAC
*
30945625 TTATGGCTT
1 TGATGGCTT
30945634 ATAGTCATTC
Statistics
Matches: 184, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
30 11 0.06
31 16 0.09
32 153 0.83
33 4 0.02
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATAGTACTGTTAC
Found at i:30945487 original size:64 final size:63
Alignment explanation
Indices: 30945371--30945608 Score: 205
Period size: 64 Copynumber: 3.7 Consensus size: 63
30945361 GTGATGCTAT
* * * *
30945371 TGATGGCTTTGTGCCGATCATAGTACCGTTACTGATGGCTTTATGGC-AATCATAGT-ATTATTA
1 TGATGGCTTTGTG-CGATCATATTACCGTTACTGATGGCTTTGT-GCTGATCAT-GTCACTATTA
30945434 C
63 C
* * *
30945435 TGATGCCTTTGTGTCGATCATATTACCGTTATTGATGG-TTGTGTGCTGATCATTTCACTATTAC
1 TGATGGCTTTGTG-CGATCATATTACCGTTACTGATGGCTT-TGTGCTGATCATGTCACTATTAC
* * * * * *
30945499 GGATGGCTGTGTGCTGATCATATCACTGTTACTGATGGCTTTGTGCTGATCATGTTACCATTAC
1 TGATGGCTTTGTGC-GATCATATTACCGTTACTGATGGCTTTGTGCTGATCATGTCACTATTAC
* * * * * *
30945563 TAATGG-TTGTGTGCCAATCATATCACTGCTACTAATGGCTTTGTGC
1 TGATGGCTT-TGTG-CGATCATATTACCGTTACTGATGGCTTTGTGC
30945609 CATCACATTA
Statistics
Matches: 144, Mismatches: 23, Indels: 14
0.80 0.13 0.08
Matches are distributed among these distances:
63 7 0.05
64 134 0.93
65 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (63 bp):
TGATGGCTTTGTGCGATCATATTACCGTTACTGATGGCTTTGTGCTGATCATGTCACTATTAC
Found at i:30945601 original size:96 final size:95
Alignment explanation
Indices: 30945431--30945633 Score: 221
Period size: 96 Copynumber: 2.1 Consensus size: 95
30945421 CATAGTATTA
* * * * ** * *
30945431 TTACTGATGCCTTTGTGTCGATCATATTACCGTTATTGATGGTTGTGTGCTGATCATTTCACTAT
1 TTACTGATGGCTTTGTGTCGATCATATTACCATTACTAATGGTTGTGTGCCAATCATATCACTAC
* * *
30945496 TACGGATGGCTGTGTGCTGATCATATCACTG
66 TACGAATGGCTGTGTGC-CATCACATCACTG
* *
30945527 TTACTGATGGCTTTGTG-CTGATCATGTTACCATTACTAATGGTTGTGTGCCAATCATATCACTG
1 TTACTGATGGCTTTGTGTC-GATCATATTACCATTACTAATGGTTGTGTGCCAATCATATCACTA
* * *
30945591 CTACTAATGGCTTTGTGCCATCACATTACTG
65 CTACGAATGGCTGTGTGCCATCACATCACTG
*
30945622 -TACTTATGGCTT
1 TTACTGATGGCTT
30945634 ATAGTCATTC
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
94 11 0.12
95 11 0.12
96 67 0.75
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (95 bp):
TTACTGATGGCTTTGTGTCGATCATATTACCATTACTAATGGTTGTGTGCCAATCATATCACTAC
TACGAATGGCTGTGTGCCATCACATCACTG
Found at i:30945668 original size:22 final size:22
Alignment explanation
Indices: 30945625--30945671 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
30945615 ATTACTGTAC
* *
30945625 TTATGGCTTATAGTCATTCTGT
1 TTATAGCTTATAGTCATCCTGT
30945647 TTATAGCTTATAG-CTATCCTGT
1 TTATAGCTTATAGTC-ATCCTGT
30945669 TTA
1 TTA
30945672 CGACTCTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (22 bp):
TTATAGCTTATAGTCATCCTGT
Found at i:30945736 original size:26 final size:26
Alignment explanation
Indices: 30945690--30945741 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
30945680 AGCCATTCTG
* *
30945690 ACTACTGGCAGCTCTACTACATTATT
1 ACTACTGGCAGCTATACTACAATATT
**
30945716 ACTACTGGCAGCTATGTTACAATATT
1 ACTACTGGCAGCTATACTACAATATT
30945742 GGTGTGAGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (26 bp):
ACTACTGGCAGCTATACTACAATATT
Found at i:30947129 original size:31 final size:31
Alignment explanation
Indices: 30947094--30947154 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
30947084 AGCTAGGTAA
30947094 TCACCCATAATTAAGATTCGATTCACTCTAC
1 TCACCCATAATTAAGATTCGATTCACTCTAC
30947125 TCACCCATAATTAAGATTCGATTCACTCTA
1 TCACCCATAATTAAGATTCGATTCACTCTA
30947155 TTCTTCTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.33
Consensus pattern (31 bp):
TCACCCATAATTAAGATTCGATTCACTCTAC
Found at i:30956786 original size:41 final size:41
Alignment explanation
Indices: 30956735--30956871 Score: 202
Period size: 41 Copynumber: 3.3 Consensus size: 41
30956725 ATAGGGGAAT
* *
30956735 GTATGTGCAATTCAGGGGTACCAAAGTACAAACAAGGGAAC
1 GTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCAC
* *** *
30956776 ATATGTGCAATTCAGGGGTATTGAAGTACAAATAGGGGCAC
1 GTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCAC
*
30956817 GTATGTGCAATTCAAGGGTACCAAAGTACAAACAGGGGCAC
1 GTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCAC
30956858 GTATGTGCAATTCA
1 GTATGTGCAATTCA
30956872 TCATTTTTCT
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (41 bp):
GTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCAC
Found at i:30966524 original size:23 final size:22
Alignment explanation
Indices: 30966472--30966524 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
30966462 TCCACGTCTT
*
30966472 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
30966494 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
30966517 TTTCTTTT
1 TTTCTTTT
30966525 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:30973237 original size:20 final size:19
Alignment explanation
Indices: 30973214--30973278 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
30973204 AAGCTCAAAC
30973214 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
30973234 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
30973254 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
30973274 GAGCT
1 GAGCT
30973279 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:30975051 original size:86 final size:86
Alignment explanation
Indices: 30974941--30975115 Score: 350
Period size: 86 Copynumber: 2.0 Consensus size: 86
30974931 GAAAGGTAAT
30974941 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
1 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
30975006 TTCGAAAGGGGGTTAGCAAAA
66 TTCGAAAGGGGGTTAGCAAAA
30975027 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
1 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
30975092 TTCGAAAGGGGGTTAGCAAAA
66 TTCGAAAGGGGGTTAGCAAAA
30975113 GAA
1 GAA
30975116 TTCCTCTCTT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (86 bp):
GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
TTCGAAAGGGGGTTAGCAAAA
Found at i:30975228 original size:6 final size:6
Alignment explanation
Indices: 30975219--30975322 Score: 73
Period size: 6 Copynumber: 16.8 Consensus size: 6
30975209 TCTTTTTTCG
* * * **
30975219 CTTTTT CTTTTT CAATTTT CATTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
30975270 CAATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
30975318 GTTTT
1 CTTTT
30975323 CGAAAAAAAT
Statistics
Matches: 73, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
6 60 0.82
7 10 0.14
8 3 0.04
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (6 bp):
CTTTTT
Found at i:30975231 original size:21 final size:21
Alignment explanation
Indices: 30975202--30975257 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
30975192 CAAGCTCTCT
* *
30975202 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-ATTTC
* **
30975223 TTCTTTTTCAATTTTCATTTC
1 TTCATTTTCTTTTTTCATTTC
30975244 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
30975258 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.70
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCATTTC
Found at i:30975285 original size:18 final size:18
Alignment explanation
Indices: 30975219--30975322 Score: 91
Period size: 18 Copynumber: 5.6 Consensus size: 18
30975209 TCTTTTTTCG
30975219 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTCAA-TTT
* **
30975238 CATTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCAATTT
* **
30975258 CTCTCACTTTTTCAATTT
1 CTTTTTCTTTTTCAATTT
*
30975276 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCAATTT
**
30975294 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCAATTT
*
30975312 CTTTTTGTTTT
1 CTTTTTCTTTT
30975323 CGAAAAAAAT
Statistics
Matches: 66, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
18 48 0.73
19 3 0.05
20 7 0.11
21 8 0.12
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (18 bp):
CTTTTTCTTTTTCAATTT
Found at i:30975321 original size:11 final size:12
Alignment explanation
Indices: 30975207--30975323 Score: 60
Period size: 12 Copynumber: 9.3 Consensus size: 12
30975197 TCTCTTTCAA
30975207 TTTCTTTTTTCGCTT
1 TTTC-TTTTTCG--T
*
30975222 TTTCTTTTTCAAT
1 TTTCTTTTTC-GT
*
30975235 TTTCATTTCTTCAT
1 TTTC-TTT-TTCGT
30975249 TTTCTTTTTC-T
1 TTTCTTTTTCGT
** **
30975260 CTCACTTTTTCAA
1 -TTTCTTTTTCGT
30975273 TTTCTTTTTC-T
1 TTTCTTTTTCGT
** *
30975284 TTTGCAATTTCTT
1 TTT-CTTTTTCGT
30975297 TTTCTTTTTCGT
1 TTTCTTTTTCGT
30975309 TTTCTTTTT-GT
1 TTTCTTTTTCGT
30975320 TTTC
1 TTTC
30975324 GAAAAAAATG
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
11 10 0.12
12 39 0.47
13 12 0.14
14 15 0.18
15 7 0.08
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTCTTTTTCGT
Found at i:30985878 original size:14 final size:14
Alignment explanation
Indices: 30985859--30985887 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30985849 ATTAAAGATG
30985859 AAATAACTACACTA
1 AAATAACTACACTA
30985873 AAATAACTACACTA
1 AAATAACTACACTA
30985887 A
1 A
30985888 GGGCACTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAACTACACTA
Found at i:30987774 original size:277 final size:273
Alignment explanation
Indices: 30987314--30988004 Score: 994
Period size: 277 Copynumber: 2.5 Consensus size: 273
30987304 AAGACATGGA
* * * *
30987314 AATTAATATATGAATTTAATTCAGACAAAATATTAATTGTATATATTTTATAGAATTTATTAATA
1 AATTAATATATGAATTTGATTTATACAAAATATTAATTGTATATATTTTACAGAATTTATTAATA
* *
30987379 TAAATAGTTTAATTAATTAATTTCGGTCAAAATATAAAAGATAT-GAAATTTAATATTCTTTTGG
66 TAAATAATTT-ATTAATTAATTTCGGTCAAAATATAAAAGATATGGAAA-TTAATATTATTTTGG
* * * * * *
30987443 AAAGAATATAATTAATATATGAATTTGATTTATACAAAATATTAATTTTATATATTTTACCGATT
129 AAAGAATATAATTAATATATAAATTTGATTCATACAAAATATGAA--TTATATATATCACCGAAT
* *
30987508 TTAGTAATATAAACAGTTATATTAAATAATTTCGGTCAAAATAT-AAAAGACATGGAAATTAATA
192 TTAGTAATATAAACAGTTATATTAAATAATTTCAGTCAAAATATAAAAAAACATGGAAATTAATA
30987572 TTCTTTTGGAAAGAATAT
257 TT-TTTTGGAAAGAATAT
* * *
30987590 AATTAATATATGAATTTGATTTATACAAAATATTTAATTGTATACATTTTACCGAATTCATTAAT
1 AATTAATATATGAATTTGATTTATACAAAATA-TTAATTGTATATATTTTACAGAATTTATTAAT
* * * *
30987655 ATAAATAATTCTATTAATTAATTTCGGTTAAAATATAAAAGACATGGAAATTAAAATTTTTTTGG
65 ATAAATAATT-TATTAATTAATTTCGGTCAAAATATAAAAGATATGGAAATTAATATTATTTTGG
30987720 AAAGAATATAATTAATATATAAATTTGATTCATACAAAATATGAATTATATATATCACCGAATTT
129 AAAGAATATAATTAATATATAAATTTGATTCATACAAAATATGAATTATATATATCACCGAATTT
* * *
30987785 ATTAATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAAAATATGGAAATTAATATT
194 AGTAATATAAACAGTTATATTAAATAATTTCAGTCAAAATATAAAAAAACATGGAAATTAATATT
30987850 TTTTGGAAAGAATAT
259 TTTTGGAAAGAATAT
* * *
30987865 AATTAATATATGAATTTGATTTATACAAATTATTAA--CTATATATATTACAGAATTTATTAATA
1 AATTAATATATGAATTTGATTTATACAAAATATTAATTGTATATATTTTACAGAATTTATTAATA
* * * * *
30987928 TAAACATTTATATTAATTAATTTCAGTCAAAATATAAAAGATGTGGAAATTAATATTATTTTGAA
66 TAAATAATT-TATTAATTAATTTCGGTCAAAATATAAAAGATATGGAAATTAATATTATTTTGGA
30987993 AAGAATATAATT
130 AAGAATATAATT
30988005 CATTTTTCTA
Statistics
Matches: 372, Mismatches: 39, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
272 89 0.24
274 4 0.01
275 102 0.27
276 49 0.13
277 123 0.33
278 5 0.01
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (273 bp):
AATTAATATATGAATTTGATTTATACAAAATATTAATTGTATATATTTTACAGAATTTATTAATA
TAAATAATTTATTAATTAATTTCGGTCAAAATATAAAAGATATGGAAATTAATATTATTTTGGAA
AGAATATAATTAATATATAAATTTGATTCATACAAAATATGAATTATATATATCACCGAATTTAG
TAATATAAACAGTTATATTAAATAATTTCAGTCAAAATATAAAAAAACATGGAAATTAATATTTT
TTGGAAAGAATAT
Found at i:30987852 original size:136 final size:137
Alignment explanation
Indices: 30987314--30988004 Score: 969
Period size: 136 Copynumber: 5.0 Consensus size: 137
30987304 AAGACATGGA
* * * **
30987314 AATTAATATATGAATTTAATTCAGACAAAATATTAATTGTATATATTTTATAGAATTTATTAATA
1 AATTAATATATGAATTTGATTTATACAAAATATTAATT-TATATATTTTACCGAATTTATTAATA
*
30987379 TAAATAGTT-TAATTAATTAATTTCGGTCAAAATATAAAAGATAT-GAAATTTAATATTCTTTTG
65 TAAACAGTTAT-ATTAATTAATTTCGGTCAAAATATAAAAGATATGGAAA-TTAATATTCTTTTG
30987442 GAAAGAATAT
128 GAAAGAATAT
* *
30987452 AATTAATATATGAATTTGATTTATACAAAATATTAATTTTATATATTTTACCGATTTTAGTAATA
1 AATTAATATATGAATTTGATTTATACAAAATATTAA-TTTATATATTTTACCGAATTTATTAATA
* *
30987517 TAAACAGTTATATTAAATAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
65 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGATATGGAAATTAATATTCTTTTGGA
30987582 AAGAATAT
130 AAGAATAT
* *
30987590 AATTAATATATGAATTTGATTTATACAAAATATTTAATTGTATACATTTTACCGAATTCATTAAT
1 AATTAATATATGAATTTGATTTATACAAAATA-TTAATT-TATATATTTTACCGAATTTATTAAT
* * * * * * *
30987655 ATAAATAATTCTATTAATTAATTTCGGTTAAAATATAAAAGACATGGAAATTAAAATTTTTTTGG
64 ATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGATATGGAAATTAATATTCTTTTGG
30987720 AAAGAATAT
129 AAAGAATAT
* * * * *
30987729 AATTAATATATAAATTTGATTCATACAAAATATGAA-TTATATATATCACCGAATTTATTAATAT
1 AATTAATATATGAATTTGATTTATACAAAATATTAATTTATATATTTTACCGAATTTATTAATAT
* *
30987793 AAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAAAATATGGAAATTAATATT-TTTTGGA
66 AAACAGTTATATTAATTAATTTCGGTCAAAATAT-AAAAGATATGGAAATTAATATTCTTTTGGA
30987857 AAGAATAT
130 AAGAATAT
* * * *
30987865 AATTAATATATGAATTTGATTTATACAAATTATTAA-CTATATATATTACAGAATTTATTAATAT
1 AATTAATATATGAATTTGATTTATACAAAATATTAATTTATATATTTTACCGAATTTATTAATAT
* * * * *
30987929 AAACATTTATATTAATTAATTTCAGTCAAAATATAAAAGATGTGGAAATTAATATTATTTTGAAA
66 AAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGATATGGAAATTAATATTCTTTTGGAA
30987994 AGAATAT
131 AGAATAT
30988001 AATT
1 AATT
30988005 CATTTTTCTA
Statistics
Matches: 499, Mismatches: 47, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
135 20 0.04
136 175 0.35
137 20 0.04
138 155 0.31
139 129 0.26
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (137 bp):
AATTAATATATGAATTTGATTTATACAAAATATTAATTTATATATTTTACCGAATTTATTAATAT
AAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGATATGGAAATTAATATTCTTTTGGAA
AGAATAT
Found at i:30989347 original size:33 final size:33
Alignment explanation
Indices: 30989238--30989348 Score: 101
Period size: 33 Copynumber: 3.5 Consensus size: 33
30989228 TATGTAAAAT
*
30989238 TAATGATATATAAAATATTTT-ATAA-TTAA-A
1 TAATGATACATAAAATATTTTAATAATTTAATA
* *
30989268 T-ATAAT-CA-ATAATATTTTAATAATTTAATA
1 TAATGATACATAAAATATTTTAATAATTTAATA
* *
30989298 TAATGATACATGAAATATTTTAA-ATTTTTAATA
1 TAATGATACATAAAATATTTTAATA-ATTTAATA
* *
30989331 TAATGCTATATAAAATAT
1 TAATGATACATAAAATAT
30989349 AAATTAATCT
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
27 9 0.14
28 5 0.08
29 8 0.12
30 3 0.05
31 4 0.06
32 3 0.05
33 32 0.50
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.44
Consensus pattern (33 bp):
TAATGATACATAAAATATTTTAATAATTTAATA
Found at i:30993966 original size:20 final size:21
Alignment explanation
Indices: 30993923--30993993 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
30993913 TTAAAAGCAC
30993923 ATAAAATATTATTTAAAAATT
1 ATAAAATATTATTTAAAAATT
30993944 ATAAAATATT-TTTCAAAAA-T
1 ATAAAATATTATTT-AAAAATT
*
30993964 ATAAAATA--ATTAAAATAATT
1 ATAAAATATTATTTAAA-AATT
30993984 ATAGAAATAT
1 ATA-AAATAT
30993994 AAATAATTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
18 3 0.07
19 4 0.09
20 16 0.37
21 20 0.47
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (21 bp):
ATAAAATATTATTTAAAAATT
Found at i:30994693 original size:17 final size:17
Alignment explanation
Indices: 30994671--30994733 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
30994661 ATTTTTAATT
*
30994671 TTAAAATATATAAAATC
1 TTAAAATATATAAAATA
* * *
30994688 TTAAAAAATAAAAAAAA
1 TTAAAATATATAAAATA
*
30994705 TTATAAATTTATAAAAATA
1 TTA-AAATATAT-AAAATA
30994724 TTAAAA-ATAT
1 TTAAAATATAT
30994734 TATTTGAAAC
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
17 19 0.54
18 8 0.23
19 8 0.23
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAAATATATAAAATA
Found at i:30995251 original size:16 final size:16
Alignment explanation
Indices: 30995230--30995264 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30995220 TAGTATATTT
30995230 TTTTATAT-TTTTAAGA
1 TTTTATATATTTTAA-A
30995246 TTTTATATATTTTAAA
1 TTTTATATATTTTAAA
30995262 TTT
1 TTT
30995265 CAAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTTATATATTTTAAA
Found at i:30995818 original size:9 final size:9
Alignment explanation
Indices: 30995804--30995843 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
30995794 ACCATTTATA
*
30995804 TTTCTCATT
1 TTTCTCACT
30995813 TTTCTCACT
1 TTTCTCACT
*
30995822 TTTTTCACT
1 TTTCTCACT
30995831 TTTCTCACT
1 TTTCTCACT
30995840 TTTC
1 TTTC
30995844 AAGGATTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTCTCACT
Found at i:30996321 original size:12 final size:12
Alignment explanation
Indices: 30996304--30996352 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
30996294 TAGAGATTGA
30996304 TTCAAGACTGAT
1 TTCAAGACTGAT
*
30996316 TTCAAGACTTATTT
1 TTCAAGACTGA--T
30996330 GATTCAAGACTGAT
1 --TTCAAGACTGAT
30996344 TTCAAGACT
1 TTCAAGACT
30996353 TATCTTGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
12 19 0.61
14 2 0.06
16 10 0.32
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (12 bp):
TTCAAGACTGAT
Found at i:30996340 original size:28 final size:29
Alignment explanation
Indices: 30996300--30996360 Score: 115
Period size: 28 Copynumber: 2.1 Consensus size: 29
30996290 AATATAGAGA
30996300 TTGATTCAAGACTGATTTCAAGACTTAT-
1 TTGATTCAAGACTGATTTCAAGACTTATC
30996328 TTGATTCAAGACTGATTTCAAGACTTATC
1 TTGATTCAAGACTGATTTCAAGACTTATC
30996357 TTGA
1 TTGA
30996361 AGATTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (29 bp):
TTGATTCAAGACTGATTTCAAGACTTATC
Found at i:30998579 original size:50 final size:49
Alignment explanation
Indices: 30998514--30998608 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 49
30998504 TACTATGTAA
* *
30998514 TGCTAAACTTGGTCTTTCACTATCTACACTCTTATCACTATTTATACAT
1 TGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTTATACAT
* * *
30998563 TGCTAGAACTTAGTCTTCCATTGTCTCCACTCTTATCACTATTTAT
1 TGCTA-AACTTAGTCTTCCACTATCTACACTCTTATCACTATTTAT
30998609 CCTTTCTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 5 0.12
50 35 0.88
ACGTcount: A:0.24, C:0.25, G:0.07, T:0.43
Consensus pattern (49 bp):
TGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTTATACAT
Found at i:31003835 original size:23 final size:24
Alignment explanation
Indices: 31003817--31003863 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
31003807 TCCTGTACAT
31003817 GTATGCTCACACGAGCTGTGAATCA
1 GTATGCTCACACGAGCTGTGAAT-A
* *
31003842 GTATGCTCACATGAGCTATGAA
1 GTATGCTCACACGAGCTGTGAA
31003864 AATGGGCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
GTATGCTCACACGAGCTGTGAATA
Found at i:31010348 original size:26 final size:26
Alignment explanation
Indices: 31010319--31010399 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
31010309 TGGAGGAAGT
*
31010319 ATACTGTTACTAGCAGCTTTGTTGCG
1 ATACTGTTACTGGCAGCTTTGTTGCG
* *
31010345 ATACTGTTACTGGCAACTTTGTTGTG
1 ATACTGTTACTGGCAGCTTTGTTGCG
* * *
31010371 ATACTATTACTGGCAGTTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGTTGCG
31010397 ATA
1 ATA
31010400 TTAGTGTGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGTTGCG
Found at i:31010543 original size:33 final size:33
Alignment explanation
Indices: 31010497--31010560 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
31010487 GCATTATTGA
*
31010497 ACTGTACTATTACT-ATATTGGGCTAAGGCCCAC
1 ACTGTACTATTACTGAT-TAGGGCTAAGGCCCAC
* * *
31010530 ACTGTATTGTTACTGATTAGGGCTTAGGCCC
1 ACTGTACTATTACTGATTAGGGCTAAGGCCC
31010561 GAACTATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (33 bp):
ACTGTACTATTACTGATTAGGGCTAAGGCCCAC
Done.