Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 314 of 378
Found at i:95583064 original size:44 final size:45
Alignment explanation
Indices: 95582972--95583098 Score: 145
Period size: 44 Copynumber: 2.9 Consensus size: 45
95582962 AGGCCGGTGG
* *
95582972 CTTCAATCTACTTCAC-GTAACTTC-AGGAAGATAAGATCCACCAT
1 CTTCAATCTACTCCACTGTAACTTCAAGG-AGATAAGATTCACCAT
* *
95583016 CTTCAATCTACTCCACTGTAACTTCAAGGAGATAAGATTCGCGA-
1 CTTCAATCTACTCCACTGTAACTTCAAGGAGATAAGATTCACCAT
* * *
95583060 CTTCAATCTGCTCCACTGCT-ACTTCAGGGAAATAAGATT
1 CTTCAATCTACTCCACTG-TAACTTCAAGGAGATAAGATT
95583099 TGTATATTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
44 49 0.67
45 21 0.29
46 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGTAACTTCAAGGAGATAAGATTCACCAT
Found at i:95583487 original size:46 final size:46
Alignment explanation
Indices: 95583446--95583593 Score: 188
Period size: 46 Copynumber: 3.2 Consensus size: 46
95583436 AATTTGTGGG
* *
95583446 TTCTTCCATCCATCTCACTGCAACTCAAGGGTATAGAATTTGTACC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGAATTTGTACC
* * * * * *
95583492 ATCTTCAATCCATCCCATTGCAGCTCAGGGGTATAGGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGAATTTGTACC
* * * *
95583538 TTCTTCAATCCATCCCACTGCAATTCAGGGGTATAGGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGAATTTGTACC
95583584 TTCTTCAATC
1 TTCTTCAATC
95583594 AATTTGCTCT
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 90 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGAATTTGTACC
Found at i:95584770 original size:15 final size:15
Alignment explanation
Indices: 95584744--95584782 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
95584734 AATAAGAATA
*
95584744 AAAATAAATAATATGT
1 AAAAT-AATAATATAT
95584760 AAAATAATAATATAT
1 AAAATAATAATATAT
*
95584775 AAATTAAT
1 AAAATAAT
95584783 TTTAAGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAATAATAATATAT
Found at i:95587157 original size:88 final size:86
Alignment explanation
Indices: 95587055--95587345 Score: 216
Period size: 88 Copynumber: 3.3 Consensus size: 86
95587045 ATCATTAGTA
*
95587055 TACTCCCTTGCTACCTCAGGAAGATAAGACTACAATATCCAGCCTACTCCCTTGCTACCTCAGGG
1 TACTCCCTTGCTACCTCAGGAAGATAAGACTACAAT-TCTAGCCT-CTCCCTTGCTACCTCAGGG
95587120 AGATAAGGCTAGTGGCTAAAATC
64 AGATAAGGCTAGTGGCTAAAATC
* * * * * * * * * *
95587143 TACT-CCTCTGCTACCTCGGGAAGATAAGATTCGCAATTTTTGATCTGTCCCACTGCTATCT-TG
1 TACTCCCT-TGCTACCTCAGGAAGATAAGACT-ACAATTCTAG-CCTCTCCC-TTGCTACCTCAG
* * * * *
95587206 AGGAGACAAGATCTACAT--C-ATCAGTC
62 -GGAGATAAG-GCTA-GTGGCTA-AAATC
* * * * *
95587232 TGCTCCCTTGCTACCTAAGGAAGATAATACTACAATCTCTAGCCTGCTCCATTGCTACCTCAAGG
1 TACTCCCTTGCTACCTCAGGAAGATAAGACTACAAT-TCTAGCCT-CTCCCTTGCTACCTCAGGG
95587297 AGATAAGGCTAGTGGCTAAAATC
64 AGATAAGGCTAGTGGCTAAAATC
* *
95587320 TACT-TCTCTGCTACCTCGGGAAGATA
1 TACTCCCT-TGCTACCTCAGGAAGATA
95587346 TGGTTTGCCA
Statistics
Matches: 147, Mismatches: 40, Indels: 32
0.67 0.18 0.15
Matches are distributed among these distances:
86 1 0.01
87 8 0.05
88 77 0.52
89 54 0.37
90 6 0.04
91 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (86 bp):
TACTCCCTTGCTACCTCAGGAAGATAAGACTACAATTCTAGCCTCTCCCTTGCTACCTCAGGGAG
ATAAGGCTAGTGGCTAAAATC
Found at i:95587212 original size:177 final size:176
Alignment explanation
Indices: 95586887--95587437 Score: 705
Period size: 177 Copynumber: 3.1 Consensus size: 176
95586877 ACCTTCAGTC
* * * * * *
95586887 TGCTCCCTTAGGAAAATGAGACTACAATCTTCAGCTTGCTCCCTTGCTACCT-AGGGAGATAAGG
1 TGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCTCCCTTGCTACCTCAGGGAGATAAGG
* * * * * **
95586951 TTGGTGGCTAAAATCTGCTCTCCTACTACCTCGGGAAGATAAGATTCACCGCTTTCAATCT-ACC
66 CTAGTGGCTAAAATCTACTCT-CTGCTACCTCGGGAAGATAAGATTCGCCATTTTCAATCTGACC
* * * *
95587015 CTACTACTATCTCT-AGGAGACAAAATCTGA-ATCATTAGTATACTCCCT
130 C-ACTGCTATCT-TGAGGAGACAAGATCT-ACATCATTAGTCTGCTCCCT
* *
95587063 TGCTACCTCAGGAAGATAAGACTACAATATCCAGCCTACTCCCTTGCTACCTCAGGGAGATAAGG
1 TGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCTCCCTTGCTACCTCAGGGAGATAAGG
* ** *
95587128 CTAGTGGCTAAAATCTACTCCTCTGCTACCTCGGGAAGATAAGATTCGCAATTTTTGATCTGTCC
66 CTAGTGGCTAAAATCTACT-CTCTGCTACCTCGGGAAGATAAGATTCGCCATTTTCAATCTGACC
*
95587193 CACTGCTATCTTGAGGAGACAAGATCTACATCATCAGTCTGCTCCCT
130 CACTGCTATCTTGAGGAGACAAGATCTACATCATTAGTCTGCTCCCT
* * * * *
95587240 TGCTACCTAAGGAAGATAATACTACAATCTCTAGCCTGCTCCATTGCTACCTCAAGGAGATAAGG
1 TGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCTCCCTTGCTACCTCAGGGAGATAAGG
* * * *
95587305 CTAGTGGCTAAAATCTACTTCTCTGCTACCTCGGGAAGATATGGTTTGCCATTTTCAATCTGCCC
66 CTAGTGGCTAAAATCTAC-TCTCTGCTACCTCGGGAAGATAAGATTCGCCATTTTCAATCTGACC
* *
95587370 CACTGTTATCTCGAGGAGACAAGATCTACATCATTAGTCTGCTCCCT
130 CACTGCTATCTTGAGGAGACAAGATCTACATCATTAGTCTGCTCCCT
95587417 TGCTACCTCAGGAAGATAAGA
1 TGCTACCTCAGGAAGATAAGA
95587438 TCTGTAATTT
Statistics
Matches: 326, Mismatches: 43, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
176 46 0.14
177 274 0.84
178 6 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (176 bp):
TGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCTCCCTTGCTACCTCAGGGAGATAAGG
CTAGTGGCTAAAATCTACTCTCTGCTACCTCGGGAAGATAAGATTCGCCATTTTCAATCTGACCC
ACTGCTATCTTGAGGAGACAAGATCTACATCATTAGTCTGCTCCCT
Found at i:95592231 original size:24 final size:24
Alignment explanation
Indices: 95592107--95592229 Score: 210
Period size: 24 Copynumber: 5.1 Consensus size: 24
95592097 GCAAAGACCA
95592107 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
95592131 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
95592155 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
95592179 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
95592203 TATAGCACTATGTGTGCGATTTCC
1 TATGGCACTATGTGTGCGATTTAC
95592227 TAT
1 TAT
95592230 AGTCACATTC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 94 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:95599131 original size:19 final size:20
Alignment explanation
Indices: 95599107--95599151 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
95599097 TGGTGGACTT
* *
95599107 TAATGCATATG-ATGTAATG
1 TAATGCAGATGCATGAAATG
95599126 TAATGCAGATGCATGAAATG
1 TAATGCAGATGCATGAAATG
95599146 -AATGCA
1 TAATGCA
95599152 AAAGGTGTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (20 bp):
TAATGCAGATGCATGAAATG
Found at i:95603175 original size:31 final size:31
Alignment explanation
Indices: 95603109--95603178 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
95603099 CATATAAATC
*
95603109 TTTAAAACAAAAAATATACATAAAAGAGAAT
1 TTTAAAACAAAAAATATACATAAAAAAGAAT
* *
95603140 TTTAAAATAAATAAAT-TACATAATAAAATAAT
1 TTTAAAACAAA-AAATATACATAA-AAAAGAAT
*
95603172 TTAAAAA
1 TTTAAAA
95603179 TATACAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 17 0.52
32 16 0.48
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (31 bp):
TTTAAAACAAAAAATATACATAAAAAAGAAT
Found at i:95603179 original size:32 final size:31
Alignment explanation
Indices: 95603112--95603180 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
95603102 ATAAATCTTT
* * *
95603112 AAAACAAAAAATATACATAAAAGAGAATTTT
1 AAAATAAAAAATATACATAAAAAAGAATTTA
*
95603143 AAAATAAATAAAT-TACATAATAAAATAATTTA
1 AAAATAAA-AAATATACATAA-AAAAGAATTTA
95603175 AAAATA
1 AAAATA
95603181 TACAAAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 14 0.44
32 18 0.56
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (31 bp):
AAAATAAAAAATATACATAAAAAAGAATTTA
Found at i:95604764 original size:53 final size:53
Alignment explanation
Indices: 95604681--95604827 Score: 231
Period size: 53 Copynumber: 2.8 Consensus size: 53
95604671 GGGAGCATAG
* *
95604681 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTAA
1 CTCGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAA
* * * *
95604734 CTTGAAATAAATAAGTTAATCAAATATAGCAAATGTAATAAGAAGGGAATTAA
1 CTCGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAA
*
95604787 CTCGAAATGAGTAAGTTAATCAAAGATAGCAAATGTAATAA
1 CTCGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAA
95604828 AGGTAAGATG
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 84 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (53 bp):
CTCGAAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAA
Found at i:95605128 original size:12 final size:12
Alignment explanation
Indices: 95605099--95605128 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
95605089 TTGGCCTCTA
95605099 TTTTTTCCTTTT
1 TTTTTTCCTTTT
*
95605111 TCTTTTCCTTTT
1 TTTTTTCCTTTT
95605123 TTTTTT
1 TTTTTT
95605129 GAAAATACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTCCTTTT
Found at i:95609164 original size:5 final size:5
Alignment explanation
Indices: 95609156--95609180 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
95609146 ATGTAATCAT
95609156 AAACA AAACA AAACA AAACA AAACA
1 AAACA AAACA AAACA AAACA AAACA
95609181 CATCAGTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:95610598 original size:3 final size:3
Alignment explanation
Indices: 95610592--95610640 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
95610582 TAAAAAAACG
** * *
95610592 ATA ATA ATA GCA ATA ATA ATA ATA ACA ACA ATA ATA ATA ATGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
95610638 ATA
1 ATA
95610641 TAAAATTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:95610612 original size:15 final size:15
Alignment explanation
Indices: 95610592--95610631 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
95610582 TAAAAAAACG
* *
95610592 ATAATAATAGCAATA
1 ATAATAATAACAACA
95610607 ATAATAATAACAACA
1 ATAATAATAACAACA
95610622 ATAATAATAA
1 ATAATAATAA
95610632 TGAATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (15 bp):
ATAATAATAACAACA
Found at i:95610615 original size:18 final size:18
Alignment explanation
Indices: 95610592--95610638 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
95610582 TAAAAAAACG
*
95610592 ATAATAATAGCAATAATA
1 ATAATAATAACAATAATA
*
95610610 ATAATAACAACAATAATA
1 ATAATAATAACAATAATA
95610628 ATAATGAATAA
1 ATAAT-AATAA
95610639 TATAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (18 bp):
ATAATAATAACAATAATA
Found at i:95610731 original size:3 final size:3
Alignment explanation
Indices: 95610723--95610775 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
95610713 ATTGTAAATA
95610723 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
95610771 AAT AA
1 AAT AA
95610776 GCAAAAAACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:95610864 original size:3 final size:3
Alignment explanation
Indices: 95610856--95610920 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
95610846 ATAAAACAGT
* ** * * *
95610856 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA CGA TGA CAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
95610904 TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA
95610921 AAAAATCTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:95611059 original size:21 final size:20
Alignment explanation
Indices: 95611028--95611066 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
95611018 ACATAATATT
*
95611028 AATATATAAATAGTAATAGA
1 AATATATAAATAGAAATAGA
95611048 AATATAATAAATAGAAATA
1 AATAT-ATAAATAGAAATA
95611067 TAATAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (20 bp):
AATATATAAATAGAAATAGA
Found at i:95611071 original size:20 final size:20
Alignment explanation
Indices: 95611022--95611083 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
95611012 TAATGAACAT
* *
95611022 AATATTAATATATAAATAGT
1 AATAGTAATATATAAATAGA
*
95611042 AATAGAAATATAATAAATAGA
1 AATAGTAATAT-ATAAATAGA
*
95611063 AATA-TAATA-AT-AGTAGA
1 AATAGTAATATATAAATAGA
95611080 AATA
1 AATA
95611084 TAAATAGACA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 9 0.25
18 2 0.06
20 13 0.36
21 12 0.33
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (20 bp):
AATAGTAATATATAAATAGA
Found at i:95611074 original size:29 final size:29
Alignment explanation
Indices: 95611041--95611158 Score: 72
Period size: 29 Copynumber: 4.2 Consensus size: 29
95611031 ATATAAATAG
95611041 TAATAGAAATATAATAAATAGAAATATAA
1 TAATAGAAATATAATAAATAGAAATATAA
95611070 TAATAGTAGAA-AT-ATAAATAGACAA-ATAAA
1 TAATAG-A-AATATAATAAATAGA-AATAT-AA
* * * *
95611100 TATTAG--ATA-AAT-AATAGTATTAGAA
1 TAATAGAAATATAATAAATAGAAATATAA
* * *
95611125 TAACA-AAATAAATATAAATAGAAACATAA
1 TAATAGAAATATA-ATAAATAGAAATATAA
95611154 TAATA
1 TAATA
95611159 ATAATAGAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 24
0.65 0.11 0.24
Matches are distributed among these distances:
25 6 0.09
26 10 0.15
27 4 0.06
28 2 0.03
29 30 0.45
30 12 0.18
31 2 0.03
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.27
Consensus pattern (29 bp):
TAATAGAAATATAATAAATAGAAATATAA
Found at i:95611081 original size:17 final size:15
Alignment explanation
Indices: 95611042--95611086 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 15
95611032 TATAAATAGT
95611042 AATAGAAATATAATA
1 AATAGAAATATAATA
95611057 AATAGAAATATAATA
1 AATAGAAATATAATA
95611072 ATAGTAGAAATATAA
1 A-A-TAGAAATATAA
95611087 ATAGACAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (15 bp):
AATAGAAATATAATA
Found at i:95611155 original size:21 final size:20
Alignment explanation
Indices: 95611126--95611168 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
95611116 GTATTAGAAT
95611126 AACAAAATAA-ATATAAATAGA
1 AACAAAATAATA-AT-AATAGA
*
95611147 AACATAATAATAATAATAGA
1 AACAAAATAATAATAATAGA
95611167 AA
1 AA
95611169 TAATATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 11 0.55
22 1 0.05
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (20 bp):
AACAAAATAATAATAATAGA
Found at i:95618782 original size:2 final size:2
Alignment explanation
Indices: 95618775--95618809 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
95618765 ATTTAATGTT
95618775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95618810 CTGATCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95619523 original size:16 final size:17
Alignment explanation
Indices: 95619493--95619525 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
95619483 AAAAGGAATG
*
95619493 GAAAAAAATATAAAAGT
1 GAAAAAAATAAAAAAGT
95619510 GAAAAAAA-AAAAAAGT
1 GAAAAAAATAAAAAAGT
95619526 TACTTGTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
GAAAAAAATAAAAAAGT
Found at i:95624062 original size:3 final size:3
Alignment explanation
Indices: 95624054--95624082 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
95624044 TAATGCTAAA
95624054 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
95624083 AGGATTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:95624843 original size:36 final size:36
Alignment explanation
Indices: 95624803--95624874 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 36
95624793 TTTTTAAGGA
*
95624803 ATAATT-GTAATTTAAACTT-TGATTATTTGTAAATGT
1 ATAATTAGTAA-TTAAA-TTATAATTATTTGTAAATGT
* *
95624839 ATAATTATTAATTAAATTATAATTATTTTTAAATGT
1 ATAATTAGTAATTAAATTATAATTATTTGTAAATGT
95624875 GAAATTAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 2 0.06
36 26 0.84
37 3 0.10
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (36 bp):
ATAATTAGTAATTAAATTATAATTATTTGTAAATGT
Found at i:95624881 original size:18 final size:18
Alignment explanation
Indices: 95624824--95624874 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
95624814 TTAAACTTTG
*
95624824 ATTATTTGTAAATGTATA
1 ATTATTTTTAAATGTATA
*
95624842 ATTATTAATTAAAT-TATA
1 ATTATT-TTTAAATGTATA
95624860 ATTATTTTTAAATGT
1 ATTATTTTTAAATGT
95624875 GAAATTAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 6 0.21
18 17 0.61
19 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
ATTATTTTTAAATGTATA
Found at i:95630018 original size:21 final size:21
Alignment explanation
Indices: 95629981--95630020 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
95629971 TTACTAAGAC
*
95629981 ATGAATTTGATTGAATTGAGT
1 ATGAATTTGATTAAATTGAGT
95630002 ATGAA-TTGTATTAAATTGA
1 ATGAATTTG-ATTAAATTGA
95630021 ACTAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (21 bp):
ATGAATTTGATTAAATTGAGT
Found at i:95637784 original size:21 final size:20
Alignment explanation
Indices: 95637754--95637806 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
95637744 TTCACACTTT
*
95637754 CACTTTCAAATAACCATTAAC
1 CACTTCCAAATAACC-TTAAC
*
95637775 CACTTCCAAAT-GCCTTAAC
1 CACTTCCAAATAACCTTAAC
*
95637794 C-TTTCCAAATAAC
1 CACTTCCAAATAAC
95637807 AAGTAATACA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 8 0.30
19 7 0.26
20 2 0.07
21 10 0.37
ACGTcount: A:0.38, C:0.32, G:0.02, T:0.28
Consensus pattern (20 bp):
CACTTCCAAATAACCTTAAC
Found at i:95639225 original size:46 final size:46
Alignment explanation
Indices: 95639133--95639440 Score: 179
Period size: 46 Copynumber: 6.6 Consensus size: 46
95639123 TGATAAGTGT
*
95639133 GCTAGTGTAAGACATGTCTGGGAAATGCATCAGCCACATT---ATAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG---CATTGAGATAAGA
* * *
95639179 GCCAGTGTAAGACATGTCTGGGACATGTATCAGCATTGAGACAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATAAGA
* * * * * * *
95639225 GCTAGTGTAAGATATGTTTGAGACATGCGTCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATA-A-GA
* * *
95639273 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGC-TT--GTTAAGT
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCATTGAGATAAGA
* * * * *
95639317 G-TCAGTGTAAAACTTGTCAGGGACATGGCATTGACACCGA-T-AGATAAAA
1 GCT-AGTGTAAGACATGTCTGGGACAT-GCA-T--CAGC-ATTGAGATAAGA
* * **
95639366 GCTAGTGTAAGACCTGTCTGGGACATGGCATC-GAATTTGATG-TACTA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCA-TTGA-GATAAGA
*
95639413 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
95639441 GCGTCGGCAT
Statistics
Matches: 204, Mismatches: 39, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
43 5 0.02
44 26 0.13
45 2 0.01
46 74 0.36
47 20 0.10
48 40 0.20
49 36 0.18
50 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGATAAGA
Found at i:95639389 original size:49 final size:45
Alignment explanation
Indices: 95639271--95639396 Score: 121
Period size: 49 Copynumber: 2.7 Consensus size: 45
95639261 CGAGATATAC
* * *
95639271 AAGCTAGTGTAAGACCTGTCTGGGACATGGCA-TCAGCTTGTTAA
1 AAGCTAGTGTAAGACCTGTCTGGGACATGGCATTCAGATAGATAA
** * * *
95639315 GTG-TCAGTGTAAAACTTGTCAGGGACATGGCATTGACACCGATAGATAA
1 AAGCT-AGTGTAAGACCTGTCTGGGACATGGCATT--CA--GATAGATAA
95639364 AAGCTAGTGTAAGACCTGTCTGGGACATGGCAT
1 AAGCTAGTGTAAGACCTGTCTGGGACATGGCAT
95639397 CGAATTTGAT
Statistics
Matches: 62, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.02
44 25 0.40
45 1 0.02
47 2 0.03
49 32 0.52
50 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (45 bp):
AAGCTAGTGTAAGACCTGTCTGGGACATGGCATTCAGATAGATAA
Found at i:95641740 original size:24 final size:24
Alignment explanation
Indices: 95641708--95641755 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
95641698 AGAGGAAAGA
95641708 ATTCCTTGAGCTGAAGTAAGGTCG
1 ATTCCTTGAGCTGAAGTAAGGTCG
95641732 ATTCCTTGAGCTGAAGTAAGGTCG
1 ATTCCTTGAGCTGAAGTAAGGTCG
95641756 TATGACGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (24 bp):
ATTCCTTGAGCTGAAGTAAGGTCG
Found at i:95647140 original size:46 final size:47
Alignment explanation
Indices: 95647047--95647211 Score: 158
Period size: 46 Copynumber: 3.5 Consensus size: 47
95647037 TGATAAGTGT
* * * *
95647047 GCTAGTGTAAGACATGTTTGGGACAAGCATCAACCA-C-A-TTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-AGCATCGAGATAT-AGA
* * *
95647093 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCATTGAGATA-AGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGATATAGA
* * * * *
95647139 GCTACTGCAAGACATGTCTGGGACATGCGTCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGATATA-GA
*
95647187 GCTAGTGTAAGACCTGTCTGGGACA
1 GCTAGTGTAAGACATGTCTGGGACA
95647212 CGGCATCGGT
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 67 0.70
47 2 0.02
48 25 0.26
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGATATAGA
Found at i:95647310 original size:48 final size:48
Alignment explanation
Indices: 95647147--95647312 Score: 135
Period size: 49 Copynumber: 3.4 Consensus size: 48
95647137 GAGCTACTGC
* * * *
95647147 AAGACATGTCTGGGACAT-GCGTCAGC-CTCGA-GATATACAAGCTAGTGT
1 AAGACCTGTCTGGGACATGGCATC-GCTCTCGATGAT-GA-AAGCCAGTGT
* * *
95647195 AAGACCTGTCTGGGACACGGCATCGGTCTCGATGTATGAAAGTCAGTGT
1 AAGACCTGTCTGGGACATGGCATCGCTCTCGATG-ATGAAAGCCAGTGT
* * * **
95647244 AAGACTTGTCTGCGACATGGCATCGACT-TTGATG-TGCTAGCCAGTGT
1 AAGACCTGTCTGGGACATGGCATCG-CTCTCGATGATGAAAGCCAGTGT
95647291 AAGACCATGTCTGGGACATGGC
1 AAGACC-TGTCTGGGACATGGC
95647313 GCCGGCATTT
Statistics
Matches: 95, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
47 15 0.16
48 31 0.33
49 44 0.46
50 3 0.03
51 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (48 bp):
AAGACCTGTCTGGGACATGGCATCGCTCTCGATGATGAAAGCCAGTGT
Found at i:95654524 original size:15 final size:16
Alignment explanation
Indices: 95654504--95654533 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95654494 AATTTAAATT
95654504 TTAAAA-TTATTATTG
1 TTAAAATTTATTATTG
95654519 TTAAAATTTATTATT
1 TTAAAATTTATTATT
95654534 AAAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTAAAATTTATTATTG
Found at i:95654543 original size:18 final size:19
Alignment explanation
Indices: 95654520--95654555 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
95654510 TTATTATTGT
*
95654520 TAAAA-TTTATTATTAAAA
1 TAAAATTTTAATATTAAAA
95654538 TAAAATTTTAATATTAAA
1 TAAAATTTTAATATTAAA
95654556 TAATTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAATTTTAATATTAAAA
Found at i:95655041 original size:51 final size:51
Alignment explanation
Indices: 95654961--95655069 Score: 182
Period size: 51 Copynumber: 2.1 Consensus size: 51
95654951 GTAAACACGT
*
95654961 AAGTGAGAAACATACTTTAATAAAGGCGAGATACAAAGTTTGAAACTTGAA
1 AAGTAAGAAACATACTTTAATAAAGGCGAGATACAAAGTTTGAAACTTGAA
* * *
95655012 AAGTAAGAAGCATGCTTTAATAAATGCGAGATACAAAGTTTGAAACTTGAA
1 AAGTAAGAAACATACTTTAATAAAGGCGAGATACAAAGTTTGAAACTTGAA
95655063 AAGTAAG
1 AAGTAAG
95655070 GGGAAGAAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (51 bp):
AAGTAAGAAACATACTTTAATAAAGGCGAGATACAAAGTTTGAAACTTGAA
Found at i:95663716 original size:18 final size:18
Alignment explanation
Indices: 95663693--95663728 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
95663683 GCGGAGGGTT
*
95663693 GTTGGCCGATTCGATTTG
1 GTTGGCCAATTCGATTTG
95663711 GTTGGCCAATTCGATTTG
1 GTTGGCCAATTCGATTTG
95663729 TTTCAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.31, T:0.39
Consensus pattern (18 bp):
GTTGGCCAATTCGATTTG
Found at i:95665592 original size:14 final size:12
Alignment explanation
Indices: 95665567--95665598 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
95665557 ACATATCTGG
95665567 TTTCTTTGTTTT
1 TTTCTTTGTTTT
95665579 TTTCTCTTGTTTT
1 TTTCT-TTGTTTT
95665592 TTTCTTT
1 TTTCTTT
95665599 TTGTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTCTTTGTTTT
Found at i:95667484 original size:43 final size:43
Alignment explanation
Indices: 95667423--95667515 Score: 123
Period size: 43 Copynumber: 2.2 Consensus size: 43
95667413 ATATGCTGCA
* * *
95667423 ATGTTCTTTAGCAACGTTTGTAATAAAAGTGCTACTAAAGATC
1 ATGTTCTTTAACAACGTTTGTAATAAAAGCGCCACTAAAGATC
** **
95667466 ATGTTCTTTAACTGCGTTTGTAATAAAAGCGCCGTTAAAGATC
1 ATGTTCTTTAACAACGTTTGTAATAAAAGCGCCACTAAAGATC
95667509 ATGTTCT
1 ATGTTCT
95667516 ATAGCGATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (43 bp):
ATGTTCTTTAACAACGTTTGTAATAAAAGCGCCACTAAAGATC
Found at i:95672028 original size:30 final size:31
Alignment explanation
Indices: 95671992--95672050 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
95671982 CCTACAATTA
* * *
95671992 TTCCAATTTGGCCCATTTT-CTTGCTTTTTG
1 TTCCAATTTAGCCAATTTTGCTTGATTTTTG
95672022 TTCCAATTTAGCCAATTTTGCTTGATTTT
1 TTCCAATTTAGCCAATTTTGCTTGATTTT
95672051 GAATTATGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.15, C:0.20, G:0.12, T:0.53
Consensus pattern (31 bp):
TTCCAATTTAGCCAATTTTGCTTGATTTTTG
Found at i:95672761 original size:5 final size:5
Alignment explanation
Indices: 95672751--95672779 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
95672741 TTTTAGGGAA
95672751 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
95672780 AGAAGTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:95674188 original size:23 final size:24
Alignment explanation
Indices: 95674153--95674208 Score: 96
Period size: 23 Copynumber: 2.3 Consensus size: 24
95674143 AAAATTTTAC
95674153 CTTTCATTTAACAGTTTGACTCAAA
1 CTTT-ATTTAACAGTTTGACTCAAA
95674178 C-TTATTTAACAGTTTGACTCAAA
1 CTTTATTTAACAGTTTGACTCAAA
95674201 CTTTATTT
1 CTTTATTT
95674209 TCGATTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 21 0.70
24 8 0.27
25 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (24 bp):
CTTTATTTAACAGTTTGACTCAAA
Found at i:95678968 original size:35 final size:35
Alignment explanation
Indices: 95678922--95679027 Score: 176
Period size: 35 Copynumber: 3.0 Consensus size: 35
95678912 CACTTGCCTC
*
95678922 TTCCCACTCTCCCATGCTGTTTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
95678957 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* * *
95678992 CTCCCACTCTCCCATGCTGTCTGTCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
95679027 T
1 T
95679028 CACACACCCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.16, C:0.47, G:0.12, T:0.25
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:95679475 original size:33 final size:32
Alignment explanation
Indices: 95679430--95679507 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 32
95679420 AAAGAGGGGA
*
95679430 AGCAAAAAAAAAAAATCCAGCAAAAAA-TTCC
1 AGCAAAAAAAAAAAATCCAGAAAAAAATTTCC
**
95679461 AGCACCAAAAAAAAATTTCCAGAAAAAAATTTCC
1 AGCA--AAAAAAAAAAATCCAGAAAAAAATTTCC
95679495 AGCAAAAAAAAAA
1 AGCAAAAAAAAAA
95679508 CCAAAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 4 0.10
32 9 0.22
33 20 0.49
34 8 0.20
ACGTcount: A:0.64, C:0.18, G:0.06, T:0.12
Consensus pattern (32 bp):
AGCAAAAAAAAAAAATCCAGAAAAAAATTTCC
Found at i:95679785 original size:11 final size:11
Alignment explanation
Indices: 95679756--95679804 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
95679746 CGACCGGATT
* *
95679756 TCCCTTCCCCC
1 TCCCTTCTCTC
95679767 TCCCTTCTCTC
1 TCCCTTCTCTC
95679778 TCCCTTCTCTC
1 TCCCTTCTCTC
*
95679789 TTCC-TCTCTC
1 TCCCTTCTCTC
*
95679799 TTCCTT
1 TCCCTT
95679805 TTTTTTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
10 10 0.29
11 24 0.71
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:95680359 original size:24 final size:25
Alignment explanation
Indices: 95680325--95680380 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 25
95680315 ATTTCTAATA
95680325 TGTATATATATATATATATATTATG
1 TGTATATATATATATATATATTATG
95680350 TGTAT-TATATATATATATATTATG
1 TGTATATATATATATATATATTATG
*
95680374 TATATAT
1 TGTATAT
95680381 GCCATTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (25 bp):
TGTATATATATATATATATATTATG
Found at i:95680396 original size:2 final size:2
Alignment explanation
Indices: 95680322--95680380 Score: 61
Period size: 2 Copynumber: 31.0 Consensus size: 2
95680312 ATCATTTCTA
* * *
95680322 AT AT GT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
95680362 AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
95680381 GCCATTAGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:95680559 original size:2 final size:2
Alignment explanation
Indices: 95680542--95680576 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
95680532 GTGTATATTT
* *
95680542 TA TA TA CA TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95680577 TTGCACATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:95693620 original size:17 final size:17
Alignment explanation
Indices: 95693598--95693675 Score: 63
Period size: 16 Copynumber: 4.7 Consensus size: 17
95693588 CCATTAAGCC
*
95693598 CCCAAAAAAAAACCTAA
1 CCCAAAAAAAAAACTAA
95693615 CCCAAAAAAAAAAAC-AA
1 CCC-AAAAAAAAAACTAA
** **
95693632 -AAAAAAAAAAAAAAAA
1 CCCAAAAAAAAAACTAA
* *
95693648 CCC-CAAAAAAACCTAA
1 CCCAAAAAAAAAACTAA
95693664 CCCAAAAAAAAA
1 CCCAAAAAAAAA
95693676 GAAGAAAAAG
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
15 10 0.22
16 14 0.30
17 12 0.26
18 10 0.22
ACGTcount: A:0.74, C:0.23, G:0.00, T:0.03
Consensus pattern (17 bp):
CCCAAAAAAAAAACTAA
Found at i:95693658 original size:1 final size:1
Alignment explanation
Indices: 95693618--95693647 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
95693608 AACCTAACCC
*
95693618 AAAAAAAAAAACAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
95693648 CCCCAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:95696266 original size:12 final size:12
Alignment explanation
Indices: 95696249--95696283 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
95696239 ATTCATTTGA
*
95696249 ATTCATGCATTC
1 ATTCATACATTC
95696261 ATTCATACATTC
1 ATTCATACATTC
95696273 ATTCATACATT
1 ATTCATACATT
95696284 GCATATCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.43
Consensus pattern (12 bp):
ATTCATACATTC
Found at i:95703620 original size:70 final size:70
Alignment explanation
Indices: 95703533--95704050 Score: 849
Period size: 70 Copynumber: 7.2 Consensus size: 70
95703523 CAAGTGACAG
*
95703533 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
95703598 GTTTC
66 GTTTC
95703603 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
95703668 GTTTC
66 GTTTC
*
95703673 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
95703738 GTTTC
66 GTTTC
*
95703743 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
95703808 AATTTATGTTTC
59 AATTTATGTTTC
95703820 AAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
95703884 GTTTC
66 GTTTC
*
95703889 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
95703954 AATTTATGTTTC
59 AATTTATGTTTC
*
95703966 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
95704031 GTTTC
66 GTTTC
95704036 AAAAATCAACTCATA
1 -AAAATCAACTCATA
95704051 GGTGAGTTGA
Statistics
Matches: 424, Mismatches: 8, Indels: 31
0.92 0.02 0.07
Matches are distributed among these distances:
69 30 0.07
70 240 0.57
71 17 0.04
72 1 0.00
75 2 0.00
76 39 0.09
77 95 0.22
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:95703819 original size:77 final size:77
Alignment explanation
Indices: 95703727--95704028 Score: 521
Period size: 77 Copynumber: 4.0 Consensus size: 77
95703717 GTTGAGGTAA
95703727 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
95703792 GGTAATTTCAAT
66 GGTAATTTCAAT
*
95703804 TTTCAATTTATGTTTCAAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
95703868 GG-----T-AA-
66 GGTAATTTCAAT
95703873 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
95703938 GGTAATTTCAAT
66 GGTAATTTCAAT
* *
95703950 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
95704015 GGTAATTTCAAT
66 GGTAATTTCAAT
95704027 TT
1 TT
95704029 ATGTTTCAAA
Statistics
Matches: 213, Mismatches: 4, Indels: 16
0.91 0.02 0.07
Matches are distributed among these distances:
69 30 0.14
70 37 0.17
71 1 0.00
75 1 0.00
76 37 0.17
77 107 0.50
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (77 bp):
TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
GGTAATTTCAAT
Found at i:95703919 original size:146 final size:147
Alignment explanation
Indices: 95703533--95704050 Score: 935
Period size: 146 Copynumber: 3.6 Consensus size: 147
95703523 CAAGTGACAG
*
95703533 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
95703598 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
95703657 -TTTCAATTTATGTTTC
131 TTTTCAATTTATGTTTC
*
95703673 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
95703738 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
95703803 TTTTCAATTTATGTTTC
131 TTTTCAATTTATGTTTC
95703820 AAAATCAACTCATA-TGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
95703884 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
95703949 TTTTCAATTTATGTTTC
131 TTTTCAATTTATGTTTC
*
95703966 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
95704031 GTTTCAAAAATCAACTCATA
66 GTTTC-AAAATCAACTCATA
95704051 GGTGAGTTGA
Statistics
Matches: 364, Mismatches: 5, Indels: 10
0.96 0.01 0.03
Matches are distributed among these distances:
140 118 0.32
145 1 0.00
146 147 0.40
147 84 0.23
148 14 0.04
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (147 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
TTTTCAATTTATGTTTC
Found at i:95704193 original size:54 final size:52
Alignment explanation
Indices: 95704101--95704255 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
95704091 TCTACTTTCC
* *
95704101 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
95704155 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
**
95704206 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
95704255 A
1 A
95704256 GGTCATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 4 0.04
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:95705011 original size:35 final size:35
Alignment explanation
Indices: 95704968--95705065 Score: 178
Period size: 35 Copynumber: 2.8 Consensus size: 35
95704958 CCTCTTCCCA
95704968 CTCCCATGCTGTCTGCCACCAGCACCATTCCCACT
1 CTCCCATGCTGTCTGCCACCAGCACCATTCCCACT
*
95705003 CTCCCATGCTGTCTGCCACCAGCACCACTCCCACT
1 CTCCCATGCTGTCTGCCACCAGCACCATTCCCACT
*
95705038 CTCCCATGCTGTCTGCCGCCAGCACCAT
1 CTCCCATGCTGTCTGCCACCAGCACCAT
95705066 CACACACCCC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 60 1.00
ACGTcount: A:0.16, C:0.49, G:0.13, T:0.21
Consensus pattern (35 bp):
CTCCCATGCTGTCTGCCACCAGCACCATTCCCACT
Found at i:95705506 original size:30 final size:30
Alignment explanation
Indices: 95705465--95705538 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
95705455 AAAGAGGGGA
*
95705465 AGCAAAAAAAAAAATCCAGCAAAAAA-TTCC
1 AGCAAAAAAAAAATTCCAG-AAAAAATTTCC
* *
95705495 AGCACCAAAAAAAATTTCAGAAAAAATTTCC
1 AGCA-AAAAAAAAATTCCAGAAAAAATTTCC
95705526 AGCAAAAAAAAAA
1 AGCAAAAAAAAAA
95705539 CCAAAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 18 0.47
31 20 0.53
ACGTcount: A:0.64, C:0.18, G:0.07, T:0.12
Consensus pattern (30 bp):
AGCAAAAAAAAAATTCCAGAAAAAATTTCC
Found at i:95705507 original size:31 final size:29
Alignment explanation
Indices: 95705469--95705548 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 29
95705459 AGGGGAAGCA
95705469 AAAAAAAAAATCCAGCAAAAAA-TTCCAGC
1 AAAAAAAAAATCCAG-AAAAAATTTCCAGC
* *
95705498 ACCAAAAAAAATTTCAGAAAAAATTTCCAGC
1 A--AAAAAAAAATCCAGAAAAAATTTCCAGC
*
95705529 AAAAAAAAAA-CCAAAAAAAA
1 AAAAAAAAAATCCAGAAAAAA
95705549 AAAATAGAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
28 8 0.19
29 9 0.21
30 6 0.14
31 20 0.47
ACGTcount: A:0.66, C:0.17, G:0.05, T:0.11
Consensus pattern (29 bp):
AAAAAAAAAATCCAGAAAAAATTTCCAGC
Found at i:95705815 original size:11 final size:11
Alignment explanation
Indices: 95705801--95705840 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
95705791 TTCCTTCCCC
95705801 CTCCCTTCTCT
1 CTCCCTTCTCT
95705812 CTCCCTTCTCT
1 CTCCCTTCTCT
95705823 CTTCCC-TCTCT
1 C-TCCCTTCTCT
*
95705834 CTTCCTT
1 CTCCCTT
95705841 TTTTTTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 3 0.12
11 19 0.73
12 4 0.15
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:95706430 original size:2 final size:2
Alignment explanation
Indices: 95706358--95706414 Score: 57
Period size: 2 Copynumber: 30.0 Consensus size: 2
95706348 ATCATTTCTA
* * *
95706358 AT AT GT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
95706398 AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT
95706415 GCCATTAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:95706659 original size:14 final size:13
Alignment explanation
Indices: 95706636--95706666 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
95706626 ATATTATTGT
95706636 TGTAAATTTTTTA
1 TGTAAATTTTTTA
95706649 TGTATAATTTTTTA
1 TGTA-AATTTTTTA
95706663 TGTA
1 TGTA
95706667 CGTTTCCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (13 bp):
TGTAAATTTTTTA
Found at i:95707734 original size:26 final size:25
Alignment explanation
Indices: 95707697--95708136 Score: 194
Period size: 26 Copynumber: 16.6 Consensus size: 25
95707687 AATTAAAAAT
*
95707697 TAATATACAAAAAATTTAAAATAAAA
1 TAATATATAAAAAATTTAAAAT-AAA
* * *
95707723 TAATATATAAAACGATCTAAAATAAC
1 TAATATATAAAA-AATTTAAAATAAA
*
95707749 TAATTTATAAAACAATTTAAAATGACATA
1 TAATATATAAAA-AATTTAAAAT-A-A-A
* *
95707778 TAAAAGTTTAAACTAAATAATATATAAA-AAA
1 TAATA-TATAAA--AAAT--T-TA-AAATAAA
* * ** *
95707809 TAA-ATTTAAAATACGTAATATAGAA
1 TAATATATAAAAAATTTAAAATA-AA
*
95707834 -AAAATATAAAACAATTTTAAAA-ATAA
1 TAATATATAAAA-AA-TTTAAAATA-AA
* *
95707860 TAATGTA-AAAGAAATTTAAAGTAAA
1 TAATATATAAA-AAATTTAAAATAAA
* ** **
95707885 TAACATATAAAATAATTTAAACCACG
1 TAATATATAAAA-AATTTAAAATAAA
* *
95707911 TAATATATATAAAACTTTAAAATAGA
1 TAATATATA-AAAAATTTAAAATAAA
* *
95707937 TAATATACACAAAGATTTAAAATAAA
1 TAATATATA-AAAAATTTAAAATAAA
*
95707963 TAATATATGGGAAAAATTTTAAAATAAA
1 TAATATAT---AAAAAATTTAAAATAAA
*
95707991 TAATATGTAAAAATAATTTAAAATAAA
1 TAATATAT-AAAA-AATTTAAAATAAA
* * * *
95708018 TATTACAT-AAAATTTTAAAGTAAA
1 TAATATATAAAAAATTTAAAATAAA
* *
95708042 TGATGTATAAAAAAAGTTTAAAATGAACA
1 TAATATAT-AAAAAA-TTTAAAAT-AA-A
* * *
95708071 TTATATA-AAAAAAATTAAAATAGA
1 TAATATATAAAAAATTTAAAATAAA
*
95708095 TAATAAAT-AAAAATTTAAAAATAAA
1 TAATATATAAAAAATTT-AAAATAAA
* *
95708120 CAGTATATATAAAAATT
1 TAATATATA-AAAAATT
95708137 CAATATAGAC
Statistics
Matches: 310, Mismatches: 69, Indels: 69
0.69 0.15 0.15
Matches are distributed among these distances:
23 2 0.01
24 33 0.11
25 39 0.13
26 114 0.37
27 60 0.19
28 24 0.08
29 16 0.05
30 6 0.02
31 7 0.02
32 2 0.01
33 2 0.01
34 2 0.01
35 3 0.01
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.30
Consensus pattern (25 bp):
TAATATATAAAAAATTTAAAATAAA
Found at i:95707816 original size:29 final size:29
Alignment explanation
Indices: 95707784--95707839 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
95707774 CATATAAAAG
* *
95707784 TTTAAACTAAATAATATATAAAAAATAAA
1 TTTAAAATAAATAATATAGAAAAAATAAA
**
95707813 TTTAAAATACGTAATATAGAAAAAATA
1 TTTAAAATAAATAATATAGAAAAAATA
95707840 TAAAACAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (29 bp):
TTTAAAATAAATAATATAGAAAAAATAAA
Found at i:95708035 original size:51 final size:51
Alignment explanation
Indices: 95707975--95708107 Score: 133
Period size: 51 Copynumber: 2.6 Consensus size: 51
95707965 ATATATGGGA
* *
95707975 AAAATTTTAAAATAAATAATATGTAAAAATAA-TTTAAAATAAATATTACAT
1 AAAATTTTAAAATAAATAATATATAAAAA-AAGTTTAAAATAAACATTACAT
* * * * *
95708026 AAAATTTTAAAGTAAATGATGTATAAAAAAAGTTTAAAATGAACATTATAT
1 AAAATTTTAAAATAAATAATATATAAAAAAAGTTTAAAATAAACATTACAT
** * *
95708077 AAAAAAAATTAAAATAGATAATAAATAAAAA
1 --AAAATTTTAAAATAAATAATATATAAAAA
95708108 TTTAAAAATA
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
50 2 0.03
51 41 0.63
53 22 0.34
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (51 bp):
AAAATTTTAAAATAAATAATATATAAAAAAAGTTTAAAATAAACATTACAT
Found at i:95713131 original size:27 final size:27
Alignment explanation
Indices: 95713078--95713134 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
95713068 AATTGATTAT
*
95713078 AATTTTTTTTATTATTTTCAAGTGACTA
1 AATTTTTTTTATTATTTTC-AGGGACTA
*
95713106 AATTTTTTTTTTCTATTTTC-GGGACTA
1 AATTTTTTTTAT-TATTTTCAGGGACTA
95713133 AA
1 AA
95713135 GTACAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 8 0.31
28 11 0.42
29 7 0.27
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (27 bp):
AATTTTTTTTATTATTTTCAGGGACTA
Found at i:95715855 original size:46 final size:48
Alignment explanation
Indices: 95715798--95716024 Score: 233
Period size: 47 Copynumber: 4.9 Consensus size: 48
95715788 GGGATATTTG
95715798 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
* * * *
95715845 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGA
* * * *
95715891 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGA
*
95715938 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-TCGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACG-A
* *
95715986 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95716025 GCGGGTTACA
Statistics
Matches: 159, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
43 4 0.03
45 2 0.01
46 68 0.43
47 77 0.48
48 5 0.03
50 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (48 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
Found at i:95715922 original size:47 final size:47
Alignment explanation
Indices: 95715798--95715970 Score: 246
Period size: 47 Copynumber: 3.7 Consensus size: 47
95715788 GGGATATTTG
* * *
95715798 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
*
95715845 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
*
95715891 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
95715938 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
95715971 ACTTATGGAT
Statistics
Matches: 115, Mismatches: 7, Indels: 8
0.88 0.05 0.06
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 33 0.29
47 76 0.66
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:95721600 original size:9 final size:9
Alignment explanation
Indices: 95721583--95721617 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
95721573 AAGTATCAGA
95721583 AGGAATTTC
1 AGGAATTTC
*
95721592 AGAAATTTC
1 AGGAATTTC
95721601 AGGAATTTC
1 AGGAATTTC
95721610 AGGAATTT
1 AGGAATTT
95721618 TCCAGTCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (9 bp):
AGGAATTTC
Found at i:95728564 original size:21 final size:19
Alignment explanation
Indices: 95728535--95728575 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
95728525 CCATGTTATA
95728535 TATTATAAAAATAATATATT
1 TATTATAAAAATAATA-ATT
*
95728555 TATTCATAAAAATTATAATT
1 TATT-ATAAAAATAATAATT
95728575 T
1 T
95728576 TTTTACAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTATAAAAATAATAATT
Found at i:95729726 original size:23 final size:22
Alignment explanation
Indices: 95729694--95729736 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
95729684 TGGTTTTAAA
95729694 TTTTTTTAATTATCTTTATAAT
1 TTTTTTTAATTATCTTTATAAT
* *
95729716 TTTTTTGTAATTTTTTTTATA
1 TTTTTT-TAATTATCTTTATA
95729737 TATTCAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTTTAATTATCTTTATAAT
Found at i:95729728 original size:11 final size:10
Alignment explanation
Indices: 95729687--95729734 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
95729677 TCTTGGATGG
*
95729687 TTTTAAATTT
1 TTTTAATTTT
95729697 TTTTAATTATCT
1 TTTTAATT-T-T
*
95729709 TTATAATTTT
1 TTTTAATTTT
95729719 TTTGTAATTTT
1 TTT-TAATTTT
95729730 TTTTA
1 TTTTA
95729735 TATATTCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 12 0.38
11 12 0.38
12 8 0.25
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTAATTTT
Found at i:95736494 original size:19 final size:19
Alignment explanation
Indices: 95736466--95736503 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
95736456 ACTATCACAG
*
95736466 TTTTGTTTTTTTTTTTTTT
1 TTTTGGTTTTTTTTTTTTT
95736485 TTTTGGTTTTTTTTTTTTT
1 TTTTGGTTTTTTTTTTTTT
95736504 AATACAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (19 bp):
TTTTGGTTTTTTTTTTTTT
Found at i:95736495 original size:20 final size:19
Alignment explanation
Indices: 95736466--95736503 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
95736456 ACTATCACAG
95736466 TTTTGTTTTTTTTTTTTTT
1 TTTTGTTTTTTTTTTTTTT
95736485 TTTTGGTTTTTTTTTTTTT
1 TTTT-GTTTTTTTTTTTTT
95736504 AATACAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (19 bp):
TTTTGTTTTTTTTTTTTTT
Found at i:95742731 original size:15 final size:16
Alignment explanation
Indices: 95742706--95742735 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
95742696 TCTGATAGGT
95742706 ATATCTAATTTTTTTA
1 ATATCTAATTTTTTTA
95742722 ATAT-TAATTTTTTT
1 ATATCTAATTTTTTT
95742736 CATTTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
ATATCTAATTTTTTTA
Found at i:95742851 original size:27 final size:27
Alignment explanation
Indices: 95742810--95742872 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
95742800 ATACATACAT
*
95742810 GTTGTGCCTACCTGACAGGCTCAACTA
1 GTTGTGCCTACCTGACAGGCACAACTA
* * *
95742837 GTTGAGCCTATCTGACAGGCACGACTA
1 GTTGTGCCTACCTGACAGGCACAACTA
95742864 GTTGTGCCT
1 GTTGTGCCT
95742873 TCTTGGTAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (27 bp):
GTTGTGCCTACCTGACAGGCACAACTA
Found at i:95745470 original size:42 final size:42
Alignment explanation
Indices: 95745411--95745495 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
95745401 AATGTAGAAG
*
95745411 TATATCCACAACGTAATGAAACATTTTGCGTTACAGAGACCA
1 TATATCCACAACGTAATGAAACATTTCGCGTTACAGAGACCA
* * *
95745453 TATATTCACGACGTAATGAAACGTTTCGCGTTACAGAGACCA
1 TATATCCACAACGTAATGAAACATTTCGCGTTACAGAGACCA
95745495 T
1 T
95745496 CGGTCGTCGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (42 bp):
TATATCCACAACGTAATGAAACATTTCGCGTTACAGAGACCA
Found at i:95746571 original size:33 final size:32
Alignment explanation
Indices: 95746520--95746614 Score: 104
Period size: 33 Copynumber: 2.9 Consensus size: 32
95746510 AAATATGGAA
* *
95746520 GTGGATATGGGCCGGGAGGAGTAGAGTACGGT-G
1 GTGGATACGGGCC-GGAGGAGTAGAGTAC-ATAG
*
95746553 GTGGATAC-GGCTCTGGAGGAGTTGAGTACATAG
1 GTGGATACGGGC-C-GGAGGAGTAGAGTACATAG
95746586 GTGGATACGGGCCGGAAGGAGTAGAGTAC
1 GTGGATACGGGCCGG-AGGAGTAGAGTAC
95746615 TGAGATGAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
32 6 0.11
33 44 0.83
34 3 0.06
ACGTcount: A:0.24, C:0.12, G:0.45, T:0.19
Consensus pattern (32 bp):
GTGGATACGGGCCGGAGGAGTAGAGTACATAG
Found at i:95748653 original size:22 final size:23
Alignment explanation
Indices: 95748627--95748690 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
95748617 TCAACATTTT
*
95748627 AATAAATTA-ATAAAAATTATCA
1 AATAAATTATATAAAAATTATAA
*
95748649 AATAAA-TATATAATAA-TATAA
1 AATAAATTATATAAAAATTATAA
*
95748670 AATTACATTATATAAAAATTA
1 AA-TAAATTATATAAAAATTA
95748691 CATTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 8 0.24
22 15 0.44
23 9 0.26
24 2 0.06
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
AATAAATTATATAAAAATTATAA
Found at i:95748684 original size:15 final size:16
Alignment explanation
Indices: 95748664--95748695 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
95748654 ATATATAATA
95748664 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
95748679 ATATAAAAATTACATT
1 ATATAAAAATTACATT
95748695 A
1 A
95748696 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:95749084 original size:111 final size:112
Alignment explanation
Indices: 95748753--95749303 Score: 819
Period size: 112 Copynumber: 4.9 Consensus size: 112
95748743 ATACTAACAC
* * * *
95748753 AAAATAACTATAAAATTA-TTTTTTAAATACATTACTAAAAAAAAATTACAATACATTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAATATATTACT--AAAAAAATTACAATACACTAAT--A-
*
95748817 ACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAAC
61 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* *
95748867 AAAATAGCTAT--AAATTTTTTTTTAAATATATTACTAAAAAAAATCACAATACACTAATACACT
1 AAAATAGCTATAAAAATATTTTTTTAAATATATTACT-AAAAAAATTACAATACACTAATA-ACT
*
95748930 AAACCACTAAACACTAATAATTTATATAACCTAATCTTAAATTACTAAT
64 AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* *
95748979 AAAATAGCTATAAAAATATTTTTTTAAATATATTAGTAAAAAAATTACAATACGCTAAT-ACTAA
1 AAAATAGCTATAAAAATATTTTTTTAAATATATTACTAAAAAAATTACAATACACTAATAACTAA
95749043 ACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 ACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
*
95749090 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT-ACTA
1 AAAATAGCTATAAAAATATTTTTTT-AAATATATTACTAAAAAAATTACAATACACTAATAACTA
95749154 AACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
65 AACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* *
95749202 AAAATAGCTATAAAATTATTTTTTTAAAAATATATTACTAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTT--AAATATATTACTAAAAAAATTACAATACACTAATA-AC
* *
95749267 TAAACTACTAAACACTAACAATTTATATAACCAAATC
63 TAAACCACTAAACACTAACAATTTATATAACCTAATC
95749304 AACTATAAAT
Statistics
Matches: 409, Mismatches: 19, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
110 24 0.06
111 76 0.19
112 170 0.42
113 70 0.17
114 32 0.08
115 37 0.09
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (112 bp):
AAAATAGCTATAAAAATATTTTTTTAAATATATTACTAAAAAAATTACAATACACTAATAACTAA
ACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
Found at i:95749099 original size:223 final size:223
Alignment explanation
Indices: 95748753--95749303 Score: 826
Period size: 223 Copynumber: 2.4 Consensus size: 223
95748743 ATACTAACAC
* * *
95748753 AAAATAACTATAAAATTA-TTTTTTAAATACATTACTAAAAAAAAATTACAATACATTAATACAC
1 AAAATAGCTATAAAATTATTTTTTTAAATATATTACT--AAAAAAATTACAATACACTAAT--A-
95748817 ACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAACAAAATAGCTAT-A
61 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAACAAAATAGCTATAA
*
95748879 AAT-TTTTTTTTAAATATATTACTAAAAAAAATCACAATACACTAATACACTAAACCACTAAACA
126 AATATTTTTTTAAAATATATTACT-AAAAAAATCACAATACACTAAT--ACTAAACCACTAAACA
*
95748943 CTAATAATTTATATAACCTAATCTTAAATTACTAAT
188 CTAACAATTTATATAACCTAATCTTAAATTACTAAT
* * *
95748979 AAAATAGCTATAAAAATATTTTTTTAAATATATTAGTAAAAAAATTACAATACGCTAAT-ACTAA
1 AAAATAGCTATAAAATTATTTTTTTAAATATATTACTAAAAAAATTACAATACACTAATAACTAA
*
95749043 ACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATA
66 ACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAACAAAATAGCTAT-AAAATA
* *
95749108 TTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAATACTAAACCACTAAACACTAACAA
130 TTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACTAAACCACTAAACACTAACAA
95749173 TTTATATAACCTAATCTTAAATTACTAAT
195 TTTATATAACCTAATCTTAAATTACTAAT
*
95749202 AAAATAGCTATAAAATTATTTTTTTAAAAATATATTACTAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAATTATTTTTTT--AAATATATTACTAAAAAAATTACAATACACTAATA-AC
* *
95749267 TAAACTACTAAACACTAACAATTTATATAACCAAATC
63 TAAACCACTAAACACTAACAATTTATATAACCTAATC
95749304 AACTATAAAT
Statistics
Matches: 298, Mismatches: 17, Indels: 19
0.89 0.05 0.06
Matches are distributed among these distances:
221 23 0.08
223 112 0.38
225 75 0.25
226 35 0.12
227 53 0.18
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (223 bp):
AAAATAGCTATAAAATTATTTTTTTAAATATATTACTAAAAAAATTACAATACACTAATAACTAA
ACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAACAAAATAGCTATAAAATAT
TTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACTAAACCACTAAACACTAACAAT
TTATATAACCTAATCTTAAATTACTAAT
Found at i:95749374 original size:89 final size:94
Alignment explanation
Indices: 95749209--95749379 Score: 248
Period size: 97 Copynumber: 1.8 Consensus size: 94
95749199 AATAAAATAG
95749209 CTATAAAATTATTTTTTTAAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACTA
1 CTATAAAATTATTTTTTTAAAAATATATTACTAAAAAAATCACAATACAC--ATACACT-AACTA
95749274 CTAAACACTAACAATTTATATAACCAAATCAA
63 CTAAACACTAACAATTTATATAACCAAATCAA
95749306 CTAT-AAATT-TTTTTTTAAAATATATTATTACTAAAAAAATCACAATACAC-TA-A-T-AC-AC
1 CTATAAAATTATTTTTTTAAAA-ATA-TATTACTAAAAAAATCACAATACACATACACTAACTAC
95749364 TAAACACTAACAATTT
64 TAAACACTAACAATTT
95749380 GTAACTTAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 12
0.86 0.00 0.14
Matches are distributed among these distances:
89 18 0.25
90 2 0.03
92 1 0.01
93 1 0.01
94 2 0.03
95 11 0.15
96 8 0.11
97 29 0.40
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (94 bp):
CTATAAAATTATTTTTTTAAAAATATATTACTAAAAAAATCACAATACACATACACTAACTACTA
AACACTAACAATTTATATAACCAAATCAA
Found at i:95767592 original size:2 final size:2
Alignment explanation
Indices: 95767585--95767623 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
95767575 TTAATATGTA
95767585 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95767624 AAATTGTAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:95767804 original size:17 final size:17
Alignment explanation
Indices: 95767782--95767841 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 17
95767772 ATTAGGTGGA
*
95767782 AAAATAATTTAAAATAT
1 AAAATAAATTAAAATAT
* *
95767799 AAAATAAATT--AAGAC
1 AAAATAAATTAAAATAT
*
95767814 AAAA-AAGTTAAAATAT
1 AAAATAAATTAAAATAT
95767830 AAAATAAATTAA
1 AAAATAAATTAA
95767842 GACAAAAAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
14 4 0.12
15 7 0.21
16 7 0.21
17 15 0.45
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (17 bp):
AAAATAAATTAAAATAT
Found at i:95767871 original size:30 final size:31
Alignment explanation
Indices: 95767790--95767852 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
95767780 GAAAAATAAT
95767790 TTAAAATATAAAATAAATTAAGACAAAAAAG
1 TTAAAATATAAAATAAATTAAGACAAAAAAG
95767821 TTAAAATATAAAATAAATTAAGACAAAAAAG
1 TTAAAATATAAAATAAATTAAGACAAAAAAG
95767852 T
1 T
95767853 AACATTGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (31 bp):
TTAAAATATAAAATAAATTAAGACAAAAAAG
Found at i:95770390 original size:36 final size:36
Alignment explanation
Indices: 95770343--95770426 Score: 150
Period size: 36 Copynumber: 2.3 Consensus size: 36
95770333 ACTTTGGTGC
*
95770343 TCAGGTGTGTATTAGAGATATCGCTCAGATGAGCAA
1 TCAGGTGTGTATTAGAGATATCGCTCAGACGAGCAA
*
95770379 TCAGGTGTGTATTGGAGATATCGCTCAGACGAGCAA
1 TCAGGTGTGTATTAGAGATATCGCTCAGACGAGCAA
95770415 TCAGGTGTGTAT
1 TCAGGTGTGTAT
95770427 CGGTAGTTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (36 bp):
TCAGGTGTGTATTAGAGATATCGCTCAGACGAGCAA
Found at i:95773744 original size:17 final size:17
Alignment explanation
Indices: 95773700--95773735 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
95773690 TATGACAATG
95773700 TGCAAGCTGTGTTTATA
1 TGCAAGCTGTGTTTATA
95773717 TGCAAGCTGTGTTTATA
1 TGCAAGCTGTGTTTATA
95773734 TG
1 TG
95773736 TGAACTGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.25, T:0.42
Consensus pattern (17 bp):
TGCAAGCTGTGTTTATA
Found at i:95775917 original size:15 final size:15
Alignment explanation
Indices: 95775897--95775936 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
95775887 TGTTTAGTCC
* *
95775897 TTAGGGTTTTTTGGT
1 TTAGGGTTTTTAGGG
95775912 TTAGGGTTTTTAGGG
1 TTAGGGTTTTTAGGG
95775927 TTAGGGTTTT
1 TTAGGGTTTT
95775937 GTTAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.10, C:0.00, G:0.35, T:0.55
Consensus pattern (15 bp):
TTAGGGTTTTTAGGG
Found at i:95775952 original size:21 final size:21
Alignment explanation
Indices: 95775927--95775996 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 21
95775917 GTTTTTAGGG
95775927 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
** *** ***
95775948 TTA-GGTTAGGTTTGTAGGGT
1 TTAGGGTTTTGTTAAAATAAT
*
95775968 TTAGGGTTTTATTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
95775989 TTAGGGTT
1 TTAGGGTT
95775997 CTGGGTTTTA
Statistics
Matches: 31, Mismatches: 17, Indels: 2
0.62 0.34 0.04
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (21 bp):
TTAGGGTTTTGTTAAAATAAT
Found at i:95775966 original size:40 final size:41
Alignment explanation
Indices: 95775916--95775993 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
95775906 TTTGGTTTAG
* *
95775916 GGTTTTTAGGG-TTAGGGTTTTGTTAAAATAATTTAGGTTA
1 GGTTTGTAGGGTTTAGGGTTTTATTAAAATAATTTAGGTTA
95775956 GGTTTGTAGGGTTTAGGGTTTTATTAAAATAATTTAGG
1 GGTTTGTAGGGTTTAGGGTTTTATTAAAATAATTTAGG
95775994 GTTCTGGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 10 0.29
41 25 0.71
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (41 bp):
GGTTTGTAGGGTTTAGGGTTTTATTAAAATAATTTAGGTTA
Found at i:95776139 original size:34 final size:34
Alignment explanation
Indices: 95776041--95776149 Score: 154
Period size: 34 Copynumber: 3.3 Consensus size: 34
95776031 TTTAGTATTC
*
95776041 TTTTTT-AAAAATTAATTAAATTACGGTTTAAG-G
1 TTTTTTAAAAAATTAATTAAATTAGGGTTT-AGTG
*
95776074 -GTTTTAAATAAATTAATTAAATTAGGGTTTAGTG
1 TTTTTTAAA-AAATTAATTAAATTAGGGTTTAGTG
95776108 TTTTTTAAAAAATTAATTAAATTAGGGTTTAGT-
1 TTTTTTAAAAAATTAATTAAATTAGGGTTTAGTG
95776141 TTTTTTAAA
1 TTTTTTAAA
95776150 TAATGTTATG
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
32 4 0.06
33 13 0.19
34 45 0.65
35 7 0.10
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (34 bp):
TTTTTTAAAAAATTAATTAAATTAGGGTTTAGTG
Found at i:95776402 original size:125 final size:125
Alignment explanation
Indices: 95776219--95776610 Score: 524
Period size: 124 Copynumber: 3.1 Consensus size: 125
95776209 CTTTGTTTTT
* * * * *
95776219 TTTTTCTATAGTAGTTCTTGAAAAAACAATTTTGAGAATACGATTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCTTG-AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
* * * *
95776284 ATGCTTCAAGCAGGATGCAATGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTC
65 ATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTAGACGCTC
*
95776345 TTTTTCTTCAGTAGTTCTTGAAAAATAATTTTGAGAAGACGTTTAC-GAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAATAATTTTGAGAAGACGTTT-CTGAACAAATAGTGTCAAAA
* * *
95776409 ACGCTTCAAGTAGGATGCACTATTAGC-AAATTACT-AAAAAAGCTCCCACGTAGACGCTC
65 ATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTAGACGCTC
** * *
95776468 TTTTTCTACAGTAGTTCCTACAAAAATAATTTTGAGAAGA-ATGTTCTGAACAAATAGTGTTAAA
1 TTTTTCTACAGTAGTT-CTTGAAAAATAATTTTGAGAAGACGT-TTCTGAACAAATAGTGTCAAA
* *
95776532 AATGCTTCAAGCAGGATGCACTATCAGCAAAATTGA-TGAAAAAAGCTCACACGTCGACGCTC
64 AATGCTTCAAGCAGGATGCACTATCAGCAAAATT-ACTGAAAAAAGCTCCCACGTAGACGCTC
*
95776594 TTTTTCTACAGTTGTTC
1 TTTTTCTACAGTAGTTC
95776611 ATGTTTGGCC
Statistics
Matches: 235, Mismatches: 24, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
123 39 0.17
124 72 0.31
125 67 0.29
126 57 0.24
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCTTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAA
TGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTAGACGCTC
Found at i:95777289 original size:18 final size:18
Alignment explanation
Indices: 95777266--95777305 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
95777256 CTTCTAATGG
95777266 TTGGCAATCTACATCTGA
1 TTGGCAATCTACATCTGA
95777284 TTGGCAATCTACATCTGA
1 TTGGCAATCTACATCTGA
95777302 TTGG
1 TTGG
95777306 AGACGTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (18 bp):
TTGGCAATCTACATCTGA
Found at i:95779024 original size:18 final size:18
Alignment explanation
Indices: 95779001--95779038 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
95778991 GGAAAAAGAA
*
95779001 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
95779019 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
95779037 AC
1 AC
95779039 GCACCTAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:95780820 original size:30 final size:30
Alignment explanation
Indices: 95780786--95780846 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
95780776 ATTAATTAAA
95780786 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
*
95780816 GAGAGCTTTGAGAAATTTAGGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
95780846 G
1 G
95780847 GGATTTTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.03, G:0.30, T:0.30
Consensus pattern (30 bp):
GAGAGCTTTGAGAAATTTAAGGAGAAATTT
Found at i:95783610 original size:46 final size:46
Alignment explanation
Indices: 95783550--95783646 Score: 133
Period size: 46 Copynumber: 2.1 Consensus size: 46
95783540 TGACGATGAC
* *
95783550 TTTTACTACAATAACTTACCATCCCGGTTG-CCCGGTTTTGATGGCT
1 TTTTACTACAATAAC-TACCATCCCGGTCGACCCAGTTTTGATGGCT
* * *
95783596 TTTTACTATAATAACTATCATCTCGGTCGACCCAGTTTTGATGGCT
1 TTTTACTACAATAACTACCATCCCGGTCGACCCAGTTTTGATGGCT
95783642 TTTTA
1 TTTTA
95783647 AATTACCATC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
45 11 0.24
46 34 0.76
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TTTTACTACAATAACTACCATCCCGGTCGACCCAGTTTTGATGGCT
Found at i:95786970 original size:28 final size:28
Alignment explanation
Indices: 95786921--95786974 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
95786911 CAATAGGGGT
*
95786921 TCGCCTATAGAGTTTTGCATACAAGGGC
1 TCGCCTATAGAGTTTAGCATACAAGGGC
*
95786949 TCGCCTATAGGGTTTCAG-ATACAAGG
1 TCGCCTATAGAGTTT-AGCATACAAGG
95786975 AGGGTTCGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (28 bp):
TCGCCTATAGAGTTTAGCATACAAGGGC
Found at i:95787953 original size:30 final size:31
Alignment explanation
Indices: 95787919--95787976 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
95787909 TTATAAAATC
95787919 ATTATA-AAAATCGTAAAAAAAA-TATAAGAA
1 ATTATACAAAAT-GTAAAAAAAATTATAAGAA
95787949 ATTATACAAAATGTAAAAAAAATTATAA
1 ATTATACAAAATGTAAAAAAAATTATAA
95787977 TCAATCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (31 bp):
ATTATACAAAATGTAAAAAAAATTATAAGAA
Found at i:95788246 original size:20 final size:21
Alignment explanation
Indices: 95788207--95788248 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
95788197 TGTCCATAAT
95788207 TTATAAAATCATTATAAAAAAA
1 TTATAAAA-CATTATAAAAAAA
*
95788229 TTATAAAA-ATTGTAAAAAAA
1 TTATAAAACATTATAAAAAAA
95788249 AACTATAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
TTATAAAACATTATAAAAAAA
Found at i:95788338 original size:310 final size:310
Alignment explanation
Indices: 95787908--95788474 Score: 836
Period size: 315 Copynumber: 1.8 Consensus size: 310
95787898 TAATACATAT
** *
95787908 ATTATAAAATCATTATAAAAATCGTAAAAAAAATATAAGAAATTATACAAAATGTAAAAAAAATT
1 ATTATAAAAAAATTATAAAAATCGTAAAAAAAATATAAGAAATTATACAAAATGCAAAAAAAATT
* **
95787973 ATAATCAATCAAACTCTTCAATTTTTTCACTTACCAAATAACACCTA-TTTTTTTTTC-CTAAAA
66 ATAATCAATCAAACTCTTCAATTTTTCCACTTACCAAATAACACCTATTTTTTTTTTCAAAAAAA
**
95788036 GATTTAGTTTGAAGATTTTGACCAAGTCAA-ATAAATTTTAACCAAACTAACTCTTCAATTTTTC
131 GATTTAGTTTGAAGAGATTGACCAAGTCAACA-AAATTTTAACCAAACTAACTCTT-AATTTTTC
* * *
95788100 CACTCAACAATCAACATCCTTTAAAATTTTCTTACCCACCAATCCTATTTTCCTTCCATTTTATA
194 CACCCAACAATCAACAGCCTTTAAAATTTTCTTACCCACCAATCATATTTTCCTTCCATTTTATA
95788165 GTCTTATGAGTTGTCGGGGGAAAACACTTAATTGTCCATAATTTATAAAATC
259 GTCTTATGAGTTGTCGGGGGAAAACACTTAATTGTCCATAATTTATAAAATC
* * * *
95788217 ATTATAAAAAAATTATAAAAATTGTAAAAAAAAACTATAAGAAATTATATAAATTGCAAAAAGAA
1 ATTATAAAAAAATTATAAAAATCGT-AAAAAAAA-TATAAGAAATTATACAAAATGCAAAAAAAA
* * *
95788282 TTATAAT-AATCAAACTCTTCAATTTTTCCACTTATCAATTAACATCTTTATTTTTTTTTTCAAA
64 TTATAATCAATCAAACTCTTCAATTTTTCCACTTACCAAATAACA-C-CTATTTTTTTTTTC-AA
* *
95788346 AAAAAGATTTAGTTTGAAGAGATTGACCAAGTCAACGAAAATTTTAACTAATCTAACTCTTAATT
126 AAAAAGATTTAGTTTGAAGAGATTGACCAAGTCAAC-AAAATTTTAACCAAACTAACTCTTAATT
* *
95788411 TTTCCACCCATCAATCAACAGCCTTTAATATTTTCTTACCCACCAATCATATTTTCCTTCCATT
190 TTTCCACCCAACAATCAACAGCCTTTAAAATTTTCTTACCCACCAATCATATTTTCCTTCCATT
95788475 GTATGCTTAT
Statistics
Matches: 227, Mismatches: 22, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
309 22 0.10
310 42 0.19
311 34 0.15
312 2 0.01
313 10 0.04
315 95 0.42
316 21 0.09
317 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.37
Consensus pattern (310 bp):
ATTATAAAAAAATTATAAAAATCGTAAAAAAAATATAAGAAATTATACAAAATGCAAAAAAAATT
ATAATCAATCAAACTCTTCAATTTTTCCACTTACCAAATAACACCTATTTTTTTTTTCAAAAAAA
GATTTAGTTTGAAGAGATTGACCAAGTCAACAAAATTTTAACCAAACTAACTCTTAATTTTTCCA
CCCAACAATCAACAGCCTTTAAAATTTTCTTACCCACCAATCATATTTTCCTTCCATTTTATAGT
CTTATGAGTTGTCGGGGGAAAACACTTAATTGTCCATAATTTATAAAATC
Found at i:95788518 original size:52 final size:52
Alignment explanation
Indices: 95788462--95788566 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
95788452 ACCAATCATA
95788462 TTTTCCTTCCATTGTATGCTTATTCTTAAGCTTCTTCACCGCCACTCTTAAC
1 TTTTCCTTCCATTGTATGCTTATTCTTAAGCTTCTTCACCGCCACTCTTAAC
95788514 TTTTCCTTCCATTGTATGCTTATTCTTAAGCTTCTTCACCGCCACTCTTAAC
1 TTTTCCTTCCATTGTATGCTTATTCTTAAGCTTCTTCACCGCCACTCTTAAC
95788566 T
1 T
95788567 CCAATTGACA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.17, C:0.30, G:0.08, T:0.45
Consensus pattern (52 bp):
TTTTCCTTCCATTGTATGCTTATTCTTAAGCTTCTTCACCGCCACTCTTAAC
Found at i:95790450 original size:9 final size:10
Alignment explanation
Indices: 95790438--95790479 Score: 70
Period size: 10 Copynumber: 4.4 Consensus size: 10
95790428 TTAAAAAATT
95790438 AAAATTCA-A
1 AAAATTCATA
95790447 AAAATTCATA
1 AAAATTCATA
95790457 AAAATTCATA
1 AAAATTCATA
95790467 AAAATTCA-A
1 AAAATTCATA
95790476 AAAA
1 AAAA
95790480 AGAAGAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 13 0.41
10 19 0.59
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAATTCATA
Found at i:95796939 original size:13 final size:13
Alignment explanation
Indices: 95796921--95796951 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
95796911 TATTTACAAT
*
95796921 AAATAAATAAGCC
1 AAATAAATAAACC
95796934 AAATAAATAAACC
1 AAATAAATAAACC
95796947 AAATA
1 AAATA
95796952 GATTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.13, G:0.03, T:0.16
Consensus pattern (13 bp):
AAATAAATAAACC
Found at i:95799612 original size:14 final size:14
Alignment explanation
Indices: 95799593--95799619 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95799583 AGAAAATTTT
95799593 TACTTTAGTTACTA
1 TACTTTAGTTACTA
95799607 TACTTTAGTTACT
1 TACTTTAGTTACT
95799620 TAGTAAATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (14 bp):
TACTTTAGTTACTA
Found at i:95802052 original size:20 final size:20
Alignment explanation
Indices: 95802027--95802065 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
95802017 ACAACTTTCA
95802027 TAATTTATAATTTT-TTTTTG
1 TAATTT-TAATTTTCTTTTTG
*
95802047 TAATTTTACTTTTCTTTTT
1 TAATTTTAATTTTCTTTTT
95802066 TGCCTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (20 bp):
TAATTTTAATTTTCTTTTTG
Found at i:95813393 original size:7 final size:7
Alignment explanation
Indices: 95813381--95813409 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
95813371 TTCATTTTTA
95813381 TCTAAAT
1 TCTAAAT
95813388 TCTAAAT
1 TCTAAAT
95813395 TCTAAAT
1 TCTAAAT
95813402 TCTAAAT
1 TCTAAAT
95813409 T
1 T
95813410 TACTAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (7 bp):
TCTAAAT
Found at i:95815849 original size:27 final size:27
Alignment explanation
Indices: 95815819--95815942 Score: 128
Period size: 27 Copynumber: 4.6 Consensus size: 27
95815809 TGTAGGATAG
95815819 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
** * *
95815846 AATTACTGAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
95815873 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
95815900 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
95815927 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
95815943 TTGACTTTCT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.06
27 72 0.89
28 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:95815930 original size:54 final size:54
Alignment explanation
Indices: 95815705--95815999 Score: 168
Period size: 54 Copynumber: 5.4 Consensus size: 54
95815695 AATACTTTAG
* * * * * *** *
95815705 TTTACCAAATTACTGAAATGCCCTCGATTTGTAGAATTACCATTTTACC-CTCA
1 TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGA
*** * ** *
95815758 GTTTACAAAATTACCGTTTTACCCTCAA-TTGTGAAATTACTGAAATACGACTG-
1 -TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGA
** * * * * **
95815811 TAGGATAGAATTACCAAAATACCC-CTAGTTTGTAAAATTACTGAAATACCACT-A
1 T-TTACAAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCACTGA
*** *
95815865 GTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGA
1 -TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGA
* * * * ** * *
95815920 TTTACAAAATTACAGAAATACCCTTGACTTTCTAAAAATTATAAAAATACCATTGG
1 TTTACAAAATTACCGAAATACCC-TCAATTTGT-AAAATTACCAAAATACCACTGA
*
95815976 TTTACAAAATTACTGAAATACCCT
1 TTTACAAAATTACCGAAATACCCT
95816000 TGGTTTGTAG
Statistics
Matches: 181, Mismatches: 50, Indels: 19
0.72 0.20 0.08
Matches are distributed among these distances:
52 2 0.01
53 28 0.15
54 102 0.56
55 10 0.06
56 39 0.22
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (54 bp):
TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGA
Found at i:95815980 original size:56 final size:55
Alignment explanation
Indices: 95815872--95816001 Score: 154
Period size: 56 Copynumber: 2.4 Consensus size: 55
95815862 CTAGTTTGTG
* * * * *
95815872 AAATTACCGAAATACCC-TCAATTTGTAAAATTACCAAAATACCCCTGATTTACA
1 AAATTACAGAAATACCCTTGAATTTCTAAAATTACAAAAATACCACTGATTTACA
* * * *
95815926 AAATTACAGAAATACCCTTGACTTTCTAAAAATTATAAAAATACCATTGGTTTACA
1 AAATTACAGAAATACCCTTGAATTTCT-AAAATTACAAAAATACCACTGATTTACA
*
95815982 AAATTACTGAAATACCCTTG
1 AAATTACAGAAATACCCTTG
95816002 GTTTGTAGAT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 16 0.25
55 6 0.09
56 42 0.66
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (55 bp):
AAATTACAGAAATACCCTTGAATTTCTAAAATTACAAAAATACCACTGATTTACA
Found at i:95815994 original size:27 final size:27
Alignment explanation
Indices: 95815844--95816005 Score: 96
Period size: 27 Copynumber: 5.9 Consensus size: 27
95815834 CCTAGTTTGT
* **
95815844 AAAATTACTGAAATACCAC-TAGTTTGT
1 AAAATTACTGAAATACC-CTTGGTTTAC
* * *** **
95815871 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
** * *
95815898 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
95815925 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
* *
95815952 TAAAAATTA-TAAAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
95815981 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
95816006 GTAGATTTAC
Statistics
Matches: 107, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
26 1 0.01
27 81 0.76
28 7 0.07
29 18 0.17
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:95816968 original size:25 final size:25
Alignment explanation
Indices: 95816934--95817028 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
95816924 AGGAAGTGCT
95816934 AAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAGGGCTCTGCCCCAGTTTACCG
*
95816959 AAAAGGGCTCTGCCCCAATTTACCG
1 AAAAGGGCTCTGCCCCAGTTTACCG
* * *
95816984 AAAAGGGCTTTGCCCTAGTTTATC-
1 AAAAGGGCTCTGCCCCAGTTTACCG
*
95817008 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTCTGCCCCAGTT
95817029 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 1 0.02
25 62 0.98
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTCTGCCCCAGTTTACCG
Found at i:95817041 original size:24 final size:23
Alignment explanation
Indices: 95816934--95817055 Score: 91
Period size: 25 Copynumber: 5.0 Consensus size: 23
95816924 AGGAAGTGCT
* *
95816934 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
* * *
95816958 GAAAAGGGCTCTGCCCCAATTTACC
1 -AAAAGGGCTTTGCCCC-AGTTATC
*
95816983 GAAAAGGGCTTTGCCCTAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
95817008 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
95817032 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
95817056 ATGATAAAGC
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
23 4 0.05
24 14 0.17
25 64 0.77
26 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:95817241 original size:42 final size:42
Alignment explanation
Indices: 95817176--95817309 Score: 232
Period size: 42 Copynumber: 3.2 Consensus size: 42
95817166 TAGTCTCCCC
*
95817176 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
95817218 AAAAGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
* *
95817260 AAATGGGCATGCATACATCTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
95817302 AAATGGGC
1 AAATGGGC
95817310 CTAAGGGCCA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:95817351 original size:23 final size:23
Alignment explanation
Indices: 95817325--95817369 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
95817315 GGCCATACCA
*
95817325 TTTACAGTAAAGGCTTCGGCCCG
1 TTTACAATAAAGGCTTCGGCCCG
95817348 TTTACAATAAAGGCTTCGGCCC
1 TTTACAATAAAGGCTTCGGCCC
95817370 AGTGATATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (23 bp):
TTTACAATAAAGGCTTCGGCCCG
Found at i:95817399 original size:31 final size:31
Alignment explanation
Indices: 95817356--95817470 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
95817346 CGTTTACAAT
95817356 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
95817387 AAAGTCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
95817418 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
95817449 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
95817471 TCAAGACTGA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:95822715 original size:64 final size:64
Alignment explanation
Indices: 95822634--95822817 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 64
95822624 AGACATTATG
* *
95822634 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
95822698 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
95822762 TAA
62 TAA
* * * *
95822765 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
95822818 CGATCTCTAT
Statistics
Matches: 98, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 23 0.23
65 4 0.04
66 18 0.18
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:95823276 original size:2 final size:2
Alignment explanation
Indices: 95823269--95823299 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
95823259 TCATGACATG
95823269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95823300 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:95824652 original size:33 final size:33
Alignment explanation
Indices: 95824610--95824676 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
95824600 ACCGATAAGC
95824610 TTACAAAGCTTAGTAAGAACATAGTATAACATT
1 TTACAAAGCTTAGTAAGAACATAGTATAACATT
*
95824643 TTACAAAGCTTAGTAAGAACATAGTATGACATT
1 TTACAAAGCTTAGTAAGAACATAGTATAACATT
95824676 T
1 T
95824677 AATCTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.31
Consensus pattern (33 bp):
TTACAAAGCTTAGTAAGAACATAGTATAACATT
Found at i:95824798 original size:40 final size:40
Alignment explanation
Indices: 95824754--95824957 Score: 225
Period size: 40 Copynumber: 5.1 Consensus size: 40
95824744 ATGTAAGAGT
* * * *
95824754 ATTCAGGGGTACCAGAGTACAAAAAAGGGCACATACGTGC
1 ATTCAGGGGTACCAGAGTACAAACAGGGGCACACATGTGC
* *
95824794 ATTCAGGGGTACC-GAAGAACAAACAAGGGCACACATGTGC
1 ATTCAGGGGTACCAG-AGTACAAACAGGGGCACACATGTGC
* **
95824834 ATTTAGGGGTACC-GAAGTAC-AACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCAG-AGTACAAACAGGGGCACACATGTGC
* *
95824873 ATTCAGGGGTACCAAAGTACAAATAGGGGCACACATGTGC
1 ATTCAGGGGTACCAGAGTACAAACAGGGGCACACATGTGC
* * * * *
95824913 CTTTAGGGGCACCAAAGTACAAACAGGGGCACGCATGTGC
1 ATTCAGGGGTACCAGAGTACAAACAGGGGCACACATGTGC
95824953 ATTCA
1 ATTCA
95824958 TACAATAATT
Statistics
Matches: 140, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 34 0.24
40 106 0.76
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (40 bp):
ATTCAGGGGTACCAGAGTACAAACAGGGGCACACATGTGC
Done.