Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 96 of 203
Found at i:30381820 original size:16 final size:16
Alignment explanation
Indices: 30381799--30381831 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30381789 TTCGCTGTAT
30381799 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
30381815 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
30381831 T
1 T
30381832 AGCATAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:30382010 original size:18 final size:16
Alignment explanation
Indices: 30381959--30382002 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
30381949 ATTTAATCAT
* *
30381959 ATTTAAACATAATTATT
1 ATTTAAATAT-ATTATA
30381976 A-TTAAATATATTATA
1 ATTTAAATATATTATA
30381991 ATTTAAATATAT
1 ATTTAAATATAT
30382003 AATTTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 17 0.71
17 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTAAATATATTATA
Found at i:30382062 original size:61 final size:61
Alignment explanation
Indices: 30381996--30382183 Score: 206
Period size: 61 Copynumber: 3.1 Consensus size: 61
30381986 TTATAATTTA
30381996 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * ** * *
30382057 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATATTTTAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCAAATCAT
30382116 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
30382177 AATATAT
1 AATATAT
30382184 GATACTATAA
Statistics
Matches: 95, Mismatches: 24, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
58 1 0.01
59 31 0.33
60 24 0.25
61 38 0.40
62 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:30382107 original size:120 final size:121
Alignment explanation
Indices: 30381964--30382256 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 121
30381954 ATCATATTTA
* *
30381964 AACATAATTATTATTAAATATATTATAATTTAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
30382029 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
30382084 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
30382149 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
30382205 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
30382257 TAAAATAATT
Statistics
Matches: 166, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
120 164 0.99
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:30382122 original size:18 final size:17
Alignment explanation
Indices: 30382101--30382135 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30382091 TTATTATTAA
*
30382101 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
30382119 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30382136 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30382326 original size:26 final size:28
Alignment explanation
Indices: 30382297--30382357 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
30382287 TATGAATTTG
*
30382297 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATGATTACA
*
30382323 TATAATTTAATAATAATATATGATTTCA
1 TATAATTTAATAATAATATATGATTACA
*
30382351 TAAAATT
1 TATAATT
30382358 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATGATTACA
Found at i:30382432 original size:90 final size:90
Alignment explanation
Indices: 30382273--30382478 Score: 270
Period size: 90 Copynumber: 2.3 Consensus size: 90
30382263 AATTATAACC
* * * *
30382273 AATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAATA
1 AATAAATTTTCTTATATGAA-TT-TATAATTTAAAATAAATAATATTAAATATAATTTAATAATA
* *
30382338 ATATATGATTTCATAAAATTATTGAT-
64 ATATATAATTTCATAAAATTATTAATA
* *
30382364 AATAAATTTTCTTATATGAATTTATACATTTAAAATAAATAATGTTAAATATAATTTAATAATGA
1 AATAAATTTTCTTATATGAATTTATA-ATTTAAAATAAATAATATTAAATATAATTTAATAATAA
* *
30382429 TATATAATTTCATAAATTTCTTAATA
65 TATATAATTTCATAAAATTATTAATA
* *
30382455 AAAAAATGTTCTTATATGAATTTA
1 AATAAATTTTCTTATATGAATTTA
30382479 CTAAAATCAA
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
89 4 0.04
90 56 0.55
91 41 0.41
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (90 bp):
AATAAATTTTCTTATATGAATTTATAATTTAAAATAAATAATATTAAATATAATTTAATAATAAT
ATATAATTTCATAAAATTATTAATA
Found at i:30387237 original size:8 final size:8
Alignment explanation
Indices: 30387224--30387263 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
30387214 GTAATGAGCA
30387224 ATACAAAC
1 ATACAAAC
30387232 ATACAAAC
1 ATACAAAC
*
30387240 A-A-AACC
1 ATACAAAC
30387246 ATACAAAC
1 ATACAAAC
30387254 ATACAAAC
1 ATACAAAC
30387262 AT
1 AT
30387264 GCAATCGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 4 0.14
7 2 0.07
8 22 0.79
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
ATACAAAC
Found at i:30393211 original size:8 final size:8
Alignment explanation
Indices: 30393189--30393222 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
30393179 ATTTTTAAAG
30393189 TTAGGTAA
1 TTAGGTAA
30393197 -T-GGTAA
1 TTAGGTAA
30393203 TTAGGTAA
1 TTAGGTAA
30393211 TTAGGTAA
1 TTAGGTAA
30393219 TTAG
1 TTAG
30393223 CCAATTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 5 0.21
7 2 0.08
8 17 0.71
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.38
Consensus pattern (8 bp):
TTAGGTAA
Found at i:30402089 original size:50 final size:50
Alignment explanation
Indices: 30401966--30402255 Score: 284
Period size: 50 Copynumber: 5.7 Consensus size: 50
30401956 CATTTGGGTA
*
30401966 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C
30402020 ATGAGAGGTCCCA-GCTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
1 A--AGAGGTCCCATG-TAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
* * *
30402072 AAGATGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
** * * *
30402122 AAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACA-TGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
* ** * * * * * **
30402171 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCTTTCGTAGTGCATGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-A-GAC
*
30402222 AACA--TCCCATGTAAGACCATGTCTGGGACATGGC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
30402256 TTTGACATAT
Statistics
Matches: 201, Mismatches: 28, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
49 67 0.33
50 80 0.40
51 4 0.02
52 3 0.01
53 4 0.02
54 1 0.00
55 3 0.01
56 39 0.19
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
Found at i:30402206 original size:99 final size:104
Alignment explanation
Indices: 30401972--30402206 Score: 311
Period size: 99 Copynumber: 2.3 Consensus size: 104
30401962 GGTAAAGAGA
30401972 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCCAGCTA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGATCA-GAGAGGTCCCAGCTA
* **
30402037 AGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGATG
64 AGACCATGTCTGGGACATGACATTGGCACCGAGACAAGAAC
* *
30402078 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGAT-A-AGAGGTCCC-CCGTAA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGATCAGAGAGGTCCCAGC-TAA
* **
30402138 GACCATGTCTGGGACATGACA-TGGCACCGATATGAGAAC
65 GACCATGTCTGGGACATGACATTGGCACCGAGACAAGAAC
* *
30402177 TCCCATGTAAGACCATATCTGGGATATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
30402207 TTTCGTAGTG
Statistics
Matches: 118, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
99 42 0.36
100 32 0.27
102 1 0.01
103 5 0.04
105 2 0.02
106 36 0.31
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (104 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGATCAGAGAGGTCCCAGCTAAG
ACCATGTCTGGGACATGACATTGGCACCGAGACAAGAAC
Found at i:30406627 original size:50 final size:50
Alignment explanation
Indices: 30406504--30406793 Score: 284
Period size: 50 Copynumber: 5.7 Consensus size: 50
30406494 CATTTGGGTA
*
30406504 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C
30406558 ATGAGAGGTCCCA-GCTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
1 A--AGAGGTCCCATG-TAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
* * *
30406610 AAGATGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
** * * *
30406660 AAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACA-TGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
* ** * * * * * **
30406709 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCTTTCGTAGTGCATGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-A-GAC
*
30406760 AACA--TCCCATGTAAGACCATGTCTGGGACATGGC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
30406794 TTTGACATAT
Statistics
Matches: 201, Mismatches: 28, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
49 67 0.33
50 80 0.40
51 4 0.02
52 3 0.01
53 4 0.02
54 1 0.00
55 3 0.01
56 39 0.19
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAC
Found at i:30406744 original size:99 final size:104
Alignment explanation
Indices: 30406510--30406744 Score: 311
Period size: 99 Copynumber: 2.3 Consensus size: 104
30406500 GGTAAAGAGA
30406510 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCCAGCTA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGATCA-GAGAGGTCCCAGCTA
* **
30406575 AGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGATG
64 AGACCATGTCTGGGACATGACATTGGCACCGAGACAAGAAC
* *
30406616 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGAT-A-AGAGGTCCC-CCGTAA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGATCAGAGAGGTCCCAGC-TAA
* **
30406676 GACCATGTCTGGGACATGACA-TGGCACCGATATGAGAAC
65 GACCATGTCTGGGACATGACATTGGCACCGAGACAAGAAC
* *
30406715 TCCCATGTAAGACCATATCTGGGATATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
30406745 TTTCGTAGTG
Statistics
Matches: 118, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
99 42 0.36
100 32 0.27
102 1 0.01
103 5 0.04
105 2 0.02
106 36 0.31
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (104 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGATCAGAGAGGTCCCAGCTAAG
ACCATGTCTGGGACATGACATTGGCACCGAGACAAGAAC
Found at i:30411065 original size:20 final size:20
Alignment explanation
Indices: 30411040--30411082 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
30411030 AAGCTACCAA
30411040 CAATTTATGCTTAGCCGAAC
1 CAATTTATGCTTAGCCGAAC
30411060 CAATTTATGCTTAGCCGAAC
1 CAATTTATGCTTAGCCGAAC
30411080 CAA
1 CAA
30411083 GCTACCAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (20 bp):
CAATTTATGCTTAGCCGAAC
Found at i:30420419 original size:40 final size:39
Alignment explanation
Indices: 30420335--30420519 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 39
30420325 TTGAATGATG
* * *
30420335 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
30420375 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAA
* *
30420415 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
*
30420454 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-TACTA-AA
**
30420495 -CCGGGCTGTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
30420520 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 76 0.61
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:30420471 original size:79 final size:81
Alignment explanation
Indices: 30420335--30420519 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
30420325 TTGAATGATG
*
30420335 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
30420399 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
30420414 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
30420476 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* **
30420494 ACCGGGCTGTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30420520 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 56 0.62
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:30420541 original size:79 final size:79
Alignment explanation
Indices: 30420388--30420552 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
30420378 GGACTAAGAT
* **
30420388 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
30420453 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
**
30420467 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTGTGTCCCGAAGGCATTTGAACGAG-TAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
* *
30420529 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
30420546 CCGAAGG
1 CCGAAGG
30420553 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:30437820 original size:7 final size:7
Alignment explanation
Indices: 30437804--30437854 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
30437794 AGGGTTAGGA
30437804 TTTT-GG
1 TTTTGGG
30437810 TTTTGGG
1 TTTTGGG
30437817 TTTTGGG
1 TTTTGGG
30437824 TTTTGGG
1 TTTTGGG
*
30437831 TTTAGGG
1 TTTTGGG
*
30437838 -TTAGGG
1 TTTTGGG
30437844 TTTTTGGG
1 -TTTTGGG
30437852 TTT
1 TTT
30437855 ATGGTTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
6 10 0.25
7 25 0.62
8 5 0.12
ACGTcount: A:0.04, C:0.00, G:0.39, T:0.57
Consensus pattern (7 bp):
TTTTGGG
Found at i:30438094 original size:95 final size:94
Alignment explanation
Indices: 30437869--30438172 Score: 394
Period size: 96 Copynumber: 3.2 Consensus size: 94
30437859 TTTTAAAGGG
* ** * * ** *
30437869 ATTAGGGCTTAGGGTTTTTTAATTAAATTAATTATAAAATTTTCAAAATTAGATTAGGGTTCT-G
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTAAAAATTAGATTAGGGTT-TAG
* * *
30437933 TACTTATGGTTTTTAAGGAAAAAATCAATTAA
65 T-GTTAGGGTTTTTAAGG-AAAAATCAAATAA
*
30437965 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTTAAAATTAGATTAGGGTTTAGT
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTAAAAATTAGATTAGGGTTTAGT
30438030 GTTAAGGGTTTTTAAGGAAAAATCAAATAA
66 GTT-AGGGTTTTTAAGGAAAAATCAAATAA
**
30438060 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATATATTTTAAAAAAATTAGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA-ATTTTTTAAAAATTAGATTAGGGTTTAG
*
30438125 TGTTTAGGGTTTTTAAAGAAAAACTCAAATAA
65 TG-TTAGGGTTTTTAAGGAAAAA-TCAAATAA
*
30438157 ATTAGGGTTTGGGGTT
1 ATTAGGGTTTAGGGTT
30438173 TAGGGTTATT
Statistics
Matches: 187, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
95 51 0.27
96 111 0.59
97 25 0.13
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (94 bp):
ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTAAAAATTAGATTAGGGTTTAGT
GTTAGGGTTTTTAAGGAAAAATCAAATAA
Found at i:30438430 original size:126 final size:125
Alignment explanation
Indices: 30438205--30438497 Score: 426
Period size: 126 Copynumber: 2.3 Consensus size: 125
30438195 TTGTTTATTT
* * * **
30438205 AAAAAAGCTCCCACGTGGATGCT-TTCTTTCTACAGTAGTTACTGAAAATATAATTTTGAGAAGA
1 AAAAAAGCTCCCACGTGGACGCTCTT-TTGCTACAGTAGTT-CTGAAAAAATAATTTCAAGAAGA
* *
30438269 CGTTTCTGAGCAAATAGTGGCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTG
64 CCTTTCTGAGCAAATAGTGGCAAAAACGCTTTAAGCAGGATGCATTGTCAACAAAAGTACTG
* *
30438331 AAAAAAGGTCCCTCGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTCAAGAAGAC
1 AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTC-TGAAAAAATAATTTCAAGAAGAC
* * *
30438396 CTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGTTGCTTTGTCAACAAAAGTACTG
65 CTTTCTGAGCAAATAGTGGCAAAAACGCTTTAAGCAGGATGCATTGTCAACAAAAGTACTG
* *
30438457 AAAGAAGCTCCCACGTGGACGCTCTCTTGCTACAGTAGTTC
1 AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTC
30438498 CTATTTGGCC
Statistics
Matches: 149, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
125 1 0.01
126 146 0.98
127 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (125 bp):
AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCTGAAAAAATAATTTCAAGAAGACC
TTTCTGAGCAAATAGTGGCAAAAACGCTTTAAGCAGGATGCATTGTCAACAAAAGTACTG
Found at i:30441663 original size:17 final size:17
Alignment explanation
Indices: 30441633--30441670 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
30441623 TAAATGAAAT
30441633 AATATAGAAATATTTAA
1 AATATAGAAATATTTAA
* *
30441650 AATATTGAATTATTTAA
1 AATATAGAAATATTTAA
30441667 AATA
1 AATA
30441671 ATTTCTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (17 bp):
AATATAGAAATATTTAA
Found at i:30441684 original size:61 final size:60
Alignment explanation
Indices: 30441494--30441687 Score: 163
Period size: 61 Copynumber: 3.3 Consensus size: 60
30441484 ATATTGTATT
* * * *
30441494 ATTTATATTTT-TTGAAATGAAATAATATATAAATACTCAAAATATTGCCTTATTTAAAAGA
1 ATTTCTATTTTATT-AAATGAAATAATATAGAAATA-TTAAAATATTGCCTTATTTAAAACA
* * * * *
30441555 ATTTCTATTTTATT-AA--AAATATTAAAGTAA-ATT-ACA-ATT-CCTTGATTCAAAACA
1 ATTTCTATTTTATTAAATGAAATAATATAGAAATATTAAAATATTGCCTT-ATTTAAAACA
** *
30441609 ACGTTT-TATTTTATTAAATGAAATAATATAGAAATATTTAAAATATTGAATTATTTAAAATA
1 A--TTTCTATTTTATTAAATGAAATAATATAGAAATA-TTAAAATATTGCCTTATTTAAAACA
30441671 ATTTCTATTTTATTAAA
1 ATTTCTATTTTATTAAA
30441688 AATATAAAAG
Statistics
Matches: 103, Mismatches: 17, Indels: 26
0.71 0.12 0.18
Matches are distributed among these distances:
53 4 0.04
54 12 0.12
55 11 0.11
56 6 0.06
57 1 0.01
58 21 0.20
59 1 0.01
60 7 0.07
61 24 0.23
62 14 0.14
63 2 0.02
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (60 bp):
ATTTCTATTTTATTAAATGAAATAATATAGAAATATTAAAATATTGCCTTATTTAAAACA
Found at i:30441744 original size:34 final size:33
Alignment explanation
Indices: 30441670--30441758 Score: 98
Period size: 34 Copynumber: 2.8 Consensus size: 33
30441660 TATTTAAAAT
30441670 AATTTCTATTTTATTA-A--AAAT-ATAAAAGTA
1 AATTTCTATTTTATTACATGAAATAATAAAAG-A
*
30441700 AATTTTTATTTTATTACATGAAATAATATAACAG-
1 AATTTCTATTTTATTACATGAAATAATA-AA-AGA
*
30441734 AATTTCTATTTTATTACATGTAATA
1 AATTTCTATTTTATTACATGAAATA
30441759 GGCATCAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
30 15 0.30
31 1 0.02
33 4 0.08
34 26 0.52
35 2 0.04
36 2 0.04
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (33 bp):
AATTTCTATTTTATTACATGAAATAATAAAAGA
Found at i:30442208 original size:18 final size:18
Alignment explanation
Indices: 30442182--30442223 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
30442172 GACTAGAAAA
* * *
30442182 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
30442200 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
30442218 AGGATA
1 AGGATA
30442224 AGCACTTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.29, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:30442852 original size:7 final size:7
Alignment explanation
Indices: 30442842--30442870 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
30442832 TTATATACAT
30442842 AATACTA
1 AATACTA
30442849 AATACTA
1 AATACTA
30442856 AATACTA
1 AATACTA
30442863 AATACTA
1 AATACTA
30442870 A
1 A
30442871 GTACAAATTG
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:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:30444031 original size:23 final size:21
Alignment explanation
Indices: 30443989--30444052 Score: 94
Period size: 23 Copynumber: 3.0 Consensus size: 21
30443979 AAGAGGAATT
30443989 TGTGAG-GAATTTGAGAGAAA
1 TGTGAGAGAATTTGAGAGAAA
30444009 TGTGAGAGAATATTGGAGAGAAA
1 TGTGAGAGAAT-TT-GAGAGAAA
*
30444032 TATGAGAGAATTTGAGAGAAA
1 TGTGAGAGAATTTGAGAGAAA
30444053 GGATTTAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
20 6 0.15
21 12 0.30
22 4 0.10
23 18 0.45
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (21 bp):
TGTGAGAGAATTTGAGAGAAA
Found at i:30446619 original size:40 final size:40
Alignment explanation
Indices: 30446575--30446838 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
30446565 GCTCCTCGTT
* *
30446575 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
30446615 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
30446655 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
30446695 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
30446735 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
30446774 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
30446815 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30446839 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30455441 original size:29 final size:29
Alignment explanation
Indices: 30455378--30455445 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
30455368 TAATCAACCG
30455378 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
30455407 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
30455436 CGCACACTTA
1 CGCACACTTA
30455446 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:30455557 original size:174 final size:174
Alignment explanation
Indices: 30455267--30455594 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
30455257 AACTCAAGGT
*
30455267 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
30455332 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
30455397 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
30455441 ACTTACCTTTTCCGCTGTCCAAAATTGACTTGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
30455506 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
30455571 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
30455595 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:30455586 original size:29 final size:30
Alignment explanation
Indices: 30455547--30455625 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
30455537 CTTAATAATC
30455547 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
30455577 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
30455606 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30455626 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:30461365 original size:18 final size:18
Alignment explanation
Indices: 30461339--30461378 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
30461329 TCTCTCCATG
30461339 TCTTCCTCATCATCATCA
1 TCTTCCTCATCATCATCA
* *
30461357 TCTTTCTCATCCTCATCA
1 TCTTCCTCATCATCATCA
30461375 TCTT
1 TCTT
30461379 ATTCTCCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.38, G:0.00, T:0.45
Consensus pattern (18 bp):
TCTTCCTCATCATCATCA
Found at i:30473502 original size:40 final size:40
Alignment explanation
Indices: 30473458--30473556 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
30473448 GTATAAATAG
* * *
30473458 GGGCACATAAGTTCATTCAGGGTTACTGAAA-TACAAACAA
1 GGGCACATAAGTGCATTCAGGGGTAC-CAAAGTACAAACAA
* * *
30473498 GGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAACAG
1 GGGCACATAAGTGCATTCAGGGGTACCAAAGTACAAACAA
* *
30473538 GGGCACGTATGTGCATTCA
1 GGGCACATAAGTGCATTCA
30473557 TTCAATACTT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 3 0.06
40 49 0.94
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.21
Consensus pattern (40 bp):
GGGCACATAAGTGCATTCAGGGGTACCAAAGTACAAACAA
Found at i:30484788 original size:20 final size:20
Alignment explanation
Indices: 30484763--30484801 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
30484753 GTTTATCAGG
30484763 CCTAGTGTAACAGCCCGTTA
1 CCTAGTGTAACAGCCCGTTA
30484783 CCTAGTGTAACAGCCCGTT
1 CCTAGTGTAACAGCCCGTT
30484802 TTCAGTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (20 bp):
CCTAGTGTAACAGCCCGTTA
Found at i:30485138 original size:16 final size:15
Alignment explanation
Indices: 30485117--30485146 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30485107 ATATCAAGGT
30485117 TAATTAAGTGAATTAG
1 TAATTAAGT-AATTAG
30485133 TAATTAAGTAATTA
1 TAATTAAGTAATTA
30485147 AAATAGGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
TAATTAAGTAATTAG
Found at i:30485969 original size:29 final size:29
Alignment explanation
Indices: 30485936--30486005 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
30485926 ATCGACAAAT
* *
30485936 GAAAAAGGATGGCTTCGGCTATCGAATAC
1 GAAAAAGGATAGCTTCGACTATCGAATAC
* *
30485965 GAAAAAGGATAGCTTCGACTATCGATTAT
1 GAAAAAGGATAGCTTCGACTATCGAATAC
*
30485994 GAAAAGGGATAG
1 GAAAAAGGATAG
30486006 TGATGACCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (29 bp):
GAAAAAGGATAGCTTCGACTATCGAATAC
Found at i:30486057 original size:30 final size:29
Alignment explanation
Indices: 30485991--30486064 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
30485981 GACTATCGAT
* *
30485991 TATGAAAAGGGATAGTGATGACCATAAAC
1 TATGAAAAGGGATGGTGAAGACCATAAAC
* *
30486020 AATGAAAAGGGATGGTGAAGACCATCGAAC
1 TATGAAAAGGGATGGTGAAGACCAT-AAAC
*
30486050 TATGAAAAAGGATGG
1 TATGAAAAGGGATGG
30486065 CTTCAGCTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 22 0.58
30 16 0.42
ACGTcount: A:0.45, C:0.09, G:0.28, T:0.18
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGAAGACCATAAAC
Found at i:30486077 original size:30 final size:31
Alignment explanation
Indices: 30485934--30486152 Score: 167
Period size: 30 Copynumber: 7.4 Consensus size: 31
30485924 TCATCGACAA
* * *
30485934 ATGAAAAAGGATGGCTTC-GGCTATCGAA-T
1 ATGAAAAGGGATAGCTTCAGACTATCGAACT
* * *
30485963 ACGAAAAAGGATAGCTTC-GACTATCG-ATT
1 ATGAAAAGGGATAGCTTCAGACTATCGAACT
* * * *
30485992 ATGAAAAGGGATAG--TGATGACCAT-AAACA
1 ATGAAAAGGGATAGCTTCA-GACTATCGAACT
* ** *
30486021 ATGAAAAGGGAT-GGTGAAGACCATCGAACT
1 ATGAAAAGGGATAGCTTCAGACTATCGAACT
* *
30486051 ATGAAAAAGGATGGCTTCAG-CTATCGATA-T
1 ATGAAAAGGGATAGCTTCAGACTATCGA-ACT
* *
30486081 ATGAAAAGGGATAGCTTCAG-CTATCAAATT
1 ATGAAAAGGGATAGCTTCAGACTATCGAACT
30486111 ATGAAAAGGGATAGCTTC-GACTATCGAACT
1 ATGAAAAGGGATAGCTTCAGACTATCGAACT
30486141 ATG-AAAGGGATA
1 ATGAAAAGGGATA
30486153 ACTTTGGTTA
Statistics
Matches: 155, Mismatches: 24, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 71 0.46
30 76 0.49
31 5 0.03
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (31 bp):
ATGAAAAGGGATAGCTTCAGACTATCGAACT
Found at i:30486114 original size:60 final size:59
Alignment explanation
Indices: 30486050--30486183 Score: 173
Period size: 59 Copynumber: 2.3 Consensus size: 59
30486040 ACCATCGAAC
*
30486050 TATGAAAAAGGATGGCTTC-AGCTATCGATA-TATGAAAAGGGATAGCTTCAGCTATCAAAT
1 TATGAAAAAGGATGGCTTCGA-CTATCGA-ACTATG-AAAGGGATAACTTCAGCTATCAAAT
* * ** *
30486110 TATGAAAAGGGATAGCTTCGACTATCGAACTATGAAAGGGATAACTTTGGTTATCAAAT
1 TATGAAAAAGGATGGCTTCGACTATCGAACTATGAAAGGGATAACTTCAGCTATCAAAT
30486169 TATGAAAAAGGATGG
1 TATGAAAAAGGATGG
30486184 GTCAACCATT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
59 35 0.55
60 28 0.44
61 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (59 bp):
TATGAAAAAGGATGGCTTCGACTATCGAACTATGAAAGGGATAACTTCAGCTATCAAAT
Found at i:30491842 original size:34 final size:34
Alignment explanation
Indices: 30491803--30491874 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
30491793 TAGATAATTT
30491803 TAAAGAGTTTTATTAGGGTTCAATTACTCTTGTA
1 TAAAGAGTTTTATTAGGGTTCAATTACTCTTGTA
30491837 TAAAGAGTTTTATTAGGGTTCAATTACTCTTGTA
1 TAAAGAGTTTTATTAGGGTTCAATTACTCTTGTA
30491871 TAAA
1 TAAA
30491875 TAGGCTTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (34 bp):
TAAAGAGTTTTATTAGGGTTCAATTACTCTTGTA
Found at i:30503494 original size:22 final size:22
Alignment explanation
Indices: 30503445--30503487 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
30503435 AAGCAACACT
*
30503445 TTCTAATTACATCATATGTAAC
1 TTCTAATTACAGCATATGTAAC
30503467 TTCTAATTACAGCATATGTAA
1 TTCTAATTACAGCATATGTAA
30503488 TTCCTAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (22 bp):
TTCTAATTACAGCATATGTAAC
Found at i:30508366 original size:140 final size:138
Alignment explanation
Indices: 30508134--30508404 Score: 398
Period size: 140 Copynumber: 1.9 Consensus size: 138
30508124 TATTAATTCA
* *
30508134 AATTAAACTACTCATGTAAAATAAATATCTATAACCAATCAAGACTTCAAAAGCTATACTCAAAT
1 AATTAAAATACTCATATAAAATAAATATCTATAACCAATCAAGACTTCAAAAGCTATACTCAAAT
*
30508199 TTTAATTTTAATTATTGGATTTAAATAATCATTAAAAATAGTTTAAATATCTAATAATATATATA
66 CTTAATTTTAATTATTGGATTTAAATAATCATTAAAAATAGTTTAAATATCTAATAATATATATA
30508264 TGTGTTCG
131 TGTGTTCG
* * * ** * * *
30508272 AATTAAAATATTCATATAAAATAAATATCTGATGACGAATCTTGACTTCAAAAAGTTATATTCAG
1 AATTAAAATACTCATATAAAATAAATATCT-ATAACCAATCAAGACTTC-AAAAGCTATACTCAA
* * *
30508337 ATCTTAATTTTAATTATTGGATTTGAATAATCATTAAAAATAGTTTGAGTATCTAATAATATATA
64 ATCTTAATTTTAATTATTGGATTTAAATAATCATTAAAAATAGTTTAAATATCTAATAATATATA
30508402 TAT
129 TAT
30508405 ATGTCCAAAA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
138 27 0.23
139 14 0.12
140 76 0.65
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (138 bp):
AATTAAAATACTCATATAAAATAAATATCTATAACCAATCAAGACTTCAAAAGCTATACTCAAAT
CTTAATTTTAATTATTGGATTTAAATAATCATTAAAAATAGTTTAAATATCTAATAATATATATA
TGTGTTCG
Found at i:30509931 original size:39 final size:36
Alignment explanation
Indices: 30509851--30509931 Score: 90
Period size: 39 Copynumber: 2.2 Consensus size: 36
30509841 CTTGTTGAAG
*
30509851 AAATTAGCGAGCTTTAAAAACGACAGTCGTGATCAT
1 AAATCAGCGAGCTTTAAAAACGACAGTCGTGATCAT
* ** *
30509887 GAATCAGCGAGCTGTTAGAAAATCGAGGGTCGTGATCTT
1 AAATCAGCGAGCT-TTA-AAAA-CGACAGTCGTGATCAT
30509926 AAATCA
1 AAATCA
30509932 ACAGACCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
36 11 0.31
37 3 0.08
38 4 0.11
39 18 0.50
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (36 bp):
AAATCAGCGAGCTTTAAAAACGACAGTCGTGATCAT
Found at i:30510082 original size:12 final size:12
Alignment explanation
Indices: 30510065--30510089 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30510055 CAAAGGCTAT
30510065 TAACAATATTTA
1 TAACAATATTTA
30510077 TAACAATATTTA
1 TAACAATATTTA
30510089 T
1 T
30510090 GTTATAAAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:30512095 original size:76 final size:76
Alignment explanation
Indices: 30511994--30512454 Score: 381
Period size: 76 Copynumber: 6.2 Consensus size: 76
30511984 AAAAAACAGT
* * * ** * *
30511994 TGTGAACGAAGGTTAACGAGCTATTAGAAAATTAAGGGTCGCGATCTTAATTCAGCGGACTATAA
1 TGTGAACGTAGGTCAACAAGCTATTAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCATAA
30512059 AAAATATCAAC
66 AAAATATCAAC
* * * * * *
30512070 TGTGAACGTAGGTCAACGAGTTATTAGAAAACCGAGGGTCGTGATATTAAATCAGTGGACCATAA
1 TGTGAACGTAGGTCAACAAGCTATTAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCATAA
*
30512135 AAAATAACAAC
66 AAAATATCAAC
* * * * *
30512146 TGTGAACGTAGGTCAGCAAGCTATTAGAAAACCAAGGATCGCGATCTTAAATCAACGAACCGTAA
1 TGTGAACGTAGGTCAACAAGCTATTAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCATAA
*
30512211 AAAA-ATCAAT
66 AAAATATCAAC
* * * * * * **
30512221 TGTGAACGTAGGTCAACAAGTTTTTAGAAAACCGAGGGTCACAATCTTAAATAAGCATACCAT--
1 TGTGAACGTAGGTCAACAAGCTATTAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCATAA
30512284 AAAA-A--AA-
66 AAAATATCAAC
* * * * * *
30512291 --T---CGTAGGTCAGCAAGCTACTAGAAAATCGAGGGTCGCGATCATAAATCAGCGGACCGTAA
1 TGTGAACGTAGGTCAACAAGCTATTAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCATAA
*
30512351 AAAA-ATCAGC
66 AAAATATCAAC
* * * * * ** * * **
30512361 TGTGAACGTAAGTTAGCGAGCTGTTAGAAAACTGAGGGTCACGATCTTAAATCAACAAACCATAA
1 TGTGAACGTAGGTCAACAAGCTATTAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCAT-A
*
30512426 AAAAAAATCAAC
65 AAAAATATCAAC
* *
30512438 TGTGAACATAGATCAAC
1 TGTGAACGTAGGTCAAC
30512455 GAGTTGTTAA
Statistics
Matches: 304, Mismatches: 69, Indels: 23
0.77 0.17 0.06
Matches are distributed among these distances:
65 45 0.15
67 5 0.02
68 1 0.00
69 1 0.00
71 2 0.01
72 1 0.00
73 5 0.02
75 99 0.33
76 128 0.42
77 17 0.06
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.21
Consensus pattern (76 bp):
TGTGAACGTAGGTCAACAAGCTATTAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCATAA
AAAATATCAAC
Found at i:30512337 original size:65 final size:65
Alignment explanation
Indices: 30512227--30512357 Score: 154
Period size: 65 Copynumber: 2.0 Consensus size: 65
30512217 CAATTGTGAA
* ** * *
30512227 CGTAGGTCAACAAGTTTTTAGAAAACCGAGGGTCACAATCTTAAATAAGCATACCATAAAAAAAT
1 CGTAGGTCAACAAGCTACTAGAAAACCGAGGGTCACAATCATAAATAAGCAGACCATAAAAAAAT
* * * * * * *
30512292 CGTAGGTCAGCAAGCTACTAGAAAATCGAGGGTCGCGATCATAAATCAGCGGACCGTAAAAAAAT
1 CGTAGGTCAACAAGCTACTAGAAAACCGAGGGTCACAATCATAAATAAGCAGACCATAAAAAAAT
30512357 C
1 C
30512358 AGCTGTGAAC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (65 bp):
CGTAGGTCAACAAGCTACTAGAAAACCGAGGGTCACAATCATAAATAAGCAGACCATAAAAAAAT
Found at i:30512408 original size:140 final size:140
Alignment explanation
Indices: 30512152--30512430 Score: 380
Period size: 140 Copynumber: 2.0 Consensus size: 140
30512142 CAACTGTGAA
* *
30512152 CGTAGGTCAGCAAGCTATTAGAAAACCAAGGATCGCGATCTTAAATCAACGAACCGTAAAAAAAT
1 CGTAGGTCAGCAAGCTACTAGAAAACCAAGGATCGCGATCATAAATCAACGAACCGTAAAAAAAT
* * * * *
30512217 CAATTGTGAACGTAGGTCAACAAGTTTTTAGAAAACCGAGGGTCACAATCTTAAAT-AAGCATAC
66 CAACTGTGAACGTAAGTCAACAAGCTGTTAGAAAACCGAGGGTCACAATCTTAAATCAA-CAAAC
30512281 CATAAAAAAAT
130 CATAAAAAAAT
* * * * *
30512292 CGTAGGTCAGCAAGCTACTAGAAAATCGAGGGTCGCGATCATAAATCAGCGGACCGTAAAAAAAT
1 CGTAGGTCAGCAAGCTACTAGAAAACCAAGGATCGCGATCATAAATCAACGAACCGTAAAAAAAT
* * * * * *
30512357 CAGCTGTGAACGTAAGTTAGCGAGCTGTTAGAAAACTGAGGGTCACGATCTTAAATCAACAAACC
66 CAACTGTGAACGTAAGTCAACAAGCTGTTAGAAAACCGAGGGTCACAATCTTAAATCAACAAACC
30512422 ATAAAAAAA
131 ATAAAAAAA
30512431 AATCAACTGT
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
140 118 0.98
141 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (140 bp):
CGTAGGTCAGCAAGCTACTAGAAAACCAAGGATCGCGATCATAAATCAACGAACCGTAAAAAAAT
CAACTGTGAACGTAAGTCAACAAGCTGTTAGAAAACCGAGGGTCACAATCTTAAATCAACAAACC
ATAAAAAAAT
Found at i:30516923 original size:17 final size:18
Alignment explanation
Indices: 30516883--30516923 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
30516873 TTGAAATATT
30516883 ATATATATTGAATATGAA
1 ATATATATTGAATATGAA
30516901 A-ATATATT-ATATAT-AA
1 ATATATATTGA-ATATGAA
30516917 ATATATA
1 ATATATA
30516924 AGTGTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 16 0.76
18 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
ATATATATTGAATATGAA
Found at i:30517315 original size:53 final size:52
Alignment explanation
Indices: 30517234--30517347 Score: 165
Period size: 53 Copynumber: 2.2 Consensus size: 52
30517224 AAATAATGAA
* *
30517234 AAAATATGAAAACTTGATGTGATCAATTGTGTTATTATAAAAGTTAAAGATATT
1 AAAA-ATGAAAACTTAATGTGATCAATTGTATTATTATAAAAGTTAAA-ATATT
* * *
30517288 AAAAATGAAAAGTTAATGTGATTAATTGTATTATTATAAAAGTTAGAATATT
1 AAAAATGAAAACTTAATGTGATCAATTGTATTATTATAAAAGTTAAAATATT
30517340 AAAAATGA
1 AAAAATGA
30517348 CCGTTATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 13 0.24
53 38 0.69
54 4 0.07
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (52 bp):
AAAAATGAAAACTTAATGTGATCAATTGTATTATTATAAAAGTTAAAATATT
Found at i:30518781 original size:56 final size:56
Alignment explanation
Indices: 30518695--30518806 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
30518685 TTGAGTGCTT
30518695 CGATGCTTGCTAGTCGATGGTGACATTGGAAGGACATTGAAAATTATAGTTTTCGG
1 CGATGCTTGCTAGTCGATGGTGACATTGGAAGGACATTGAAAATTATAGTTTTCGG
30518751 CGATGCTTGCTAGTCGATGGTGACATTGGAAGGACATTGAAAATTATAGTTTTCGG
1 CGATGCTTGCTAGTCGATGGTGACATTGGAAGGACATTGAAAATTATAGTTTTCGG
30518807 GGAACATTAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.32
Consensus pattern (56 bp):
CGATGCTTGCTAGTCGATGGTGACATTGGAAGGACATTGAAAATTATAGTTTTCGG
Found at i:30526429 original size:15 final size:16
Alignment explanation
Indices: 30526409--30526438 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30526399 AGTCAAAATC
30526409 ATAAATTAA-AAATAT
1 ATAAATTAATAAATAT
30526424 ATAAATTAATAAATA
1 ATAAATTAATAAATA
30526439 GAAGTATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAATTAATAAATAT
Found at i:30528300 original size:23 final size:23
Alignment explanation
Indices: 30528274--30528319 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
30528264 TTTTCACGTA
*
30528274 ACATACTGAGAGGTTGTCACATG
1 ACATACTGAGAGATTGTCACATG
30528297 ACATACTGAGAGATTGTCACATG
1 ACATACTGAGAGATTGTCACATG
30528320 TTACCACTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (23 bp):
ACATACTGAGAGATTGTCACATG
Found at i:30529502 original size:41 final size:41
Alignment explanation
Indices: 30529399--30529555 Score: 201
Period size: 41 Copynumber: 3.9 Consensus size: 41
30529389 TTTTGAGTTT
* *
30529399 TCGGGGCTTTACCGGCATTTTT-GAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGC
*****
30529440 T-TTATTTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
*
30529480 TCGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* *
30529521 TCGGGGCTTTAACGGCGTTTTTGAAAAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
30529556 AAAAACATTT
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 29 0.29
41 71 0.71
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
Found at i:30529992 original size:14 final size:15
Alignment explanation
Indices: 30529961--30529993 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
30529951 AAGGTTTATA
30529961 GATTATGGAATTAAG
1 GATTATGGAATTAAG
*
30529976 GATTATGG-ATTAGG
1 GATTATGGAATTAAG
30529990 GATT
1 GATT
30529994 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAAG
Found at i:30530267 original size:28 final size:28
Alignment explanation
Indices: 30530235--30530292 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
30530225 AATAAGCTTA
* * *
30530235 TTGGGTTTAGTGGTTAGGGATTTGGGGT
1 TTGGGGTTAGGGGTTAGGGATTTAGGGT
*
30530263 TTGGGGTTAGGGGTTAGTGATTTAGGGT
1 TTGGGGTTAGGGGTTAGGGATTTAGGGT
30530291 TT
1 TT
30530293 AGAGATTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.45, T:0.43
Consensus pattern (28 bp):
TTGGGGTTAGGGGTTAGGGATTTAGGGT
Found at i:30531659 original size:5 final size:5
Alignment explanation
Indices: 30531651--30531677 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
30531641 ATATTTTACC
30531651 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
30531678 AACAAGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:30531820 original size:142 final size:142
Alignment explanation
Indices: 30531651--30531932 Score: 555
Period size: 142 Copynumber: 2.0 Consensus size: 142
30531641 ATATTTTACC
30531651 AATAAAATAAAATAAAATAAAATAAAAAACAAGAATCGAATATCAAAAAATTCGAACATAGAAGA
1 AATAAAATAAAATAAAATAAAATAAAAAACAAGAATCGAATATCAAAAAATTCGAACATAGAAGA
30531716 AGTTTAATCAATTTGCTTGCAAAAACTCTTCAAGGTCTATCTCTTTTCATCTTCTTAATTAATTG
66 AGTTTAATCAATTTGCTTGCAAAAACTCTTCAAGGTCTATCTCTTTTCATCTTCTTAATTAATTG
30531781 TTAATCTTCCTA
131 TTAATCTTCCTA
*
30531793 AATAAAATAAAATAAAATAACATAAAAAACAAGAATCGAATATCAAAAAATTCGAACATAGAAGA
1 AATAAAATAAAATAAAATAAAATAAAAAACAAGAATCGAATATCAAAAAATTCGAACATAGAAGA
30531858 AGTTTAATCAATTTGCTTGCAAAAACTCTTCAAGGTCTATCTCTTTTCATCTTCTTAATTAATTG
66 AGTTTAATCAATTTGCTTGCAAAAACTCTTCAAGGTCTATCTCTTTTCATCTTCTTAATTAATTG
30531923 TTAATCTTCC
131 TTAATCTTCC
30531933 CAATGGTCGC
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 139 1.00
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (142 bp):
AATAAAATAAAATAAAATAAAATAAAAAACAAGAATCGAATATCAAAAAATTCGAACATAGAAGA
AGTTTAATCAATTTGCTTGCAAAAACTCTTCAAGGTCTATCTCTTTTCATCTTCTTAATTAATTG
TTAATCTTCCTA
Found at i:30533740 original size:43 final size:43
Alignment explanation
Indices: 30533688--30533888 Score: 244
Period size: 43 Copynumber: 4.7 Consensus size: 43
30533678 TTTTTATAGT
* *
30533688 GGCGTTTGTGGTAGAAGCGCCGCTAAAGGT-ACTGGTCTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA-TGGTCTTTAGC
*
30533731 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
* * **
30533774 AGCGTTTAT-GGAAAATGCGTTGCTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTGGGAAAA-GCGCCGCTAAAGGTCATGGTCTTTAGC
** * *
30533817 TACGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTATATAGCC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAG-C
* *
30533861 GGCGTTTGTGGGAAAAGCACCGTTAAAG
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAG
30533889 TTAGGAACGC
Statistics
Matches: 135, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
42 6 0.04
43 97 0.72
44 32 0.24
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
Found at i:30539654 original size:23 final size:23
Alignment explanation
Indices: 30539628--30539679 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
30539618 TGATTTTTAA
* *
30539628 ATTTTGAATTATTTTGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
30539651 ATTTAGAATTCTTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
30539674 ATTTAG
1 ATTTAG
30539680 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:30550915 original size:4 final size:4
Alignment explanation
Indices: 30550906--30550931 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
30550896 AATACTCATT
30550906 TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA
30550932 GCTTGGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:30562269 original size:15 final size:14
Alignment explanation
Indices: 30562214--30562273 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
30562204 TAAAGTGCGT
30562214 AAAAAAATAAAATA
1 AAAAAAATAAAATA
* * *
30562228 AAACATAT-AAATC
1 AAAAAAATAAAATA
**
30562241 TGAAAAATAAAATA
1 AAAAAAATAAAATA
30562255 AAAAAAATAACAATA
1 AAAAAAATAA-AATA
30562270 AAAA
1 AAAA
30562274 TAAAGATAGT
Statistics
Matches: 34, Mismatches: 10, Indels: 3
0.72 0.21 0.06
Matches are distributed among these distances:
13 8 0.24
14 18 0.53
15 8 0.24
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAAAAATAAAATA
Found at i:30562273 original size:27 final size:26
Alignment explanation
Indices: 30562216--30562277 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
30562206 AAGTGCGTAA
* * *
30562216 AAAAATAAAATAAAACATATAAATCT
1 AAAAATAAAATAAAAAAAATAAATAT
30562242 GAAAAATAAAATAAAAAAAATAACA-AT
1 -AAAAATAAAATAAAAAAAATAA-ATAT
30562269 AAAAATAAA
1 AAAAATAAA
30562278 GATAGTTCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 9 0.29
27 21 0.68
28 1 0.03
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.18
Consensus pattern (26 bp):
AAAAATAAAATAAAAAAAATAAATAT
Found at i:30565557 original size:13 final size:14
Alignment explanation
Indices: 30565526--30565558 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
30565516 GAAACGAAAG
*
30565526 AAAAATTAGAATTT
1 AAAAATTAGAATTA
30565540 AAAAATTA-AATTA
1 AAAAATTAGAATTA
30565553 AAAAAT
1 AAAAAT
30565559 ATTAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
AAAAATTAGAATTA
Found at i:30565589 original size:21 final size:20
Alignment explanation
Indices: 30565542--30565590 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
30565532 TAGAATTTAA
* *
30565542 AAATTAAATTAAAAAATATT
1 AAATTAAAATAAAAAATACT
*
30565562 AATATTAAAATAAAAAATGGCT
1 AA-ATTAAAATAAAAAAT-ACT
30565584 AAATTAA
1 AAATTAA
30565591 TAGAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 19 0.79
22 3 0.12
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAATTAAAATAAAAAATACT
Found at i:30566769 original size:22 final size:22
Alignment explanation
Indices: 30566720--30566770 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
30566710 AAACGCCATC
* * *
30566720 CAACAACTACCATATCACCACA
1 CAACAACAACCATATAACAACA
30566742 CAACAACAACCATATAACAAC-
1 CAACAACAACCATATAACAACA
30566763 CATACAAC
1 CA-ACAAC
30566771 CACCTAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.51, C:0.37, G:0.00, T:0.12
Consensus pattern (22 bp):
CAACAACAACCATATAACAACA
Found at i:30588289 original size:40 final size:40
Alignment explanation
Indices: 30588245--30588506 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
30588235 GCTCCTCGTT
* *
30588245 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
30588285 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
30588325 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
30588364 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
30588403 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
30588442 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
30588483 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30588507 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:30602183 original size:13 final size:13
Alignment explanation
Indices: 30602165--30602190 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30602155 AAGTAAGGAG
30602165 GAAAACCTATGTT
1 GAAAACCTATGTT
30602178 GAAAACCTATGTT
1 GAAAACCTATGTT
30602191 CTTTCTAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
GAAAACCTATGTT
Found at i:30610819 original size:20 final size:20
Alignment explanation
Indices: 30610791--30610834 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
30610781 ATTGAACAAG
30610791 AGTGCAATAGTTTCAATATT
1 AGTGCAATAGTTTCAATATT
* *
30610811 AGTGTAATAGTTTTAATATT
1 AGTGCAATAGTTTCAATATT
30610831 AGTG
1 AGTG
30610835 AGCTTCATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (20 bp):
AGTGCAATAGTTTCAATATT
Found at i:30613305 original size:101 final size:101
Alignment explanation
Indices: 30613188--30613389 Score: 341
Period size: 101 Copynumber: 2.0 Consensus size: 101
30613178 ATGATTTTAC
30613188 TATTTACTTGTAAATTTATTCAAAACTGTCCATTTGAGTCATAGCCACTAAATTATTTTTATCTT
1 TATTTACTTGTAAATTTATTCAAAACTGTCCATTTGAGTCATAGCCACTAAATTATTTTTATCTT
* * * *
30613253 TAGCTACAGAACTCCAAATTAGGATCCGCTAATTTT
66 GAGCTACAGAACTCAAAATTAGAATCCACTAATTTT
* * *
30613289 TATTTACTTGTAAATTTATTCAAAACTGTCCATTTGTGTCATATCCACTACATTATTTTTATCTT
1 TATTTACTTGTAAATTTATTCAAAACTGTCCATTTGAGTCATAGCCACTAAATTATTTTTATCTT
30613354 GAGCTACAGAACTCAAAATTAGAATCCACTAATTTT
66 GAGCTACAGAACTCAAAATTAGAATCCACTAATTTT
30613390 CCTTGAAACT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 94 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (101 bp):
TATTTACTTGTAAATTTATTCAAAACTGTCCATTTGAGTCATAGCCACTAAATTATTTTTATCTT
GAGCTACAGAACTCAAAATTAGAATCCACTAATTTT
Found at i:30618885 original size:12 final size:12
Alignment explanation
Indices: 30618868--30618893 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30618858 TAGCTCCTCA
30618868 TAGTCTCTTTGT
1 TAGTCTCTTTGT
30618880 TAGTCTCTTTGT
1 TAGTCTCTTTGT
30618892 TA
1 TA
30618894 TCTTTCTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (12 bp):
TAGTCTCTTTGT
Found at i:30629367 original size:27 final size:27
Alignment explanation
Indices: 30629350--30629473 Score: 140
Period size: 27 Copynumber: 4.6 Consensus size: 27
30629340 ATATTAAGTC
30629350 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
30629377 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
30629405 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
30629432 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
30629459 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
30629474 GCACAATTTA
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 66 0.72
28 26 0.28
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:30629435 original size:55 final size:54
Alignment explanation
Indices: 30629350--30629473 Score: 185
Period size: 55 Copynumber: 2.3 Consensus size: 54
30629340 ATATTAAGTC
* *
30629350 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
30629405 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAACT
30629459 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30629474 GCACAATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
54 18 0.29
55 45 0.71
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:30633141 original size:27 final size:27
Alignment explanation
Indices: 30633080--30633149 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
30633070 CCAAAGTTGG
* *
30633080 GGCGAATTGGGGGTTCACCAAGATTCA
1 GGCGAGTTGGGTGTTCACCAAGATTCA
*
30633107 GGCGAGTTGGGTGTTCACCAAGATTTA
1 GGCGAGTTGGGTGTTCACCAAGATTCA
*
30633134 GGCTAGTTGGGTGTTC
1 GGCGAGTTGGGTGTTC
30633150 GCAAAAGAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.20, C:0.16, G:0.36, T:0.29
Consensus pattern (27 bp):
GGCGAGTTGGGTGTTCACCAAGATTCA
Found at i:30633268 original size:52 final size:53
Alignment explanation
Indices: 30633211--30633322 Score: 172
Period size: 52 Copynumber: 2.1 Consensus size: 53
30633201 AAGTGGTAAG
* * * *
30633211 GGGGTTCACCAGTTTCACTGTGAGGCAGCTTTGCTAATGTGT-TGGCAAGTTA
1 GGGGTTCACAAGTTTCACTGTGAGGCAGCTTCGCTAATATGTCTGGCAAGCTA
*
30633263 GGGGTTCACAAGTTTCACTGTGAGGCAGCTTCGCTAATATGTCTGGCAAGCTG
1 GGGGTTCACAAGTTTCACTGTGAGGCAGCTTCGCTAATATGTCTGGCAAGCTA
30633316 GGGGTTC
1 GGGGTTC
30633323 GCCATTCTGT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 39 0.72
53 15 0.28
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (53 bp):
GGGGTTCACAAGTTTCACTGTGAGGCAGCTTCGCTAATATGTCTGGCAAGCTA
Found at i:30634322 original size:53 final size:52
Alignment explanation
Indices: 30634263--30634491 Score: 237
Period size: 53 Copynumber: 4.5 Consensus size: 52
30634253 CTCACTGTAC
30634263 GTGCTCCTTAAGAGCATGGGCTTTTGTGATTTTTGTGATAAGTCTCACTCTGT
1 GTGCTCCTTAAGAGCATGGGCTTTTGTGATTTTT-TGATAAGTCTCACTCTGT
*
30634316 GTGCTCCTTTAGAGCATGGGCTTTTGTGATTTTTGTGATAAGTCTCACTCTGT
1 GTGCTCCTTAAGAGCATGGGCTTTTGTGATTTTT-TGATAAGTCTCACTCTGT
* *
30634369 GTGCTCCTTTAAGAGCATGAGC-TTT-T-A-----TG---AGCCTCACTCTGT
1 GTGCTCC-TTAAGAGCATGGGCTTTTGTGATTTTTTGATAAGTCTCACTCTGT
* * * **
30634411 GTGCTCCTTTAGAGCATGGGCTTTTGTGAGTTTTTTTATAAGTCCCACTCTAC
1 GTGCTCCTTAAGAGCATGGGCTTTTGTGA-TTTTTTGATAAGTCTCACTCTGT
* * *
30634464 GTTCTCCTTTGAGAGCATGAGCTTTTGT
1 GTGCTCC-TTAAGAGCATGGGCTTTTGT
30634492 AAGCATCTCA
Statistics
Matches: 148, Mismatches: 14, Indels: 27
0.78 0.07 0.14
Matches are distributed among these distances:
41 12 0.08
42 22 0.15
43 1 0.01
44 1 0.01
45 2 0.01
50 1 0.01
51 1 0.01
52 1 0.01
53 77 0.52
54 30 0.20
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.41
Consensus pattern (52 bp):
GTGCTCCTTAAGAGCATGGGCTTTTGTGATTTTTTGATAAGTCTCACTCTGT
Found at i:30634405 original size:95 final size:96
Alignment explanation
Indices: 30634306--30634546 Score: 335
Period size: 95 Copynumber: 2.5 Consensus size: 96
30634296 TGTGATAAGT
* **
30634306 CTCACTCTGTGTGCTCCTTTAGAGCATGGGCTTTTGTGATTTTTGTGATAAGTCTCACTCTGTGT
1 CTCACTCTGTGTGCTCCTTTAGAGCATGGGCTTTTGTGATTTTTGTGATAAGTCCCACTCTACGT
*
30634371 GCTCCTTTAAGAGCATGAGCTTTTATGAGC-
66 GCTCCTTTAAGAGCATGAGCTTTTATAAGCA
*
30634401 CTCACTCTGTGTGCTCCTTTAGAGCATGGGCTTTTGTGAGTTTTT-TTATAAGTCCCACTCTACG
1 CTCACTCTGTGTGCTCCTTTAGAGCATGGGCTTTTGTGA-TTTTTGTGATAAGTCCCACTCTACG
* * *
30634465 TTCTCCTTTGAGAGCATGAGCTTTTGTAAGCA
65 TGCTCCTTTAAGAGCATGAGCTTTTATAAGCA
* * **
30634497 TCTCACTCTGTGTGCTCCTTGAGAGCAT-AGCTTTTGTGAGATTTGTGATA
1 -CTCACTCTGTGTGCTCCTTTAGAGCATGGGCTTTTGTGATTTTTGTGATA
30634547 TCTCAAACTA
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
95 84 0.65
96 19 0.15
97 26 0.20
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.40
Consensus pattern (96 bp):
CTCACTCTGTGTGCTCCTTTAGAGCATGGGCTTTTGTGATTTTTGTGATAAGTCCCACTCTACGT
GCTCCTTTAAGAGCATGAGCTTTTATAAGCA
Found at i:30634418 original size:42 final size:41
Alignment explanation
Indices: 30634359--30634440 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 41
30634349 TGTGATAAGT
30634359 CTCACTCTGTGTGCTCCTTTAAGAGCATGAGCTTTTATGAGC
1 CTCACTCTGTGTGCTCCTTT-AGAGCATGAGCTTTTATGAGC
* *
30634401 CTCACTCTGTGTGCTCCTTTAGAGCATGGGCTTTTGTGAG
1 CTCACTCTGTGTGCTCCTTTAGAGCATGAGCTTTTATGAG
30634441 TTTTTTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 18 0.47
42 20 0.53
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (41 bp):
CTCACTCTGTGTGCTCCTTTAGAGCATGAGCTTTTATGAGC
Found at i:30635920 original size:40 final size:40
Alignment explanation
Indices: 30635855--30636011 Score: 217
Period size: 40 Copynumber: 3.9 Consensus size: 40
30635845 TTGCACCTCG
* * *
30635855 GTGCCCCTGA-AAACACTTTGATGTCCCTGTTTTCACAACT
1 GTGCCCCT-ATAAACACTTCGGTGTCCCTGTTTGCACAACT
* *
30635895 GTGCCCCTGTAAACAATTCGGTGTCCCTGTTTGCACAACT
1 GTGCCCCTATAAACACTTCGGTGTCCCTGTTTGCACAACT
* *
30635935 GTGCCCCTATGAACACTTCGGTGTCCCAGTTTGCACAACT
1 GTGCCCCTATAAACACTTCGGTGTCCCTGTTTGCACAACT
* *
30635975 GTGCCCCTATGAACACTTCGGTGTCCCTATTTGCACA
1 GTGCCCCTATAAACACTTCGGTGTCCCTGTTTGCACA
30636012 TCCGTGCTCC
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.30
Consensus pattern (40 bp):
GTGCCCCTATAAACACTTCGGTGTCCCTGTTTGCACAACT
Found at i:30635942 original size:20 final size:20
Alignment explanation
Indices: 30635879--30635942 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
30635869 ACTTTGATGT
*
30635879 CCCTGTTTTCACAACTGTGC
1 CCCTGTTTACACAACTGTGC
* * *
30635899 CCCTG--TAAACAATTCGGTGT
1 CCCTGTTTACACAA--CTGTGC
*
30635919 CCCTGTTTGCACAACTGTGC
1 CCCTGTTTACACAACTGTGC
30635939 CCCT
1 CCCT
30635943 ATGAACACTT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 5 0.16
20 22 0.69
22 5 0.16
ACGTcount: A:0.17, C:0.34, G:0.17, T:0.31
Consensus pattern (20 bp):
CCCTGTTTACACAACTGTGC
Found at i:30636004 original size:20 final size:20
Alignment explanation
Indices: 30635939--30636004 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
30635929 ACAACTGTGC
30635939 CCCTATGAACACTTCGGTGT
1 CCCTATGAACACTTCGGTGT
* * *
30635959 CCCAGTTTGCACAAC-T--GTGC
1 CCC--TATGAAC-ACTTCGGTGT
30635979 CCCTATGAACACTTCGGTGT
1 CCCTATGAACACTTCGGTGT
30635999 CCCTAT
1 CCCTAT
30636005 TTGCACATCC
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
17 2 0.06
18 6 0.18
20 18 0.53
22 6 0.18
23 2 0.06
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.29
Consensus pattern (20 bp):
CCCTATGAACACTTCGGTGT
Found at i:30636044 original size:20 final size:20
Alignment explanation
Indices: 30636015--30636090 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
30636005 TTGCACATCC
*
30636015 GTGCTCCTGAATGCACTCTG
1 GTGCCCCTGAATGCACTCTG
* *
30636035 GTGCCTCTG-ATAGCACAT-TT
1 GTGCCCCTGAAT-GCAC-TCTG
* *
30636055 GTTCCCCTGACTGCACTCTG
1 GTGCCCCTGAATGCACTCTG
* *
30636075 GTGCCCGTGATTGCAC
1 GTGCCCCTGAATGCAC
30636091 ACTCGTGTTC
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
19 3 0.07
20 37 0.88
21 2 0.05
ACGTcount: A:0.14, C:0.32, G:0.24, T:0.30
Consensus pattern (20 bp):
GTGCCCCTGAATGCACTCTG
Found at i:30636104 original size:40 final size:39
Alignment explanation
Indices: 30636005--30636104 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 39
30635995 GTGTCCCTAT
*
30636005 TTGCACATCCGTGCTCCTGAATGCACTCTGGTGCCTCTGA
1 TTGCACAT-CGTGTTCCTGAATGCACTCTGGTGCCTCTGA
* * *
30636045 TAGCACAT-TTGTTCCCCTGACTGCACTCTGGTGCC-CGTGA
1 TTGCACATCGTGTT--CCTGAATGCACTCTGGTGCCTC-TGA
30636085 TTGCACACTCGTGTTCCTGA
1 TTGCACA-TCGTGTTCCTGA
30636105 TTGAGCTTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
38 3 0.06
39 1 0.02
40 40 0.82
41 1 0.02
42 4 0.08
ACGTcount: A:0.15, C:0.32, G:0.22, T:0.31
Consensus pattern (39 bp):
TTGCACATCGTGTTCCTGAATGCACTCTGGTGCCTCTGA
Found at i:30639732 original size:13 final size:12
Alignment explanation
Indices: 30639700--30639724 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30639690 TAATTTTTAT
30639700 AACTTTTTCCTA
1 AACTTTTTCCTA
30639712 AACTTTTTCCTA
1 AACTTTTTCCTA
30639724 A
1 A
30639725 GCTATTTTTA
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:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (12 bp):
AACTTTTTCCTA
Found at i:30640240 original size:54 final size:54
Alignment explanation
Indices: 30640170--30640292 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 54
30640160 ATGCAGGTTT
* * * * * *
30640170 CACACAGTCTGAGACACGACCGTGTG-TCTTATGTCAGTGAGTTACACGGGATAG
1 CACACAGCCTGTGACACGACCGTGTGAGC-CAAGTCAGAGAGTTACACGGGATAG
* * *
30640224 CACACAGCCTGTGACACGGCTGTGTGAGCCAAGTCAGAGAGTTACACGGGTTAG
1 CACACAGCCTGTGACACGACCGTGTGAGCCAAGTCAGAGAGTTACACGGGATAG
30640278 CACACAGCCGTGTGA
1 CACACAGCC-TGTGA
30640293 GCCAAGTAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
54 52 0.90
55 6 0.10
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (54 bp):
CACACAGCCTGTGACACGACCGTGTGAGCCAAGTCAGAGAGTTACACGGGATAG
Found at i:30640330 original size:42 final size:42
Alignment explanation
Indices: 30640235--30640333 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
30640225 ACACAGCCTG
* * *
30640235 TGACACGGCTGTGTGAGCCAAGTCAGAGAGTTACACGGGTTA
1 TGACACGGCCGTGTGAGCCAAGTAAGAGAGTTACACGAGTTA
* * *
30640277 -GCACACAGCCGTGTGAGCCAAGTAAGTGAGTTATAC-AGTCTA
1 TG-ACACGGCCGTGTGAGCCAAGTAAGAGAGTTACACGAGT-TA
30640319 TGACACGGCCGTGTG
1 TGACACGGCCGTGTG
30640334 CTCTCACTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
41 3 0.06
42 43 0.91
43 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.21
Consensus pattern (42 bp):
TGACACGGCCGTGTGAGCCAAGTAAGAGAGTTACACGAGTTA
Found at i:30651138 original size:5 final size:5
Alignment explanation
Indices: 30651128--30651206 Score: 52
Period size: 5 Copynumber: 15.8 Consensus size: 5
30651118 ACGTAATTCA
* * * * ** **
30651128 AACAG AACAG AACAG AATAG AGCAG AATAG AACAA AATGG AACAG TGCAG
1 AACAG AACAG AACAG AACAG AACAG AACAG AACAG AACAG AACAG AACAG
* *
30651178 AACA- ATACTG AATAG AACAG AACAG AACA
1 AACAG A-ACAG AACAG AACAG AACAG AACA
30651207 TAGCAAAACA
Statistics
Matches: 52, Mismatches: 20, Indels: 4
0.68 0.26 0.05
Matches are distributed among these distances:
4 1 0.02
5 50 0.96
6 1 0.02
ACGTcount: A:0.56, C:0.15, G:0.20, T:0.09
Consensus pattern (5 bp):
AACAG
Found at i:30662463 original size:51 final size:51
Alignment explanation
Indices: 30662303--30662447 Score: 159
Period size: 51 Copynumber: 2.8 Consensus size: 51
30662293 GATACCGGTT
* * * *
30662303 CACATAGTTGCCTACACATAGTACTACATATGTGACCATCACTATCCAATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCAATA
* * * * **
30662354 CACATAGTAGCCTGCACATTGTACTATACACATGATCGA--AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCAATA
*
30662405 CGCATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
30662448 TTCACTTTCA
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
50 3 0.04
51 69 0.92
52 3 0.04
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCAATA
Found at i:30664580 original size:89 final size:89
Alignment explanation
Indices: 30664424--30664600 Score: 336
Period size: 89 Copynumber: 2.0 Consensus size: 89
30664414 TAATCTTCCG
* *
30664424 TACACAAACTTCTGTAACACTACACTCGTAAGCTTATTCAACCAACATCTTACAAATTTCATTGT
1 TACAAAAACTTCTATAACACTACACTCGTAAGCTTATTCAACCAACATCTTACAAATTTCATTGT
30664489 AACATTTTACTGATATGGGGGGTA
66 AACATTTTACTGATATGGGGGGTA
30664513 TACAAAAACTTCTATAACACTACACTCGTAAGCTTATTCAACCAACATCTTACAAATTTCATTGT
1 TACAAAAACTTCTATAACACTACACTCGTAAGCTTATTCAACCAACATCTTACAAATTTCATTGT
30664578 AACATTTTACTGATATGGGGGGT
66 AACATTTTACTGATATGGGGGGT
30664601 GAGTGTAGTA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (89 bp):
TACAAAAACTTCTATAACACTACACTCGTAAGCTTATTCAACCAACATCTTACAAATTTCATTGT
AACATTTTACTGATATGGGGGGTA
Found at i:30666498 original size:23 final size:23
Alignment explanation
Indices: 30666466--30666511 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
30666456 CAAACCCGAC
*
30666466 CTAAATATTAGGGCCGAATCTGG
1 CTAAACATTAGGGCCGAATCTGG
30666489 CTAAACATTAGGGCCGAATCTGG
1 CTAAACATTAGGGCCGAATCTGG
30666512 TGATGTCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (23 bp):
CTAAACATTAGGGCCGAATCTGG
Found at i:30668198 original size:16 final size:16
Alignment explanation
Indices: 30668177--30668208 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30668167 GTTTTGTTGC
*
30668177 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
30668193 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
30668209 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:30668490 original size:51 final size:49
Alignment explanation
Indices: 30668432--30668571 Score: 190
Period size: 50 Copynumber: 2.8 Consensus size: 49
30668422 GATACCGGTT
30668432 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCA-T-TCCGATA
* * * *
30668483 CACATAGTAGCCTGCACATAGTACTACACATGCGAGCTATCATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATCATTCCGATA
* * *
30668533 CGCATAGTAGCCTGCACATAATACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAT
30668572 AACTTTCACT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
49 3 0.04
50 36 0.46
51 35 0.44
52 5 0.06
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (49 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCATTCCGATA
Found at i:30671817 original size:17 final size:17
Alignment explanation
Indices: 30671795--30671829 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
30671785 AATATGAGAA
30671795 GTAATCTAAGAAGATTT
1 GTAATCTAAGAAGATTT
*
30671812 GTAATCTTAGAAGATTT
1 GTAATCTAAGAAGATTT
30671829 G
1 G
30671830 ATTTGTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (17 bp):
GTAATCTAAGAAGATTT
Found at i:30674839 original size:153 final size:154
Alignment explanation
Indices: 30674533--30674844 Score: 495
Period size: 153 Copynumber: 2.0 Consensus size: 154
30674523 ATTATACAAG
* * *
30674533 TTGTATTGCAATTTTTTGATGGACATAGAGATATTGGTTCTAATTGCAATCTGTTTTATTCCCCT
1 TTGTATTGCAAATTTTTGATAGACATA-AGATATTGGTTCTAATTGCAATCTGTTTAATTCCCCT
* *
30674598 AAATGGAATTTGATCCGATACTTGGCTTTATTAGCCTACAATATATGGAAAAATCAAAATAGGCC
65 AAATGGAATTTGATCCGATACTTAGCTTTATTAGCCAACAATATATGGAAAAATCAAAATAGGCC
*
30674663 TTGAAGCTGACAATACAATATTTTA
130 TTGAAGCTAACAATACAATATTTTA
*
30674688 TTGTTTTGCAAATTTTTGATAGACAT-AGATATTGGTTCTAATTGCAATCTG-TTAATTCCCCCT
1 TTGTATTGCAAATTTTTGATAGACATAAGATATTGGTTCTAATTGCAATCTGTTTAATT-CCCCT
*
30674751 AAATGGAACTTT-ATCTGATACTTAGCTTTATTAGCCAACAATATATGGAAAAATCAAAATAGGC
65 AAATGGAA-TTTGATCCGATACTTAGCTTTATTAGCCAACAATATATGGAAAAATCAAAATAGGC
*
30674815 CTTGAAGCTAACTATACAATATTTTA
129 CTTGAAGCTAACAATACAATATTTTA
30674841 TTGT
1 TTGT
30674845 GCATATAACC
Statistics
Matches: 146, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
152 5 0.03
153 115 0.79
154 3 0.02
155 23 0.16
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (154 bp):
TTGTATTGCAAATTTTTGATAGACATAAGATATTGGTTCTAATTGCAATCTGTTTAATTCCCCTA
AATGGAATTTGATCCGATACTTAGCTTTATTAGCCAACAATATATGGAAAAATCAAAATAGGCCT
TGAAGCTAACAATACAATATTTTA
Found at i:30678042 original size:14 final size:15
Alignment explanation
Indices: 30678019--30678048 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
30678009 ATAAGGATTG
30678019 AAAATAAAAAATAAA
1 AAAATAAAAAATAAA
30678034 AAAAT-AAAAATAAA
1 AAAATAAAAAATAAA
30678048 A
1 A
30678049 TTTCAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAATAAAAAATAAA
Found at i:30692600 original size:243 final size:243
Alignment explanation
Indices: 30692166--30692653 Score: 931
Period size: 243 Copynumber: 2.0 Consensus size: 243
30692156 CATATAACAA
*
30692166 CAGTACAATCACTCAAATCCTTCATTCAACCCTAGTCCAATGTTTAATCTATCATTCATGACAAA
1 CAGTAAAATCACTCAAATCCTTCATTCAACCCTAGTCCAATGTTTAATCTATCATTCATGACAAA
30692231 ACAACAATCTATTCACTTTATCAACTAAGGCCACAACACATTTAATTCTACCATCAAGCATAATC
66 ACAACAATCTATTCACTTTATCAACTAAGGCCACAACACATTTAATTCTACCATCAAGCATAATC
30692296 ACCTCAATTTTAAGCATGTATATTCAATTTGCCATGCCAATTATACTTAAATACCTAAGTGCATA
131 ACCTCAATTTTAAGCATGTATATTCAATTTGCCATGCCAATTATACTTAAATACCTAAGTGCATA
*
30692361 TCAAACCAATTATGAAATCCATATATATACTCATATATACTTTGAATT
196 TCAAACCAATTATGAAATCCATATAAATACTCATATATACTTTGAATT
*
30692409 CAGTAAAATCACTCAAATCCTTCATTCAACCCTAGTCCAATGTTTAATCTATCATTCATGACACA
1 CAGTAAAATCACTCAAATCCTTCATTCAACCCTAGTCCAATGTTTAATCTATCATTCATGACAAA
30692474 ACAACAATCTATTCACTTTATCAACTAAGGCCACAACACATTTAATTCTACCATCAAGCATAATC
66 ACAACAATCTATTCACTTTATCAACTAAGGCCACAACACATTTAATTCTACCATCAAGCATAATC
*
30692539 ACCTCAATTTTAAGCATGTATATTCCATTTGCCATGCCAATTATACTTAAATACCTAAGTGCATA
131 ACCTCAATTTTAAGCATGTATATTCAATTTGCCATGCCAATTATACTTAAATACCTAAGTGCATA
*
30692604 TCAAACCAGTTATGAAATCCATATAAATACTCATATATACTTTGAATT
196 TCAAACCAATTATGAAATCCATATAAATACTCATATATACTTTGAATT
30692652 CA
1 CA
30692654 AAGGATAATT
Statistics
Matches: 240, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
243 240 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (243 bp):
CAGTAAAATCACTCAAATCCTTCATTCAACCCTAGTCCAATGTTTAATCTATCATTCATGACAAA
ACAACAATCTATTCACTTTATCAACTAAGGCCACAACACATTTAATTCTACCATCAAGCATAATC
ACCTCAATTTTAAGCATGTATATTCAATTTGCCATGCCAATTATACTTAAATACCTAAGTGCATA
TCAAACCAATTATGAAATCCATATAAATACTCATATATACTTTGAATT
Found at i:30693109 original size:18 final size:18
Alignment explanation
Indices: 30693086--30693121 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
30693076 AGACTCGTAA
30693086 GTCCAATTTGCATAATCT
1 GTCCAATTTGCATAATCT
30693104 GTCCAATTTGCATAATCT
1 GTCCAATTTGCATAATCT
30693122 TTCACAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
GTCCAATTTGCATAATCT
Found at i:30696542 original size:18 final size:18
Alignment explanation
Indices: 30696512--30696546 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30696502 ACAGGGTCAA
30696512 TACATACATATTCATACT
1 TACATACATATTCATACT
30696530 TACATCACA-ATTCATAC
1 TACAT-ACATATTCATAC
30696547 GATCATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.34
Consensus pattern (18 bp):
TACATACATATTCATACT
Found at i:30696579 original size:12 final size:12
Alignment explanation
Indices: 30696562--30696586 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30696552 TATATGTAGA
30696562 TAATTTGAAACT
1 TAATTTGAAACT
30696574 TAATTTGAAACT
1 TAATTTGAAACT
30696586 T
1 T
30696587 GAGCTATGAA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TAATTTGAAACT
Found at i:30703346 original size:49 final size:49
Alignment explanation
Indices: 30703288--30703388 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
30703278 AATTAAAAAA
* * * *
30703288 ATACAAAAAAAAATTTTTGGGTGCTGGCC-TGTCAATGG-TCGGCACCAAT
1 ATACAAAAAAAAAATTTTGAGTGCT-ACCTTGTCAATGGAT-GCCACCAAT
*
30703337 ATACGAAAAAAAAATTTTGAGTGCTACCTTGTCAATGGATGCCACCAAT
1 ATACAAAAAAAAAATTTTGAGTGCTACCTTGTCAATGGATGCCACCAAT
30703386 ATA
1 ATA
30703389 TGAATTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
48 2 0.04
49 42 0.93
50 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (49 bp):
ATACAAAAAAAAAATTTTGAGTGCTACCTTGTCAATGGATGCCACCAAT
Found at i:30703420 original size:47 final size:48
Alignment explanation
Indices: 30703366--30703459 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 48
30703356 AGTGCTACCT
* *
30703366 TGTCAATGGATGCCACCAATA-TATG-AATTTTTTTTTGTGTGCTGGCA
1 TGTCAATGGATGCCACCAACAGTACGAAATTTTTTTTT-TGTGCTGGCA
* * *
30703413 TGTCAATGGTTGGCACCAGCAGTACGAAATTTTTTTTTTGTGCTGGC
1 TGTCAATGGATGCCACCAACAGTACGAAATTTTTTTTTTGTGCTGGC
30703460 TTCTCAAAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
47 17 0.43
48 12 0.30
49 11 0.28
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.39
Consensus pattern (48 bp):
TGTCAATGGATGCCACCAACAGTACGAAATTTTTTTTTTGTGCTGGCA
Found at i:30706475 original size:21 final size:23
Alignment explanation
Indices: 30706454--30706497 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
30706444 GTAAATTAAA
30706454 TTTAAATGAAATGAGG-GAAAAT
1 TTTAAATGAAATGAGGAGAAAAT
* *
30706476 TTTAATTTAAATGAGGAGAAAA
1 TTTAAATGAAATGAGGAGAAAA
30706498 AAATTTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (23 bp):
TTTAAATGAAATGAGGAGAAAAT
Found at i:30706609 original size:42 final size:44
Alignment explanation
Indices: 30706517--30706610 Score: 113
Period size: 42 Copynumber: 2.2 Consensus size: 44
30706507 TTGAAAATAG
* * *
30706517 AAAATTTAAATGAAATGCAGAAAAAGTTAAATTTAAATTAAAAC
1 AAAATATAAATGAAATGCAGAAAAAGATAAATTGAAATTAAAAC
* *
30706561 ATAATATAAATGAATTG-AGAAAAA-ATAAATTGAAATTGAAAA-
1 AAAATATAAATGAAATGCAGAAAAAGATAAATTGAAATT-AAAAC
30706603 AAAATATA
1 AAAATATA
30706611 TTTTAAATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
42 18 0.42
43 11 0.26
44 14 0.33
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.27
Consensus pattern (44 bp):
AAAATATAAATGAAATGCAGAAAAAGATAAATTGAAATTAAAAC
Found at i:30706622 original size:21 final size:21
Alignment explanation
Indices: 30706544--30706608 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
30706534 CAGAAAAAGT
*
30706544 TAAATTTAAATT-AAAACATAATA
1 TAAATTGAAATTGAAAA-A-AA-A
*
30706567 TAAA-TG-AATTGAGAAAAAA
1 TAAATTGAAATTGAAAAAAAA
30706586 TAAATTGAAATTGAAAAAAAA
1 TAAATTGAAATTGAAAAAAAA
30706607 TA
1 TA
30706609 TATTTTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 5 0.14
20 4 0.11
21 19 0.53
22 4 0.11
23 4 0.11
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.28
Consensus pattern (21 bp):
TAAATTGAAATTGAAAAAAAA
Found at i:30706625 original size:5 final size:5
Alignment explanation
Indices: 30706615--30706696 Score: 65
Period size: 5 Copynumber: 15.2 Consensus size: 5
30706605 AATATATTTT
* * *
30706615 AAATG AAATG AAAGGG AAATGG TAATGG AAATG AAATT AGAATG AAATG
1 AAATG AAATG AAA-TG AAAT-G AAAT-G AAATG AAATG A-AATG AAATG
* *
30706664 AAATAA AAATA AAATG AAATG AAAATG AAATG A
1 AAAT-G AAATG AAATG AAATG -AAATG AAATG A
30706697 CCTGAAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
5 38 0.59
6 26 0.41
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:30706660 original size:11 final size:11
Alignment explanation
Indices: 30706615--30706696 Score: 62
Period size: 11 Copynumber: 7.5 Consensus size: 11
30706605 AATATATTTT
30706615 AAATG-AAATG
1 AAATGAAAATG
* *
30706625 AAAGGGAAATGG
1 AAATGAAAAT-G
* *
30706637 TAATGGAAATG
1 AAATGAAAATG
* *
30706648 AAATTAGAATG
1 AAATGAAAATG
*
30706659 AAATG-AAATAA
1 AAATGAAAAT-G
30706670 AAAT-AAAATG
1 AAATGAAAATG
30706680 AAATGAAAATG
1 AAATGAAAATG
30706691 AAATGA
1 AAATGA
30706697 CCTGAAAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
10 11 0.20
11 36 0.64
12 9 0.16
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.20
Consensus pattern (11 bp):
AAATGAAAATG
Found at i:30706704 original size:16 final size:16
Alignment explanation
Indices: 30706615--30706696 Score: 76
Period size: 16 Copynumber: 5.1 Consensus size: 16
30706605 AATATATTTT
*
30706615 AAATG-AAATGAAAGGG
1 AAATGAAAATGAAA-TG
**
30706631 AAATGGTAATGGAAATG
1 AAATGAAAAT-GAAATG
* *
30706648 AAATTAGAATGAAATG
1 AAATGAAAATGAAATG
* *
30706664 AAATAAAAATAAAATG
1 AAATGAAAATGAAATG
30706680 AAATGAAAATGAAATG
1 AAATGAAAATGAAATG
30706696 A
1 A
30706697 CCTGAAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
16 39 0.72
17 11 0.20
18 4 0.07
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.20
Consensus pattern (16 bp):
AAATGAAAATGAAATG
Found at i:30710552 original size:47 final size:47
Alignment explanation
Indices: 30710451--30710778 Score: 349
Period size: 47 Copynumber: 6.8 Consensus size: 47
30710441 TAAAGTTTGA
* * *
30710451 TGCCGGCCATTAGA-AGGCTAGCACCTAAAATTTTTTTTTTCGTATACTGG
1 TGCCGGCCATT-GACAGGCCAGCACC-CAAA--TTTTTTTTCGTATGCTGG
* *
30710501 TGCCGGCCATTGACAGGCCAGCACACAAA-TTTTTTTCGTACTGTTGG
1 TGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTCGTA-TGCTGG
*
30710548 TGCCGGCCATTGACAGGCCAGCACACAAATTTTTTTTTTCGTATTGCTGG
1 TGCCGGCCATTGACAGGCCAGCACCCAAA--TTTTTTTTCGTA-TGCTGG
* * *
30710598 TGCCGGCCATTGACAGGCCAGTACCCAAAATTTTTTT-GTACTGGTGG
1 TGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTCGTA-TGCTGG
* *
30710645 TGCCGGCCATTGATAGGCCAGCACCCAAATTTTTTTTTCGTATACTGG
1 TGCCGGCCATTGACAGGCCAGCACCCAAA-TTTTTTTTCGTATGCTGG
* * * **
30710693 TGCCAGCCATTGACAAGG-CAACACCCAAATTTTTTTTTTCGTATTCTCA
1 TGCCGGCCATTGAC-AGGCCAGCACCCAAA--TTTTTTTTCGTATGCTGG
* *
30710742 TGCCGGCCATTGACAGGGCAGCACCTAAATTTTTTTT
1 TGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTT
30710779 TGTTTTTTTT
Statistics
Matches: 242, Mismatches: 26, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
46 11 0.05
47 76 0.31
48 43 0.18
49 49 0.20
50 63 0.26
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (47 bp):
TGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTCGTATGCTGG
Found at i:30710558 original size:97 final size:95
Alignment explanation
Indices: 30710451--30710779 Score: 389
Period size: 97 Copynumber: 3.4 Consensus size: 95
30710441 TAAAGTTTGA
*
30710451 TGCCGGCCATTAGA-AGGCTAGCACCTAAAATTTTTTTTTTCGTATACTGGTGCCGGCCATTGAC
1 TGCCGGCCATT-GACAGGCCAGCACC-AAAATTTTTTTTTTCGTATACTGGTGCCGGCCATTGAC
* *
30710515 AGGCCAGCACACAAATTTTTTTCGTACTGTTGG
64 AGGCCAGCACCCAAATTTTTTT-GTACTGGTGG
*
30710548 TGCCGGCCATTGACAGGCCAGCA-CACAAATTTTTTTTTTCGTATTGCTGGTGCCGGCCATTGAC
1 TGCCGGCCATTGACAGGCCAGCACCA-AAATTTTTTTTTTCGTA-TACTGGTGCCGGCCATTGAC
*
30710612 AGGCCAGTACCCAAAATTTTTTTGTACTGGTGG
64 AGGCCAGCACCC-AAATTTTTTTGTACTGGTGG
* * *
30710645 TGCCGGCCATTGATAGGCCAGCACCCAAA-TTTTTTTTTCGTATACTGGTGCCAGCCATTGACAA
1 TGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTTCGTATACTGGTGCCGGCCATTGAC-A
* ** **
30710709 GG-CAACACCCAAATTTTTTTTTTCGTA-TTCTCA
65 GGCCAGCACCCAAA---TTTTTTT-GTACTGGTGG
* *
30710742 TGCCGGCCATTGACAGGGCAGCACCTAAATTTTTTTTT
1 TGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTT
30710780 GTTTTTTTTA
Statistics
Matches: 203, Mismatches: 18, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
94 3 0.01
95 25 0.12
96 36 0.18
97 117 0.58
98 22 0.11
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (95 bp):
TGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTTCGTATACTGGTGCCGGCCATTGACAG
GCCAGCACCCAAATTTTTTTGTACTGGTGG
Found at i:30710656 original size:144 final size:143
Alignment explanation
Indices: 30710450--30710778 Score: 396
Period size: 144 Copynumber: 2.3 Consensus size: 143
30710440 ATAAAGTTTG
* * **
30710450 ATGCCGGCCATTAGA-AGGCTAGCACCTAAAATTTTTTTTTTCGTA-TACTGGTGCCGGCCATTG
1 ATGCCGGCCATT-GACAGGCCAGCACCCAAAA---TTTTTTT-GTACTGGTGGTGCCGGCCATTG
** * *
30710513 ACAGGCCAGCACACAAA-TTTTTTTCGTACTGTTGGTGCCGGCCATTGAC-AGGCCAGCACACAA
61 ACAGGCCAGCACACAAATTTTTTTTCGTA-TACTGGTGCCAGCCATTGACAAGG-CAACACACAA
*
30710576 ATTTTTTTTTTCGTATTGCTG
124 ATTTTTTTTTTCGTATT-CTC
* * *
30710597 GTGCCGGCCATTGACAGGCCAGTACCCAAAATTTTTTTGTACTGGTGGTGCCGGCCATTGATAGG
1 ATGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTGTACTGGTGGTGCCGGCCATTGACAGG
* *
30710662 CCAGCACCCAAATTTTTTTTTCGTATACTGGTGCCAGCCATTGACAAGGCAACACCCAAATTTTT
66 CCAGCACACAAA-TTTTTTTTCGTATACTGGTGCCAGCCATTGACAAGGCAACACACAAATTTTT
30710727 TTTTTCGTATTCTC
130 TTTTTCGTATTCTC
* * *
30710741 ATGCCGGCCATTGACAGGGCAGCACCTAAATTTTTTTT
1 ATGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTT
30710779 TGTTTTTTTT
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
143 3 0.02
144 73 0.46
145 42 0.27
146 16 0.10
147 24 0.15
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (143 bp):
ATGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTGTACTGGTGGTGCCGGCCATTGACAGG
CCAGCACACAAATTTTTTTTCGTATACTGGTGCCAGCCATTGACAAGGCAACACACAAATTTTTT
TTTTCGTATTCTC
Found at i:30713756 original size:25 final size:25
Alignment explanation
Indices: 30713728--30713784 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
30713718 GTACATGTAT
30713728 GCTCATACGAGCTGAA-TAACGGTAA
1 GCTCATACGAGCT-AAGTAACGGTAA
*
30713753 GCTCATACGAGCTAAGTATCGGTAA
1 GCTCATACGAGCTAAGTAACGGTAA
*
30713778 TCTCATA
1 GCTCATA
30713785 AAAGTTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTAAGTAACGGTAA
Found at i:30722563 original size:21 final size:23
Alignment explanation
Indices: 30722532--30722585 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
30722522 GCGAATAAGA
*
30722532 AGGA-GAAGAAGAGGGTGATGACG
1 AGGATGAAG-AGAGGATGATGACG
*
30722555 AGGATGAAGAGATGGATGATGAGG
1 AGGATGAAGAGA-GGATGATGACG
30722579 AGGATGA
1 AGGATGA
30722586 TTAAACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.39, C:0.02, G:0.46, T:0.13
Consensus pattern (23 bp):
AGGATGAAGAGAGGATGATGACG
Found at i:30727586 original size:21 final size:21
Alignment explanation
Indices: 30727533--30727590 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
30727523 ACATACATTA
30727533 ATAAATTAA-CATGAATTAAT
1 ATAAATTAAGCATGAATTAAT
* * *
30727553 ATAAAATATGCATGAAATTCAT
1 ATAAATTAAGCATG-AATTAAT
30727575 AT-AATTAAGCAT-AATT
1 ATAAATTAAGCATGAATT
30727591 TCACATACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 12 0.39
22 8 0.26
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (21 bp):
ATAAATTAAGCATGAATTAAT
Found at i:30732644 original size:40 final size:40
Alignment explanation
Indices: 30732485--30732644 Score: 153
Period size: 40 Copynumber: 4.0 Consensus size: 40
30732475 TCAAGGGTAC
* * * * *
30732485 CAAA-GTGCAATT-AGGGGGACCGAAGTGCAATCAGGGGAA
1 CAAATGTGC-ATTCAGGGGTACTGAAGTACAAACAGGGGCA
** * * * *
30732524 CAAATGTGCATTCAGGGACACTGTAGTGCAAATAGGGACA
1 CAAATGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCA
* * *
30732564 CAAATGTGCATTCAAGGGTACTGAAGTACAAATAGCGGCA
1 CAAATGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCA
* *
30732604 CAGATGTGCATTCAGGGGTATTGAAGTACAAACAGGGGCA
1 CAAATGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCA
30732644 C
1 C
30732645 TTCTTTATCT
Statistics
Matches: 99, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 7 0.07
40 92 0.93
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (40 bp):
CAAATGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCA
Found at i:30738297 original size:20 final size:20
Alignment explanation
Indices: 30738274--30738418 Score: 91
Period size: 20 Copynumber: 7.3 Consensus size: 20
30738264 CACTTACATG
30738274 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * *
30738294 CCCCTGCTTGCACTGAC-GTG
1 CCCCTGTTTGTACT-TCGGTA
* * *
30738314 CCCATATTTGTACTTCTGTA
1 CCCCTGTTTGTACTTCGGTA
* * *
30738334 -CCCTGATTGCAC-TC-TTA
1 CCCCTGTTTGTACTTCGGTA
*
30738351 TGCCCCTATTTGTACTTCGGTA
1 --CCCCTGTTTGTACTTCGGTA
* * * * *
30738373 CCCCTGATTGCACTCCCGTG
1 CCCCTGTTTGTACTTCGGTA
30738393 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
30738413 CCCCTG
1 CCCCTG
30738419 ATCACACTCT
Statistics
Matches: 88, Mismatches: 30, Indels: 14
0.67 0.23 0.11
Matches are distributed among these distances:
17 2 0.02
18 2 0.02
19 9 0.10
20 70 0.80
21 3 0.03
22 2 0.02
ACGTcount: A:0.12, C:0.34, G:0.18, T:0.35
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:30738316 original size:40 final size:40
Alignment explanation
Indices: 30738258--30738486 Score: 282
Period size: 40 Copynumber: 5.8 Consensus size: 40
30738248 AATTATTGAA
30738258 TGATTGCACT-TACATGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACTCT-CATGCCCCTGTTTGTACTTCGGTACCCC
* ** * * * *
30738298 TGCTTGCACTGACGTGCCCATATTTGTACTTCTGTA-CCC
1 TGATTGCACTCTCATGCCCCTGTTTGTACTTCGGTACCCC
* *
30738337 TGATTGCACTCTTATGCCCCTATTTGTACTTCGGTACCCC
1 TGATTGCACTCTCATGCCCCTGTTTGTACTTCGGTACCCC
* *
30738377 TGATTGCACTCCCGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACTCTCATGCCCCTGTTTGTACTTCGGTACCCC
** * ** *
30738417 TGATCACACTCTCGTGCCCCTGTCCGTACTTCGGTATCCC
1 TGATTGCACTCTCATGCCCCTGTTTGTACTTCGGTACCCC
30738457 TGATTGCACTCTCATGCCCCTGTTTGTACT
1 TGATTGCACTCTCATGCCCCTGTTTGTACT
30738487 CCAGTAAACC
Statistics
Matches: 159, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 32 0.20
40 127 0.80
ACGTcount: A:0.14, C:0.34, G:0.17, T:0.35
Consensus pattern (40 bp):
TGATTGCACTCTCATGCCCCTGTTTGTACTTCGGTACCCC
Found at i:30738393 original size:79 final size:80
Alignment explanation
Indices: 30738258--30738486 Score: 291
Period size: 79 Copynumber: 2.9 Consensus size: 80
30738248 AATTATTGAA
* * * *
30738258 TGATTGCACT-TACATGCCCCTGTTTGTACTTCGGTACCCCTGCTTGCACTGACGTGCCCATATT
1 TGATTGCACTCT-CATGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTCACGTGCCCCTGTT
*
30738322 TGTACTTCTGTA-CCC
65 TGTACTTCGGTACCCC
* * *
30738337 TGATTGCACTCTTATGCCCCTATTTGTACTTCGGTACCCCTGATTGCACTCCCGTGCCCCTGTTT
1 TGATTGCACTCTCATGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTCACGTGCCCCTGTTT
30738402 GTACTTCGGTACCCC
66 GTACTTCGGTACCCC
** * ** * * *
30738417 TGATCACACTCTCGTGCCCCTGTCCGTACTTCGGTATCCCTGATTGCACTCTCATGCCCCTGTTT
1 TGATTGCACTCTCATGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTCACGTGCCCCTGTTT
30738482 GTACT
66 GTACT
30738487 CCAGTAAACC
Statistics
Matches: 130, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
79 66 0.51
80 64 0.49
ACGTcount: A:0.14, C:0.34, G:0.17, T:0.35
Consensus pattern (80 bp):
TGATTGCACTCTCATGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTCACGTGCCCCTGTTT
GTACTTCGGTACCCC
Found at i:30754702 original size:129 final size:129
Alignment explanation
Indices: 30754472--30754733 Score: 420
Period size: 129 Copynumber: 2.0 Consensus size: 129
30754462 ATAGAGTGAT
* * *
30754472 ATAGCTCCGAAAAGCTTCCAACCTGAACGAGCTTCTGATTCACTATAAAACACGAAAATAACATG
1 ATAGCTCCGAAAAGCTTCCAACCAGAACAAGCTTCTGATTCACTATAAAACACGAAAATAACAAG
*
30754537 GAGTAAGCATTTAAGCTTAGTAAGTTCGTATAACTTAGAATTTAACTTACCATTTAATCAAGTA
66 AAGTAAGCATTTAAGCTTAGTAAGTTCGTATAACTTAGAATTTAACTTACCATTTAATCAAGTA
* * * *
30754601 ATAGCTCCGACAAGCTTCCAACCCAG-ACAAGCTTTTGGTTCACTATAAAACACGGAAATAACAC
1 ATAGCTCCGAAAAGCTTCCAA-CCAGAACAAGCTTCTGATTCACTATAAAACACGAAAATAACA-
30754665 AGAAG-AAGCATTTAAGCTTAGTAAGTTCGTATAACTTAGAATTTAACTTACCATTTAATCAAGT
64 AGAAGTAAGCATTTAAGCTTAGTAAGTTCGTATAACTTAGAATTTAACTTACCATTTAATCAAGT
30754729 A
129 A
30754730 ATAG
1 ATAG
30754734 GTAAGTATAA
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
129 117 0.95
130 6 0.05
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (129 bp):
ATAGCTCCGAAAAGCTTCCAACCAGAACAAGCTTCTGATTCACTATAAAACACGAAAATAACAAG
AAGTAAGCATTTAAGCTTAGTAAGTTCGTATAACTTAGAATTTAACTTACCATTTAATCAAGTA
Found at i:30755153 original size:25 final size:25
Alignment explanation
Indices: 30755074--30755213 Score: 138
Period size: 25 Copynumber: 5.6 Consensus size: 25
30755064 TCATGTACGT
* * *
30755074 GTATGCTCATATGAGCTATGAATCG
1 GTATGCTCTTACGAGCTATAAATCG
* * * *
30755099 GCATGCTCATT-TGAGCTATAGATCA
1 GTATGCTC-TTACGAGCTATAAATCG
*
30755124 ATATGCTCTTACGAGCTATAAATCG
1 GTATGCTCTTACGAGCTATAAATCG
* * * *
30755149 GTATGCTTTTAAGAGTTATAAATTG
1 GTATGCTCTTACGAGCTATAAATCG
* *
30755174 GTATGCTCTTACAAACTATAAATCG
1 GTATGCTCTTACGAGCTATAAATCG
30755199 GTATGCTCTTACGAG
1 GTATGCTCTTACGAG
30755214 ATATGGAGTA
Statistics
Matches: 90, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
24 2 0.02
25 87 0.97
26 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (25 bp):
GTATGCTCTTACGAGCTATAAATCG
Found at i:30756611 original size:11 final size:11
Alignment explanation
Indices: 30756595--30756620 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30756585 TATGTTCTTG
30756595 TTTCTTAATTC
1 TTTCTTAATTC
30756606 TTTCTTAATTC
1 TTTCTTAATTC
30756617 TTTC
1 TTTC
30756621 ATCTCTCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTCTTAATTC
Found at i:30759993 original size:161 final size:163
Alignment explanation
Indices: 30759685--30760173 Score: 786
Period size: 161 Copynumber: 3.0 Consensus size: 163
30759675 ACTCAATAGG
* *
30759685 TAAATTCTTAATAGACACTAAATTCGTGCACACATATGAATGAGTGGATCCTGGATCAATCAAAG
1 TAAATTCTTACTAGACACTAAATTCGTGCACACATATGAATGAGTGGATCCCGGATCAATCAAAG
*** *
30759750 CAGTAATATCAGTATAAAAAATAGAAAAAGTACCAGTAATAACATCTGTTACAGAGGCATCCTCT
66 CAGTAATATCAGTATAAAAAATAGAAAAAGTACCAGTAATAACATCTGGCGCAGAAGCATCCTCT
*
30759815 CGTGTGCAAATAGCATAAGCCCTAACTGGTGCT
131 CGTGTGCGAATAGCATAAGCCCTAACTGGTGCT
* * *
30759848 TAAATTCTTACTAGACACTAAATTCATGCACACATATGAATGATTCGATCCCGGATCAATCAAAG
1 TAAATTCTTACTAGACACTAAATTCGTGCACACATATGAATGAGTGGATCCCGGATCAATCAAAG
* * *
30759913 CA-TAATGTAATTAT-AAAAATAGAAAAAGTACCAGTAATAACATCTGGCGCAGAAGCATCCTCT
66 CAGTAATATCAGTATAAAAAATAGAAAAAGTACCAGTAATAACATCTGGCGCAGAAGCATCCTCT
*
30759976 CGTGTACGAATAGCATAAGCCCTAACTGGTGCT
131 CGTGTGCGAATAGCATAAGCCCTAACTGGTGCT
*
30760009 TAAATTCTTACTAGACACTAAATTCGTGCACACATATGAATGAGTGGATCCCAGAGT-AATCAAA
1 TAAATTCTTACTAGACACTAAATTCGTGCACACATATGAATGAGTGGATCCCGGA-TCAATCAAA
*
30760073 GCAGTAATATCAGTATAAAAAACTAGAAAAAGTACCAGTAATAACATCTGGCGCAGAAGCATCAT
65 GCAGTAATATCAGTATAAAAAA-TAGAAAAAGTACCAGTAATAACATCTGGCGCAGAAGCATCCT
*
30760138 CTCTTGTGCGAATAGCATAAGCCCTAACTGGTGCT
129 CTCGTGTGCGAATAGCATAAGCCCTAACTGGTGCT
30760173 T
1 T
30760174 GTGCCATGGA
Statistics
Matches: 298, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
161 137 0.46
162 19 0.06
163 67 0.22
164 75 0.25
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (163 bp):
TAAATTCTTACTAGACACTAAATTCGTGCACACATATGAATGAGTGGATCCCGGATCAATCAAAG
CAGTAATATCAGTATAAAAAATAGAAAAAGTACCAGTAATAACATCTGGCGCAGAAGCATCCTCT
CGTGTGCGAATAGCATAAGCCCTAACTGGTGCT
Found at i:30762879 original size:129 final size:129
Alignment explanation
Indices: 30762649--30762899 Score: 387
Period size: 129 Copynumber: 1.9 Consensus size: 129
30762639 ATAGTGTGAT
*
30762649 ATAGCCCCGACAAGCTTCCAACCCGAACAAGCTTCTAATTCACTATAAAACACAAAAGTAACACA
1 ATAGCCCCGACAAGCTTCCAACCCAAACAAGCTTCTAATTCACTATAAAACACAAAAGTAACACA
* * * *
30762714 GAGTAAGCATTTAAGATTAGTAAGTTCCTGTAACTTAGAATTTAACTTACCATTTAATCAAGTA
66 GAGTAAGCATTTAAGATTAGTAAGTTCATATAACTTACAATTTAACTTACAATTTAATCAAGTA
* * * *
30762778 ATAGCTCCGACAAGCTTCCAACCCAAACGAGCTTCTGATTCACTATAAAACACGGAAA-TAACAC
1 ATAGCCCCGACAAGCTTCCAACCCAAACAAGCTTCTAATTCACTATAAAACAC-AAAAGTAACAC
* *
30762842 AGAGTAAGCATTTAAGCTTAGTAAGTTCATATGACTTACAATTTAACTTACAATTTAA
65 AGAGTAAGCATTTAAGATTAGTAAGTTCATATAACTTACAATTTAACTTACAATTTAA
30762900 CCTAGCTTCT
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
129 107 0.97
130 3 0.03
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.27
Consensus pattern (129 bp):
ATAGCCCCGACAAGCTTCCAACCCAAACAAGCTTCTAATTCACTATAAAACACAAAAGTAACACA
GAGTAAGCATTTAAGATTAGTAAGTTCATATAACTTACAATTTAACTTACAATTTAATCAAGTA
Done.