Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 98 of 253
Found at i:30626040 original size:22 final size:22
Alignment explanation
Indices: 30626013--30626056 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
30626003 AAAAATGATC
*
30626013 AAAATTATTCAAAATTTATTAT
1 AAAATTATTCAAAATTCATTAT
*
30626035 AAAATTATTTAAAATTCATTAT
1 AAAATTATTCAAAATTCATTAT
30626057 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAATTATTCAAAATTCATTAT
Found at i:30626114 original size:21 final size:22
Alignment explanation
Indices: 30626077--30626117 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
30626067 TAAGTCCAAA
*
30626077 ATAATTATTTTATAATAATTAT
1 ATAATTATTTTACAATAATTAT
30626099 ATAATT-TTTTACAATAATT
1 ATAATTATTTTACAATAATT
30626118 TTATCGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTATTTTACAATAATTAT
Found at i:30627646 original size:86 final size:86
Alignment explanation
Indices: 30627415--30627673 Score: 344
Period size: 86 Copynumber: 3.0 Consensus size: 86
30627405 CACGTTTAAT
* * *
30627415 ACGTTGGCATTGATATATGATTACATGTAAGACCACGTCT-AGGACGTTGGCA-CTGATATATGA
1 ACGTTGGCATCGATATATGATTACGTGTAAGACCACGTCTGA-GACGTTGGCATC-GATATGTGA
* *
30627478 TAACGTGTAAGACCACGTCTGAG
64 TTACGTGTAAGACCACGTCTGGG
* * * * *
30627501 ACGTTGGCATCGATATATGATTACGTATAAGACCACGCCTGGGAGGTTGGCATCGATATGTAATT
1 ACGTTGGCATCGATATATGATTACGTGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGATT
30627566 ACGTGTAAGACCACGTCTGGG
66 ACGTGTAAGACCACGTCTGGG
* *
30627587 ACGTTGGCATCGATATATGATTACGTGTAAGACCATGTCTGAGACGTTGGCATCGATATGTGTTT
1 ACGTTGGCATCGATATATGATTACGTGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGATT
* *
30627652 ATGAGTAAGACC-CTGTCTGGG
66 ACGTGTAAGACCAC-GTCTGGG
30627673 A
1 A
30627674 TAGTGGCTGT
Statistics
Matches: 151, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
85 1 0.01
86 149 0.99
87 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (86 bp):
ACGTTGGCATCGATATATGATTACGTGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGATT
ACGTGTAAGACCACGTCTGGG
Found at i:30627670 original size:43 final size:43
Alignment explanation
Indices: 30627395--30627663 Score: 312
Period size: 43 Copynumber: 6.3 Consensus size: 43
30627385 TATGTGTATG
* * * *
30627395 CGAGTAAGACCACGTTTAATACGTTGGCATTGATATATGATTA
1 CGAGTAAGACCACGTCTGAGACGTTGGCATCGATATATGATTA
*
30627438 C-ATGTAAGACCACGTCT-AGGACGTTGGCA-CTGATATATGATAA
1 CGA-GTAAGACCACGTCTGA-GACGTTGGCATC-GATATATGATTA
*
30627481 CGTGTAAGACCACGTCTGAGACGTTGGCATCGATATATGATTA
1 CGAGTAAGACCACGTCTGAGACGTTGGCATCGATATATGATTA
* * * * *
30627524 CGTA-TAAGACCACGCCTGGGAGGTTGGCATCGATATGTAATTA
1 CG-AGTAAGACCACGTCTGAGACGTTGGCATCGATATATGATTA
* *
30627567 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTA
1 CGAGTAAGACCACGTCTGAGACGTTGGCATCGATATATGATTA
* * * *
30627610 CGTGTAAGACCATGTCTGAGACGTTGGCATCGATATGTGTTTA
1 CGAGTAAGACCACGTCTGAGACGTTGGCATCGATATATGATTA
*
30627653 TGAGTAAGACC
1 CGAGTAAGACC
30627664 CTGTCTGGGA
Statistics
Matches: 195, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
42 2 0.01
43 191 0.98
44 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (43 bp):
CGAGTAAGACCACGTCTGAGACGTTGGCATCGATATATGATTA
Found at i:30633475 original size:43 final size:42
Alignment explanation
Indices: 30633331--30633479 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 42
30633321 TGTGTTTTCG
* * *
30633331 TGTAAGACCACATCTGGGAC-GTTGGCATCGACTTTTGTTTTACG
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGA-TTTTG-ATTACA
* * * *
30633375 TGTAAGACCATGTCTGGGACA-TCGACATC-ATATCTGATTTCA
1 TGTAAGACCACGTCTGGGACAGT-GGCATCGAT-TTTGATTACA
*
30633417 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATGTTTGATTGCA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGAT-TTTGATTACA
*
30633460 TGTAATACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
30633480 GTTGGCTTTG
Statistics
Matches: 85, Mismatches: 13, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
42 28 0.33
43 33 0.39
44 24 0.28
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATTTTGATTACA
Found at i:30635464 original size:27 final size:27
Alignment explanation
Indices: 30635402--30635513 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
30635392 AGCATGGCTG
* * *
30635402 CCAGAACAGATAA-TGTGACAGAGTCT
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
30635428 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
* *
30635456 CCATAACAGA-AATATGTGGTAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
30635483 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
30635510 CCAG
1 CCAG
30635514 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.66
28 16 0.23
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:30636785 original size:22 final size:22
Alignment explanation
Indices: 30636758--30636800 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30636748 ATAGAAGAAG
* *
30636758 AAAAGAATAACAAATGGAGAGA
1 AAAAGAAAAACAAAAGGAGAGA
*
30636780 AAAAGAAAAATAAAAGGAGAG
1 AAAAGAAAAACAAAAGGAGAG
30636801 GAAGAGTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.23, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAACAAAAGGAGAGA
Found at i:30647648 original size:37 final size:37
Alignment explanation
Indices: 30647598--30647673 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
30647588 GCCACCTGAG
*
30647598 TTAGAAAAGATCCATAATGTATTCCATGTTTCGATGC
1 TTAGAAAAGATCCATAATGTATTACATGTTTCGATGC
30647635 TTAGAAAAGATCCATAATGTATTACATGTTTCGATGC
1 TTAGAAAAGATCCATAATGTATTACATGTTTCGATGC
30647672 TT
1 TT
30647674 CATAGATATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (37 bp):
TTAGAAAAGATCCATAATGTATTACATGTTTCGATGC
Found at i:30650678 original size:27 final size:27
Alignment explanation
Indices: 30650647--30650824 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30650637 TAAATTGTAC
30650647 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30650674 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30650700 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30650728 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30650756 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30650783 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30650810 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30650825 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30650761 original size:82 final size:81
Alignment explanation
Indices: 30650648--30650803 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30650638 AAATTGTACA
* *
30650648 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30650712 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30650729 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30650794 TGCGAGTTGA
65 TGCGAATTGA
30650804 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30650815 original size:82 final size:81
Alignment explanation
Indices: 30650644--30650824 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
30650634 GATTAAATTG
* *
30650644 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30650709 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30650725 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30650789 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30650807 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30650825 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30658872 original size:27 final size:27
Alignment explanation
Indices: 30658783--30658954 Score: 185
Period size: 27 Copynumber: 6.6 Consensus size: 27
30658773 TAAATTGTAC
*
30658783 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
30658810 -GCACTAAGTGTGCGAA-TGA--ATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
30658832 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
30658860 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
30658887 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
30658914 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30658941 AGC-CTGAGTGTGCG
1 AGCACTAAGTGTGCG
30658955 GACTCAATAT
Statistics
Matches: 126, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.02
24 16 0.13
25 6 0.05
26 25 0.20
27 76 0.60
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:30669094 original size:27 final size:27
Alignment explanation
Indices: 30669064--30669241 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30669054 ATATTGAGTC
* * * *
30669064 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30669091 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30669118 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30669146 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30669173 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30669200 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30669227 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30669242 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30669203 original size:82 final size:81
Alignment explanation
Indices: 30669085--30669240 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30669075 TGCTATATAA
* *
30669085 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30669150 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30669167 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30669231 CACTTAGTGC
65 CACTTAGTGC
30669241 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30677272 original size:27 final size:27
Alignment explanation
Indices: 30677242--30677419 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30677232 ATATTGAGTC
* * * *
30677242 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30677269 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30677296 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30677324 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30677351 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30677378 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30677405 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30677420 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30677381 original size:82 final size:81
Alignment explanation
Indices: 30677263--30677418 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30677253 TGCTATATAA
* *
30677263 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30677328 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30677345 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30677409 CACTTAGTGC
65 CACTTAGTGC
30677419 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30681863 original size:40 final size:40
Alignment explanation
Indices: 30681794--30682057 Score: 365
Period size: 40 Copynumber: 6.7 Consensus size: 40
30681784 GGATATAACC
* * * * *
30681794 ACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
30681833 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
30681873 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
30681913 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
30681953 ACTCGCACAAATG-CTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
30681992 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
30682032 ACTAGCACAAATACCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
30682058 ACCCCGTTAG
Statistics
Matches: 205, Mismatches: 17, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 45 0.22
40 158 0.77
41 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:30681979 original size:119 final size:120
Alignment explanation
Indices: 30681809--30682057 Score: 360
Period size: 119 Copynumber: 2.1 Consensus size: 120
30681799 CACAAGGCCG
* * *
30681809 TCGGGTCTTAGCCCGGATATGGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAATA
1 TCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAATA
* * * *
30681873 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
65 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAATAACTAGCACAAATACCT
* * *
30681929 TTGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG-CTTCGGGACTTAGCCCGGAATTAGTA
1 TCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATA
*
30681992 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAATCACTAGCACAAATACCT
65 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAATAACTAGCACAAATACCT
30682048 TCGGGACTTA
1 TCGGGACTTA
30682058 ACCCCGTTAG
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
119 83 0.72
120 32 0.28
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (120 bp):
TCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATAA
CTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAATAACTAGCACAAATACCT
Found at i:30687460 original size:21 final size:20
Alignment explanation
Indices: 30687435--30687476 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
30687425 TCTTGTTCAA
30687435 TCTCAATCTCATTTTTCTTTC
1 TCTCAATCTCATTTTT-TTTC
*
30687456 TCTCACTCTCATTTTTTTTC
1 TCTCAATCTCATTTTTTTTC
30687476 T
1 T
30687477 TTCATTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.60
Consensus pattern (20 bp):
TCTCAATCTCATTTTTTTTC
Found at i:30690775 original size:41 final size:40
Alignment explanation
Indices: 30690718--30691026 Score: 291
Period size: 41 Copynumber: 7.6 Consensus size: 40
30690708 AAAAATGACG
30690718 AATTGCACATACGTGCCCCTATTTGTACTTCGGTACTCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTCGGTAC-CCTA
* * ** *
30690759 AATTGCACATGCGTG-CCCTATTAGTACTTCAATACCCCA
1 AATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCTA
** * * * *
30690798 GAATTGCACATATTTTCCCCTGTTTGTTCTTTGGTACCCTGA
1 -AATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT-A
* *
30690840 AA-TG-ACCATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
1 AATTGCA-CATACGTGCCCCTATTTGTACTTCGGTA-CCCTA
* * * * * *
30690880 AATTACACACACGTGCTCCTATTTCTACTTTGGTACCCTTG
1 AATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC-TA
* * *
30690921 AATTGCACATACGTACCCCTGTTTGTACTTCGGTACCGCTG
1 AATTGCACATACGTGCCCCTATTTGTACTTCGGTACC-CTA
* *
30690962 AATTGCATATACGTGCCCCTATTTGTACTTCAGTACCCTCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTCGGTA-CC-CTA
*
30691004 AATTGCACATACGTACCCCTATT
1 AATTGCACATACGTGCCCCTATT
30691027 GAAAATCACT
Statistics
Matches: 217, Mismatches: 41, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
39 4 0.02
40 60 0.28
41 125 0.58
42 28 0.13
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (40 bp):
AATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCTA
Found at i:30690806 original size:81 final size:80
Alignment explanation
Indices: 30690717--30691017 Score: 293
Period size: 81 Copynumber: 3.7 Consensus size: 80
30690707 GAAAAATGAC
* * *
30690717 GAATTGCACATACGTGCCCCTATTTGTACTTCGGTACTCCTAAATTGCACATGCGTGCCCTATTA
1 GAATTGCACATACGTGCCCCTATTTGTACTTCGGTAC-CCTAAATTGCACATACGTGCCCTGTTT
**
30690782 GTACTTCAATACCCCA
65 GTACTTCGGTACCCCA
** * * * *
30690798 GAATTGCACATATTTTCCCCTGTTTGTTCTTTGGTACCCTGAAA-TG-ACCATACGTGCCCCTGT
1 GAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCT-AAATTGCA-CATACGTG-CCCTGT
*
30690861 TTGTACTTTGGTACCCCTA
63 TTGTACTTCGGTACCCC-A
* * * * * * *
30690880 -AATTACACACACGTGCTCCTATTTCTACTTTGGTACCCTTGAATTGCACATACGTACCCCTGTT
1 GAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC-TAAATTGCACATACGT-GCCCTGTT
* *
30690944 TGTACTTCGGTACCGCT
64 TGTACTTCGGTACCCCA
* *
30690961 GAATTGCATATACGTGCCCCTATTTGTACTTCAGTACCCTCTAAATTGCACATACGT
1 GAATTGCACATACGTGCCCCTATTTGTACTTCGGTA-CC-CTAAATTGCACATACGT
30691018 ACCCCTATTG
Statistics
Matches: 175, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
79 1 0.01
80 12 0.07
81 83 0.47
82 60 0.34
83 18 0.10
84 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.34
Consensus pattern (80 bp):
GAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCTAAATTGCACATACGTGCCCTGTTTG
TACTTCGGTACCCCA
Found at i:30697475 original size:17 final size:18
Alignment explanation
Indices: 30697450--30697486 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30697440 CTGTGTGAGG
*
30697450 CCCATGAGCCCGT-GGGC
1 CCCACGAGCCCGTAGGGC
30697467 CCCACGAGCCCGTAGGGC
1 CCCACGAGCCCGTAGGGC
30697485 CC
1 CC
30697487 GCATAGCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.14, C:0.46, G:0.32, T:0.08
Consensus pattern (18 bp):
CCCACGAGCCCGTAGGGC
Found at i:30711954 original size:39 final size:40
Alignment explanation
Indices: 30711835--30712019 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
30711825 GCTACTCGTT
* *
30711835 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
30711875 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
30711915 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
30711954 CAAATGCTTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30711995 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30712020 CATCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30711966 original size:79 final size:82
Alignment explanation
Indices: 30711835--30712019 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
30711825 GCTACTCGTT
* * * *
30711835 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCTCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACCCGCACAAATGCCTTC-GGATCTTAACCC
* *
30711898 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
30711915 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCCCGCACAAATGCTTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACCCGCACAAATGCCTTCGGATCTTAACCCG
* *
30711978 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
30711995 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30712020 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACCCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:30714617 original size:11 final size:11
Alignment explanation
Indices: 30714601--30714631 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
30714591 TTATGATATG
30714601 ATTTCGTGAAA
1 ATTTCGTGAAA
30714612 ATTTCGTGAAA
1 ATTTCGTGAAA
30714623 ATTTCGTGA
1 ATTTCGTGA
30714632 TGAAATTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (11 bp):
ATTTCGTGAAA
Found at i:30718310 original size:19 final size:19
Alignment explanation
Indices: 30718288--30718337 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
30718278 CCATGTGGGG
30718288 CACACGAGCCCATAGGGCC
1 CACACGAGCCCATAGGGCC
* * *
30718307 CACATGAGCTCATGGGGCC
1 CACACGAGCCCATAGGGCC
30718326 CACACG-GCCCAT
1 CACACGAGCCCAT
30718338 TTTAGCCCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.24, C:0.40, G:0.26, T:0.10
Consensus pattern (19 bp):
CACACGAGCCCATAGGGCC
Found at i:30724331 original size:40 final size:40
Alignment explanation
Indices: 30724286--30724478 Score: 219
Period size: 40 Copynumber: 4.8 Consensus size: 40
30724276 ATAACCACAA
* * *
30724286 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
30724326 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
30724366 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * * *
30724406 GCATAAATGCCTTCGGGACTTAGCCCGAATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
30724446 GCATAAATGCCTTCGGGACTTAGCCCGGATATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA
30724479 TCATTAAAAT
Statistics
Matches: 141, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 135 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:30735586 original size:43 final size:43
Alignment explanation
Indices: 30735442--30735607 Score: 176
Period size: 43 Copynumber: 3.9 Consensus size: 43
30735432 ATTCTTAATT
* ** *
30735442 TTTGATTTCGTGTAAGACCATGTCTGGGACGTTGACATCGACT-
1 TTTGATTACGTGTAAGACCATGTCTGGGACAATGGCATCGA-TA
* * *
30735485 TATGATTTACGTGTAAGACCATGTCTGGGAC-ATCGTATCG-TA
1 TTTGA-TTACGTGTAAGACCATGTCTGGGACAATGGCATCGATA
* *
30735527 TTTGATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCGATA
1 TTTGATTACGTGTAAGACCATGTCTGGGACAATGGCATCGATA
* * * *
30735570 TTTGATTACATGTAAGACCACGTCTTGGACATTGGCAT
1 TTTGATTACGTGTAAGACCATGTCTGGGACAATGGCAT
30735608 TGTGTGAGCT
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
41 24 0.24
42 11 0.11
43 43 0.42
44 24 0.24
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (43 bp):
TTTGATTACGTGTAAGACCATGTCTGGGACAATGGCATCGATA
Found at i:30742094 original size:27 final size:27
Alignment explanation
Indices: 30742064--30742219 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
30742054 TGCTATTCAC
* *
30742064 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
30742091 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
30742118 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
30742146 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
30742173 TCTTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
30742200 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
30742220 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:30742135 original size:55 final size:55
Alignment explanation
Indices: 30742069--30742220 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
30742059 TTCACTCAAC
* *
30742069 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTAGAT
* ** * ***
30742124 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCTTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
* *
30742178 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
30742221 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
Found at i:30750146 original size:27 final size:27
Alignment explanation
Indices: 30750116--30750271 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
30750106 TGCTATTCAC
* *
30750116 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
30750143 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
30750170 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
30750198 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
30750225 TCTTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
30750252 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
30750272 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:30750187 original size:55 final size:55
Alignment explanation
Indices: 30750121--30750272 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
30750111 TTCACTCAAC
* *
30750121 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTAGAT
* ** * ***
30750176 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCTTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
* *
30750230 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
30750273 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
Found at i:30757858 original size:43 final size:43
Alignment explanation
Indices: 30757792--30757877 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
30757782 AAATTGTACA
*
30757792 ATGCCAACATCCCAGACGTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACATCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
30757835 ATGCC-ACTATCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACTCGTAAACACATATCG
30757878 GAATCACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAACATCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:30759663 original size:12 final size:13
Alignment explanation
Indices: 30759643--30759688 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
30759633 AAATTTACTC
30759643 TTAATATTTTCGG
1 TTAATATTTTCGG
* **
30759656 TTAA-ATTTGCTC
1 TTAATATTTTCGG
30759668 TTAATATTTTCGG
1 TTAATATTTTCGG
30759681 TTAA-ATTT
1 TTAATATTT
30759689 GCCCTTATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
12 13 0.50
13 13 0.50
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.54
Consensus pattern (13 bp):
TTAATATTTTCGG
Found at i:30759689 original size:25 final size:25
Alignment explanation
Indices: 30759609--30759701 Score: 123
Period size: 25 Copynumber: 3.7 Consensus size: 25
30759599 TAAGCTTGTT
* * * *
30759609 AATTTGTTCTTAATAATTCCAGTTA
1 AATTTGCTCTTAATATTTTCGGTTA
*
30759634 AATTTACTCTTAATATTTTCGGTTA
1 AATTTGCTCTTAATATTTTCGGTTA
30759659 AATTTGCTCTTAATATTTTCGGTTA
1 AATTTGCTCTTAATATTTTCGGTTA
* *
30759684 AATTTGCCCTTATTATTT
1 AATTTGCTCTTAATATTT
30759702 CCGAATAAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.52
Consensus pattern (25 bp):
AATTTGCTCTTAATATTTTCGGTTA
Found at i:30760598 original size:45 final size:45
Alignment explanation
Indices: 30760519--30760651 Score: 212
Period size: 45 Copynumber: 3.0 Consensus size: 45
30760509 TATCGTACAG
* * *
30760519 TACTATTCGGGCCTTTAAGACTAGCAGGTTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
30760564 TACTATTCGGGCCTTTGAGCCTAGTAGGCCATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
30760609 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
30760652 AATGATATTG
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 80 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:30770390 original size:54 final size:54
Alignment explanation
Indices: 30770329--30770479 Score: 173
Period size: 54 Copynumber: 2.8 Consensus size: 54
30770319 TAAATTGTAC
*
30770329 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAA-TATG-
1 AGCACTAAGTGTGCGATT-GATTATGTGGCACTAAGTGTGCGAAAAGAACTATGT
** * ***
30770382 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGATTATGTGGCACTAAGTGTGCGAAAAGAACTATGT
*
30770438 AGCACTAAG-GTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA-TTGATTATGTGGCACTAAGTGTGCGA
30770480 GTTGAGTGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
53 2 0.02
54 64 0.78
55 15 0.18
56 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGATTATGTGGCACTAAGTGTGCGAAAAGAACTATGT
Found at i:30770484 original size:27 final size:27
Alignment explanation
Indices: 30770330--30770484 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
30770320 AAATTGTACA
* *
30770330 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
30770357 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
30770384 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
30770411 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
30770439 GCACTAAG-GTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
30770465 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
30770485 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
26 14 0.13
27 75 0.71
28 16 0.15
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:30778496 original size:28 final size:27
Alignment explanation
Indices: 30778429--30778498 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
30778419 AGAATATGAT
* *
30778429 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
30778456 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
30778484 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
30778499 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:30778514 original size:55 final size:53
Alignment explanation
Indices: 30778374--30778525 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
30778364 TAAATTGTAC
* *
30778374 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
30778427 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
30778482 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
30778526 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:30778530 original size:27 final size:27
Alignment explanation
Indices: 30778375--30778530 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
30778365 AAATTGTACA
* *
30778375 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
30778402 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
30778429 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
30778456 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
30778484 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
30778511 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
30778531 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:30787010 original size:22 final size:22
Alignment explanation
Indices: 30786982--30787045 Score: 119
Period size: 22 Copynumber: 2.9 Consensus size: 22
30786972 AGCTTATCGT
30786982 TTCAACTCGTATGAGCTTACTG
1 TTCAACTCGTATGAGCTTACTG
30787004 TTCAACTCGTATGAGCTTACTG
1 TTCAACTCGTATGAGCTTACTG
*
30787026 TTCAGCTCGTATGAGCTTAC
1 TTCAACTCGTATGAGCTTAC
30787046 CATTTTAGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (22 bp):
TTCAACTCGTATGAGCTTACTG
Found at i:30787065 original size:45 final size:45
Alignment explanation
Indices: 30786939--30787074 Score: 127
Period size: 45 Copynumber: 3.0 Consensus size: 45
30786929 CAATATATCT
* * * *
30786939 GCTCGTAAGAGCTTACTATTTTCAGCTCATTGGAGCTTA-TCGTTTCA
1 GCTCGTATGAGCTTACCATTTT-AGCTCAGTAGAGCTTACT-G-TTCA
* * *
30786986 ACTCGTATGAGCTTA-C-TGTTCAACTC-GTATGAGCTTACTGTTCA
1 GCTCGTATGAGCTTACCAT-TTTAGCTCAGTA-GAGCTTACTGTTCA
*
30787030 GCTCGTATGAGCTTACCATTTTAGCACAGTAGAGCTTACTGTTCA
1 GCTCGTATGAGCTTACCATTTTAGCTCAGTAGAGCTTACTGTTCA
30787075 TCATCTCAAG
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
44 19 0.26
45 33 0.46
46 7 0.10
47 13 0.18
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (45 bp):
GCTCGTATGAGCTTACCATTTTAGCTCAGTAGAGCTTACTGTTCA
Found at i:30792212 original size:8 final size:7
Alignment explanation
Indices: 30792192--30792244 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
30792182 ACACAAATTT
*
30792192 CTAACCC
1 CTAAACC
30792199 CTAAACC
1 CTAAACC
30792206 CTAAAACC
1 CT-AAACC
30792214 CTAAACC
1 CTAAACC
*
30792221 ATAAAACC
1 CT-AAACC
*
30792229 TTAAACC
1 CTAAACC
30792236 CTAAACC
1 CTAAACC
30792243 CT
1 CT
30792245 CCTTAATCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
7 27 0.68
8 13 0.32
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:30792217 original size:15 final size:15
Alignment explanation
Indices: 30792197--30792244 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
30792187 AATTTCTAAC
30792197 CCCTAAACCCTAAAA
1 CCCTAAACCCTAAAA
*
30792212 CCCTAAACCATAAAA
1 CCCTAAACCCTAAAA
*
30792227 CCTTAAACCCT-AAA
1 CCCTAAACCCTAAAA
30792241 CCCT
1 CCCT
30792245 CCTTAATCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 6 0.21
15 23 0.79
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.17
Consensus pattern (15 bp):
CCCTAAACCCTAAAA
Found at i:30798079 original size:20 final size:20
Alignment explanation
Indices: 30798024--30798081 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
30798014 TGAGCTAAAA
* *
30798024 TTGAGCTGGATGTTAACTTG
1 TTGAGCTGGATGTGAGCTTG
**
30798044 TTGAGCTGGAACTGAGCTTG
1 TTGAGCTGGATGTGAGCTTG
*
30798064 TTGAGCTGGTTGTGAGCT
1 TTGAGCTGGATGTGAGCT
30798082 GGACGAGCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.34, T:0.36
Consensus pattern (20 bp):
TTGAGCTGGATGTGAGCTTG
Found at i:30798645 original size:48 final size:48
Alignment explanation
Indices: 30798574--30798939 Score: 539
Period size: 48 Copynumber: 7.8 Consensus size: 48
30798564 TCTCACATCG
* ** *
30798574 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCTA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
30798622 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
*
30798670 ATGCCATGTCCCAGACATGTTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * * *
30798718 ATGCTATGTCCCAGACATGGTCTTACATTGCATCATATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
*
30798766 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
*
30798814 ATGCCA------A-ACATGGTTTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
30798855 ACGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
*
30798903 ATGCCATGTCCCAGACATGGTCTTTCATGGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
30798940 ATGCCATAGC
Statistics
Matches: 285, Mismatches: 26, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
41 37 0.13
42 1 0.00
47 1 0.00
48 246 0.86
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:30798847 original size:89 final size:89
Alignment explanation
Indices: 30798732--30798908 Score: 291
Period size: 89 Copynumber: 2.0 Consensus size: 89
30798722 TATGTCCCAG
* * * *
30798732 ACATGGTCTTACATTGCATCATATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
1 ACATGGTCTTACATGGCATCACATATCGATGCCAACGCCATGTCCCAAACATGGTCTTACATGGG
30798797 ATCACATAACGATGCCAATGCCAA
66 ATCACATAACGATGCCAATGCCAA
* *
30798821 ACATGGTTTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAAACATGGTCTTACATGGG
1 ACATGGTCTTACATGGCATCACATATCGATGCCAACGCCATGTCCCAAACATGGTCTTACATGGG
*
30798886 ATCACATATCGATGCCAATGCCA
66 ATCACATAACGATGCCAATGCCA
30798909 TGTCCCAGAC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (89 bp):
ACATGGTCTTACATGGCATCACATATCGATGCCAACGCCATGTCCCAAACATGGTCTTACATGGG
ATCACATAACGATGCCAATGCCAA
Found at i:30798881 original size:185 final size:188
Alignment explanation
Indices: 30798574--30798926 Score: 550
Period size: 185 Copynumber: 1.9 Consensus size: 188
30798564 TCTCACATCG
* * *
30798574 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCTAATGCCATATCCCAGATA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATGCCA-A---CAGACA
* * *
30798639 TGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGTTCTTACATGGGATC
62 TGGTCTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAAACATGGTCTTACATGGGATC
*
30798704 ACATATCGATGCCAATGCTATGTCCCAGACATGGTCTTACATTGCATCATATATCGATGCCA
127 ACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATTGCATCATATATCGATGCCA
* **
30798766 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGATGCCAATGCC-A-A-ACATGGT
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATGCCAACAGACATGGT
*
30798828 TTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAAACATGGTCTTACATGGGATCACAT
66 CTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAAACATGGTCTTACATGGGATCACAT
30798893 ATCGATGCCAATGCCATGTCCCAGACATGGTCTT
131 ATCGATGCCAATGCCATGTCCCAGACATGGTCTT
30798927 TCATGGGATC
Statistics
Matches: 150, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
185 100 0.67
186 1 0.01
190 1 0.01
192 48 0.32
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (188 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATGCCAACAGACATGGT
CTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAAACATGGTCTTACATGGGATCACAT
ATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATTGCATCATATATCGATGCCA
Found at i:30798898 original size:137 final size:139
Alignment explanation
Indices: 30798576--30798939 Score: 527
Period size: 137 Copynumber: 2.6 Consensus size: 139
30798566 TCACATCGAT
* * * * *
30798576 GCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCTAATGCCATATCCCAGATATG
1 GCCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCAATGCCATGTCCCAGACATG
*
30798641 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGTTCTTACATGGGATCAC
66 GTCTTACATGGGATCACATAACGATGCCAATGCCA-----CAGACATGTTCTTACATGGGATCAC
*
30798706 ATATCGATGCCAAT
126 ATATCGATGCCAAC
* * * *
30798720 GCTATGTCCCAGACATGGTCTTACATTGCATCATATATCGATGCCAATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCAATGCCATGTCCCAGACATG
30798785 GTCTTACATGGGATCACATAACGATGCCAATGCCA-A-ACATGGTT-TTACATGGGATCACATAT
66 GTCTTACATGGGATCACATAACGATGCCAATGCCACAGACAT-GTTCTTACATGGGATCACATAT
30798847 CGATGCCAAC
130 CGATGCCAAC
* *
30798857 GCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCAATGCCATGTCCCAGACATG
*
30798922 GTCTTTCATGGGATCACA
66 GTCTTACATGGGATCACA
30798940 ATGCCATAGC
Statistics
Matches: 202, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
137 108 0.53
138 4 0.02
144 90 0.45
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (139 bp):
GCCATGTCCCAGACATGGTCTTACATGGAATCACATATCGATGCCAATGCCATGTCCCAGACATG
GTCTTACATGGGATCACATAACGATGCCAATGCCACAGACATGTTCTTACATGGGATCACATATC
GATGCCAAC
Found at i:30802801 original size:14 final size:13
Alignment explanation
Indices: 30802766--30802790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30802756 GCCCAAACGT
30802766 CAAAATTTTCAAA
1 CAAAATTTTCAAA
30802779 CAAAATTTTCAA
1 CAAAATTTTCAA
30802791 GAAATAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
CAAAATTTTCAAA
Found at i:30805402 original size:43 final size:43
Alignment explanation
Indices: 30805247--30805402 Score: 176
Period size: 43 Copynumber: 3.6 Consensus size: 43
30805237 TGTGTTATCG
* *
30805247 TGTAAGACCATGTCTGGGATGTTGGCATC-A-ACTTATGATTTACG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATA-TT-TGA-TTACA
* *
30805291 TGTAAGACCATGTCTGGGACGTTGACATCG-TATTTGATTTCA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACA
* * *
30805333 TGTAAAACCCTGTCTGGGACAG-TGGCATCGATATTGGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGATTACA
*
30805376 TGTAAGACCATATCTGGGACGTTGGCA
1 TGTAAGACCATGTCTGGGACGTTGGCA
30805403 ATGTACGAGC
Statistics
Matches: 95, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
42 29 0.31
43 36 0.38
44 29 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:30812477 original size:42 final size:44
Alignment explanation
Indices: 30812377--30812477 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
30812367 TATGTTATTC
* * *
30812377 TGTAAGACCACGTCTTGGAAGTTGGCATCGACTTATGATTTACG
1 TGTAAGACCATGTCTGGGAAGTTGACATCGACTTATGATTTACG
*
30812421 TGTAAGACCATGTCTGGGACGTTGACATCGTA-TT-TGATTT-CG
1 TGTAAGACCATGTCTGGGAAGTTGACATCG-ACTTATGATTTACG
*
30812463 TGTAAGACCTTGTCT
1 TGTAAGACCATGTCT
30812478 AAGACAGTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 16 0.31
43 6 0.12
44 28 0.55
45 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGAAGTTGACATCGACTTATGATTTACG
Found at i:30812532 original size:43 final size:43
Alignment explanation
Indices: 30812377--30812533 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
30812367 TATGTTATTC
* *
30812377 TGTAAGACCACGTCTTGGAA-GTTGGCATCGA-CTTATGATTTACG
1 TGTAAGACCACGTC-TAGAACGTTGGCATCGATATTA-GA-TTACG
* * * * * *
30812421 TGTAAGACCATGTCTGGGACGTTGACATCG-TATTTGATTTCG
1 TGTAAGACCACGTCTAGAACGTTGGCATCGATATTAGATTACG
** *
30812463 TGTAAGACCTTGTCTA-AGACAG-TGGCATCGATATTAGATTACA
1 TGTAAGACCACGTCTAGA-AC-GTTGGCATCGATATTAGATTACG
*
30812506 TGTAAGACCACCTCTAGAACGTTGGCAT
1 TGTAAGACCACGTCTAGAACGTTGGCAT
30812534 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
42 28 0.31
43 37 0.41
44 25 0.28
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGAACGTTGGCATCGATATTAGATTACG
Found at i:30818017 original size:46 final size:46
Alignment explanation
Indices: 30817967--30818142 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
30817957 TGGTTGAGCA
30817967 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30818013 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
** *
30818058 CATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
30818106 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30818143 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30818123 original size:93 final size:93
Alignment explanation
Indices: 30817964--30818135 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
30817954 GGATGGTTGA
*
30817964 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
30818029 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
** *
30818057 GCATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
30818121 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
30818136 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30825382 original size:46 final size:46
Alignment explanation
Indices: 30825332--30825502 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
30825322 TTGAGCATCT
30825332 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
30825378 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* **
30825425 AAACTCGTTGA-TTGAGTCCGAGTTCACTTATGGATGCGAA-CCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* *
30825469 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30825503 GCGGTTACAT
Statistics
Matches: 103, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 11 0.11
45 24 0.23
46 40 0.39
47 15 0.15
49 4 0.04
50 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:30826099 original size:20 final size:20
Alignment explanation
Indices: 30826074--30826115 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
30826064 ATTTTGATAA
30826074 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30826094 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30826114 AC
1 AC
30826116 CGAGATGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30826192 original size:23 final size:22
Alignment explanation
Indices: 30826165--30826255 Score: 104
Period size: 23 Copynumber: 4.2 Consensus size: 22
30826155 GAGGAAGTGC
30826165 AAAAGGCTTATGCCCCAGTTATT
1 AAAAGGCTTATG-CCCAGTTATT
30826188 AAAAGGCTTATGCCCCAG---TT
1 AAAAGGCTTATG-CCCAGTTATT
30826208 -AAAGGCTTATGCCCA-TTATT
1 AAAAGGCTTATGCCCAGTTATT
30826228 AAAAAAGGCTT-TGCCCAGTTATT
1 --AAAAGGCTTATGCCCAGTTATT
30826251 AAAAG
1 AAAAG
30826256 AGGCTAGGCC
Statistics
Matches: 61, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
18 4 0.07
19 11 0.18
20 4 0.07
21 5 0.08
22 6 0.10
23 31 0.51
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (22 bp):
AAAAGGCTTATGCCCAGTTATT
Found at i:30826245 original size:40 final size:42
Alignment explanation
Indices: 30826166--30826248 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
30826156 AGGAAGTGCA
30826166 AAAGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTT
1 AAAGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTT
30826208 AAAGGCTTATG-CCCA-TTATTAAAAAAGGCTT-TG-CCCAGTT
1 AAAGGCTTATGCCCCAGTTATT--AAAAGGCTTATGCCCCAGTT
30826248 A
1 A
30826249 TTAAAAGAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
40 13 0.33
41 6 0.15
42 20 0.51
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (42 bp):
AAAGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTT
Found at i:30826523 original size:29 final size:30
Alignment explanation
Indices: 30826462--30826523 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
30826452 CGTTTACAGT
*
30826462 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGT-ATATGAAATATGA
*
30826493 AAAGGCTTCAGCCCAGT-TATGAATTATGA
1 AAAGGCTTCAGCCCAGTATATGAAATATGA
30826522 AA
1 AA
30826524 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 13 0.45
31 16 0.55
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (30 bp):
AAAGGCTTCAGCCCAGTATATGAAATATGA
Found at i:30827018 original size:83 final size:81
Alignment explanation
Indices: 30826881--30827044 Score: 294
Period size: 83 Copynumber: 2.0 Consensus size: 81
30826871 TAGACTTAGG
30826881 ACGTGTTTTCAAACATATGTTTTCAAAAGAGTTCAACACCACGATTAATCGATTTATCAAAGTCG
1 ACGTGTTTTCAAACATATGTTTTCAAAAGAGTTCAACACCACGATTAATCGATTTATCAAAGTCG
30826946 TTCACTTAAACAAATT
66 TTCACTTAAACAAATT
30826962 ACGTGTTTTCAAACGATACTTGTTTTC-AAAGAGTTCAACACCACGATTAATCGATTTATCAAAG
1 ACGTGTTTTCAAAC-ATA--TGTTTTCAAAAGAGTTCAACACCACGATTAATCGATTTATCAAAG
30827026 TCGTTCACTTAAACAAATT
63 TCGTTCACTTAAACAAATT
30827045 TAAACTCGAT
Statistics
Matches: 80, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
81 14 0.17
82 3 0.04
83 56 0.70
84 7 0.09
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (81 bp):
ACGTGTTTTCAAACATATGTTTTCAAAAGAGTTCAACACCACGATTAATCGATTTATCAAAGTCG
TTCACTTAAACAAATT
Found at i:30828953 original size:12 final size:13
Alignment explanation
Indices: 30828935--30828973 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
30828925 AGTTGTAAAG
*
30828935 TTTTATTTTTTTA
1 TTTTATTTATTTA
30828948 -TTTATTTATTTA
1 TTTTATTTATTTA
30828960 TTTTATTTAGTTTA
1 TTTTATTTA-TTTA
30828974 AATTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 11 0.48
13 8 0.35
14 4 0.17
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:30828966 original size:9 final size:9
Alignment explanation
Indices: 30828935--30828973 Score: 55
Period size: 8 Copynumber: 4.6 Consensus size: 9
30828925 AGTTGTAAAG
30828935 TTTTATTT-
1 TTTTATTTA
30828943 TTTTATTTA
1 TTTTATTTA
30828952 -TTTATTTA
1 TTTTATTTA
30828960 TTTTATTTA
1 TTTTATTTA
*
30828969 GTTTA
1 TTTTA
30828974 AATTTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 16 0.57
9 12 0.43
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (9 bp):
TTTTATTTA
Found at i:30835510 original size:4 final size:4
Alignment explanation
Indices: 30835501--30835534 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
30835491 AAGTTTTATT
30835501 TTTA TTTA TTTA TTTA TTTA GTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
30835535 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:30835512 original size:8 final size:9
Alignment explanation
Indices: 30835501--30835534 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
30835491 AAGTTTTATT
30835501 TTTA-TTTA
1 TTTAGTTTA
30835509 TTTA-TTTA
1 TTTAGTTTA
30835517 TTTAGTTTA
1 TTTAGTTTA
30835526 TTTAGTTTA
1 TTTAGTTTA
30835535 AATTTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 12 0.48
9 13 0.52
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (9 bp):
TTTAGTTTA
Found at i:30841677 original size:25 final size:25
Alignment explanation
Indices: 30841648--30841695 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30841638 TTATAATATG
* * *
30841648 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
30841673 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
30841696 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:30841746 original size:9 final size:9
Alignment explanation
Indices: 30841734--30841790 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
30841724 TTTGATAAAC
30841734 ATGATATGT
1 ATGATATGT
*
30841743 ATGATATGCAC
1 ATGATATG--T
*
30841754 ATGACATGT
1 ATGATATGT
*
30841763 ATGATATGCAC
1 ATGATATG--T
30841774 ATGATATGT
1 ATGATATGT
30841783 ATGATATG
1 ATGATATG
30841791 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:30841757 original size:20 final size:20
Alignment explanation
Indices: 30841732--30841794 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
30841722 ATTTTGATAA
30841732 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
30841752 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
30841772 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30841792 ACA
1 ACA
30841795 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30841927 original size:23 final size:24
Alignment explanation
Indices: 30841848--30841963 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
30841838 GAGGAAGTGC
30841848 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
30841872 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
30841896 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
30841920 -AAAGGGC-T-T-CCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
30841940 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
30841964 ATGATAAAGT
Statistics
Matches: 86, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
20 11 0.13
21 5 0.06
22 5 0.06
23 7 0.08
24 50 0.58
25 8 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:30842191 original size:31 final size:31
Alignment explanation
Indices: 30842156--30842219 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
30842146 CGTTTACAGT
30842156 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
30842187 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
30842218 AA
1 AA
30842220 TATGGAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:30849870 original size:68 final size:67
Alignment explanation
Indices: 30849798--30849974 Score: 184
Period size: 67 Copynumber: 2.6 Consensus size: 67
30849788 CATCATGTGT
* * * * *
30849798 ACAAGAGAGCTACGAGATACTATGTGGTAGCTAGGTCACATTTGT-GATAC-GG-GATGTATACC
1 ACAAGAGAGCTACGAGATA--A-AT-GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACC
30849860 ATGTAG
62 ATGTAG
* * * *
30849866 ACAAGAGAGCTACGGGATAAATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGT
30849931 AG
66 AG
*
30849933 ACAAGAGAGCTACGAGATAAAATG--GCTAGGTCACATGGGTGG
1 ACAAGAGAGCTACGAGAT-AAATGTAGCTAGGTCACATGTGTGG
30849975 TACTAAGTGT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
64 17 0.18
65 4 0.04
66 19 0.20
67 30 0.32
68 23 0.25
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGT
AG
Found at i:30867909 original size:100 final size:100
Alignment explanation
Indices: 30867731--30867930 Score: 328
Period size: 100 Copynumber: 2.0 Consensus size: 100
30867721 TTTGATCAAA
*
30867731 GTAGCTTTGTTTCCACACACAAACAGTTCATTTCTCAGACTGTCTTGAATCCCTTCAAAGGAAAA
1 GTAGCTTTGTTTCCACACACAAACAATTCATTTCTCAGACTGTCTTGAATCCCTTCAAAGGAAAA
30867796 CATTTTCTCAAACATAATCAATAAAATTAAAAATG
66 CATTTTCTCAAACATAATCAATAAAATTAAAAATG
** * *
30867831 GTAGCTTTGTTTCCACACACAAACAATTCATTTCTCCTATTGTCTTGGATCCCTTCAAAGGAAAA
1 GTAGCTTTGTTTCCACACACAAACAATTCATTTCTCAGACTGTCTTGAATCCCTTCAAAGGAAAA
* * *
30867896 CATTTTCTGAAACATAATCGATAAAATTGAAAATG
66 CATTTTCTCAAACATAATCAATAAAATTAAAAATG
30867931 ATCAAAACAA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.32
Consensus pattern (100 bp):
GTAGCTTTGTTTCCACACACAAACAATTCATTTCTCAGACTGTCTTGAATCCCTTCAAAGGAAAA
CATTTTCTCAAACATAATCAATAAAATTAAAAATG
Found at i:30872308 original size:27 final size:28
Alignment explanation
Indices: 30872278--30872334 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
30872268 ATTTTTGATG
30872278 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
30872305 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
30872334 A
1 A
30872335 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:30872909 original size:43 final size:43
Alignment explanation
Indices: 30872776--30872909 Score: 100
Period size: 43 Copynumber: 3.1 Consensus size: 43
30872766 CTAGGACACA
* **
30872776 GGCATCGAT-TTGAAATTTA-AGTGTAAGACCATGTCTGGGACATC
1 GGCATCGATATTG-AA-TTACA-TGTAAGACCACGTCTGGGATGTC
* * * * *
30872820 GGCATCG-TATCTG-TTTTCGTATAAGACC-CTGTCTGGGATAG-A
1 GGCATCGATAT-TGAATTACATGTAAGACCAC-GTCTGGGAT-GTC
30872862 GGCATCGATATTGAATTACATGTAAGACCACGTCTGGGATGTC
1 GGCATCGATATTGAATTACATGTAAGACCACGTCTGGGATGTC
30872905 GGCAT
1 GGCAT
30872910 TGTACTTGTC
Statistics
Matches: 68, Mismatches: 13, Indels: 19
0.68 0.13 0.19
Matches are distributed among these distances:
42 28 0.41
43 29 0.43
44 9 0.13
45 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
GGCATCGATATTGAATTACATGTAAGACCACGTCTGGGATGTC
Found at i:30873377 original size:12 final size:13
Alignment explanation
Indices: 30873360--30873391 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30873350 GCAAATGTTA
30873360 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
30873372 AGTTTTGATGCAT
1 AGTTTTGATGCAT
30873385 -GTTTTGA
1 AGTTTTGA
30873392 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:30874308 original size:25 final size:25
Alignment explanation
Indices: 30874270--30874350 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
30874260 GGACACACCA
* * *
30874270 CAGCTCATACGAGCTTACTTATTTG
1 CAGCTCGTAAGAGCTTACTGATTTG
30874295 CAGCTCGTAAGAGCTTACTGATTCT-
1 CAGCTCGTAAGAGCTTACTGATT-TG
* * *
30874320 CAGCTTGTATGAGCTTACCGATTTG
1 CAGCTCGTAAGAGCTTACTGATTTG
30874345 CAGCTC
1 CAGCTC
30874351 ATGAAAGCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 45 0.96
26 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (25 bp):
CAGCTCGTAAGAGCTTACTGATTTG
Found at i:30879256 original size:48 final size:48
Alignment explanation
Indices: 30879138--30879456 Score: 201
Period size: 48 Copynumber: 6.8 Consensus size: 48
30879128 CGAAATTGAG
* * * *
30879138 GCCGATGCCATGTCCCAAACATGGTCTTACACT-AGC-TCTCACATATCTAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACCTC-TATA-C-GT
*
30879188 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACACCTCTATACGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGT
* *
30879236 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACA-C-ATGT-CGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGT
* * * *
30879281 AGCGGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCT-TGA-G-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACCTCTAT-ACGT
* * * *
30879328 GCTGATG-CATGTCCCAGACAT-GTCTTACACT---AGCTCTCATTTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCT-A-TAC-GT
* * * *
30879374 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGC-TCTC-ATAATGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACGT
*
30879421 GGCCGATG-CAT-TCCCAGACAT-GTCTTACACTAACAC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGACAC
30879457 ACAAATAACC
Statistics
Matches: 217, Mismatches: 29, Indels: 50
0.73 0.10 0.17
Matches are distributed among these distances:
41 4 0.02
44 13 0.06
45 26 0.12
46 54 0.25
47 21 0.10
48 56 0.26
49 1 0.00
50 38 0.18
51 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGT
Found at i:30879341 original size:46 final size:48
Alignment explanation
Indices: 30879046--30879451 Score: 287
Period size: 46 Copynumber: 8.6 Consensus size: 48
30879036 TATAATGCCA
* * * *
30879046 ATGCCATGTCCCAGACATGGTCTTGCACTGGC-T-CAT-TCATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAT--TGAGGCCG
** * *
30879093 ATGCCATGTCTTAGACATGGTCTTACAATGGC-TATCGAAATTGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATATTGAGGCCG
* * *
30879142 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCT-ATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ACATAT-TGAGGCCG
* * * *
30879192 ATGCCATGTCCTAGACATGGTCTTACACTGAC--ACCTCTAT-ACGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAT-TGA-G-GCCG
* * * *
30879240 ATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATGTCGTA-GCGG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATTG-AGGCCG
* * *
30879286 ATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTTGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATTGAGGCCG
* * *
30879332 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CAT-TTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATATT-GAGGCCG
* * *
30879378 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCT-CATAATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATATTGAGGCCG
30879426 ATG-CAT-TCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
30879452 AACACACAAA
Statistics
Matches: 294, Mismatches: 45, Indels: 42
0.77 0.12 0.11
Matches are distributed among these distances:
44 12 0.04
45 25 0.09
46 70 0.24
47 47 0.16
48 63 0.21
49 35 0.12
50 37 0.13
51 4 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATATTGAGGCCG
Found at i:30880783 original size:51 final size:51
Alignment explanation
Indices: 30880696--30880894 Score: 283
Period size: 51 Copynumber: 3.9 Consensus size: 51
30880686 CGAATACACG
* * *
30880696 GTGGTCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATGCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
**
30880747 GTGGCCTTCACATAGTACCACACTTGTGTCTGAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * * * *
30880798 GTGGCCTTCATATAGTACTACACTTGTGTTCAAAGCTATTATATTCATAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
30880849 GTGGCCTTCATATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
30880895 CTAAGGTTCA
Statistics
Matches: 132, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
50 1 0.01
51 131 0.99
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:30886590 original size:27 final size:28
Alignment explanation
Indices: 30886506--30886603 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
30886496 CATGAGATTG
* * * *
30886506 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
30886535 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
30886563 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
30886590 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
30886604 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:30886614 original size:27 final size:27
Alignment explanation
Indices: 30886534--30886616 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
30886524 TAAATTGTAC
* *
30886534 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
30886562 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
30886589 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
30886616 A
1 A
30886617 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:30886617 original size:29 final size:27
Alignment explanation
Indices: 30886506--30886617 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
30886496 CATGAGATTG
** * *
30886506 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
30886535 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
30886563 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
30886590 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
30886618 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:30890755 original size:32 final size:27
Alignment explanation
Indices: 30890673--30890758 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
30890663 AGGAAGCGTC
* *
30890673 CTGGTACCTATGCCACA-ATTATCTGAT
1 CTGGTAGCTCTGCCACATA-TATCTGAT
* *
30890700 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTAGCTCTGCCACATATATCTGAT
30890727 CTGGTAGCTCTGCCACA-ATATCTGTAT
1 CTGGTAGCTCTGCCACATATATCTG-AT
30890754 CTGGT
1 CTGGT
30890759 GACTTCGTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
26 7 0.14
27 43 0.84
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (27 bp):
CTGGTAGCTCTGCCACATATATCTGAT
Found at i:30890770 original size:27 final size:27
Alignment explanation
Indices: 30890683--30890777 Score: 108
Period size: 27 Copynumber: 3.5 Consensus size: 27
30890673 CTGGTACCTA
*
30890683 TGCCACAATTATCTG-ATCTGGTGGCTC
1 TGCCACAA-TATCTGTATCTGGTGACTC
30890710 TGCCACATATATCTGT-TCTGGT-AGCTC
1 TGCCACA-ATATCTGTATCTGGTGA-CTC
30890737 TGCCACAATATCTGTATCTGGTGACT-
1 TGCCACAATATCTGTATCTGGTGACTC
*
30890763 TCGTCACAATATCTG
1 T-GCCACAATATCTG
30890778 GCAGCCTCGC
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
26 9 0.15
27 49 0.82
28 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:30896653 original size:93 final size:93
Alignment explanation
Indices: 30896545--30896715 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
30896535 GCCCATAAGT
* * *
30896545 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
30896610 CGAGCTT-GGATGCCTAGTTACATCTCTC
66 CGAG-TTCGGATGCCTAGTTACATCTCTC
* *
30896638 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
30896703 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30896716 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:30896712 original size:46 final size:46
Alignment explanation
Indices: 30896537--30896712 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
30896527 TGTAACCCGC
* * * *
30896537 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30896583 CCATAAGTGAACTCAGACTCAACTCAACGAGCTT-GG--ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAG-TTCGGACATTCGC-A--T
* ***
30896629 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30896676 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
30896713 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30899137 original size:15 final size:15
Alignment explanation
Indices: 30899113--30899160 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
30899103 AGGAAACCGA
30899113 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
30899128 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
30899142 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
30899158 ATA
1 ATA
30899161 CGATACTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30902246 original size:46 final size:45
Alignment explanation
Indices: 30902101--30902238 Score: 115
Period size: 44 Copynumber: 3.1 Consensus size: 45
30902091 ATGTAACCGC
* *
30902101 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G-ATGC-CTA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAA
** * * *
30902143 -GTTACATCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATA-A-GT-GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAA
* * *
30902191 CCATAAGTGAACTCGGACTCAACTCAATGAGTTTGG-ATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAA
30902235 CCAT
1 CCAT
30902239 CCTAGTGACA
Statistics
Matches: 73, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
41 2 0.03
42 1 0.01
43 1 0.01
44 34 0.47
45 1 0.01
46 26 0.36
47 4 0.05
48 2 0.03
49 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAA
Found at i:30903993 original size:41 final size:41
Alignment explanation
Indices: 30903933--30904031 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
30903923 ACAAGTGGAG
* * * *
30903933 TGAGCTG-ACATGAGATGGTGTAGAGTACTTTGAGCTATCT
1 TGAGCTGAAGATGAGCTGGTGTAGAGTACTCTGAGCTAACT
30903973 TGAGCTGAAGATGAGCTGGTGTAGAGTACTCTGAGCTAACT
1 TGAGCTGAAGATGAGCTGGTGTAGAGTACTCTGAGCTAACT
*
30904014 TCAGCTGAAGATGAGCTG
1 TGAGCTGAAGATGAGCTG
30904032 CATATACACT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 7 0.13
41 46 0.87
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.28
Consensus pattern (41 bp):
TGAGCTGAAGATGAGCTGGTGTAGAGTACTCTGAGCTAACT
Found at i:30909236 original size:7 final size:7
Alignment explanation
Indices: 30909224--30909252 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
30909214 CACAAGTTTC
30909224 TTTTCTT
1 TTTTCTT
30909231 TTTTCTT
1 TTTTCTT
30909238 TTTTCTT
1 TTTTCTT
30909245 TTTT-TT
1 TTTTCTT
30909251 TT
1 TT
30909253 GAATTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTCTT
Found at i:30909315 original size:16 final size:17
Alignment explanation
Indices: 30909278--30909322 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
30909268 ATTGTTTGTG
30909278 TTTTGTTGTTTTTTTAAC
1 TTTTGTT-TTTTTTTAAC
30909296 --TTGTTTTTTTTT-AC
1 TTTTGTTTTTTTTTAAC
30909310 TTTTGTTTGTTTT
1 TTTTGTTT-TTTT
30909323 CTTGGTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 2 0.08
15 7 0.29
16 11 0.46
17 4 0.17
ACGTcount: A:0.07, C:0.04, G:0.11, T:0.78
Consensus pattern (17 bp):
TTTTGTTTTTTTTTAAC
Found at i:30909322 original size:15 final size:16
Alignment explanation
Indices: 30909280--30909322 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
30909270 TGTTTGTGTT
30909280 TTGTTGTTTTTTTAAC
1 TTGTTGTTTTTTTAAC
30909296 TTGTT-TTTTTTT-AC
1 TTGTTGTTTTTTTAAC
30909310 TT-TTGTTTGTTTT
1 TTGTTGTTT-TTTT
30909323 CTTGGTATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.08
14 7 0.28
15 11 0.44
16 5 0.20
ACGTcount: A:0.07, C:0.05, G:0.12, T:0.77
Consensus pattern (16 bp):
TTGTTGTTTTTTTAAC
Found at i:30911889 original size:238 final size:238
Alignment explanation
Indices: 30911513--30911962 Score: 616
Period size: 238 Copynumber: 1.9 Consensus size: 238
30911503 ACGCACAGCC
* * * * *** *
30911513 GTGTCCCAGCCCGCGTACTCACCTGTGTAACTCTCTTAGTAGGGTCATACGGGTGTGTCACATGC
1 GTGTCCCAACCCGCGTACTCACCTGTGTAACTCTCTGAGTAGGATCACACGGCCATGTCACACGC
* * * **
30911578 TCGTGTATCAAGCCATGTAACTCTCGAAATATCCCCACACGCTTGTATGCCAGGCCATGTGCTAG
66 TCATGTATCAAGCCATGTAACTCTCAAAATAGCCCCACACGCCCGTATGCCAGGCCATGTGCTAG
* *
30911643 ACCGTGTAACTTACTGAATTGCATACAAGGAAACTCCAAGATGACACACGGCTGAGACACATGCC
131 ACCGTGTAACTCACTGAATTGCATACAAGAAAACTCCAAGATGACACACGGCTGAGACACATGCC
* *
30911708 CGTGTCCCAGGTTATGTAACCTTTGATTTAGGGACACATGGAT
196 CGTATCCCAGGCTATGTAACCTTTGATTTAGGGACACATGGAT
* *
30911751 GTGTCCCAACCCGTGTACTCACCTGTGTAACTCTCTGAGTAGGATCACATGGCCATGTCACACGC
1 GTGTCCCAACCCGCGTACTCACCTGTGTAACTCTCTGAGTAGGATCACACGGCCATGTCACACGC
** * * *
30911816 -CTATGTATCGGGCCATGTAACTCTTAAAATAGCCCCACAGGCCCGTATGCCAGGCCATGTGTTA
66 TC-ATGTATCAAGCCATGTAACTCTCAAAATAGCCCCACACGCCCGTATGCCAGGCCATGTGCTA
* * *
30911880 GGA-CGTGTAACTCACTGACTTGCATATAAGAAAACTCCCAGATGACACACGGCTGAGACACATG
130 -GACCGTGTAACTCACTGAATTGCATACAAGAAAACTCCAAGATGACACACGGCTGAGACACATG
*
30911944 CCCGTATCTCAGGCTATGT
194 CCCGTATCCCAGGCTATGT
30911963 GCACCCAAAA
Statistics
Matches: 182, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
237 1 0.01
238 179 0.98
239 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (238 bp):
GTGTCCCAACCCGCGTACTCACCTGTGTAACTCTCTGAGTAGGATCACACGGCCATGTCACACGC
TCATGTATCAAGCCATGTAACTCTCAAAATAGCCCCACACGCCCGTATGCCAGGCCATGTGCTAG
ACCGTGTAACTCACTGAATTGCATACAAGAAAACTCCAAGATGACACACGGCTGAGACACATGCC
CGTATCCCAGGCTATGTAACCTTTGATTTAGGGACACATGGAT
Found at i:30912693 original size:38 final size:38
Alignment explanation
Indices: 30912643--30912786 Score: 139
Period size: 38 Copynumber: 3.8 Consensus size: 38
30912633 ACACCAGTAA
* * *
30912643 TAAGCCTGCTAGGCAAAAAGCCTGAATAACATCGGTAG
1 TAAGCCTACTAGGCAAAAAGCCTGAATAACATCGGCAC
* * * * * *
30912681 TAAGCCAACTAGGTACAAAGCCTAAATAACACCGACAC
1 TAAGCCTACTAGGCAAAAAGCCTGAATAACATCGGCAC
* * *
30912719 TAAGCCTGCTAGGCACAAAA-CTTGAATAA-TTCCGGCAC
1 TAAGCCTACTAGGCA-AAAAGCCTGAATAACAT-CGGCAC
*
30912757 TAAGCCTACTAGGCACAAAGCCTGAATAAC
1 TAAGCCTACTAGGCAAAAAGCCTGAATAAC
30912787 GATATAACTC
Statistics
Matches: 81, Mismatches: 21, Indels: 7
0.74 0.19 0.06
Matches are distributed among these distances:
37 3 0.04
38 75 0.93
39 3 0.04
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (38 bp):
TAAGCCTACTAGGCAAAAAGCCTGAATAACATCGGCAC
Found at i:30912761 original size:76 final size:76
Alignment explanation
Indices: 30912643--30912786 Score: 193
Period size: 76 Copynumber: 1.9 Consensus size: 76
30912633 ACACCAGTAA
* * *
30912643 TAAGCCTGCTAGGCAAAAAGCCTGAATAACATCGGTAGTAAGCCAACTAGGTACAAAGCCTAAAT
1 TAAGCCTGCTAGGCAAAAAGCCTGAATAACATCGGCACTAAGCCAACTAGGCACAAAGCCTAAAT
30912708 AACACCGACAC
66 AACACCGACAC
* * * *
30912719 TAAGCCTGCTAGGCACAAAA-CTTGAATAA-TTCCGGCACTAAGCCTACTAGGCACAAAGCCTGA
1 TAAGCCTGCTAGGCA-AAAAGCCTGAATAACAT-CGGCACTAAGCCAACTAGGCACAAAGCCTAA
30912782 ATAAC
64 ATAAC
30912787 GATATAACTC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 1 0.02
76 54 0.92
77 4 0.07
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (76 bp):
TAAGCCTGCTAGGCAAAAAGCCTGAATAACATCGGCACTAAGCCAACTAGGCACAAAGCCTAAAT
AACACCGACAC
Found at i:30913767 original size:38 final size:39
Alignment explanation
Indices: 30913678--30913769 Score: 150
Period size: 39 Copynumber: 2.4 Consensus size: 39
30913668 AGTTTGAATC
* * *
30913678 TTTAATTATGTCATAATTTGAATATCATTAATATGAGTT
1 TTTAATTATGTCATAATCTGAACATCATTAATAAGAGTT
30913717 TTTAATTATGTCATAATCTGAACATCATTAATAAGAG-T
1 TTTAATTATGTCATAATCTGAACATCATTAATAAGAGTT
30913755 TTTAATTATGTCATA
1 TTTAATTATGTCATA
30913770 GTTCGGACAT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
38 16 0.32
39 34 0.68
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.46
Consensus pattern (39 bp):
TTTAATTATGTCATAATCTGAACATCATTAATAAGAGTT
Found at i:30913780 original size:38 final size:38
Alignment explanation
Indices: 30913678--30913787 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 38
30913668 AGTTTGAATC
* * *
30913678 TTTAATTATGTCATAATTTGAATATCATTAATATGAGTT
1 TTTAATTATGTCAT-ATTCGAACATCATTAATAAGAGTT
*
30913717 TTTAATTATGTCATAATCTGAACATCATTAATAAGAG-T
1 TTTAATTATGTCATATTC-GAACATCATTAATAAGAGTT
* *
30913755 TTTAATTATGTCATAGTTCGGACATCTTTAATA
1 TTTAATTATGTCATA-TTCGAACATCATTAATA
30913788 CATATTTTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
38 30 0.48
39 32 0.52
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (38 bp):
TTTAATTATGTCATATTCGAACATCATTAATAAGAGTT
Found at i:30920600 original size:6 final size:6
Alignment explanation
Indices: 30920570--30920688 Score: 55
Period size: 6 Copynumber: 19.3 Consensus size: 6
30920560 AAGAAACATT
** * * *
30920570 ATCAGA ATTGGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * * *
30920619 ATCAAA ATCAAA ATCATA ATCAGA ATTAG- GTGACAAA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
30920668 ATCAGGTA A-CAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA AT
30920689 GTGAATGTGA
Statistics
Matches: 83, Mismatches: 21, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
5 4 0.05
6 69 0.83
7 7 0.08
8 3 0.04
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:30920626 original size:37 final size:37
Alignment explanation
Indices: 30920580--30920685 Score: 124
Period size: 37 Copynumber: 2.8 Consensus size: 37
30920570 ATCAGAATTG
*
30920580 GAATCAAAATGAGAATCAGAATCAGAATCAGGTGACA
1 GAATCAAAATCAGAATCAGAATCAGAATCAGGTGACA
* * *
30920617 GAATCAAAATCAAAATCATAATCAGAATTAGGTGACA
1 GAATCAAAATCAGAATCAGAATCAGAATCAGGTGACA
* * *
30920654 AAATCAGAATCAGTATCAGGTAA-CAGAATCAG
1 GAATCAAAATCAGAATCA-G-AATCAGAATCAG
30920686 AATGTGAATG
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
37 47 0.82
38 8 0.14
39 2 0.04
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (37 bp):
GAATCAAAATCAGAATCAGAATCAGAATCAGGTGACA
Found at i:30920655 original size:25 final size:25
Alignment explanation
Indices: 30920627--30920688 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
30920617 GAATCAAAAT
* * *
30920627 CAAAATCATAATCAGAATTAGGTGA
1 CAAAATCAGAATCAGAATCAGGTAA
*
30920652 CAAAATCAGAATCAGTATCAGGTAA
1 CAAAATCAGAATCAGAATCAGGTAA
*
30920677 CAGAATCAGAAT
1 CAAAATCAGAAT
30920689 GTGAATGTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.21
Consensus pattern (25 bp):
CAAAATCAGAATCAGAATCAGGTAA
Found at i:30920848 original size:27 final size:26
Alignment explanation
Indices: 30920811--30920917 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
30920801 CTCATGGATG
* *
30920811 CCAGAACAGATATTGTGACAAAGTCA
1 CCAGAACAGATATTGTGGCAAAGCCA
*
30920837 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAAAGCCA
30920864 CCAGAACAGATATTTGTGGCATAA-CCA
1 CCAGAACAGATA-TTGTGGCA-AAGCCA
*
30920891 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAAAGCCA
30920918 TTTAACAGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
26 14 0.20
27 48 0.68
28 9 0.13
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGCCA
Found at i:30922581 original size:51 final size:50
Alignment explanation
Indices: 30922524--30922645 Score: 167
Period size: 49 Copynumber: 2.4 Consensus size: 50
30922514 TCGCATGTGC
*
30922524 AGTGCAGGCTACTATGTGTACCCGAAAACTG-TGATCACGTGTGTAGTACTA
1 AGTGCAGGCTACTATGTGTACCC--AAACTGTTGATCACATGTGTAGTACTA
** * *
30922575 AGTGCAGGCTACTACATGTA-CCAGACTGTTGGTCACATGTGTAGTACTA
1 AGTGCAGGCTACTATGTGTACCCAAACTGTTGATCACATGTGTAGTACTA
30922624 AGTGCAGGCTACTATGTGTACC
1 AGTGCAGGCTACTATGTGTACC
30922646 AGATAGCTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 5 0.08
49 36 0.58
50 3 0.05
51 18 0.29
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (50 bp):
AGTGCAGGCTACTATGTGTACCCAAACTGTTGATCACATGTGTAGTACTA
Found at i:30927936 original size:49 final size:48
Alignment explanation
Indices: 30927809--30927952 Score: 171
Period size: 49 Copynumber: 2.9 Consensus size: 48
30927799 TCTATTGTGA
* *
30927809 GGTCGCATGTGTAGTACTAAGTGCAGACTACTATGTGTACCCAAAAACTAT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CC--AGACTAT
* * * * *
30927860 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACT-AT
* *
30927909 GGTCGCATGTGTAGTACTAACTGCAGGCTACTATGCGTACCAGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
30927953 TAGCTTTGAC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 4 0.05
49 39 0.49
50 2 0.03
51 34 0.43
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (48 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTAT
Found at i:30929376 original size:22 final size:21
Alignment explanation
Indices: 30929351--30929410 Score: 50
Period size: 22 Copynumber: 2.7 Consensus size: 21
30929341 ATAAGTTTGG
30929351 CACATGGCCATAATCAGGTTGA
1 CACA-GGCCATAATCAGGTTGA
* *
30929373 CACAGAGCCAT-ATGTAGGTTGG
1 CACAG-GCCATAAT-CAGGTTGA
*
30929395 CACAAAGCCATAATCA
1 CAC-AGGCCATAATCA
30929411 AAATAATTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
21 3 0.10
22 24 0.80
23 3 0.10
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
CACAGGCCATAATCAGGTTGA
Found at i:30929847 original size:27 final size:27
Alignment explanation
Indices: 30929799--30930826 Score: 1307
Period size: 27 Copynumber: 38.2 Consensus size: 27
30929789 GGACAGAATG
* * ** * *
30929799 GTAATTTTACCCCACAAAGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30929826 GTAATACTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30929853 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30929880 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30929907 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30929934 GTAATTCTACCCTACA-GGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30929960 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30929987 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30930014 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30930041 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
30930068 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
30930095 GTAATTCTATCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30930122 GTAATTCTACCCTACA-GGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30930148 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30930175 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
** *
30930202 GTAATTCTACCCTACAAAGATATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30930229 ATAATTCTACCCTTCAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30930256 GTAATTTTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30930283 GTAATTGTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
30930310 GTAATTCTACCTTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
30930337 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
**
30930363 GATAATTCTA-CCTGACAGGGGTATTTTG
1 G-TAATTCTACCCT-ACAGGGGTATTTCA
*
30930391 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30930418 GTAATTCTATCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30930445 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30930472 GTATTTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30930499 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30930526 GTAATTCTACCTTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
**
30930552 GATAATTCTACCCTACAAAGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
30930580 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * **
30930607 GTATTTCTACCTTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30930634 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
30930661 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30930688 GTAATTCTACCCTACAAGGGTA-TTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
30930714 GTAATTCTAACCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
30930741 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
30930768 GTATTTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
30930795 GTAATTTTA-CAAATCA-GGGTATTTCA
1 GTAATTCTACCCTA-CAGGGGTATTTCA
30930821 GTAATT
1 GTAATT
30930827 TTGCAAATCG
Statistics
Matches: 870, Mismatches: 121, Indels: 21
0.86 0.12 0.02
Matches are distributed among these distances:
26 92 0.11
27 773 0.89
28 5 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:30930852 original size:27 final size:26
Alignment explanation
Indices: 30930785--30931043 Score: 284
Period size: 27 Copynumber: 9.7 Consensus size: 26
30930775 TACCCTACAA
* *
30930785 GGGTATTTTAGTAATTTTACAAATCA
1 GGGTATTTTGGTAATTTTACAAATCG
** *
30930811 GGGTATTTCAGTAATTTTGCAAATCG
1 GGGTATTTTGGTAATTTTACAAATCG
* *
30930837 GAGGTATTTCGATAATTTTACAAATCGG
1 G-GGTATTTTGGTAATTTTACAAATC-G
*
30930865 GGGTATTTTAGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTACAAATC-G
*
30930892 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATC-G
* *
30930919 GGGTATTTTGGTAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTACAAATC-G
* *
30930946 GGGTATTTTGGTAATTTTGCTAATCG
1 GGGTATTTTGGTAATTTTACAAATCG
* * *
30930972 AGGGTATTTTGGTAATTTTGCTAATTG
1 -GGGTATTTTGGTAATTTTACAAATCG
* *
30930999 AGGGTATTTTGGTAATTTTGCTAATCG
1 -GGGTATTTTGGTAATTTTACAAATCG
30931026 AGGGTATTTTGGTAATTT
1 -GGGTATTTTGGTAATTT
30931044 GATAAACTAA
Statistics
Matches: 211, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
26 25 0.12
27 184 0.87
28 2 0.01
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATCG
Found at i:30932782 original size:47 final size:47
Alignment explanation
Indices: 30932757--30932880 Score: 164
Period size: 47 Copynumber: 2.7 Consensus size: 47
30932747 TAGTTTAAGT
*
30932757 ATTT-AATTGTCTT-AGTTTATTTAATGTGTTCTAATTAGTTCAACA
1 ATTTAAATTGTCTTAAGTTTATTTAATGTGTTATAATTAGTTCAACA
* * *
30932802 ATTTAAATTGTCTTAAGTTTATTTAATGTGTTCTAATTAGTTCAGCT
1 ATTTAAATTGTCTTAAGTTTATTTAATGTGTTATAATTAGTTCAACA
* *
30932849 ATTT-AATATGTCCTAAGTTTATTTAATATGTT
1 ATTTAAAT-TGTCTTAAGTTTATTTAATGTGTT
30932881 TTAGTTAATA
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
45 4 0.06
46 12 0.17
47 56 0.78
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (47 bp):
ATTTAAATTGTCTTAAGTTTATTTAATGTGTTATAATTAGTTCAACA
Found at i:30943104 original size:57 final size:57
Alignment explanation
Indices: 30943043--30943177 Score: 207
Period size: 57 Copynumber: 2.4 Consensus size: 57
30943033 ACAATTTTGT
* * *
30943043 TTTTCTCCAAAATGAAAATGAAAATGAAGAAATGAAAACATTTTGAAATTATTATGG
1 TTTTCTCCAAAATGAAAATGAAAATGAAGAAATGAAAACATTTGGAAATGAATATGG
* * * *
30943100 TTTTCTCCAAAATGAAAATGAAAATGGAGAAATGAAATCATTTGGACATGAATGTGG
1 TTTTCTCCAAAATGAAAATGAAAATGAAGAAATGAAAACATTTGGAAATGAATATGG
30943157 TTTTCTCCAAAATGAAAATGA
1 TTTTCTCCAAAATGAAAATGA
30943178 CCTGAAAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 71 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.30
Consensus pattern (57 bp):
TTTTCTCCAAAATGAAAATGAAAATGAAGAAATGAAAACATTTGGAAATGAATATGG
Found at i:30944930 original size:40 final size:41
Alignment explanation
Indices: 30944875--30945090 Score: 286
Period size: 40 Copynumber: 5.4 Consensus size: 41
30944865 GATGATAACA
* *
30944875 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
*
30944915 GGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
*
30944955 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
*
30944995 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATAAT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-ATCC
*
30945035 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAATATCC
* *
30945075 -GGCTAAATCCCAAAGG
1 GGGCTAAGTCCCGAAGG
30945091 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
39 21 0.13
40 137 0.85
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
Found at i:30952004 original size:31 final size:31
Alignment explanation
Indices: 30951966--30952027 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
30951956 TAAATTTGAT
30951966 TACATTTAGATCAAGAAAGGCAAAATACAGA
1 TACATTTAGATCAAGAAAGGCAAAATACAGA
30951997 TACATTTAGATCAAGAAAGGCAAAATACAGA
1 TACATTTAGATCAAGAAAGGCAAAATACAGA
30952028 CTTATATCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (31 bp):
TACATTTAGATCAAGAAAGGCAAAATACAGA
Found at i:30955967 original size:43 final size:44
Alignment explanation
Indices: 30955855--30955967 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 44
30955845 TAATGCCAAC
* * * *
30955855 GTCCCAGACGTGGTCTTATATGTAAA-CAAATATCGATGCCAGT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCAGT
* *
30955898 GTCCCAGACAGGGTCTTACAC-AAAATCAAATAT-GATACC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCAG-T
30955940 GTCCCAGACATGGTCTTACACGTAAATC
1 GTCCCAGACATGGTCTTACACGTAAATC
30955968 GTAAGCCGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 29 0.49
43 29 0.49
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATACCAGT
Found at i:30960622 original size:15 final size:15
Alignment explanation
Indices: 30960576--30960623 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
30960566 AAACCTACAA
*
30960576 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
30960591 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
30960605 AAACTTCATATCCAT
1 AAACTTCATATCCAT
30960620 AAAC
1 AAAC
30960624 CCACCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:30963356 original size:15 final size:15
Alignment explanation
Indices: 30963310--30963357 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
30963300 AAACCTACAA
*
30963310 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
30963325 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
30963339 AAACTTCATATCCAT
1 AAACTTCATATCCAT
30963354 AAAC
1 AAAC
30963358 CTATATTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:30963615 original size:23 final size:22
Alignment explanation
Indices: 30963579--30963626 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
30963569 AGTAAGTTTG
*
30963579 AAAAAAAATCGAAAAAAAATCA
1 AAAAAAAATCGAAAAAAAAACA
*
30963601 AAAAAAAATTTGAAAAAAAAACA
1 AAAAAAAA-TCGAAAAAAAAACA
30963624 AAA
1 AAA
30963627 TTTGAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.10
Consensus pattern (22 bp):
AAAAAAAATCGAAAAAAAAACA
Found at i:30963616 original size:19 final size:19
Alignment explanation
Indices: 30963594--30963635 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
30963584 AAATCGAAAA
30963594 AAAATCAAAAA-AAAATTTG
1 AAAAT-AAAAACAAAATTTG
30963613 AAAA-AAAAACAAAATTTG
1 AAAATAAAAACAAAATTTG
30963631 AAAAT
1 AAAAT
30963636 TTGAACATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.24
18 12 0.57
19 4 0.19
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (19 bp):
AAAATAAAAACAAAATTTG
Found at i:30963620 original size:17 final size:18
Alignment explanation
Indices: 30963600--30963634 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30963590 AAAAAAAATC
30963600 AAAAA-AAAATTTGAAAA
1 AAAAACAAAATTTGAAAA
30963617 AAAAACAAAATTTGAAAA
1 AAAAACAAAATTTGAAAA
30963635 TTTGAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAAACAAAATTTGAAAA
Found at i:30963626 original size:10 final size:11
Alignment explanation
Indices: 30963578--30963620 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
30963568 AAGTAAGTTT
30963578 GAAAAAAAATC
1 GAAAAAAAATC
30963589 GAAAAAAAATC
1 GAAAAAAAATC
* *
30963600 AAAAAAAAATTT
1 GAAAAAAAA-TC
30963612 GAAAAAAAA
1 GAAAAAAAA
30963621 ACAAAATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.12
Consensus pattern (11 bp):
GAAAAAAAATC
Found at i:30964699 original size:30 final size:28
Alignment explanation
Indices: 30964663--30964718 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
30964653 AAGCGAAAAA
* *
30964663 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
30964693 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
30964719 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:30967965 original size:29 final size:29
Alignment explanation
Indices: 30967932--30967991 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
30967922 ATAACCAAAC
*
30967932 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
* *
30967961 CTACATAAACTTCATATCCATAAACCTAT
1 CTACAAAAACTTCATATCCATAAACCCAT
30967990 CT
1 CT
30967992 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Done.