Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold450
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: 725389
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 4 of 5
Found at i:463062 original size:264 final size:264
Alignment explanation
Indices: 462592--463125 Score: 845
Period size: 264 Copynumber: 2.0 Consensus size: 264
462582 CAAAAAGGGC
* **
462592 TAGGATCAAGTATTACTAAGATGCGTGGATGCCTTAGAAGCCGTAAAAATCTTAAAAGAAGTCCA
1 TAGGATCAAGTATTACTAAGATGCATGGATGCCTTAGAAGCCACAAAAATCTTAAAAGAAGTCCA
* *
462657 TGAAAGGATCTATGGCTCACATACCAATAGGCATCAAATGACAAAGCAGATCATGAGACTAGGTT
66 TGAAAGGATCTATGGCTCACATACCAATAAGCATCAAATGAAAAAGCAGATCATGAGACTAGGTT
* **
462722 ACTACTGGTTAACCCTTGAAGAAGATTGCATCAACTATGATCAAAAGTGCCATAGGTGCCAAATT
131 ACTACTGGTTAACCCTTGAAGAAGATTGCATCAACTATGATCAAAAGTGCCACAAATGCCAAATT
*
462787 TATGCGGATAAGATTCATGCTTTACCATCACCTTTACATGCCATGGCTGTTCCATGGCCTTTTTT
196 TATGCGGATAAGATTCATGCTTTACCATCACCTTTACATGCCATGACTGTTCCATGGCCTTTTTT
462852 CATG
261 CATG
* * * *
462856 TAGGATCAAGTATTACTAAGATGCATGGATGCCTTTGAAGTCACAAAATTTTTAAAAGAAGTCCA
1 TAGGATCAAGTATTACTAAGATGCATGGATGCCTTAGAAGCCACAAAAATCTTAAAAGAAGTCCA
* * * **
462921 TGAAAGGATCTGTGTCTTACATACCAATAAGCATTGAATGAAAAAGCAGATCATGAGACTAGGTT
66 TGAAAGGATCTATGGCTCACATACCAATAAGCATCAAATGAAAAAGCAGATCATGAGACTAGGTT
*
462986 ACTACTGGTTAA-CCTTGGAAGAAGATTGCATCAACTATGCTCAAAAGTGCCACAAATGCCAAAT
131 ACTACTGGTTAACCCTT-GAAGAAGATTGCATCAACTATGATCAAAAGTGCCACAAATGCCAAAT
** *
463050 TTATGCGGATAAGATTCATGCTTTACTGTTACCTTTACATGCCATGACTGTTCCATGGCCTTTTT
195 TTATGCGGATAAGATTCATGCTTTACCATCACCTTTACATGCCATGACTGTTCCATGGCCTTTTT
463115 TCATG
260 TCATG
*
463120 TGGGAT
1 TAGGAT
463126 ATGGATATGT
Statistics
Matches: 246, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
263 4 0.02
264 242 0.98
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (264 bp):
TAGGATCAAGTATTACTAAGATGCATGGATGCCTTAGAAGCCACAAAAATCTTAAAAGAAGTCCA
TGAAAGGATCTATGGCTCACATACCAATAAGCATCAAATGAAAAAGCAGATCATGAGACTAGGTT
ACTACTGGTTAACCCTTGAAGAAGATTGCATCAACTATGATCAAAAGTGCCACAAATGCCAAATT
TATGCGGATAAGATTCATGCTTTACCATCACCTTTACATGCCATGACTGTTCCATGGCCTTTTTT
CATG
Found at i:463542 original size:13 final size:13
Alignment explanation
Indices: 463524--463549 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
463514 TACCGTACCT
463524 CAATTTAGACTTC
1 CAATTTAGACTTC
463537 CAATTTAGACTTC
1 CAATTTAGACTTC
463550 TATGGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
CAATTTAGACTTC
Found at i:464354 original size:49 final size:50
Alignment explanation
Indices: 464183--464338 Score: 269
Period size: 50 Copynumber: 3.1 Consensus size: 50
464173 ATTTGTATTG
* *
464183 ATACATTATTCATTGTATCGATACATTCTGGGTTTTACCCAGATGAATCA
1 ATACATTGTTCATTGTATCGATACATTCTGGGTTTTACCCAGATGTATCA
464233 ATACATTGTTCATTGTATCGATACATTCTGGGTTTTACCCAGATGTATCA
1 ATACATTGTTCATTGTATCGATACATTCTGGGTTTTACCCAGATGTATCA
* *
464283 ATACATTGTTCATTGTATCGATACATTTTGGG-TTTACCCAGATGTATCG
1 ATACATTGTTCATTGTATCGATACATTCTGGGTTTTACCCAGATGTATCA
464332 ATACATT
1 ATACATT
464339 TTTAAATATA
Statistics
Matches: 102, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 23 0.23
50 79 0.77
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (50 bp):
ATACATTGTTCATTGTATCGATACATTCTGGGTTTTACCCAGATGTATCA
Found at i:466796 original size:79 final size:79
Alignment explanation
Indices: 466661--466808 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 79
466651 TTTTCATCTC
* * * * *
466661 GGGGATACTCCAACCTCGGTTTTATTTCCAAAACATCAAATTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCGGCTTTATTTCCAAAACATCAAATTTTCACAATCAGGGATACTCCAAC
466726 CCCATTATTTTCGA
66 CCCATTATTTTCGA
* * **
466740 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATAT-TGATTTCTCACAATCAGGGATACTCCAA
1 GGGGATACTCCAACCCCGGCTTTATTTCCAAAACATCAAATTT-TCACAATCAGGGATACTCCAA
466804 CCCCA
65 CCCCA
466809 ATTTTATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 4 0.07
79 55 0.93
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGCTTTATTTCCAAAACATCAAATTTTCACAATCAGGGATACTCCAAC
CCCATTATTTTCGA
Found at i:466858 original size:52 final size:51
Alignment explanation
Indices: 466741--466859 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
466731 TATTTTCGAG
** * ***
466741 GGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCA
1 GGGATACTCCAACCCCAACTTTATTTCTAAAACACCAATTTCTCACAATCA
* *
466792 GGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATC-
1 GGGATACTCCAACCCCAACTTTATTTCTAAAACACCAAT-TTCTCACAATCA
466843 GAGGATACTCCAACCCC
1 G-GGATACTCCAACCCC
466860 GTTATTTTCG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 33 0.57
52 25 0.43
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.29
Consensus pattern (51 bp):
GGGATACTCCAACCCCAACTTTATTTCTAAAACACCAATTTCTCACAATCA
Found at i:466870 original size:26 final size:28
Alignment explanation
Indices: 466841--466895 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
466831 CTTTTCACAA
466841 TCGA-GGATACTCCAACCCC-GTTATTT
1 TCGAGGGATACTCCAACCCCAGTTATTT
*
466867 TCGAGGGATACTCCAACCCCAGTTTTTT
1 TCGAGGGATACTCCAACCCCAGTTATTT
466895 T
1 T
466896 TCAGAACACC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 4 0.15
27 15 0.58
28 7 0.27
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (28 bp):
TCGAGGGATACTCCAACCCCAGTTATTT
Found at i:466874 original size:79 final size:78
Alignment explanation
Indices: 466791--467019 Score: 307
Period size: 79 Copynumber: 2.9 Consensus size: 78
466781 TCTCACAATC
* *
466791 AGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCGAGGATACTCCAA
1 AGGGATACTCCAACCCCAATTTTATTTCTAGAACACCAAT-TTTTCACAATCGGGGATACTCCAA
*
466856 CCCCGTTATTTTCG
65 CCCCGTTATTTTCA
* * *
466870 AGGGATACTCCAACCCCAGTTTTTTTTC-AGAACACCGATTTTTCACAATCGGGGATACTCCAAC
1 AGGGATACTCCAACCCCAATTTTATTTCTAGAACACCAATTTTTCACAATCGGGGATACTCCAAC
466934 CCCGTTATTTTCA
66 CCCGTTATTTTCA
** * * * *
466947 AGGGGATACTCCAACCCTGATTTTATTTCTAGAACACCCATTTTCCATAGTCAGGGGATACTCCA
1 A-GGGATACTCCAACCCCAATTTTATTTCTAGAACACCAATTTTTCACAATC-GGGGATACTCCA
*
467012 GCCCCGTT
64 ACCCCGTT
467020 GTCATCTCCA
Statistics
Matches: 132, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
77 37 0.28
78 32 0.24
79 44 0.33
80 19 0.14
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (78 bp):
AGGGATACTCCAACCCCAATTTTATTTCTAGAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTTCA
Found at i:466944 original size:131 final size:130
Alignment explanation
Indices: 466659--466937 Score: 364
Period size: 130 Copynumber: 2.2 Consensus size: 130
466649 ATTTTTCATC
* * * * *
466659 TCGGGGATACTCCAACCTCGGTTTTATTTCCAAAACATCAAATTTTCATAATCGGGGATACTCCA
1 TCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAAATTTTCACAATCGAGGATACTCCA
* * * **
466724 ATCCCATTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAA
66 ACCCCATTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAACACCGATTTCTCACAA
* * * *
466789 TCAGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCGAGGATACTCC
1 TCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA-ATTTTCACAATCGAGGATACTCC
* * * * *
466854 AACCCCGTTATTTTCGA-GGGATACTCCAACCCCAGTTTTTTTTC-AGAACACCGATTTTTCACA
65 AACCCCATTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAACACCGATTTCTCACA
466917 A
130 A
466918 TCGGGGATACTCCAACCCCG
1 TCGGGGATACTCCAACCCCG
466938 TTATTTTCAA
Statistics
Matches: 127, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
129 33 0.26
130 59 0.46
131 35 0.28
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (130 bp):
TCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAAATTTTCACAATCGAGGATACTCCA
ACCCCATTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAACACCGATTTCTCACAA
Found at i:471766 original size:32 final size:32
Alignment explanation
Indices: 471704--471805 Score: 134
Period size: 33 Copynumber: 3.1 Consensus size: 32
471694 TTCAACGATT
*
471704 TGTATCGATACATAAAATGTTGT-TTCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATT-GATACAA
471737 TGTATCGATACATAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATTGATACAA
* * *
471769 TGTATCTATACAGTAAGTTTTGTATCGATACAA
1 TGTATCGATACA-TAAGTGTTGTATTGATACAA
471802 TGTA
1 TGTA
471806 AGCTACTGCC
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
32 26 0.41
33 37 0.59
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATTGATACAA
Found at i:471861 original size:13 final size:13
Alignment explanation
Indices: 471843--471867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
471833 ATTACTCAAA
471843 TGTATCGATACAT
1 TGTATCGATACAT
471856 TGTATCGATACA
1 TGTATCGATACA
471868 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:471928 original size:45 final size:46
Alignment explanation
Indices: 471876--471985 Score: 144
Period size: 41 Copynumber: 2.5 Consensus size: 46
471866 CACTGATCTT
*
471876 TGTATCGATACATGCAGGCAAATTGCC-TATGTATCGACACTA-TAA
1 TGTATCGATACATGCAGGCAAATTGCCAGATGTATCGACAC-ACTAA
*
471921 TGTATCGAT--A--CAGGC-AATTGCCAGATGTATCGATACACTAA
1 TGTATCGATACATGCAGGCAAATTGCCAGATGTATCGACACACTAA
471962 TGTATCGATACATGCAGGCAAATT
1 TGTATCGATACATGCAGGCAAATT
471986 TTCATATTTC
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
40 8 0.14
41 28 0.50
43 2 0.04
45 14 0.25
46 4 0.07
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (46 bp):
TGTATCGATACATGCAGGCAAATTGCCAGATGTATCGACACACTAA
Found at i:480096 original size:52 final size:52
Alignment explanation
Indices: 480018--480146 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
480008 CGAAATATGA
480018 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
480070 AAATTTGCTTGCATGTATCAATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
480122 AAATTTGCCTGCATTTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
480147 AAGATCAATG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:480159 original size:52 final size:51
Alignment explanation
Indices: 480018--480166 Score: 176
Period size: 52 Copynumber: 2.9 Consensus size: 51
480008 CGAAATATGA
*
480018 AAATTTGCCTGCATGTATCGATAC-ATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAATATCA-A-TGTATCGATACATCTGGGC
* * * *
480070 AAATTTGCTTGCATGTATCAATACATTTTAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--ATATCAATGTATCGATACATCTGGGC
* *
480122 AAATTTGCCTGCATTTATCGATACAAAGATCAATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATAC-AATATCAATGTATCGATACA
480167 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
51 2 0.02
52 75 0.93
53 1 0.01
54 1 0.01
55 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAATATCAATGTATCGATACATCTGGGC
Found at i:480170 original size:13 final size:13
Alignment explanation
Indices: 480152--480179 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
480142 ATACAAAGAT
480152 CAATGTATCGATA
1 CAATGTATCGATA
480165 CAATGTATCGATA
1 CAATGTATCGATA
480178 CA
1 CA
480180 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:480259 original size:13 final size:13
Alignment explanation
Indices: 480241--480265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
480231 ACAAAACTTA
480241 TGTATCGATACAT
1 TGTATCGATACAT
480254 TGTATCGATACA
1 TGTATCGATACA
480266 ACACCTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:480261 original size:32 final size:33
Alignment explanation
Indices: 480220--480285 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
480210 AGTAGCTTAA
480220 ATTGTATCGATACAA-AACTTATGTATCGATAC
1 ATTGTATCGATACAACAACTTATGTATCGATAC
*
480252 ATTGTATCGATACAACACCTTATGTATCGATAC
1 ATTGTATCGATACAACAACTTATGTATCGATAC
480285 A
1 A
480286 ACACCTTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAACAACTTATGTATCGATAC
Found at i:480279 original size:20 final size:20
Alignment explanation
Indices: 480254--480306 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
480244 ATCGATACAT
480254 TGTATCGATACAACACCTTA
1 TGTATCGATACAACACCTTA
480274 TGTATCGATACAACACCTTA
1 TGTATCGATACAACACCTTA
480294 TGTATCGATACAA
1 TGTATCGATACAA
480307 ATCGTTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (20 bp):
TGTATCGATACAACACCTTA
Found at i:480994 original size:55 final size:55
Alignment explanation
Indices: 480930--481302 Score: 198
Period size: 52 Copynumber: 7.2 Consensus size: 55
480920 ACCAATATGT
* *
480930 TGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATATCAATGTGC
1 TGATTCACGGCCAACGACATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGC
* * * * * * *
480985 TGATTCACGGTCAGCGGCATTAGACTT---G--GAG---AAGAATGTCAATGTAC
1 TGATTCACGGCCAACGACATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGC
** * ** ** * **
481032 TGAGACAAGGCCAACGACATTGGGCTTAGGGAT--GTTAAA-GATGCCAATACGC
1 TGATTCACGGCCAACGACATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGC
* * *
481084 TGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTAATGTGC
1 TGATTCACGGCCAACGACATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGC
* ** * * * *
481139 TGATTCACGGTCGGCGGCATTAGACTT---G--GAG---AAGAATGTCAATGTGC
1 TGATTCACGGCCAACGACATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGC
** * ** ** **
481186 TGAGACAAGGCCAACGACATTGGGCTTAGGGAT--GTTAAA-GATG-CTAATACGC
1 TGATTCACGGCCAACGACATTGGGCTTAAAGATGAGAAAAAGGATGTC-AATGTGC
* * * *
481238 TGATTCAAGGCCAATGATATTGGGCTTAAAGATGAGAAAAAGGATGTTAATGTGC
1 TGATTCACGGCCAACGACATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGC
481293 TGATTCACGG
1 TGATTCACGG
481303 TCAGCGGCAT
Statistics
Matches: 227, Mismatches: 67, Indels: 48
0.66 0.20 0.14
Matches are distributed among these distances:
47 64 0.28
50 10 0.04
51 1 0.00
52 73 0.32
53 4 0.02
54 8 0.04
55 67 0.30
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (55 bp):
TGATTCACGGCCAACGACATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGC
Found at i:481194 original size:154 final size:154
Alignment explanation
Indices: 480914--481421 Score: 820
Period size: 154 Copynumber: 3.3 Consensus size: 154
480904 GAAAAGTGAG
* * * * * *
480914 AAAGATACCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATATCA
1 AAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTA
*
480979 ATGTGCTGATTCACGGTCAGCGGCATTAGACTTGGAGAAGAATGTCAATGTACTGAGACAAGGCC
66 ATGTGCTGATTCACGGTCAGCGGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
481044 AACGACATTGGGCTTAGGGATGTT
131 AACGACATTGGGCTTAGGGATGTT
481068 AAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTA
1 AAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTA
*
481133 ATGTGCTGATTCACGGTCGGCGGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
66 ATGTGCTGATTCACGGTCAGCGGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
481198 AACGACATTGGGCTTAGGGATGTT
131 AACGACATTGGGCTTAGGGATGTT
* *
481222 AAAGATGCTAATACGCTGATTCAAGGCCAATGATATTGGGCTTAAAGATGAGAAAAAGGATGTTA
1 AAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTA
481287 ATGTGCTGATTCACGGTCAGCGGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
66 ATGTGCTGATTCACGGTCAGCGGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
* * * * **
481352 AATGACATTGGGCTCA-AGACGGA
131 AACGACATTGGGCTTAGGGATGTT
* * * * *
481375 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAG
1 AAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGGCTTAAAG
481422 GTGAAGATGC
Statistics
Matches: 330, Mismatches: 24, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
153 43 0.13
154 287 0.87
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (154 bp):
AAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTA
ATGTGCTGATTCACGGTCAGCGGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
AACGACATTGGGCTTAGGGATGTT
Found at i:481444 original size:49 final size:48
Alignment explanation
Indices: 481380--481622 Score: 198
Period size: 49 Copynumber: 5.1 Consensus size: 48
481370 ACGGAAAAGG
481380 TGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGGTGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGGT-AAGA
* * * * * *
481429 TGCCAATGTGCTGATTCAAGGCCAGCTAC-ATTGAACTTAAAGTTGAGGG
1 TGCCAATATGCTGATTCAAGGCCAGC-GCTATTGGACTTAAAGGT-AAGA
* * * *
481478 TGCTAATGTGCTGATTCAAGGCCAGCGAC-ATTGGTCTTCAAGGT--G-
1 TGCCAATATGCTGATTCAAGGCCAGCG-CTATTGGACTTAAAGGTAAGA
* ** * *
481523 T--CAATATGCTGATTCAAGGCCAGCGATATTGAGTTTTAAAGATAAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGCTATTG-GACTTAAAGGTAAGA
* * *
481570 GTGCCAATATGCTGGTTCAAGGCCAACGATATTGGACTTAGAA-G-AAGA
1 -TGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTA-AAGGTAAGA
481618 TGCCA
1 TGCCA
481623 TCAACTTGTG
Statistics
Matches: 158, Mismatches: 25, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
43 26 0.16
44 8 0.05
45 1 0.01
46 1 0.01
47 5 0.03
48 4 0.03
49 82 0.52
50 31 0.20
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGGTAAGA
Found at i:481480 original size:98 final size:93
Alignment explanation
Indices: 481375--481609 Score: 249
Period size: 98 Copynumber: 2.5 Consensus size: 93
481365 TCAAGACGGA
*
481375 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGGTGAAGATGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGGT---G-T--CAATATGC
* *
481440 TGATTCAAGGCCAGCTACATTGA-ACTTAAAGTT
60 TGATTCAAGGCCAGCGACATTGAGACTTAAAGAT
* * * * * *
481473 GAGGGTGCTAATGTGCTGATTCAAGGCCAGCGAC-ATTGGTCTTCAAGGTGTCAATATGCTGATT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCG-CTATTGGACTTAAAGGTGTCAATATGCTGATT
* **
481537 CAAGGCCAGCGATATTGAGTTTTAAAGAT
65 CAAGGCCAGCGACATTGAGACTTAAAGAT
* * * *
481566 AAAAGTGCCAATATGCTGGTTCAAGGCCAACGATATTGGACTTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTA
481610 GAAGAAGATG
Statistics
Matches: 112, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
92 28 0.25
93 40 0.36
94 1 0.01
95 1 0.01
98 41 0.37
99 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (93 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGGTGTCAATATGCTGATTC
AAGGCCAGCGACATTGAGACTTAAAGAT
Found at i:481690 original size:29 final size:28
Alignment explanation
Indices: 481656--481729 Score: 123
Period size: 27 Copynumber: 2.6 Consensus size: 28
481646 GTTGCCACTG
481656 ACTTGTGGGCTTTAAAAGGGGTGCCACCA
1 ACTTGTGGGC-TTAAAAGGGGTGCCACCA
481685 ACTTGTGGGCTTAAAA-GGGTGCCACCA
1 ACTTGTGGGCTTAAAAGGGGTGCCACCA
*
481712 ACTTGTGGACTTAAAAGG
1 ACTTGTGGGCTTAAAAGG
481730 AATAAGAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
27 26 0.60
28 7 0.16
29 10 0.23
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (28 bp):
ACTTGTGGGCTTAAAAGGGGTGCCACCA
Found at i:481759 original size:34 final size:33
Alignment explanation
Indices: 481714--481835 Score: 129
Period size: 34 Copynumber: 3.6 Consensus size: 33
481704 TGCCACCAAC
* *
481714 TTGTGGACTTAAAAGGAATAAGAATGCCACGGAG
1 TTGTGGGCTTAAAAGGAA-AAGAGTGCCACGGAG
* *
481748 TTATGGGCTTAAAAGGAAGAA-AGGTGTCACGGAG
1 TTGTGGGCTTAAAAGGAA-AAGA-GTGCCACGGAG
* * *
481782 TTGTGGACTTAGAAGGAAAAGAGTGCCACAGAG
1 TTGTGGGCTTAAAAGGAAAAGAGTGCCACGGAG
*
481815 TTGTGGGCTTTAAAAAGAAAA
1 TTGTGGGC-TTAAAAGGAAAA
481836 AAAAAGTGCC
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
33 19 0.26
34 53 0.74
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (33 bp):
TTGTGGGCTTAAAAGGAAAAGAGTGCCACGGAG
Found at i:497161 original size:52 final size:51
Alignment explanation
Indices: 497076--497199 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
497066 ATATGAAAAG
* *
497076 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
497127 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
497179 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
497200 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:497212 original size:51 final size:50
Alignment explanation
Indices: 497076--497219 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
497066 ATATGAAAAG
* *
497076 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
497128 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
497179 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
497220 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:497226 original size:13 final size:13
Alignment explanation
Indices: 497208--497232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
497198 CAAAGATCAG
497208 TGTATCGATACAA
1 TGTATCGATACAA
497221 TGTATCGATACA
1 TGTATCGATACA
497233 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:497315 original size:13 final size:13
Alignment explanation
Indices: 497297--497321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
497287 CAAAAAAATA
497297 TGTATCGATACAT
1 TGTATCGATACAT
497310 TGTATCGATACA
1 TGTATCGATACA
497322 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:497317 original size:33 final size:33
Alignment explanation
Indices: 497275--497341 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
497265 AGTAGCTTAA
497275 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
497308 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
497341 A
1 A
497342 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:498215 original size:56 final size:52
Alignment explanation
Indices: 498131--498571 Score: 439
Period size: 49 Copynumber: 8.9 Consensus size: 52
498121 GAAAAGTGAT
* * * * * *
498131 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGATGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG--G-A
* * * *
498186 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
498239 AAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
498282 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
498332 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
498380 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
498429 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
498477 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
498526 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
498572 GTGCCAATGT
Statistics
Matches: 350, Mismatches: 26, Indels: 26
0.87 0.06 0.06
Matches are distributed among these distances:
43 38 0.11
44 1 0.00
46 1 0.00
48 94 0.27
49 137 0.39
51 1 0.00
52 31 0.09
53 6 0.02
54 1 0.00
55 4 0.01
56 36 0.10
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
Found at i:498404 original size:49 final size:49
Alignment explanation
Indices: 498195--498614 Score: 616
Period size: 49 Copynumber: 8.8 Consensus size: 49
498185 AAAAGGATGT
*
498195 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
498247 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
498290 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
498338 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
498387 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
498435 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
498484 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
498533 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
498576 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
498615 GTGCCAATGT
Statistics
Matches: 338, Mismatches: 18, Indels: 29
0.88 0.05 0.08
Matches are distributed among these distances:
43 79 0.23
45 1 0.00
48 95 0.28
49 132 0.39
52 31 0.09
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:498420 original size:97 final size:92
Alignment explanation
Indices: 498186--498614 Score: 592
Period size: 97 Copynumber: 4.5 Consensus size: 92
498176 AGATGATGAA
* * *
498186 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
498251 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
498282 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
498346 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTACATTGGACTT
*
498373 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
498437 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
498470 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
* *
498535 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
498568 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
498615 GTGCCAATGT
Statistics
Matches: 313, Mismatches: 13, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
91 38 0.12
92 44 0.14
94 2 0.01
95 42 0.13
96 5 0.02
97 144 0.46
98 38 0.12
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTACATTGGACTT
Found at i:501961 original size:51 final size:52
Alignment explanation
Indices: 501889--502012 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
501879 AATATGAAAA
* *
501889 TTGCCTGCATGTATCGATACATTTCATAGTGTATCG-ATCATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTCACAGTGTATCGAAACATCTGGGCAAAT
* *
501940 TTGCTTGCATGTATCGATACATTTTACAGTGTATCGAAACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTCACAGTGTATCGAAACATCTGGGCAAAT
501992 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
502013 AAGATCAATG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 33 0.49
52 34 0.51
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTCACAGTGTATCGAAACATCTGGGCAAAT
Found at i:502025 original size:52 final size:51
Alignment explanation
Indices: 501889--502028 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 51
501879 AATATGAAAA
*
501889 TTGCCTGCATGTATCGATAC-ATTTCATAGTGTATCG-ATCATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACAATTTCA-A-TGTATCGAAACATCTGGGCAAAT
* * *
501940 TTGCTTGCATGTATCGATACATTTTACAGTGTATCGAAACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACAATTT-CAATGTATCGAAACATCTGGGCAAAT
**
501992 TTGCCTGCATGTATCGATACAAAGATCAATGTATCGA
1 TTGCCTGCATGTATCGATAC-AATTTCAATGTATCGA
502029 TACAATGTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
51 26 0.34
52 46 0.61
53 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACAATTTCAATGTATCGAAACATCTGGGCAAAT
Found at i:502125 original size:13 final size:13
Alignment explanation
Indices: 502107--502131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
502097 ACAAAACTTA
502107 TGTATCGATACAT
1 TGTATCGATACAT
502120 TGTATCGATACA
1 TGTATCGATACA
502132 ACACCTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:502131 original size:32 final size:33
Alignment explanation
Indices: 502086--502151 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
502076 AGTAGCTTAA
502086 ATTGTATCAATACAA-AACTTATGTATCGATAC
1 ATTGTATCAATACAACAACTTATGTATCGATAC
* *
502118 ATTGTATCGATACAACACCTTATGTATCGATAC
1 ATTGTATCAATACAACAACTTATGTATCGATAC
502151 A
1 A
502152 AATCATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (33 bp):
ATTGTATCAATACAACAACTTATGTATCGATAC
Found at i:502916 original size:155 final size:154
Alignment explanation
Indices: 502635--502933 Score: 481
Period size: 155 Copynumber: 1.9 Consensus size: 154
502625 GAAAAGTGAG
* * * *
502635 AAAGATACCAATATGCTGATTCACGGCCAACGATATTAGGCTTAAAGATGAGAAAGAGGATGTCA
1 AAAGATACCAATACGCCGATTCAAGGCCAACGATATTAGGCTTAAAGATGAGAAAAAGGATGTCA
* *
502700 ATGTGCTGATTCACGGTCAGCAGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
66 ATGTGCTGATTCACGGTCAGCAGCAGTAAACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
*
502765 AATGACATTGGGCTTAGGGATGTT
131 AACGACATTGGGCTTAGGGATGTT
* * * *
502789 AAAGATGCCAATACGCCGATTTAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAAGGATGTT
1 AAAGATACCAATACGCCGATTCAAGGCCAACGATATTAGGCTTAAAGATGAG-AAAAAGGATGTC
*
502854 AATGTGCTGATTCACGGTCAGCGGCAGTAAACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGC
65 AATGTGCTGATTCACGGTCAGCAGCAGTAAACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGC
502919 CAACGACATTGGGCT
130 CAACGACATTGGGCT
502934 CAAGATGGAC
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
154 46 0.35
155 86 0.65
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (154 bp):
AAAGATACCAATACGCCGATTCAAGGCCAACGATATTAGGCTTAAAGATGAGAAAAAGGATGTCA
ATGTGCTGATTCACGGTCAGCAGCAGTAAACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
AACGACATTGGGCTTAGGGATGTT
Found at i:503020 original size:49 final size:49
Alignment explanation
Indices: 502891--503121 Score: 197
Period size: 49 Copynumber: 4.8 Consensus size: 49
502881 TAAACTTGGA
* ** * * * *
502891 GAAGAATGTCAATGTGCTGAGACAAGGCCAACGACATTGGGCTCAAGATGGA
1 GAAG-ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA-A-GGT
* * * *
502943 CAAGGTGACAATATGCTGATTCAAGGCCAGC-ACTATTGGACTTAAAGGT
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGAC-ATTGGACTTAAAGGT
* * *
502992 GAAGATGCCAATGTGCTGATTCACGGCCAGCTACATTGGACTTAAAGTT
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGT
* * * *
503041 GAGGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTCAAGGT
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGT
* *
503090 ---G-T--CAATATGCTGATTCAAGGCCAGCGATATTG
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG
503122 AGTTTTAAAG
Statistics
Matches: 152, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
43 28 0.18
45 1 0.01
46 1 0.01
49 84 0.55
50 5 0.03
51 30 0.20
52 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (49 bp):
GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGT
Found at i:503233 original size:28 final size:29
Alignment explanation
Indices: 503224--503277 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
503214 GTTGCCACTG
503224 ACTTGTGGGCTTTAAAAGGGGTGCCACCA
1 ACTTGTGGGCTTTAAAAGGGGTGCCACCA
503253 ACTTGTGGGC-TTAAAA-GGGTGCCAC
1 ACTTGTGGGCTTTAAAAGGGGTGCCAC
503278 AGAGTTATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 9 0.36
28 6 0.24
29 10 0.40
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (29 bp):
ACTTGTGGGCTTTAAAAGGGGTGCCACCA
Found at i:503292 original size:27 final size:27
Alignment explanation
Indices: 503235--503297 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
503225 CTTGTGGGCT
* *
503235 TTAAAAGGGGTGCCACCAACTTGTGGGC
1 TTAAAA-GGGTGCCACCAACTTATGGAC
*
503263 TTAAAAGGGTGCCA-CAGAGTTATGGAC
1 TTAAAAGGGTGCCACCA-ACTTATGGAC
503290 TTAAAAGG
1 TTAAAAGG
503298 AAAAAGAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.06
27 23 0.74
28 6 0.19
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (27 bp):
TTAAAAGGGTGCCACCAACTTATGGAC
Found at i:504057 original size:154 final size:154
Alignment explanation
Indices: 503793--504074 Score: 492
Period size: 154 Copynumber: 1.8 Consensus size: 154
503783 ACCAATATGT
* *
503793 TGATTCACGGCAAATGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCACGG
1 TGATTCAAGGCAAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCACGG
*
503858 TCAGCAGCATTAAACTTGGAGAAAAATGTCAATGTGCTGAGACAAGGCCAACGACATTGGGCTTA
66 TCAGCAGCAGTAAACTTGGAGAAAAATGTCAATGTGCTGAGACAAGGCCAACGACATTGGGCTTA
503923 GGGATGTTAAAGATGCTAATACGC
131 GGGATGTTAAAGATGCTAATACGC
* *
503947 TGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTAATGTGCTGATTCACGG
1 TGATTCAAGGCAAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCACGG
* * *
504012 TCAGCAGTAGTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCCAACGACATTGGGCT
66 TCAGCAGCAGTAAACTTGGAGAAAAATGTCAATGTGCTGAGACAAGGCCAACGACATTGGGCT
504075 CAAGACGAAA
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
154 120 1.00
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (154 bp):
TGATTCAAGGCAAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCACGG
TCAGCAGCAGTAAACTTGGAGAAAAATGTCAATGTGCTGAGACAAGGCCAACGACATTGGGCTTA
GGGATGTTAAAGATGCTAATACGC
Found at i:504161 original size:49 final size:48
Alignment explanation
Indices: 504092--504231 Score: 174
Period size: 49 Copynumber: 2.9 Consensus size: 48
504082 AAAAAGGTGT
*
504092 CAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGGTGAAGAG-GC
1 CAATGTGCTGATTCAAGGCCAGCGC-ATTGGACTTAAAGGTG-AGAGTGC
* * * *
504141 CAATGTGCTGATTCACGGCCAGCTACATTGGACTTAAAGTTGAGGGTGC
1 CAATGTGCTGATTCAAGGCCAGC-GCATTGGACTTAAAGGTGAGAGTGC
* *
504190 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTCAAGGTG
1 CAATGTGCTGATTCAAGGCCAGCG-CATTGGACTTAAAGGTG
504232 TCAATATGCT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
48 3 0.04
49 74 0.95
50 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGCATTGGACTTAAAGGTGAGAGTGC
Found at i:504426 original size:27 final size:27
Alignment explanation
Indices: 504352--504438 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
504342 TGGGCTTTTG
* * *
504352 AAGGTTGCCACTGACTTGTAGGCTTTAA
1 AAGGGTGCCACAGACTTGTGGGC-TTAA
504380 AAGGGGTGCCACCA-ACTTGTGGGCTTAA
1 AA-GGGTGCCA-CAGACTTGTGGGCTTAA
* * *
504408 AAGGGTGCCACAGAGTTGTGGACTTCA
1 AAGGGTGCCACAGACTTGTGGGCTTAA
504435 AAGG
1 AAGG
504439 AAAAAGAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
26 2 0.04
27 23 0.46
28 8 0.16
29 16 0.32
30 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (27 bp):
AAGGGTGCCACAGACTTGTGGGCTTAA
Found at i:504451 original size:34 final size:35
Alignment explanation
Indices: 504413--504479 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
504403 CTTAAAAGGG
*
504413 TGCCACAGAGTTGTGGACTTCAAAGGAA-AAAGAA
1 TGCCACAGAGTTGTGGACTTAAAAGGAAGAAAGAA
* *
504447 TGCCACGGAGTTGTGGGCTTAAAAGGAAGAAAG
1 TGCCACAGAGTTGTGGACTTAAAAGGAAGAAAG
504480 GTGCCCGACG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 25 0.86
35 4 0.14
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.18
Consensus pattern (35 bp):
TGCCACAGAGTTGTGGACTTAAAAGGAAGAAAGAA
Found at i:505112 original size:52 final size:52
Alignment explanation
Indices: 505041--505269 Score: 155
Period size: 52 Copynumber: 4.4 Consensus size: 52
505031 TGTGCTGAGA
*
505041 CAAGGTCAACGACATTGGGCTTAGGGATGTTAAAGATGCCAATACGCTGATT
1 CAAGGCCAACGACATTGGGCTTAGGGATGTTAAAGATGCCAATACGCTGATT
* ** ** ** ** *
505093 CAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTAATGTGTTGATT
1 CAAGGCCAACGACATTGGGCTTAGGGAT--GTTAAA-GATGCCAATACGCTGATT
* * * * * * * * ** **
505148 CATGGTCAGCGGCAGTAGACTT--GGA-G---AAGAATGTCAATGTGCTGAGA
1 CAAGGCCAACGACATTGGGCTTAGGGATGTTAAAG-ATGCCAATACGCTGATT
505195 CAAGGCCAACGACATTGGGCTTAGGGATGTTAAAGATGCCAATACGCTGATT
1 CAAGGCCAACGACATTGGGCTTAGGGATGTTAAAGATGCCAATACGCTGATT
* *
505247 CAAGGCCAATGATATTGGGCTTA
1 CAAGGCCAACGACATTGGGCTTA
505270 AAGATGAAAA
Statistics
Matches: 129, Mismatches: 38, Indels: 20
0.69 0.20 0.11
Matches are distributed among these distances:
46 1 0.01
47 30 0.23
49 3 0.02
50 2 0.02
52 57 0.44
53 5 0.04
54 4 0.03
55 27 0.21
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.24
Consensus pattern (52 bp):
CAAGGCCAACGACATTGGGCTTAGGGATGTTAAAGATGCCAATACGCTGATT
Found at i:505198 original size:154 final size:154
Alignment explanation
Indices: 504918--505425 Score: 829
Period size: 154 Copynumber: 3.3 Consensus size: 154
504908 GAAAAGTGAG
* * * *
504918 AAAGATACCAATATGCTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCA
1 AAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTA
*
504983 ATGTGCTGATTCACGGTCAGCGGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGTC
66 ATGTGCTGATTCACGGTCAGCGGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
505048 AACGACATTGGGCTTAGGGATGTT
131 AACGACATTGGGCTTAGGGATGTT
505072 AAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTA
1 AAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTA
* * *
505137 ATGTGTTGATTCATGGTCAGCGGCAGTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
66 ATGTGCTGATTCACGGTCAGCGGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
505202 AACGACATTGGGCTTAGGGATGTT
131 AACGACATTGGGCTTAGGGATGTT
* *
505226 AAAGATGCCAATACGCTGATTCAAGGCCAATGATATTGGGCTTAAAGATGAAAAAAAGGATGTTA
1 AAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTA
505291 ATGTGCTGATTCACGGTCAGCGGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
66 ATGTGCTGATTCACGGTCAGCGGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
* * * **
505356 AACGACATTGGGCTCA-AGACGGA
131 AACGACATTGGGCTTAGGGATGTT
* * * * *
505379 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAG
1 AAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGGCTTAAAG
505426 GTGAAGATGC
Statistics
Matches: 330, Mismatches: 24, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
153 44 0.13
154 286 0.87
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (154 bp):
AAAGATGCCAATACGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTTA
ATGTGCTGATTCACGGTCAGCGGCATTAGACTTGGAGAAGAATGTCAATGTGCTGAGACAAGGCC
AACGACATTGGGCTTAGGGATGTT
Found at i:505451 original size:49 final size:48
Alignment explanation
Indices: 505290--505524 Score: 179
Period size: 49 Copynumber: 4.8 Consensus size: 48
505280 AAAGGATGTT
* * * * *
505290 AATGTGCTGATTCACGGTCAGCGGCATTAGACTT---GGAGAAGAATGTC
1 AATGTGCTGATTCAAGGCCAGC-GCATTGGACTTAAAGGTGAAG-ATGCC
** * * * ** *
505337 AATGTGCTGAGACAAGGCCAACGACATTGGGCTCAAGACGGAAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCG-CATTGGACTTAA-A-GGTGAAGATGCC
*
505388 AATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGGTGAAGATGCC
1 AATGTGCTGATTCAAGGCCAGCGC-ATTGGACTTAAAGGTGAAGATGCC
* * * * * *
505437 AATGTGCTGGTTCAAGGCTAGCTACATTGGACTTAAAGTTGAGGGTGCC
1 AATGTGCTGATTCAAGGCCAGC-GCATTGGACTTAAAGGTGAAGATGCC
*
505486 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTCAAAG
1 AATGTGCTGATTCAAGGCCAGCG-CATTGGACTT-AAAG
505525 TGTCAATATG
Statistics
Matches: 147, Mismatches: 31, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
46 1 0.01
47 24 0.16
49 78 0.53
50 7 0.05
51 31 0.21
52 6 0.04
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
AATGTGCTGATTCAAGGCCAGCGCATTGGACTTAAAGGTGAAGATGCC
Found at i:505618 original size:50 final size:50
Alignment explanation
Indices: 505521--505618 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
505511 ATTGGTCTTC
* * * * * *
505521 AAAGTGTCAATATGCTGATTCAAGGCTAGCGATATTGAGTTTTAAAGATA
1 AAAGTGCCAATATGCTGATTCAAGACCAACGATATTGAGCTTAAAAGATA
*
505571 AAAGTGCCAATATGCTGGTTCAAGACCAACGATATTG-GACTTAAAAGA
1 AAAGTGCCAATATGCTGATTCAAGACCAACGATATTGAG-CTTAAAAGA
505619 AGATGCCATC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.03
50 39 0.98
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (50 bp):
AAAGTGCCAATATGCTGATTCAAGACCAACGATATTGAGCTTAAAAGATA
Found at i:505721 original size:27 final size:27
Alignment explanation
Indices: 505647--505733 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
505637 TGGGCTTTTG
* *
505647 AAGGTTGCCACTGACTTGTGGGCTTTAA
1 AAGGGTGCCACAGACTTGTGGGC-TTAA
505675 AAGGGGTGCCACCA-ACTTGTGGGCTTAA
1 AA-GGGTGCCA-CAGACTTGTGGGCTTAA
* *
505703 AAGGGTGCCACAGAGTTGTGGACTTAA
1 AAGGGTGCCACAGACTTGTGGGCTTAA
505730 AAGG
1 AAGG
505734 AAAAAGAATG
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.04
27 24 0.46
28 8 0.15
29 17 0.33
30 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (27 bp):
AAGGGTGCCACAGACTTGTGGGCTTAA
Found at i:505746 original size:34 final size:35
Alignment explanation
Indices: 505708--505774 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
505698 CTTAAAAGGG
**
505708 TGCCACAGAGTTGTGGACTTAAAAGGAA-AAAGAA
1 TGCCACAGAGTTACGGACTTAAAAGGAAGAAAGAA
* *
505742 TGCCACGGAGTTACGGGCTTAAAAGGAAGAAAG
1 TGCCACAGAGTTACGGACTTAAAAGGAAGAAAG
505775 CTGCCTGGCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 24 0.86
35 4 0.14
ACGTcount: A:0.40, C:0.13, G:0.30, T:0.16
Consensus pattern (35 bp):
TGCCACAGAGTTACGGACTTAAAAGGAAGAAAGAA
Found at i:512918 original size:60 final size:60
Alignment explanation
Indices: 512687--512934 Score: 298
Period size: 61 Copynumber: 4.1 Consensus size: 60
512677 TTTCTCCTTT
* *
512687 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTAG
1 CACTTTT-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * * *
512748 CATTTTTTAGCCCTTAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACTCAAGTTGGTGG
1 CA-CTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * * * *
512809 CACTTTTCAGTCTTCAAGGAGTAGGAAGCCTTTTCTTTTTAAAGCCCACACAAGCTGGTGG
1 CACTTTT-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
512870 CACCTTTAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCCACAGAAGTTGGTGG
1 CACTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
512930 CACTT
1 CACTT
512935 CCCAGTCTTC
Statistics
Matches: 154, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
60 51 0.33
61 99 0.64
62 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (60 bp):
CACTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:512929 original size:121 final size:122
Alignment explanation
Indices: 512687--512955 Score: 360
Period size: 121 Copynumber: 2.2 Consensus size: 122
512677 TTTCTCCTTT
* * * * *
512687 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTAGCATT
1 CACTTTTCAGTCTTCAAAGAGTAGGAAGCCTTCTCTTTTTAAAGCCCACACAAGCTGGTAGCATC
* * * * * *
512752 TTTTAGCCCTTAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACTCAAGTTGGTGG
66 CTTTAGCCCTCAAAGAGCAAGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGG
* * *
512809 CACTTTTCAGTCTTCAAGGAGTAGGAAGCCTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCA-C
1 CACTTTTCAGTCTTCAAAGAGTAGGAAGCCTTCTCTTTTTAAAGCCCACACAAGCTGGTAGCATC
* * *
512873 CTTTAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCCACAGAAGTTGGTGG
66 CTTTAGCCCTCAAAGAGCAAGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGG
**
512930 CACTTCCCAGTCTTCAAAGAGTAGGA
1 CACTTTTCAGTCTTCAAAGAGTAGGA
512956 CACTCTCTCC
Statistics
Matches: 127, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
121 71 0.56
122 56 0.44
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (122 bp):
CACTTTTCAGTCTTCAAAGAGTAGGAAGCCTTCTCTTTTTAAAGCCCACACAAGCTGGTAGCATC
CTTTAGCCCTCAAAGAGCAAGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:513189 original size:123 final size:123
Alignment explanation
Indices: 512997--513772 Score: 1110
Period size: 123 Copynumber: 6.3 Consensus size: 123
512987 GAGCAGGACG
* *
512997 CCTTTCAAAGCCTACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
* *
513061 TTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGATACCTTTT
66 TTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* *
513119 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGATGCCTTTTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
*
513184 TTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
66 TTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* ** * * *
513242 CCTTTTAAAGCCCACACAAGTTTGTAACACCTTCTAGTCCTCAAAGAGCAAGATGCCTTTTTCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
* * * *
513307 TTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAAAGCAGGGTGTCTTTT
66 TTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
513364 CCTTTTAAAGCCCACACAAGTTGGTGGCACATTCTAGTCCTCAAAAAGCAAGACGCCTTTTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
*
513429 TTAAAGCCCACCCAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
66 TTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * * *
513487 CCTTTTAAAGCTCACACAAGTTTGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCATTTTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
* * * * *
513552 TTCAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTTAAAGAGCAGGACGTCTTGT
66 TTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* ** *
513610 CCTTTTAAAGCTCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* * * * * *
513675 TTTAAAGCTCACACAAGTTAGTGGCAC-CTTCCAGTCCTTAAAGAGTAGGATG-CTTTCT
65 TTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTT-T
** * *
513733 CCTTGCAAAGCCCATACAAGTTGGTGGCACCTGCTAGTCC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC
513773 CTAAGGAGTA
Statistics
Matches: 586, Mismatches: 64, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
122 151 0.26
123 381 0.65
124 54 0.09
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (123 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
TTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:513785 original size:61 final size:61
Alignment explanation
Indices: 512972--513772 Score: 1062
Period size: 61 Copynumber: 13.2 Consensus size: 61
512962 CTCCTTTCAC
*
512972 CCTT-TAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCTACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
513026 CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
513086 CTTTTCTAGTCCTCAAAGAGTAGGATACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 C-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
513148 CCTTCTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
513209 CTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTTGTAACA
1 C-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
513271 CCTTCTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** *
513332 CCTTCTAGTCCTCAAAAAGCAGGGTGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
513393 CATTCTAGTCCTCAAAAAGCAAGACGCCTTTTCCTTTTAAAGCCCACCCAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
513454 CTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCTCACACAAGTTTGTGGCA
1 C-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
513516 CCTTCTAGTCCTCAAAGAGTAGGACGCATTTTCCTTTTCAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
513577 CTTTTCTAGTCCTTAAAGAGCAGGACGTCTTGTCCTTTTAAAGCTCACACAAGTTGGTGGCA
1 C-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
513639 TTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCTCACACAAGTTAGTGGCA
1 -CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * ** *
513701 CCTTCCAGTCCTTAAAGAGTAGGATG-CTTTCTCCTTGCAAAGCCCATACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
513762 CCTGCTAGTCC
1 CCTTCTAGTCC
513773 CTAAGGAGTA
Statistics
Matches: 661, Mismatches: 73, Indels: 19
0.88 0.10 0.03
Matches are distributed among these distances:
54 27 0.04
55 3 0.00
56 1 0.00
60 27 0.04
61 333 0.50
62 270 0.41
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:514431 original size:20 final size:20
Alignment explanation
Indices: 514404--514452 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
514394 ATTTGTACCG
514404 ATACATTGTTCATTGTATCA
1 ATACATTGTTCATTGTATCA
* *
514424 ATATATTGTTCATTGTATCG
1 ATACATTGTTCATTGTATCA
514444 ATACATTGT
1 ATACATTGT
514453 ATCAATACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
ATACATTGTTCATTGTATCA
Found at i:514450 original size:13 final size:13
Alignment explanation
Indices: 514434--514463 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
514424 ATATATTGTT
*
514434 CATTGTATCGATA
1 CATTGTATCAATA
514447 CATTGTATCAATA
1 CATTGTATCAATA
514460 CATT
1 CATT
514464 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:517011 original size:52 final size:51
Alignment explanation
Indices: 516896--517011 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
516886 TTTTCGAGGA
* * *** *
516896 GATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGG
1 GATACTCCAACCCCAACTTTATTTCTAAAACACCAATTTCTCACAATCAGG
*
516947 GATACTCCAACCCCAATTTTATTTCTAAAACACCAATCCTT-TCACAATCAGG
1 GATACTCCAACCCCAACTTTATTTCTAAAACACCAAT--TTCTCACAATCAGG
516999 GATACTCCAACCC
1 GATACTCCAACCC
517012 TGTTATTTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
51 31 0.55
52 23 0.41
53 2 0.04
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.29
Consensus pattern (51 bp):
GATACTCCAACCCCAACTTTATTTCTAAAACACCAATTTCTCACAATCAGG
Found at i:517087 original size:130 final size:130
Alignment explanation
Indices: 516812--517079 Score: 360
Period size: 130 Copynumber: 2.1 Consensus size: 130
516802 ATTTTTCATC
* * * * *
516812 TCGGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCA
1 TCGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATCTTTCACAATCAGGGATACTCCA
* * * * * **
516877 ATCCTGTTATTTTCGAGGAGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAA
66 ACCCTGTTATTTTCGAAGAGATACTCCAACCCCAACTTTATTTCCAAAACACCGATTTCTCACAA
516942 TCGGGGATACTCCAACCCCAATTTTA-TTTCTAAAACACCAATCCTTTCACAATCAGGGATACTC
1 TCGGGGATACTCCAACCCCAATTTTATTTTC-AAAACACCAAT-CTTTCACAATCAGGGATACTC
* * * *
517006 CAACCCTGTTATTTTCGAAG-GATACTCCAATCCCAATTTTATTTCCAGAACACCGATTTTTCAC
64 CAACCCTGTTATTTTCGAAGAGATACTCCAACCCCAACTTTATTTCCAAAACACCGATTTCTCAC
517070 AA
129 AA
517072 TCGGGGAT
1 TCGGGGAT
517080 TGTCCAACTC
Statistics
Matches: 120, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
129 4 0.03
130 80 0.67
131 36 0.30
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (130 bp):
TCGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATCTTTCACAATCAGGGATACTCCA
ACCCTGTTATTTTCGAAGAGATACTCCAACCCCAACTTTATTTCCAAAACACCGATTTCTCACAA
Found at i:517145 original size:80 final size:80
Alignment explanation
Indices: 516944--517166 Score: 231
Period size: 79 Copynumber: 2.8 Consensus size: 80
516934 TCTCACAATC
* * *
516944 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCCTTTCACAATCAGGGATACTCCAA
1 GGGGATACTCCAACTCCAATTTTATTTCTAGAACACCAAT-TTTTCACAATCAGGGATACTCCAA
517009 CCCTGTTATTTTCGAA
65 CCCTGTTATTTTCGAA
* * * **
517025 --GGATACTCCAA-TCCCAATTTTATTTCCAGAACACCGATTTTTCACAATCGGGGATTGTCCAA
1 GGGGATACTCCAACT-CCAATTTTATTTCTAGAACACCAATTTTTCACAATCAGGGATACTCCAA
517087 CTCC-GTTATTTTTC-AA
65 C-CCTGTTA-TTTTCGAA
* ** * ** *
517103 GGGGATACTCTAACTCTGATTTTATTTCTAGAACACCCATTTTTCGTAGTCAGGGGATACTCCA
1 GGGGATACTCCAACTCCAATTTTATTTCTAGAACACCAATTTTTCACAATCA-GGGATACTCCA
517167 GCCTCGTTGT
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
78 27 0.23
79 40 0.34
80 39 0.34
81 10 0.09
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (80 bp):
GGGGATACTCCAACTCCAATTTTATTTCTAGAACACCAATTTTTCACAATCAGGGATACTCCAAC
CCTGTTATTTTCGAA
Found at i:519683 original size:28 final size:28
Alignment explanation
Indices: 519643--519697 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
519633 GATCCGAGTC
* *
519643 AAAGCCTACACTAGCTGGCACTTAAGTT
1 AAAGCCTACACTAGCTAGCACCTAAGTT
519671 AAAGCCTACACTAGCTAGCACCTAAGT
1 AAAGCCTACACTAGCTAGCACCTAAGT
519698 AAAATTCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (28 bp):
AAAGCCTACACTAGCTAGCACCTAAGTT
Found at i:519823 original size:28 final size:27
Alignment explanation
Indices: 519748--519926 Score: 88
Period size: 28 Copynumber: 6.4 Consensus size: 27
519738 CCTATAGAGC
* * *
519748 CAAAGCCCACATTAGCTGGCACCTGAGT
1 CAAAGCCCACACTAACTAGCACCT-AGT
* **
519776 CAAAGCCCATACTATTTAGCATCCTAGT
1 CAAAGCCCACACTAACTAGCA-CCTAGT
*
519804 CAAAGCCCACACTAACTAGCACCCGAGT
1 CAAAGCCCACACTAACTAGCA-CCTAGT
* * * * * * *
519832 CGAAGCCTATATTAGCTGGCACCTGAAT
1 CAAAGCCCACACTAACTAGCACCT-AGT
* * * * *
519860 CAATGCCCACATTAGCTAGGACCCAAAGT
1 CAAAGCCCACACTAACTAGCA-CC-TAGT
* * *
519889 CAAAGCCCACATTAACTGGTACCTAAGT
1 CAAAGCCCACACTAACTAGCACCT-AGT
*
519917 CAAAGTCCAC
1 CAAAGCCCAC
519927 TAATTGACAA
Statistics
Matches: 114, Mismatches: 32, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
27 2 0.02
28 88 0.77
29 24 0.21
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (27 bp):
CAAAGCCCACACTAACTAGCACCTAGT
Found at i:521499 original size:2 final size:2
Alignment explanation
Indices: 521492--521524 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
521482 CAGTAACTTT
521492 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
521525 ATGTGTATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:522329 original size:117 final size:116
Alignment explanation
Indices: 522205--522650 Score: 346
Period size: 118 Copynumber: 3.8 Consensus size: 116
522195 TTTAGTCGTT
* * * *
522205 CATTTAAAGTCGAAAAGAAGGCGTGCAAACATTTTTTGTATAAAAGAATTCATTTTCGCATAAAT
1 CATTTAAAGTCGAAAAGAAGGCGTACGAAC-TCTTTTGTATAAGAGAATTCATTTTCGCATAAAT
* * *
522270 CATGTATTACCTGGGTACCAATAGATTGG-TCTTAGGATAAGTTATCGGTCATC
65 CATATAATACCTGGG-ACCAATAGATTGGCT-TTAGGATAAGCTATCGGTCATC
* * * *
522323 CA-TTAAAGTCGCAAAGAAGGCATACGAA-TGGCCTTTGTATAGGAGAATTCATTTTCGCATAAA
1 CATTTAAAGTCGAAAAGAAGGCGTACGAACT--CTTTTGTATAAGAGAATTCATTTTCGCATAAA
* * * * * *
522386 TTATCTAGTA-CTCGGACACTTATAGATTGGCTTTGGGATAAGCTATCGGTCATC
64 TCATATAATACCTGGGAC-C-AATAGATTGGCTTTAGGATAAGCTATCGGTCATC
* *
522440 CATTTAAAGTTGTAAAA-AAGGCGTACGAACTCCTTTTGTATAAGAGAATTCATTTTTGCATAAA
1 CATTTAAAGTCG-AAAAGAAGGCGTACGAACT-CTTTTGTATAAGAGAATTCATTTTCGCATAAA
* * * ** * * * * *
522504 TCATATAATACTTGGG-CACAGATAGATTGGCATAAAAATAGGTTATTGATCTTC
64 TCATATAATACCTGGGAC-CA-ATAGATTGGCTTTAGGATAAGCTATCGGTCATC
* * * * * * * * * *
522558 CATTTAAAGTTGCAAAGAAGGCATATGAATTCTCTTTGTATAGGAAAATTTATTTTCGTATGAAT
1 CATTTAAAGTCGAAAAGAAGGCGTACGAACTCT-TTTGTATAAGAGAATTCATTTTCGCATAAAT
* * * *
522623 CATGTAATACTTGGACACCAATAAATTG
65 CATATAATACCTGG-GACCAATAGATTG
522651 ACCCCAATAT
Statistics
Matches: 263, Mismatches: 51, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
115 3 0.01
116 5 0.02
117 93 0.35
118 152 0.58
119 9 0.03
120 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.33
Consensus pattern (116 bp):
CATTTAAAGTCGAAAAGAAGGCGTACGAACTCTTTTGTATAAGAGAATTCATTTTCGCATAAATC
ATATAATACCTGGGACCAATAGATTGGCTTTAGGATAAGCTATCGGTCATC
Found at i:522503 original size:118 final size:117
Alignment explanation
Indices: 522238--522507 Score: 325
Period size: 117 Copynumber: 2.3 Consensus size: 117
522228 TGCAAACATT
* * * *
522238 TTTTGTATAAAAGAATTCATTTTCGCATAAATCATGTATTACCTGGGTACCAATAGATTGGTCTT
1 TTTTGTATAAGAGAATTCATTTTCGCATAAATCATCTAGTACCTCGGTACCAATAGATTGGTCTT
* *
522303 AGGATAAGTTATCGGTCATCCATTAAAGTCGCAAAGAAGGCATACGAATGGCC
66 AGGATAAGCTATCGGTCATCCATTAAAGTCGCAAAAAAGGCATACGAAT-GCC
* * *
522356 -TTTGTATAGGAGAATTCATTTTCGCATAAATTATCTAGTA-CTCGG-ACACTTATAGATTGG-C
1 TTTTGTATAAGAGAATTCATTTTCGCATAAATCATCTAGTACCTCGGTAC-C-AATAGATTGGTC
* * * *
522417 TTTGGGATAAGCTATCGGTCATCCATTTAAAGTTGTAAAAAAGGCGTACGAACT-CC
64 -TTAGGATAAGCTATCGGTCATCCA-TTAAAGTCGCAAAAAAGGCATACGAA-TGCC
*
522473 TTTTGTATAAGAGAATTCATTTTTGCATAAATCAT
1 TTTTGTATAAGAGAATTCATTTTCGCATAAATCAT
522508 ATAATACTTG
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
115 2 0.02
116 6 0.05
117 68 0.52
118 53 0.41
119 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (117 bp):
TTTTGTATAAGAGAATTCATTTTCGCATAAATCATCTAGTACCTCGGTACCAATAGATTGGTCTT
AGGATAAGCTATCGGTCATCCATTAAAGTCGCAAAAAAGGCATACGAATGCC
Found at i:524550 original size:155 final size:154
Alignment explanation
Indices: 524254--524964 Score: 489
Period size: 155 Copynumber: 4.6 Consensus size: 154
524244 ACCCTTATTA
* * * * ** * * * *
524254 CCCACCCTC-AGCGTAAAAGCAAACTCGGTGACAACCTAGGACAAT-GTTCTAAAAAAATACCGA
1 CCCACCTTCGAGCATAAAAGCAAACCCGATGACAACCTAAAAC-TTGGTTCTAGAAAATTA-CAA
* * ** ** *
524317 AAATACCCCTAAGGGATACCTTCGACGTAAAAGTACCTGATACCTTTAGTGGACACTAAAAAGAC
64 AAACACCCCTAGGGGATACCTTCGACGTAAAAGTACCTGATACCCCTAAAGGAC-TTAAAAAGAC
**
524382 TAGAAAAAAGATGAACCTATCCTAAATG
128 TAG-AAATGGATGAACCTATCCTAAATG
* ** * ** *
524410 CCCACCTTCGA-CTTAAAAGCGGACCCGATGACGACCTAGGAGTTGGTTCTAGAAAATTACAAAA
1 CCCACCTTCGAGCATAAAAGCAAACCCGATGACAACCTAAAACTTGGTTCTAGAAAATTACAAAA
* * **
524474 ACGCCCCTAGGGGATACCTTCAACGTAAAAGTACCCAATACCCCTAAAGGACTTAAAAAGACTAG
66 ACACCCCTAGGGGATACCTTCGACGTAAAAGTACCTGATACCCCTAAAGGACTTAAAAAGACTAG
*
524539 AAATGGTGATGAACTTATCCTAAATG
131 AAAT-G-GATGAACCTATCCTAAATG
* * * * **
524565 CCCACCTT-TAGCATAAAAGCAAATCCGGTGACAACCTAAAACTTGGTTCTAGGAAATTATGAAA
1 CCCACCTTCGAGCATAAAAGCAAACCCGATGACAACCTAAAACTTGGTTCTAGAAAATTACAAAA
* * * * ** * *
524629 ATACCCATATGGGTATACCTTCGACGTAAAAATACTCTGGCAACCCTAAAGAACTTAAAAAGACT
66 ACACCCCTA-GGGGATACCTTCGACGTAAAAGTAC-CTGATACCCCTAAAGGACTTAAAAAGACT
* *
524694 AGAAAATGG-TGAACCTATCTTAAATA
129 AG-AAATGGATGAACCTATCCTAAATG
* * * * ** * *
524720 CCCACCTTC-AGCATAAAAGCGAA-CCTAGTGATAACCTAAGACTCAGTTTTAAAAAATTACAAA
1 CCCACCTTCGAGCATAAAAGCAAACCCGA-TGACAACCTAAAACTTGGTTCTAGAAAATTACAAA
** * * * **** * *
524783 AATGCCCCTATAGGCATACTTTCGACGTACCCCT-CC--A-A-CCTTAAAGGACTTAAAAAGAGT
65 AACACCCCTA-GGGGATACCTTCGACGTAAAAGTACCTGATACCCCTAAAGGACTTAAAAAGACT
*
524843 AGAAAATGG-TGAACCTATCCTAAATA
129 AG-AAATGGATGAACCTATCCTAAATG
* * * ** * * * *
524869 CCCACCTTCG-GCATTAAAGCAAACCTGATGATAACCTAGGACATT-ATTTTAAAAAATTACGAA
1 CCCACCTTCGAGCATAAAAGCAAACCCGATGACAACCTAAAAC-TTGGTTCTAGAAAATTACAAA
* * *
524932 AATACCCCTAAGGGATACCTTCGACGTGAAAGT
65 AACACCCCTAGGGGATACCTTCGACGTAAAAGT
524965 GCTCGGAGAT
Statistics
Matches: 446, Mismatches: 96, Indels: 34
0.77 0.17 0.06
Matches are distributed among these distances:
148 16 0.04
149 102 0.23
150 4 0.01
153 4 0.01
154 16 0.04
155 206 0.46
156 67 0.15
157 27 0.06
158 4 0.01
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (154 bp):
CCCACCTTCGAGCATAAAAGCAAACCCGATGACAACCTAAAACTTGGTTCTAGAAAATTACAAAA
ACACCCCTAGGGGATACCTTCGACGTAAAAGTACCTGATACCCCTAAAGGACTTAAAAAGACTAG
AAATGGATGAACCTATCCTAAATG
Found at i:524872 original size:149 final size:148
Alignment explanation
Indices: 524515--524958 Score: 428
Period size: 149 Copynumber: 2.9 Consensus size: 148
524505 TACCCAATAC
* * * *
524515 CCCTAAAGGACTTAAAAAGACTAG-AAATGGTGATGAACTTATCCTAAATGCCCACCTTTAGCAT
1 CCCTAAAGAACTTAAAAAGACTAGAAAAT-G-G-TGAACCTATCCTAAATACCCACCTTCAGCAT
* * * * ** * ** ** * * *
524579 AAAAGCAAATCC-GGTGACAACCTAAAACTTGGTTCTAGGAAATTATGAAAATACCCATATGGGT
63 AAAAGCAAA-CCTGATGATAACCTAAGACATCATTTTAAAAAATTACAAAAATACCCCTA-AGGC
* * *
524643 ATACCTTCGACGTAAAAATACTCTGGCAA
126 ATACCTTCGACGT----A-CCCCT-CCAA
*
524672 CCCTAAAGAACTTAAAAAGACTAGAAAATGGTGAACCTATCTTAAATACCCACCTTCAGCATAAA
1 CCCTAAAGAACTTAAAAAGACTAGAAAATGGTGAACCTATCCTAAATACCCACCTTCAGCATAAA
* *
524737 AGCGAACCT-AGTGATAACCTAAGAC-TCAGTTTTAAAAAATTACAAAAATGCCCCTATAGGCAT
66 AGCAAACCTGA-TGATAACCTAAGACATCA-TTTTAAAAAATTACAAAAATACCCCTA-AGGCAT
*
524800 ACTTTCGACGTACCCCTCCAA
128 ACCTTCGACGTACCCCTCCAA
* * * * *
524821 CCTTAAAGGACTTAAAAAGAGTAGAAAATGGTGAACCTATCCTAAATACCCACCTTCGGCATTAA
1 CCCTAAAGAACTTAAAAAGACTAGAAAATGGTGAACCTATCCTAAATACCCACCTTCAGCATAAA
* * * *
524886 AGCAAACCTGATGATAACCTAGGACATTATTTTAAAAAATTACGAAAATACCCCTAAGGGATACC
66 AGCAAACCTGATGATAACCTAAGACATCATTTTAAAAAATTACAAAAATACCCCTAAGGCATACC
524951 TTCGACGT
131 TTCGACGT
524959 GAAAGTGCTC
Statistics
Matches: 244, Mismatches: 37, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
148 15 0.06
149 108 0.44
150 6 0.02
151 1 0.00
154 3 0.01
155 82 0.34
156 1 0.00
157 24 0.10
158 4 0.02
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.24
Consensus pattern (148 bp):
CCCTAAAGAACTTAAAAAGACTAGAAAATGGTGAACCTATCCTAAATACCCACCTTCAGCATAAA
AGCAAACCTGATGATAACCTAAGACATCATTTTAAAAAATTACAAAAATACCCCTAAGGCATACC
TTCGACGTACCCCTCCAA
Found at i:525648 original size:127 final size:126
Alignment explanation
Indices: 525431--525659 Score: 343
Period size: 127 Copynumber: 1.8 Consensus size: 126
525421 TCAAAAAGTG
* * ** *
525431 TCATTTCGTACCTTGATGGAAGCCCGCTAAGATACAAAAAATTTGAAATCTTTTAATACCCCTAC
1 TCATTTCGTACCTTAATGGAAACCCGAAAAGATACAAAAAATTTGAAATCTTATAATACCCCTAC
* *
525496 GGATATCTATAGGAATATAAAAGATTAAAAATGATTATGATTATTTTTTTGAGAAAAAAAA
66 GGATACCCATAGGAATATAAAAGATTAAAAATGATTATGATTATTTTTTTGAGAAAAAAAA
** *
525557 TCATTTCGTACCTTAATGGAAACCCGAAAAGATACGAAAAGTTTTTGAAATCTTAT-ATACCCTT
1 TCATTTCGTACCTTAATGGAAACCCGAAAAGATAC-AAAA-AATTTGAAATCTTATAATACCCCT
525621 ACGGATACCCATAGGAATATAAAAGATTAAAAATGATTA
64 ACGGATACCCATAGGAATATAAAAGATTAAAAATGATTA
525660 ATATTTATTT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
126 31 0.34
127 48 0.53
128 12 0.13
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (126 bp):
TCATTTCGTACCTTAATGGAAACCCGAAAAGATACAAAAAATTTGAAATCTTATAATACCCCTAC
GGATACCCATAGGAATATAAAAGATTAAAAATGATTATGATTATTTTTTTGAGAAAAAAAA
Found at i:526841 original size:18 final size:18
Alignment explanation
Indices: 526813--526854 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
526803 CACTTTGCAT
526813 TAAATGTTTACGGGGAATA
1 TAAA-GTTTACGGGGAATA
526832 TAAAGTTTACGGGGAATA
1 TAAAGTTTACGGGGAATA
526850 TAAAG
1 TAAAG
526855 ATGACTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.05, G:0.26, T:0.29
Consensus pattern (18 bp):
TAAAGTTTACGGGGAATA
Found at i:527366 original size:186 final size:186
Alignment explanation
Indices: 526972--527370 Score: 613
Period size: 185 Copynumber: 2.1 Consensus size: 186
526962 TAAATTAGTC
* * * **
526972 AAAATAAATAAATAAAAAATAAAATTAATTAAAATTTCGAAAATTCCCCTTAAAAATAGAATTAA
1 AAAATTAA-AAATAAAAAATAAAATTAATTAAAATCTCAAAAATTCCCCCAAAAAATAGAATTAA
* *
527037 TATTAATTACTCACAAACAAGATTTTAGAAATAGAATAATGAAAAAGAACTTAATTACAAGTTAA
65 TATTAATTAATCACAAACAAGATTTTAGAAATAGAATAATGAAAAAGAACTTAATTACAAGTAAA
* *
527102 AAACTCGTGAATTTTCACGAGAAATATCTTGATGTAGGAAAATCAATATATACAAAA
130 AAACTCGTGAATTTTCACGAGAAATAACTTGATATAGGAAAATCAATATATACAAAA
527159 AAAATTAAAAATAAAAAATAAAATTAATTAAAATCTCAAAAATTCCCCCAAAAAATAGAATTAAT
1 AAAATTAAAAATAAAAAATAAAATTAATTAAAATCTCAAAAATTCCCCCAAAAAATAGAATTAAT
* *
527224 ATTAATTAATCACAAACAAGA-TTTAGAAATGGAATAATGAAAAAGAACTTAATTGCAAGTAAAA
66 ATTAATTAATCACAAACAAGATTTTAGAAATAGAATAATGAAAAAGAACTTAATTACAAGTAAAA
* * *
527288 AACTCGTGAATTTTTACGAGAAATAACTTGGTATAGGAAAATCAATATATATAAAA
131 AACTCGTGAATTTTCACGAGAAATAACTTGATATAGGAAAATCAATATATACAAAA
* * *
527344 AAATTTAAAATTAATGAAAT-AAATTAA
1 AAAATTAAAAATAA-AAAATAAAATTAA
527371 AATTTCCAAA
Statistics
Matches: 194, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
185 110 0.57
186 77 0.40
187 7 0.04
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.28
Consensus pattern (186 bp):
AAAATTAAAAATAAAAAATAAAATTAATTAAAATCTCAAAAATTCCCCCAAAAAATAGAATTAAT
ATTAATTAATCACAAACAAGATTTTAGAAATAGAATAATGAAAAAGAACTTAATTACAAGTAAAA
AACTCGTGAATTTTCACGAGAAATAACTTGATATAGGAAAATCAATATATACAAAA
Found at i:529265 original size:84 final size:83
Alignment explanation
Indices: 529180--529433 Score: 213
Period size: 84 Copynumber: 3.0 Consensus size: 83
529170 ATAAAATATA
* * *
529180 AAAAGAAGTACTTAGGACCAAGCCGACAAGTGAATGAAAGATAAAAAGTTGATTGGGATTAAACT
1 AAAAGAAGTACTTGGGACCAAGCCGACAGGTGAATGAAAGATAAAAAGTTGATCGGGATTAAACT
529245 GACAAGTCAACGAGGGAT
66 GACAAGTCAACGAGGGAT
* ** * *** * ** **
529263 AAAGGATTTACTCGGGACTGGGCC-AGCAGGTAAAAAAAAGATAAAGAAGTTGATCGGGATTGGA
1 AAAAGAAGTACTTGGGACCAAGCCGA-CAGGTGAATGAAAGATAAA-AAGTTGATCGGGATTAAA
** * * **
529327 CCAACTAGTCAACAAAAGAT
64 CTGACAAGTCAACGAGGGAT
* * * * * *
529347 AAAAGAAAGTACCTGGGACCAAGCCGATAGGGGAATGAAGGATAAAAAGTTGACCAGGATTAAAC
1 AAAAG-AAGTACTTGGGACCAAGCCGACAGGTGAATGAAAGATAAAAAGTTGATCGGGATTAAAC
* *
529412 TGACATGTCACCGAGGGAT
65 TGACAAGTCAACGAGGGAT
529431 AAA
1 AAA
529434 GGATTTACCC
Statistics
Matches: 120, Mismatches: 47, Indels: 7
0.69 0.27 0.04
Matches are distributed among these distances:
82 1 0.01
83 31 0.26
84 62 0.52
85 25 0.21
86 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.17
Consensus pattern (83 bp):
AAAAGAAGTACTTGGGACCAAGCCGACAGGTGAATGAAAGATAAAAAGTTGATCGGGATTAAACT
GACAAGTCAACGAGGGAT
Found at i:529265 original size:168 final size:167
Alignment explanation
Indices: 529057--529520 Score: 450
Period size: 168 Copynumber: 2.8 Consensus size: 167
529047 CAAGAGAAGG
** * * * * * * *
529057 AAGTTGATCGGGATCGAATTGACAAGTCAACAAAGGATAAAAGATTTATCCGAGACTAAGTC-GA
1 AAGTTGATCGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTA-CCGGGACTAGGCCAG-
* ** * * * *
529121 CAAGTAAACAAGGGATAAAAAAGTTGACCGACATTGGATCGA-TAAGTCAATAAAATATAAAA-A
64 CAAGTAAAAAAAAGATAAAAAAGTTGACCGACATTGGACCAACT-AGTCAACAAAAGATAAAAGA
* *
529184 GAAGTACTTAGGACCAAGCCGACAAGTGAATGAAAGATAAA
128 -AAGTACCTAGGACCAAGCCGACAAGGGAATGAAAGATAAA
* *
529225 AAGTTGATTGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTACTCGGGACTGGGCCAGC
1 AAGTTGATCGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTAC-CGGGACTAGGCCAGC
* * * **
529290 AGGTAAAAAAAAGATAAAGAAGTTGATCGGGATTGGACCAACTAGTCAACAAAAGATAAAAGAAA
65 AAGTAAAAAAAAGATAAAAAAGTTGACCGACATTGGACCAACTAGTCAACAAAAGATAAAAGAAA
* * * *
529355 GTACCTGGGACCAAGCCGATAGGGGAATGAAGGATAAA
130 GTACCTAGGACCAAGCCGACAAGGGAATGAAAGATAAA
* * * * * * *
529393 AAGTTGACCAGGATTAAACTGACATGTCACCGAGGGATAAAGGATTTACCCGGGACTGGGCCGGT
1 AAGTTGATCGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTA-CCGGGACTAGGCCAGC
** * * ** *
529458 GGGTAAACAAAAGATAAAAAAGTTGACTGGGATTGGACCAA-TAAGTTAACAAAAGATAAAAGA
65 AAGTAAAAAAAAGATAAAAAAGTTGACCGACATTGGACCAACT-AGTCAACAAAAGATAAAAGA
529521 TTTATCCGAG
Statistics
Matches: 248, Mismatches: 42, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
167 2 0.01
168 242 0.98
169 4 0.02
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.18
Consensus pattern (167 bp):
AAGTTGATCGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTACCGGGACTAGGCCAGCA
AGTAAAAAAAAGATAAAAAAGTTGACCGACATTGGACCAACTAGTCAACAAAAGATAAAAGAAAG
TACCTAGGACCAAGCCGACAAGGGAATGAAAGATAAA
Found at i:529491 original size:84 final size:83
Alignment explanation
Indices: 529216--529491 Score: 216
Period size: 84 Copynumber: 3.3 Consensus size: 83
529206 CAAGTGAATG
* * *
529216 AAAGATAAAAAGTTGATTGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTACTCGGGAC
1 AAAGATAAAAAGTTGACTGGGATTAAACTGACATGTCAACGAGGGATAAAGGATTTACCCGGGAC
* **
529281 TGGGCCAGCAGGTAAAAA
66 TGGGCCGGTGGGTAAAAA
** ** * ** * ** *
529299 AAAGATAAAGAAGTTGA-TCGGGATTGGACCAAC-TAGTCAACAAAAGATAAAAGAAAGTACCTG
1 AAAGATAAA-AAGTTGACT-GGGATTAAACTGACAT-GTCAACGAGGGAT-AAAGGATTTACCCG
*** * * **
529362 GGACCAAGCCGATAGGG-GAATG
62 GGACTGGGCCGGT-GGGTAAAAA
* ** *
529384 AAGGATAAAAAGTTGACCAGGATTAAACTGACATGTCACCGAGGGATAAAGGATTTACCCGGGAC
1 AAAGATAAAAAGTTGACTGGGATTAAACTGACATGTCAACGAGGGATAAAGGATTTACCCGGGAC
*
529449 TGGGCCGGTGGGTAAACA
66 TGGGCCGGTGGGTAAAAA
529467 AAAGATAAAAAAGTTGACTGGGATT
1 AAAGAT-AAAAAGTTGACTGGGATT
529492 GGACCAATAA
Statistics
Matches: 136, Mismatches: 48, Indels: 17
0.68 0.24 0.08
Matches are distributed among these distances:
82 3 0.02
83 36 0.26
84 68 0.50
85 27 0.20
86 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.28, T:0.18
Consensus pattern (83 bp):
AAAGATAAAAAGTTGACTGGGATTAAACTGACATGTCAACGAGGGATAAAGGATTTACCCGGGAC
TGGGCCGGTGGGTAAAAA
Found at i:529842 original size:252 final size:252
Alignment explanation
Indices: 529333--529843 Score: 559
Period size: 252 Copynumber: 2.0 Consensus size: 252
529323 TGGACCAACT
* * *
529333 AGTCAACAAAAGATAAAAGAAAGTACCTGGGACCAAGCCGATAGGGGAATGAAGGATAAAAAGTT
1 AGTCAACAAAAGATAAAAGAAAGTACCTAGGACCAAGCCGACAAGGGAATGAAGGATAAAAAGTT
* * * **
529398 GACCAGGATTAAACTGACATGTCACCGAGGGATAAAGGATTTACCCGGGACTGGGCCGGTGGGTA
66 AACCAGGATTAAACTGACAAGTCACCGAGGGATAAAGGATTTACCCAGGACTGGGCCGACGGGTA
* * * * * **
529463 AACAAAAGATAAAAAAGTTGACTGGGATTGGACCAATAAGTTAACAAAAGATAAAAGATTTATCC
131 AACAAAAGATAAAAAAGTTGACTAGGATTGGACCAACAAATCAACAAAAAATAAAAGAAGTATCC
* * ** *
529528 GAGACTAAGTCGACAAGTAAACAAGGGATAAAAAGGCTGACCCGGATTGGACCGATA
196 GAGACCAAGTCGACAAGGAAACAAGGGATAAAAAGGCTGACCCGGATTAAACCGACA
* * * * *
529585 AGTCAATAAAATATAAAAGGAAGTACCTAGGACCAAGTCGACAAGTGAATGAAGGATAAAAAGTT
1 AGTCAACAAAAGATAAAAGAAAGTACCTAGGACCAAGCCGACAAGGGAATGAAGGATAAAAAGTT
* *
529650 AACC-GAGATTAAACTGACAAGTCGA-CGAGGGATAAAGGATTTACCTAGGACTGGGTCGACGGG
66 AACCAG-GATTAAACTGACAAGTC-ACCGAGGGATAAAGGATTTACCCAGGACTGGGCCGACGGG
* * * **
529713 TAAACAAAGGATAAAGATGTTGA-TCAGGATTGGACTGACAAATCAACAAAAAATAAAAAGAAGT
129 TAAACAAAAGATAAAAAAGTTGACT-AGGATTGGACCAACAAATCAACAAAAAAT-AAAAGAAGT
* * ** * * *
529777 A-CCTGGGACCAAG-CTGATAATGGAATGAA-GGATAAAAA-GTTGACCGGGATTAAATCGACA
192 ATCC-GAGACCAAGTC-GACAA-GGAAACAAGGGATAAAAAGGCTGACCCGGATTAAACCGACA
529837 AGTCAAC
1 AGTCAAC
529844 GAGGGATAAA
Statistics
Matches: 212, Mismatches: 40, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
251 2 0.01
252 176 0.83
253 29 0.14
254 5 0.02
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (252 bp):
AGTCAACAAAAGATAAAAGAAAGTACCTAGGACCAAGCCGACAAGGGAATGAAGGATAAAAAGTT
AACCAGGATTAAACTGACAAGTCACCGAGGGATAAAGGATTTACCCAGGACTGGGCCGACGGGTA
AACAAAAGATAAAAAAGTTGACTAGGATTGGACCAACAAATCAACAAAAAATAAAAGAAGTATCC
GAGACCAAGTCGACAAGGAAACAAGGGATAAAAAGGCTGACCCGGATTAAACCGACA
Found at i:529849 original size:420 final size:419
Alignment explanation
Indices: 529080--529934 Score: 1218
Period size: 420 Copynumber: 2.0 Consensus size: 419
529070 TCGAATTGAC
* *
529080 AAGTCAACAAAGGATAAAAGATTTATCCGAGACTAAGTCGACAAGTAAACAAGGGATAAAAAAGT
1 AAGTCAACAAAAGATAAAAGATTTATCCGAGACTAAGTCGACAAGTAAACAAGGGATAAAAAAGC
* *
529145 TGACCGACATTGGATCGATAAGTCAATAAAATATAAAAAGAAGTACTTAGGACCAAGCCGACAAG
66 TGACCGACATTGGACCGATAAGTCAATAAAATATAAAAAGAAGTACCTAGGACCAAGCCGACAAG
* ** *
529210 TGAATGAAAGATAAAAAGTTGATTGGGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTACT
131 TGAATGAAAGATAAAAAGTTAACCGAGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTACT
* * * *
529275 CGGGACTGGGCCAGCAGGTAAAAAAAAGATAAAGAAGTTGATCGGGATTGGACCAACTAGTCAAC
196 CAGGACTGGGCCAGCAGGTAAAAAAAAGATAAAGAAGTTGATCAGGATTGGACCAACAAATCAAC
* *
529340 AAAAGATAAAAGAAAGTACCTGGGACCAAGCCGATAGGGGAATGAAGGATAAAAAGTTGACCAGG
261 AAAAAATAAAAGAAAGTACCTGGGACCAAGCCGATAAGGGAATGAAGGATAAAAAGTTGACCAGG
* * ****
529405 ATTAAACTGACATGTCACCGAGGGATAAAGGATTTACCCGGGACTGGGCCGGTGGGTAAACAAAA
326 ATTAAACTGACAAGTCAACGAGGGATAAA-GATTTACCCGGGACTGGGCCGACAAGTAAACAAAA
* *
529470 GATAAAAAAGTTGA-CTGGGATTGGACCAAT
390 GATAAAAAAGTTGATC-GAGATTAGACCAAT
* *
529500 AAGTTAACAAAAGATAAAAGATTTATCCGAGACTAAGTCGACAAGTAAACAAGGGATAAAAAGGC
1 AAGTCAACAAAAGATAAAAGATTTATCCGAGACTAAGTCGACAAGTAAACAAGGGATAAAAAAGC
* * *
529565 TGACCCG-GATTGGACCGATAAGTCAATAAAATATAAAAGGAAGTACCTAGGACCAAGTCGACAA
66 TGA-CCGACATTGGACCGATAAGTCAATAAAATATAAAAAGAAGTACCTAGGACCAAGCCGACAA
* *
529629 GTGAATGAAGGATAAAAAGTTAACCGAGATTAAACTGACAAGTCGACGAGGGATAAAGGATTTAC
130 GTGAATGAAAGATAAAAAGTTAACCGAGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTAC
* * * * * **
529694 -CTAGGACTGGGTC-GACGGGTAAACAAAGGATAAAGATGTTGATCAGGATTGGACTGACAAATC
195 TC-AGGACTGGGCCAG-CAGGTAAAAAAAAGATAAAGAAGTTGATCAGGATTGGACCAACAAATC
* *
529757 AACAAAAAATAAAA-AGAAGTACCTGGGACCAAGCTGATAATGGAATGAAGGATAAAAAGTTGAC
258 AACAAAAAATAAAAGA-AAGTACCTGGGACCAAGCCGATAAGGGAATGAAGGATAAAAAGTTGAC
* *
529821 CGGGATTAAA-TCGACAAGTCAACGAGGGATAAAGATTTACCCGGGACTGGGCTGACAAGTAAAC
322 CAGGATTAAACT-GACAAGTCAACGAGGGATAAAGATTTACCCGGGACTGGGCCGACAAGTAAAC
* **
529885 AAAGGATAAAAAAGTTGATCGAGATTAGACTGAT
386 AAAAGATAAAAAAGTTGATCGAGATTAGACCAAT
529919 AAGTCAACAAAAGATA
1 AAGTCAACAAAAGATA
529935 GAATGAAGTA
Statistics
Matches: 385, Mismatches: 44, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
419 72 0.19
420 310 0.81
421 3 0.01
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (419 bp):
AAGTCAACAAAAGATAAAAGATTTATCCGAGACTAAGTCGACAAGTAAACAAGGGATAAAAAAGC
TGACCGACATTGGACCGATAAGTCAATAAAATATAAAAAGAAGTACCTAGGACCAAGCCGACAAG
TGAATGAAAGATAAAAAGTTAACCGAGATTAAACTGACAAGTCAACGAGGGATAAAGGATTTACT
CAGGACTGGGCCAGCAGGTAAAAAAAAGATAAAGAAGTTGATCAGGATTGGACCAACAAATCAAC
AAAAAATAAAAGAAAGTACCTGGGACCAAGCCGATAAGGGAATGAAGGATAAAAAGTTGACCAGG
ATTAAACTGACAAGTCAACGAGGGATAAAGATTTACCCGGGACTGGGCCGACAAGTAAACAAAAG
ATAAAAAAGTTGATCGAGATTAGACCAAT
Found at i:529972 original size:167 final size:167
Alignment explanation
Indices: 529536--529979 Score: 522
Period size: 168 Copynumber: 2.6 Consensus size: 167
529526 CCGAGACTAA
* * * * * * *
529536 GTCGACAAGTAAACAAGGGATAAAAAGGCTGACCCG-GATTGGACCGATAAGTCAATAAAATATA
1 GTCGACAAGTAAACAAAGGATAAAAAAGTTGA-TCGAGATTGGACTGATAAGTCAACAAAAAATA
* *
529600 AAAGGAAGTACCTAGGACCAAGTCGACAAGTGAATGAAGGATAAAAAGTTAACCGAGATTAAACT
65 AAAAGAAGTACCTGGGACCAAGTCGAC-AGTGAATGAAGGATAAAAAGTTAACCGAGATTAAACT
* *
529665 GACAAGTCGACGAGGGATAAAGGATTTACCTAGGACTGG
129 GACAAGTCAACGAGGGATAAAGGATTTACCCAGGACTGG
** * * * *
529704 GTCGACGGGTAAACAAAGGATAAAGATGTTGATC-AGGATTGGACTGACAAATCAACAAAAAATA
1 GTCGACAAGTAAACAAAGGATAAAAAAGTTGATCGA-GATTGGACTGATAAGTCAACAAAAAATA
* * * *
529768 AAAAGAAGTACCTGGGACCAAG-CTGATAATGGAATGAAGGATAAAAAGTTGACCGGGATTAAA-
65 AAAAGAAGTACCTGGGACCAAGTC-GACAGT-GAATGAAGGATAAAAAGTTAACCGAGATTAAAC
*
529831 TCGACAAGTCAACGAGGGATAAA-GATTTACCCGGGACTGG
128 T-GACAAGTCAACGAGGGATAAAGGATTTACCCAGGACTGG
* *
529871 G-CTGACAAGTAAACAAAGGATAAAAAAGTTGATCGAGATTAGACTGATAAGTCAACAAAAGATA
1 GTC-GACAAGTAAACAAAGGATAAAAAAGTTGATCGAGATTGGACTGATAAGTCAACAAAAAATA
* * * *
529935 GAATGAAGTACATGGGATCAAGTCGACAGGTGAATGAAGGATAAA
65 AAAAGAAGTACCTGGGACCAAGTCGACA-GTGAATGAAGGATAAA
529980 GGTTGATCGA
Statistics
Matches: 232, Mismatches: 35, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
166 1 0.00
167 107 0.46
168 124 0.53
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.18
Consensus pattern (167 bp):
GTCGACAAGTAAACAAAGGATAAAAAAGTTGATCGAGATTGGACTGATAAGTCAACAAAAAATAA
AAAGAAGTACCTGGGACCAAGTCGACAGTGAATGAAGGATAAAAAGTTAACCGAGATTAAACTGA
CAAGTCAACGAGGGATAAAGGATTTACCCAGGACTGG
Found at i:530067 original size:83 final size:83
Alignment explanation
Indices: 529958--530313 Score: 347
Period size: 84 Copynumber: 4.3 Consensus size: 83
529948 GGGATCAAGT
* *
529958 CGACAGGTGAATGAA-GGATAAAGGTTGATCGAGACTGAACTGACAGGTCACCATAAGGGTAATG
1 CGACAGGTAAAT-AATGGATGAAGGTTGATCGAGACTGAACTGACAGGTCACCATAAGGGTAATG
*
530022 GGTTTATTGAGGACTAAGC
65 GGTTTATCGAGGACTAAGC
* * * * * *
530041 CGATAAGTAAATAATGGATGAAGGTTGACCGTAGACTGAGCTGATAGGTCACCATAAGGATAATG
1 CGACAGGTAAATAATGGATGAAGGTTGATCG-AGACTGAACTGACAGGTCACCATAAGGGTAATG
* * * *
530106 GGTCTACCGGGGACTAAGT
65 GGTTTATCGAGGACTAAGC
*
530125 CGACAGGTAAACAATGGATGAAGGTTGATCGGAGACT-AAGCTGACAGGTCACCATAAGGG--AT
1 CGACAGGTAAATAATGGATGAAGGTTGATC-GAGACTGAA-CTGACAGGTCACCATAAGGGTAAT
* *
530187 GGGGTTTATCGAGGATTGAGC
64 -GGGTTTATCGAGGACTAAGC
* * * *
530208 CAACAGGTAAATAATGGATGCAGGTTGATCG-GA--GAACTGACA---CGCCATGAAGGAG-AGT
1 CGACAGGTAAATAATGGATGAAGGTTGATCGAGACTGAACTGACAGGTCACCAT-AAGG-GTA-A
* *
530266 TGGGGTTTATCGGGGACTAAGT
63 T-GGGTTTATCGAGGACTAAGC
*
530288 TGACAGGTAAATAATGGATGAAGGTT
1 CGACAGGTAAATAATGGATGAAGGTT
530314 ATTTCTTGAT
Statistics
Matches: 225, Mismatches: 38, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
76 5 0.02
77 4 0.02
78 1 0.00
79 6 0.03
80 43 0.19
81 2 0.01
82 5 0.02
83 65 0.29
84 93 0.41
85 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (83 bp):
CGACAGGTAAATAATGGATGAAGGTTGATCGAGACTGAACTGACAGGTCACCATAAGGGTAATGG
GTTTATCGAGGACTAAGC
Found at i:530488 original size:43 final size:43
Alignment explanation
Indices: 530440--531440 Score: 282
Period size: 43 Copynumber: 23.6 Consensus size: 43
530430 AAAAATGAAA
* *
530440 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACAATTAACAAAGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* *** ** * * *
530483 AAGTCT-TCCGAGACTAAATTGATTGGCA-AAGATGGATAAAGG
1 AAGTCTCT-CGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * *
530525 AAGTCTCCCGAGTCTGAGCTGACGGGCAAACGGTTAACAAAGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * ** * * * *
530568 AAGTCCACCCG-GTCTAAGCCAATC-AACAGACAATTAATAAATG
1 AAGT-CTCTCGAGTCTAAGCCGA-CGGGCAGACGATTGACAAAGG
* * * * *
530611 -AGTCTC-CTAGTTCTGAGCCGATGGGTAGACGATTG---ATGG
1 AAGTCTCTCGAG-TCTAAGCCGACGGGCAGACGATTGACAAAGG
** * * * *
530650 AAAACTCTCCCAGGTCTAAGCCGATGGGCAGATGATTGACAAAAG
1 AAGTCTCT-CGA-GTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * *
530695 AAATTTCTCGGGTCTAAGCCGACGGGTAGATGATTGATAAAGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * *
530738 AAATCTCACGGGTCTAAGCCGACGAGCAGACGATTGACAAAAG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* *** * * **
530781 AAGTCTTTC-AGGTCTAAGCCGATAAGCAAATGATTGATGGAA--
1 AAGTCTCTCGA-GTCTAAGCCGACGGGCAGACGATTGA-CAAAGG
* * *
530823 AAGTATC-CTAGGTCTAAGTCGACGGGCAGACGATTGACAAAGG
1 AAGTCTCTCGA-GTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * ** *
530866 AAGTCTCCCGAGTCTGAGCTGACAGATAGATGATTGACAAAGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * *
530909 AAGTCTCCCGAATCTAAGCTGACGGGTAGACGATTG---ATGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * ** *
530949 AAGCCTCACGGGTCTGAGCCGATGGGCAGATAATTG---ATGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * *
530989 AAATGTCTCTTG-GATCTAAGCCAACAGGCAGACGATTGACAAAAG
1 -AA-GTCTCTCGAG-TCTAAGCCGACGGGCAGACGATTGACAAAGG
* * ** * * ** *
531034 AAATCTCCCGAGTCTAAGCTAATGGGCAGATGAAAGATGAAA--
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGA-CAAAGG
* * * * * * * **
531076 AAGTCTC-CTAGGTCTAAGTCGACAGACAGATGGTGGATGAAGG
1 AAGTCTCTCGA-GTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * * * * **
531119 AAGTCTCCCGGGACTAAGCTGACAGGTAGACAATGGATGAA-G
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * *
531161 AAGGCTCCCGGGTCTAAGTCGACGGGCAGACGATTGATAAAGG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* ** *
531204 AAGTCTCTC-AGGTCTAAGCCAATAGGCAGACGATTGATAAAGG
1 AAGTCTCTCGA-GTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * * * * **
531247 AAGTCCCCCAAGACTGAGCCGACAGGCAGACTATGGATGAA-G
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * *
531289 AAGTCTC-CTGAGTCTTAGTCGACGGGCAGACGGTTGATAAAGG
1 AAGTCTCTC-GAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * * * **
531332 AAGTCT-TCTGGGACTAAGCTGACGAGCAGACAATGGATGAA-G
1 AAGTCTCTC-GAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * * * *
531374 AAGTCTCCCGGGTCTAAG-CGACGGGCAGACAATTGATAAAAG
1 AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
* * *
531416 AAGTCCCTAG-GTCTAAGCTGACGGG
1 AAGTCTCTCGAGTCTAAGCCGACGGG
531441 TGAACGAAGG
Statistics
Matches: 703, Mismatches: 213, Indels: 85
0.70 0.21 0.08
Matches are distributed among these distances:
39 2 0.00
40 38 0.05
41 39 0.06
42 236 0.34
43 359 0.51
44 19 0.03
45 10 0.01
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (43 bp):
AAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGACAAAGG
Found at i:530899 original size:85 final size:85
Alignment explanation
Indices: 530634--531241 Score: 331
Period size: 85 Copynumber: 7.2 Consensus size: 85
530624 TGAGCCGATG
* * * * * * *
530634 GGTAGACGATTGATGGAAAACTCTCCCAGGTCTAAGCCGATGGGCAGATGATTGACAAAAGAAAT
1 GGTAGATGATTGATGGAAAAGTCTCCTAGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGT
* * * *
530699 TTCTCGGGTCTAAGCCGACG
66 CTCCCGAGTCTAAGCCGACA
* * *
530719 GGTAGATGATTGATAAAGG-AAA-TCTCAC-GGGTCTAAGCCGACGAGCAGACGATTGACAAAAG
1 GGTAGATGATTGAT---GGAAAAGTCTC-CTAGGTCTAAGCCGACGGGCAGACGATTGACAAAGG
** *
530781 AAGTCTTTC-AGGTCTAAGCCGATA
62 AAGTCTCCCGA-GTCTAAGCCGACA
* * * * *
530805 AGCAAATGATTGATGGAAAAGTATCCTAGGTCTAAGTCGACGGGCAGACGATTGACAAAGGAAGT
1 GGTAGATGATTGATGGAAAAGTCTCCTAGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGT
* *
530870 CTCCCGAGTCTGAGCTGACA
66 CTCCCGAGTCTAAGCCGACA
* ** * * * * *
530890 GATAGATGATTGA-CAAAGGAAGTCTCC-CGAATCTAAGCTGACGGGTAGACGATTG---ATGGA
1 GGTAGATGATTGATGGAA--AAGTCTCCTAG-GTCTAAGCCGACGGGCAGACGATTGACAAAGGA
* * * * **
530950 AGCCTCACGGGTCTGAGCCGATG
63 AGTCTCCCGAGTCTAAGCCGACA
* * * * * * * *
530973 GGCAGATAATTGATGGAAATGTCT-CTTGGATCTAAGCCAACAGGCAGACGATTGACAAAAGAAA
1 GGTAGATGATTGATGGAAAAGTCTCCTAGG-TCTAAGCCGACGGGCAGACGATTGACAAAGGAAG
** **
531037 TCTCCCGAGTCTAAGCTAATG
65 TCTCCCGAGTCTAAGCCGACA
* ** * * * * * * * **
531058 GGCAGATGAAAGATGAAAAAGTCTCCTAGGTCTAAGTCGACAGACAGATGGTGGATGAAGGAAGT
1 GGTAGATGATTGATGGAAAAGTCTCCTAGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGT
* * *
531123 CTCCCGGGACTAAGCTGACA
66 CTCCCGAGTCTAAGCCGACA
** * * ** * *
531143 GGTAGACAATGGAT-GAAGAAGGCTCCCGGGTCTAAGTCGACGGGCAGACGATTGATAAAGGAAG
1 GGTAGATGATTGATGGAA-AAGTCTCCTAGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAG
* * *
531207 TCTCTC-AGGTCTAAGCCAATA
65 TCTCCCGA-GTCTAAGCCGACA
* *
531228 GGCAGACGATTGAT
1 GGTAGATGATTGAT
531242 AAAGGAAGTC
Statistics
Matches: 393, Mismatches: 109, Indels: 42
0.72 0.20 0.08
Matches are distributed among these distances:
81 1 0.00
82 26 0.07
83 33 0.08
84 10 0.03
85 222 0.56
86 95 0.24
87 4 0.01
88 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.20
Consensus pattern (85 bp):
GGTAGATGATTGATGGAAAAGTCTCCTAGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGT
CTCCCGAGTCTAAGCCGACA
Found at i:531219 original size:128 final size:127
Alignment explanation
Indices: 531076--531406 Score: 366
Period size: 128 Copynumber: 2.6 Consensus size: 127
531066 AAAGATGAAA
* *
531076 AAGTCTC-CTAGGTCTAAGTCGACAGACAGATGGTGGATGAAGGAAGTCTCCCGGGACTAAGCTG
1 AAGTCTCTCTAGGTCTAAG-CGACAGACAGACGATGGATGAAGGAAGTCTCCCGGGACTAAGC-G
* *
531140 ACAGGTAGACAATGGATGAAGAAGGCTCCCGGGTCTAAGTCGACGGGCAGACGATTGATAAAGG
64 ACAGGCAGACAATGGATGAAGAAGGCTCCCGAGTCTAAGTCGACGGGCAGACGATTGATAAAGG
* * * * * * ** *
531204 AAGTCTCTC-AGGTCTAAGCCAATAGGCAGACGATTGATAAAGGAAGTCCCCCAAGACTGAGCCG
1 AAGTCTCTCTAGGTCTAAG-CGACAGACAGACGATGGATGAAGGAAGTCTCCCGGGACTAAG-CG
* * * * *
531268 ACAGGCAGACTATGGATGAAGAAGTCTCCTGAGTCTTAGTCGACGGGCAGACGGTTGATAAAGG
64 ACAGGCAGACAATGGATGAAGAAGGCTCCCGAGTCTAAGTCGACGGGCAGACGATTGATAAAGG
* * * *
531332 AAGTCT-TCTGGGACTAAGCTGAC-GAGCAGACAATGGATGAA-GAAGTCTCCCGGGTCTAAGCG
1 AAGTCTCTCTAGGTCTAAGC-GACAGA-CAGACGATGGATGAAGGAAGTCTCCCGGGACTAAGCG
*
531394 ACGGGCAGACAAT
64 ACAGGCAGACAAT
531407 TGATAAAAGA
Statistics
Matches: 164, Mismatches: 34, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
126 13 0.08
127 18 0.11
128 131 0.80
129 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.18
Consensus pattern (127 bp):
AAGTCTCTCTAGGTCTAAGCGACAGACAGACGATGGATGAAGGAAGTCTCCCGGGACTAAGCGAC
AGGCAGACAATGGATGAAGAAGGCTCCCGAGTCTAAGTCGACGGGCAGACGATTGATAAAGG
Found at i:531294 original size:85 final size:82
Alignment explanation
Indices: 531174--531422 Score: 228
Period size: 85 Copynumber: 2.9 Consensus size: 82
531164 GCTCCCGGGT
* * * * * **
531174 CTAAGTCGACGGGCAGACGATTGATAAAGGAAGTCTCTCAGGTCTAAGCCAATAGGCAGACGATT
1 CTAAGCCGAC-GGCAGACAATGGATGAA-GAAGTCTC-CAGGTCTAAG-CGACGGGCAGACGATT
531239 GATAAAGGAAGTCCCCCAAGA
62 GATAAAGGAAGTCCCCCAAGA
* * * * *
531260 CTGAGCCGACAGGCAGACTATGGATGAAGAAGTCTCCTGAGTCTTAGTCGACGGGCAGACGGTTG
1 CTAAGCCGAC-GGCAGACAATGGATGAAGAAGTCTCCAG-GTCTAAG-CGACGGGCAGACGATTG
** ***
531325 ATAAAGGAAGTCTTCTGGGA
63 ATAAAGGAAGTCCCCCAAGA
* * *
531345 CTAAGCTGACGAGCAGACAATGGATGAAGAAGTCTCCCGGGTCTAAGCGACGGGCAGACAATTGA
1 CTAAGCCGACG-GCAGACAATGGATGAAGAAGTCT-CCAGGTCTAAGCGACGGGCAGACGATTGA
*
531410 TAAAAGAAGTCCC
64 TAAAGGAAGTCCC
531423 TAGGTCTAAG
Statistics
Matches: 132, Mismatches: 28, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
84 29 0.22
85 78 0.59
86 25 0.19
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.18
Consensus pattern (82 bp):
CTAAGCCGACGGCAGACAATGGATGAAGAAGTCTCCAGGTCTAAGCGACGGGCAGACGATTGATA
AAGGAAGTCCCCCAAGA
Found at i:531317 original size:42 final size:41
Alignment explanation
Indices: 531069--531517 Score: 231
Period size: 42 Copynumber: 10.6 Consensus size: 41
531059 GCAGATGAAA
* * * * ***
531069 GATGAAAAAGTCTCCTAGGTCTAAGTCGACAGACAGATGGTG
1 GATGAAGAAGTCTCCTGGGTCTAAG-CGACGGGCAGACAATG
* * * *
531111 GATGAAGGAAGTCTCCCGGGACTAAGCTGACAGGTAGACAATG
1 GATGAA-GAAGTCTCCTGGGTCTAAGC-GACGGGCAGACAATG
* * * *
531154 GATGAAGAAGGCTCCCGGGTCTAAGTCGACGGGCAGACGATT
1 GATGAAGAAGTCTCCTGGGTCTAAG-CGACGGGCAGACAATG
* * * ** * *
531196 GATAAAGGAAGTCT-CTCAGGTCTAAGCCAATAGGCAGACGATT
1 GATGAA-GAAGTCTCCT-GGGTCTAAG-CGACGGGCAGACAATG
* * *** * * * *
531239 GATAAAGGAAGTCCCCCAAGACTGAGCCGACAGGCAGACTATG
1 GATGAA-GAAGTCTCCTGGGTCTAAG-CGACGGGCAGACAATG
* * ** *
531282 GATGAAGAAGTCTCCTGAGTCTTAGTCGACGGGCAGACGGTT
1 GATGAAGAAGTCTCCTGGGTCTAAG-CGACGGGCAGACAATG
* * * *
531324 GATAAAGGAAGTCTTCTGGGACTAAGCTGACGAGCAGACAATG
1 GATGAA-GAAGTCTCCTGGGTCTAAGC-GACGGGCAGACAATG
* *
531367 GATGAAGAAGTCTCCCGGGTCTAAGCGACGGGCAGACAATT
1 GATGAAGAAGTCTCCTGGGTCTAAGCGACGGGCAGACAATG
* * *
531408 GATAAAAGAAGTC-CCTAGGTCTAAGCTGACGGG-TGAACGAA-G
1 GAT-GAAGAAGTCTCCTGGGTCTAAGC-GACGGGCAG-AC-AATG
* * ** * * * *
531450 GATGAAGAAGTCTCTTAGAACTGAGCCAATGAGCAGACAATG
1 GATGAAGAAGTCTCCTGGGTCTAAG-CGACGGGCAGACAATG
*
531492 GATGAAGAAGTCTCCCGGGTCTAAGC
1 GATGAAGAAGTCTCCTGGGTCTAAGC
531518 CGATGAGCAC
Statistics
Matches: 313, Mismatches: 78, Indels: 33
0.74 0.18 0.08
Matches are distributed among these distances:
41 39 0.12
42 142 0.45
43 131 0.42
44 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.18
Consensus pattern (41 bp):
GATGAAGAAGTCTCCTGGGTCTAAGCGACGGGCAGACAATG
Found at i:531463 original size:83 final size:85
Alignment explanation
Indices: 531228--531463 Score: 239
Period size: 85 Copynumber: 2.8 Consensus size: 85
531218 TAAGCCAATA
* * * * * * * *
531228 GGCAGACGATTGATAAAGGAAGTCCCCCAAGACTGAGCCGAC-AGGCAGACTATGGATGAAGAAG
1 GGCAGACAATTGATAAAAGAAGTCTCCTAGGACTAAGCTGACGA-GCAGACAATGGATGAAGAAG
* *
531292 TCTCCTGAGTCTTAGTCGACG
65 TCTCCCGAGTCTAAGTCGACG
** * * *
531313 GGCAGACGGTTGATAAAGGAAGTCTTCTGGGACTAAGCTGACGAGCAGACAATGGATGAAGAAGT
1 GGCAGACAATTGATAAAAGAAGTCTCCTAGGACTAAGCTGACGAGCAGACAATGGATGAAGAAGT
*
531378 CTCCCGGGTCTAAG-CGACG
66 CTCCCGAGTCTAAGTCGACG
* **
531397 GGCAGACAATTGATAAAAGAAGTC-CCTAGGTCTAAGCTGACG-GGTGAACGAA-GGATGAAGAA
1 GGCAGACAATTGATAAAAGAAGTCTCCTAGGACTAAGCTGACGAGCAG-AC-AATGGATGAAGAA
531459 GTCTC
64 GTCTC
531464 TTAGAACTGA
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
82 2 0.02
83 32 0.25
84 28 0.22
85 65 0.51
86 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.18
Consensus pattern (85 bp):
GGCAGACAATTGATAAAAGAAGTCTCCTAGGACTAAGCTGACGAGCAGACAATGGATGAAGAAGT
CTCCCGAGTCTAAGTCGACG
Found at i:531585 original size:43 final size:42
Alignment explanation
Indices: 531449--531592 Score: 128
Period size: 42 Copynumber: 3.4 Consensus size: 42
531439 GGTGAACGAA
* * **
531449 GGATGAAGAAGTCTCT-TAGAACTGAGCCAATGAGCAGACAAT
1 GGATGAAGAAGTCTCTCT-GGACTGAGCCGATGAGCAGATGAT
* * * * *
531491 GGATGAAGAAGTCTCCCGGGTCTAAGCCGATGAGCACATGAT
1 GGATGAAGAAGTCTCTCTGGACTGAGCCGATGAGCAGATGAT
* ** * *
531533 TGACAAAGAAAGTCTCTCTGGACTGAGTCGATGGGCAGATGAT
1 GGATGAAG-AAGTCTCTCTGGACTGAGCCGATGAGCAGATGAT
*
531576 GGATGAAGAAGTTTCTC
1 GGATGAAGAAGTCTCTC
531593 GGATCTAAGC
Statistics
Matches: 77, Mismatches: 23, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
42 45 0.58
43 32 0.42
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (42 bp):
GGATGAAGAAGTCTCTCTGGACTGAGCCGATGAGCAGATGAT
Found at i:531671 original size:43 final size:43
Alignment explanation
Indices: 531624--531834 Score: 199
Period size: 43 Copynumber: 4.9 Consensus size: 43
531614 CTTGAAGGTA
* *
531624 AAGAAGTCTTCAGGGTTAAAGCCGACAGGTAGACTTAAGGGGG
1 AAGAAGTCTCCAGGGTCAAAGCCGACAGGTAGACTTAAGGGGG
* * * * *
531667 AAGAAGTCTCCAGGGTCAAAGCCGATAGGCACACTTTAGGGAG
1 AAGAAGTCTCCAGGGTCAAAGCCGACAGGTAGACTTAAGGGGG
* * * *
531710 AAGAAGTCTCTAGAGTCAAAGCCGACGGGTAGACTTATA-GAGG
1 AAGAAGTCTCCAGGGTCAAAGCCGACAGGTAGACTTA-AGGGGG
* * * * * * **
531753 AAGAAGTCCCCAGTGTCAAAGCCGACAGGCACACTTTAGTGCA
1 AAGAAGTCTCCAGGGTCAAAGCCGACAGGTAGACTTAAGGGGG
* * * *
531796 AAGAAATCTCCAGGGTCAAAGCTGACAAGAAGACTTAAG
1 AAGAAGTCTCCAGGGTCAAAGCCGACAGGTAGACTTAAG
531835 ATTAAAGTAT
Statistics
Matches: 131, Mismatches: 35, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
42 1 0.01
43 129 0.98
44 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.17
Consensus pattern (43 bp):
AAGAAGTCTCCAGGGTCAAAGCCGACAGGTAGACTTAAGGGGG
Found at i:531731 original size:86 final size:86
Alignment explanation
Indices: 531623--531834 Score: 259
Period size: 86 Copynumber: 2.5 Consensus size: 86
531613 ACTTGAAGGT
* * *
531623 AAAGAAGTCT-TCAGGGTTAAAGCCGACAGGTAGACTTAAGGGGGAAGAAGTCTCCAGGGTCAAA
1 AAAGAAGTCTCT-AGGGTCAAAGCCGACAGGTAGACTTAAGGAGGAAGAAGTCCCCAGGGTCAAA
* *
531687 GCCGATAGGCACACTTTAG-GG
65 GCCGACAGGCACACTTTAGTGC
* * *
531708 AGAAGAAGTCTCTAGAGTCAAAGCCGACGGGTAGACTTATA-GAGGAAGAAGTCCCCAGTGTCAA
1 A-AAGAAGTCTCTAGGGTCAAAGCCGACAGGTAGACTTA-AGGAGGAAGAAGTCCCCAGGGTCAA
531772 AGCCGACAGGCACACTTTAGTGC
64 AGCCGACAGGCACACTTTAGTGC
* * * * *
531795 AAAGAAATCTCCAGGGTCAAAGCTGACAAGAAGACTTAAG
1 AAAGAAGTCTCTAGGGTCAAAGCCGACAGGTAGACTTAAG
531835 ATTAAAGTAT
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
85 2 0.02
86 101 0.94
87 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.17
Consensus pattern (86 bp):
AAAGAAGTCTCTAGGGTCAAAGCCGACAGGTAGACTTAAGGAGGAAGAAGTCCCCAGGGTCAAAG
CCGACAGGCACACTTTAGTGC
Found at i:532008 original size:43 final size:44
Alignment explanation
Indices: 531911--532008 Score: 101
Period size: 43 Copynumber: 2.2 Consensus size: 44
531901 AATGCAAATT
* * *
531911 GTTTGACCTGGGTGGTAACCATATGTCAAACAAGAAGGAGGTAGA
1 GTTTG-CCTAGGTGGTAACCATACGTCAAACAAGAAAGAGGTAGA
* * * * *
531956 -TTTGACTAGGTGGTAACCATACGTCAGATAGGAAATAGG-AGA
1 GTTTGCCTAGGTGGTAACCATACGTCAAACAAGAAAGAGGTAGA
531998 GTTTGCCTAGG
1 GTTTGCCTAGG
532009 CCCTAAGACC
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
42 3 0.07
43 36 0.84
44 4 0.09
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (44 bp):
GTTTGCCTAGGTGGTAACCATACGTCAAACAAGAAAGAGGTAGA
Found at i:536884 original size:31 final size:31
Alignment explanation
Indices: 536834--536892 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
536824 TCCATGTGAG
*
536834 AAAATCGAGATTTTATAATTGTTTAAAACAA
1 AAAATCGAGATTTTATAATTGTCTAAAACAA
* * *
536865 AAAATCGGGGTTTTGTAATTGTCTAAAA
1 AAAATCGAGATTTTATAATTGTCTAAAA
536893 GTCATAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (31 bp):
AAAATCGAGATTTTATAATTGTCTAAAACAA
Found at i:537863 original size:154 final size:150
Alignment explanation
Indices: 537213--538147 Score: 618
Period size: 155 Copynumber: 6.1 Consensus size: 150
537203 AAAAAAAAAA
* * * ** * *
537213 ACGAAAATACCCT-TAGGGGATACCTTCGACGTGAAAGTATCCCGGTACCCCTAAATGAC-CAGA
1 ACGAAAATGCCCTAT-GGGTATACCTTCGACGTAAAAGTA-CCCAATA-CCCTAAAGGACTTA-A
** * *
537276 AAAGA-TCAGAAAAAGGATGAACCTATCATAAATGCCCACTTTGGCATAAAAGTGGACCCGGTGA
62 AAAGACT-AGAAATGGGATGAACCTATCCTAAATGCCCACTTTGGCATAAAAG-CGACCCGGTGA
* * * *
537340 CGACTTAGAAGTTGGTTCT--AAAATT
125 CAACCTAGGACTT-GTTCTAAAAAATT
* * ** * * * * * *
537365 ATGAAAATAGCTCTACAGGTATACCTTCGACATAAAAGTATCTCGATAATCTTAAAGAACTTAAA
1 ACGAAAAT-GCCCTATGGGTATACCTTCGACGTAAAAGTA-CCCAAT-ACCCTAAAGGACTTAAA
* * * * **
537430 AAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTCGACACAAAAGCGAACCTAGTGAC
63 AAGACTAGAAATGGGATGAACCTATCCTAAATGCCCA-CTTTGGCATAAAAGCG-ACCCGGTGAC
*
537495 AACCTAGGACTCGATTCTAAAAAAATT
126 AACCTAGGACTTG-TTCT-AAAAAATT
* **** ** * *
537522 ACCAAAATGCCCT-TAAAAATACCTTCGACGTAAAAGTACCTGATACCCT-TAGTAGACACTAAA
1 ACGAAAATGCCCTATGGGTATACCTTCGACGTAAAAGTACCCAATACCCTAAAG--GAC-TTAAA
* * * * *
537585 AAGAATAGATAA-GAGATGAACCTATCCTGAATGCCCACTTTTGGCTTTAAAAGCGAACCCGATG
63 AAGACTAGA-AATGGGATGAACCTATCCTAAATGCCCAC-TTTGGC-ATAAAAGCG-ACCCGGTG
* * *
537649 ACGAA-CTAAGAGTTGGTTTTAAAAAATT
124 AC-AACCTAGGACTT-GTTCTAAAAAATT
* * **
537677 ACAAAAATGCCCCT-TGGGGATACCTTCGACGTAAAAGTACTTAATACCCTAAAGGACTTAAAAA
1 ACGAAAATG-CCCTATGGGTATACCTTCGACGTAAAAGTACCCAATACCCTAAAGGACTTAAAAA
* *
537741 GACTAGAAATGGTGATGAACCTATCCTAAATGCCAAGCTTTGGCATAAAAGCAGATCCGGTGACA
65 GACTAGAAATGG-GATGAACCTATCCTAAATGCCCA-CTTTGGCATAAAAGC-GACCCGGTGACA
* **
537806 ACTTAGGACTTGTTCTAGGAAATT
127 ACCTAGGACTTGTTCTAAAAAATT
* * *
537830 ACGAAAATGTCTCTATGGGTATACCTTCAACGTAAAAGTACCCCAGCA-ACCCTAAAAGACTTAA
1 ACGAAAATG-CCCTATGGGTATACCTTCGACGTAAAAGTA-CCCA--ATACCCTAAAGGACTTAA
* * * * * *
537894 AAAGACTAGAAAAGGG-TAAACCTATCCTAAATACCCACCTTTAGCATAAAAGTGGACTCGGTGA
62 AAAGACTAGAAATGGGATGAACCTATCCTAAATGCCCA-CTTTGGCATAAAAG-CGACCCGGTGA
* ** * *
537958 TAACCTACAACTCGATTCTAAGAAATT
125 CAACCTAGGACTTG-TTCTAAAAAATT
* * * * *
537985 ATGAAAATGCCCCTATGGGTATACATTCGACGTAAAAGTACCCCGATAACCTTAAAAGACTTAAA
1 ACGAAAATG-CCCTATGGGTATACCTTCGACGTAAAAGTA-CCCAAT-ACCCTAAAGGACTTAAA
* * * * * * * * *
538050 AAGACCATAAAAGGG-TGAACATATCCTAAATACCCACATTCGGCATAAAAACAGACTCGGTGAT
63 AAGACTAGAAATGGGATGAACCTATCCTAAATGCCCAC-TTTGGCATAAAAGC-GACCCGGTGAC
* *
538114 AACCTAAGACTCGATTCTAAAAAATT
126 AACCTAGGACTTG-TTCTAAAAAATT
*
538140 ACAAAAAT
1 ACGAAAAT
538148 ACCCCTAAAG
Statistics
Matches: 622, Mismatches: 125, Indels: 69
0.76 0.15 0.08
Matches are distributed among these distances:
152 9 0.01
153 99 0.16
154 146 0.23
155 257 0.41
156 93 0.15
157 18 0.03
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (150 bp):
ACGAAAATGCCCTATGGGTATACCTTCGACGTAAAAGTACCCAATACCCTAAAGGACTTAAAAAG
ACTAGAAATGGGATGAACCTATCCTAAATGCCCACTTTGGCATAAAAGCGACCCGGTGACAACCT
AGGACTTGTTCTAAAAAATT
Found at i:538165 original size:309 final size:302
Alignment explanation
Indices: 537216--538171 Score: 824
Period size: 309 Copynumber: 3.1 Consensus size: 302
537206 AAAAAAAACG
* ** * * * * *
537216 AAAATACCCTTAGGGGATACCTTCGACGTGAAAGTATCCCGGTACCCCTAAATGACCAGAAAAGA
1 AAAATACCCCTAAAGGATACCTTCGACGTAAAAGTA-CCCAG-AACCCTAAAAGACTA-AAAAGA
* * *
537281 TCAGAAAAAGGATGAACCTATCATAAATGCCCA-CTTTGGCATAAAAGTGGACCCGGTGACGACT
63 T-AG-AAAAGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGTGGACCCGGTGACAACC
* ** *
537345 TAGAAGTTGGTTCT-AAAATTATGAAAATAG-CTCTACAGGTATACCTTCGACATAAAAGTATCT
126 TA-AAGTTGGTTCTAAAAATTATGAAAAT-GCCCCTATGGGTATACCTTCGACGTAAAAGTA-CT
* *
537408 CGATAATCTT-AAAGAACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTC
188 CGATAACCTTAAAAG-ACTTAAAAAGACTAGAAATGGGATGAACCTATCCTAAATGCCCA-CTTC
* * * *
537472 GACACAAAAGC-GAAC-CTAGTGACAACCTAGGACTCGATTCTAAAAAAATTACC
251 GGCATAAAAGCAG-ACTC-GGTGACAACCTAGGACTCGATTCT-AAAAAATTACA
* * * * * *
537525 AAAATGCCCTTAAA-AATACCTTCGACGTAAAAGTA-CCTGATACCCTTAGTAGACACTAAAAAG
1 AAAATACCCCTAAAGGATACCTTCGACGTAAAAGTACCCAGA-ACCC-TA--AAAGACTAAAAAG
* * * * * * *
537588 AATAGATAAGAGATGAACCTATCCTGAATGCCCACTTTTGGCTTTAAAAGCGAACCCGATGACGA
62 -ATAGAAAAG-GATGAACCTATCCTAAATGCCCACCTTTGGC-ATAAAAGTGGACCCGGTGAC-A
* ** *
537653 A-CTAAGAGTTGGTTTTAAAAAATTACAAAAATGCCCCT-TGGGGATACCTTCGACGTAAAAGTA
123 ACCTAA-AGTTGGTTCT-AAAAATTATGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTA
** * * *
537716 CTTAAT-ACCCTAAAGGACTTAAAAAGACTAGAAATGGTGATGAACCTATCCTAAATGCCAAGCT
186 CTCGATAACCTTAAAAGACTTAAAAAGACTAGAAATGG-GATGAACCTATCCTAAATGCCCA-CT
* * * ** *
537780 TTGGCATAAAAGCAGA-TCCGGTGACAACTTAGGACTTG-TTCTAGGAAATTACG
249 TCGGCATAAAAGCAGACT-CGGTGACAACCTAGGACTCGATTCTAAAAAATTACA
** * ** *
537833 AAAATGTCTCTATGGGTATACCTTCAACGTAAAAGTACCCCAGCAACCCTAAAAGACTTAAAAAG
1 AAAATACCCCTAAAGG-ATACCTTCGACGTAAAAGTA-CCCAG-AACCCTAAAAGAC-TAAAAAG
* * * * * *
537898 ACTAGAAAAGGGTAAACCTATCCTAAATACCCACCTTTAGCATAAAAGTGGACTCGGTGATAACC
62 A-TAGAAAAGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGTGGACCCGGTGACAACC
* * * * *
537963 TACAACTCGATTCTAAGAAATTATGAAAATGCCCCTATGGGTATACATTCGACGTAAAAGTACCC
126 TA-AAGTTGGTTCTAA-AAATTATGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTA-CT
* * * * *
538028 CGATAACCTTAAAAGACTTAAAAAGACCATAAAAGGG-TGAACATATCCTAAATACCCACATTCG
188 CGATAACCTTAAAAGACTTAAAAAGACTAGAAATGGGATGAACCTATCCTAAATGCCCAC-TTCG
* * *
538092 GCATAAAAACAGACTCGGTGATAACCTAAGACTCGATTCTAAAAAATTACA
252 GCATAAAAGCAGACTCGGTGACAACCTAGGACTCGATTCTAAAAAATTACA
*
538143 AAAATACCCCTAAAGGATACCTTTGACGT
1 AAAATACCCCTAAAGGATACCTTCGACGT
538172 GAAGTGCTCG
Statistics
Matches: 509, Mismatches: 104, Indels: 68
0.75 0.15 0.10
Matches are distributed among these distances:
305 1 0.00
306 6 0.01
307 10 0.02
308 105 0.21
309 165 0.32
310 146 0.29
311 53 0.10
312 22 0.04
313 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (302 bp):
AAAATACCCCTAAAGGATACCTTCGACGTAAAAGTACCCAGAACCCTAAAAGACTAAAAAGATAG
AAAAGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGTGGACCCGGTGACAACCTAAAG
TTGGTTCTAAAAATTATGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTACTCGATAACC
TTAAAAGACTTAAAAAGACTAGAAATGGGATGAACCTATCCTAAATGCCCACTTCGGCATAAAAG
CAGACTCGGTGACAACCTAGGACTCGATTCTAAAAAATTACA
Found at i:539185 original size:164 final size:163
Alignment explanation
Indices: 538745--539202 Score: 614
Period size: 167 Copynumber: 2.8 Consensus size: 163
538735 AACGATTAAT
* * * * *
538745 ATTTATTTATTTTTGGAAAAAAAATTATTTTGTACCTTAATGGATACCCGAAAAAATACGAAAAG
1 ATTTATTTATGTTTGG-AAAAAAATAATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAG
** * * *
538810 -TTTTTGAAATCTTATACACCTCTACGGATACCCATAGGAATATAAAAAATTAAAAATAATTAAT
65 TTTTTTGAAATCTTATATGCC-CTACGAATACCCATAAGAATATAAAAGATTAAAAATAATTAAT
*
538874 ATTTATTTAAATTAACGGGGAATGAATTTAATATC
129 ATTTATTTAAATTAACGAGGAATGAATTTAATATC
** * *
538909 ATTTATTTATGTATGTTTAAAAAAAATAATTTCATACCTTAATAGATACCCAAAAAGATACGAAA
1 ATTTATTTATG--T-TTGGAAAAAAATAATTTCGTACCTTAATAGATACCCGAAAAGATACGAAA
** *
538974 TTTTTTTTAAAATCTTATATGCCCTTACGAATACCCAT-AGAAATATAAAAGATTAAAAATAATT
63 AGTTTTTTGAAATCTTATATGCCC-TACGAATACCCATAAG-AATATAAAAGATTAAAAATAATT
*
539038 AATATTTATTTAAATTAACGAGGAGTGAATTTAATATC
126 AATATTTATTTAAATTAACGAGGAATGAATTTAATATC
* * *
539076 ATTTATTTATGTTTGGAAAAAAATAATTTCGTTCCTTAATAAATACCTGAAAAGATACGAAAAGT
1 ATTTATTTATGTTTGGAAAAAAATAATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAGT
539141 TTTTTGAAATCTTATATGCCCTAACGAATACCCATAAGAATATAAAAGATTTAAAAAATAAT
66 TTTTTGAAATCTTATATGCCCT-ACGAATACCCATAAGAATATAAAAGA-TT-AAAAATAAT
539203 AAATGTTGAA
Statistics
Matches: 255, Mismatches: 29, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
163 1 0.00
164 97 0.38
165 5 0.02
166 52 0.20
167 100 0.39
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (163 bp):
ATTTATTTATGTTTGGAAAAAAATAATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAGT
TTTTTGAAATCTTATATGCCCTACGAATACCCATAAGAATATAAAAGATTAAAAATAATTAATAT
TTATTTAAATTAACGAGGAATGAATTTAATATC
Found at i:541040 original size:166 final size:164
Alignment explanation
Indices: 540664--541126 Score: 610
Period size: 165 Copynumber: 2.8 Consensus size: 164
540654 GAAAATAGGG
* * * * * *
540664 ATTTCAAAGAAAAAATTCAAAAACTCATGCATATGAATGAATTTTTGAAATCAGAATTAATATGA
1 ATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTAAAAACTGAATTAATATGA
* * * *
540729 AATAAATAATGATATTTGATAAATTTTAAAAATTGAAAACCTCA-AAAAATCCCCTCAACAAAAT
66 AATAAATAAT-ATATTTGATGAATTTTAAAAATTGAAAACC-AAGAAAAATCCTCTCAAAAAAAT
*
540793 TACAGAGTAAAAAACACCGTATTTTGGAAAAGGGAA
129 TACAGAGTAAAAAACACCGTATTTTGAAAAAGGGAA
*
540829 ATTTCAAGGAAAAAATTCAAAAACTCATCAAAATGAATGAATTTTTAAAAACTGAATTAATATGA
1 ATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTAAAAACTGAATTAATATGA
* *
540894 AATAAATGATATTATTTAATGAATTTTAAAAATTGAAAACCAAGAAAAATCCTCTCGAAAAAAAT
66 AATAAATAATA-TATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCTCTC-AAAAAAAT
* *
540959 TACAGAGTAGAAAACACCGTATTTTAGAAAAAGGGAT
129 TACAGAGTAAAAAACACCGTATTTT-GAAAAAGGGAA
* * *
540996 ATTTTAAGGAAAAAA-TCAAAAACTCATGAAAATGAATTAATTTTTGAAAAA-TGATTTAATAT-
1 ATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTT-AAAAACTGAATTAATATG
* ** * *
541058 AAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAATTATGAAAAATCCTCCCAAAAAAA
65 AAA-TAAATAAT-ATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCTCTCAAAAAAA
541123 TTAC
128 TTAC
541127 GGAAAAGAAA
Statistics
Matches: 264, Mismatches: 27, Indels: 14
0.87 0.09 0.05
Matches are distributed among these distances:
164 2 0.01
165 119 0.45
166 114 0.43
167 29 0.11
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (164 bp):
ATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTAAAAACTGAATTAATATGA
AATAAATAATATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCTCTCAAAAAAATTA
CAGAGTAAAAAACACCGTATTTTGAAAAAGGGAA
Found at i:547499 original size:16 final size:15
Alignment explanation
Indices: 547468--547514 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
547458 ACCTATAATC
* *
547468 TATAATTTATAAAAA
1 TATAAATTAAAAAAA
547483 TATAAATATAAAAAAA
1 TATAAAT-TAAAAAAA
*
547499 TTTAAATTAAAAAAA
1 TATAAATTAAAAAAA
547514 T
1 T
547515 TATTATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TATAAATTAAAAAAA
Found at i:547515 original size:15 final size:16
Alignment explanation
Indices: 547478--547515 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
547468 TATAATTTAT
*
547478 AAAAATATAAATATAA
1 AAAAATTTAAATATAA
547494 AAAAATTTAAAT-TAA
1 AAAAATTTAAATATAA
547509 AAAAATT
1 AAAAATT
547516 ATTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTTAAATATAA
Found at i:548460 original size:16 final size:16
Alignment explanation
Indices: 548435--548468 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
548425 TTACGTTGTC
*
548435 ATTATAAATAATTTTT
1 ATTATAAATAATATTT
*
548451 ATTATTAATAATATTT
1 ATTATAAATAATATTT
548467 AT
1 AT
548469 CTAATTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATAAATAATATTT
Found at i:548691 original size:2 final size:2
Alignment explanation
Indices: 548684--548716 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
548674 TCATTGCTTA
548684 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
548717 CACATCTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:550859 original size:27 final size:27
Alignment explanation
Indices: 550821--550873 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
550811 TGCAACCTTC
*
550821 ACTGTTTCAAATTGAATTTCATAATTT
1 ACTGTTTCAAATTGAATTTCAAAATTT
550848 ACTGTTTCAAATTGAATTTCAAAATT
1 ACTGTTTCAAATTGAATTTCAAAATT
550874 GACGGCACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (27 bp):
ACTGTTTCAAATTGAATTTCAAAATTT
Found at i:551045 original size:21 final size:20
Alignment explanation
Indices: 551021--551059 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
551011 AAATATCAAT
551021 TAAAACTAAAAATTTTTACTA
1 TAAAA-TAAAAATTTTTACTA
* *
551042 TAAAATAGATATTTTTAC
1 TAAAATAAAAATTTTTAC
551060 CATTATTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (20 bp):
TAAAATAAAAATTTTTACTA
Found at i:551608 original size:16 final size:16
Alignment explanation
Indices: 551583--551616 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
551573 TTACGTTGTC
*
551583 ATTATAAATAATTTTT
1 ATTATAAATAATATTT
*
551599 ATTATTAATAATATTT
1 ATTATAAATAATATTT
551615 AT
1 AT
551617 CTAATTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATAAATAATATTT
Found at i:551839 original size:2 final size:2
Alignment explanation
Indices: 551832--551868 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
551822 TCATTGCTTA
551832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
551869 CACATCTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:552509 original size:58 final size:59
Alignment explanation
Indices: 552445--552565 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 59
552435 TTAGGAAATA
** * *
552445 AATATAATTGTACCTTATTTTGAGAATAAAAATTTATAAGAACTT-TAGAAAAACTCAC
1 AATATAATTACACCTTATTTTGAGAATAAAAATTTATAAGAACTTAAAAAAAAACTCAC
*
552503 AATATAATTACACCTTATTTTGAGAATAAAGATTTATAAGAACTTAAAAAAAAAACTCAC
1 AATATAATTACACCTTATTTTGAGAATAAAAATTTATAAGAACTT-AAAAAAAAACTCAC
552563 AAT
1 AAT
552566 CTTTGTGCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 42 0.75
60 14 0.25
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (59 bp):
AATATAATTACACCTTATTTTGAGAATAAAAATTTATAAGAACTTAAAAAAAAACTCAC
Found at i:560126 original size:51 final size:51
Alignment explanation
Indices: 560068--560181 Score: 158
Period size: 51 Copynumber: 2.2 Consensus size: 51
560058 AATAGCCTGC
* *
560068 ATGTATCGATACATTGAAGAATGTATCGATACATTT-AGGTCAAAACCCAAA
1 ATGTATCGATACAATGAAGAATGTATCAATACATTTGA-GTCAAAACCCAAA
* * *
560119 ATGTATCGATACAATGAATAATGTATCAATACATTTGAGTTAAAACCCAGA
1 ATGTATCGATACAATGAAGAATGTATCAATACATTTGAGTCAAAACCCAAA
*
560170 ATGTATCAATAC
1 ATGTATCGATAC
560182 TTTTCTTTCC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACAATGAAGAATGTATCAATACATTTGAGTCAAAACCCAAA
Found at i:563967 original size:21 final size:20
Alignment explanation
Indices: 563929--563967 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
563919 TTTGGCCTAA
**
563929 ATTTAAAGTGATCTAATAAG
1 ATTTAAAGTGATAAAATAAG
563949 ATTTAAAGCTGATAAAATA
1 ATTTAAAG-TGATAAAATA
563968 TGGGCTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (20 bp):
ATTTAAAGTGATAAAATAAG
Found at i:567857 original size:21 final size:20
Alignment explanation
Indices: 567833--567879 Score: 71
Period size: 18 Copynumber: 2.4 Consensus size: 20
567823 TGGATTGATG
567833 CCATGAATAAAGAGATTATGT
1 CCATGAA-AAAGAGATTATGT
567854 CCATG--AAAGAGATTATGT
1 CCATGAAAAAGAGATTATGT
567872 CCATGAAA
1 CCATGAAA
567880 GATAATGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 18 0.75
20 1 0.04
21 5 0.21
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (20 bp):
CCATGAAAAAGAGATTATGT
Found at i:567864 original size:18 final size:18
Alignment explanation
Indices: 567841--567881 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
567831 TGCCATGAAT
567841 AAAGAGATTATGTCCATG
1 AAAGAGATTATGTCCATG
567859 AAAGAGATTATGTCCATG
1 AAAGAGATTATGTCCATG
567877 AAAGA
1 AAAGA
567882 TAATGACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (18 bp):
AAAGAGATTATGTCCATG
Found at i:568763 original size:19 final size:19
Alignment explanation
Indices: 568724--568777 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
568714 TGTAGCGATA
**
568724 CATTATATCGATACATGCT
1 CATTATATCGATACAAACT
*
568743 CATTGTATCGATACAAACT
1 CATTATATCGATACAAACT
*
568762 CAAATATATCGATACA
1 C-ATTATATCGATACA
568778 TGAAATTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (19 bp):
CATTATATCGATACAAACT
Found at i:568842 original size:13 final size:13
Alignment explanation
Indices: 568824--568853 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
568814 GATATAGGGG
568824 ACATTGTATCCAT
1 ACATTGTATCCAT
*
568837 ACATTGTATCGAT
1 ACATTGTATCCAT
568850 ACAT
1 ACAT
568854 AGTAAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTGTATCCAT
Found at i:570923 original size:75 final size:75
Alignment explanation
Indices: 570795--570949 Score: 292
Period size: 75 Copynumber: 2.1 Consensus size: 75
570785 ACCTTTGAAG
* *
570795 AATTACAAGATGCTTTTGAAGAATGAGCATTAGAATTGGAATCCATGAACATAAGGCATAAAAAG
1 AATTGCAAGATGCTTTTGAAGAATGAGCATTAGAATTGGAATCCATGAACATAAGGCATAAAAAA
570860 ACAATTTTAA
66 ACAATTTTAA
570870 AATTGCAAGATGCTTTTGAAGAATGAGCATTAGAATTGGAATCCATGAACATAAGGCATAAAAAA
1 AATTGCAAGATGCTTTTGAAGAATGAGCATTAGAATTGGAATCCATGAACATAAGGCATAAAAAA
570935 ACAATTTTAA
66 ACAATTTTAA
570945 AATTG
1 AATTG
570950 AAGGAAGAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.27
Consensus pattern (75 bp):
AATTGCAAGATGCTTTTGAAGAATGAGCATTAGAATTGGAATCCATGAACATAAGGCATAAAAAA
ACAATTTTAA
Found at i:577654 original size:13 final size:13
Alignment explanation
Indices: 577636--577662 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
577626 ACATTATGCT
577636 TTATATCGATACA
1 TTATATCGATACA
577649 TTATATCGATACA
1 TTATATCGATACA
577662 T
1 T
577663 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTATATCGATACA
Found at i:577674 original size:19 final size:19
Alignment explanation
Indices: 577647--577702 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
577637 TATATCGATA
*
577647 CATTATATCGATACATGCT
1 CATTGTATCGATACATGCT
**
577666 CATTGTATCGATACAAACT
1 CATTGTATCGATACATGCT
577685 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
577703 AAATTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:577765 original size:13 final size:13
Alignment explanation
Indices: 577747--577776 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
577737 GATACATGGG
577747 ACATTGTATCCAT
1 ACATTGTATCCAT
*
577760 ACATTGTATCGAT
1 ACATTGTATCCAT
577773 ACAT
1 ACAT
577777 AGTAAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTGTATCCAT
Found at i:582943 original size:2 final size:2
Alignment explanation
Indices: 582936--582975 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
582926 CCATGTAATC
582936 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
582976 GACAAATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:591973 original size:18 final size:20
Alignment explanation
Indices: 591950--591996 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
591940 TCCATTTTTT
591950 ATGAAAAA-GTATATTT-AG
1 ATGAAAAATGTATATTTCAG
*
591968 ATGAAAGAATGTATTTTTCAG
1 ATGAAA-AATGTATATTTCAG
*
591989 GTGAAAAA
1 ATGAAAAA
591997 AAGTAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 9 0.38
21 7 0.29
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.32
Consensus pattern (20 bp):
ATGAAAAATGTATATTTCAG
Found at i:595864 original size:33 final size:32
Alignment explanation
Indices: 595822--595885 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
595812 CACACCTAGA
**
595822 TGTATTGATACATATTGTTTTGTATCGATACAT
1 TGTATTGATACATATT-CATTGTATCGATACAT
*
595855 TGTATTGATACATGTTCATTGTATCGATACA
1 TGTATTGATACATATTCATTGTATCGATACA
595886 CACTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (32 bp):
TGTATTGATACATATTCATTGTATCGATACAT
Found at i:595957 original size:20 final size:20
Alignment explanation
Indices: 595932--595986 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
595922 TAAAACTCAT
*
595932 ATTGTATCGATACATGAAGG
1 ATTGTATCGATACATGAAGA
**
595952 ATTGTATCGATACATGGTGA
1 ATTGTATCGATACATGAAGA
*
595972 AATGTATCGATACAT
1 ATTGTATCGATACAT
595987 AGGAGCGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ATTGTATCGATACATGAAGA
Found at i:596779 original size:20 final size:20
Alignment explanation
Indices: 596735--596792 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
596725 ATTTCAATGA
***
596735 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATATTTT
*
596755 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
*
596775 TTTGTATTGATACA-ATTT
1 TTTGTATCGATACATATTT
596793 AAGCTACTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:596920 original size:52 final size:50
Alignment explanation
Indices: 596864--597033 Score: 214
Period size: 52 Copynumber: 3.5 Consensus size: 50
596854 CACTGATCTT
596864 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TAT-AAA
596916 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATAC--AT---
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATATAAA
*
596961 T-T-T--ATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TA-TAAA
* *
597009 TGTATCGATACATGTAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
597034 TCATATTTCG
Statistics
Matches: 105, Mismatches: 2, Indels: 22
0.81 0.02 0.17
Matches are distributed among these distances:
41 35 0.33
43 1 0.01
44 2 0.02
45 2 0.02
48 1 0.01
49 3 0.03
50 1 0.01
52 60 0.57
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (50 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATATAAA
Found at i:596980 original size:41 final size:41
Alignment explanation
Indices: 596923--597000 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
596913 AAATGTATCG
596923 ATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTTT
1 ATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTTT
*
596964 ATACATGCAGGTAAATTTGCCCAGATGTATCGATACA
1 ATACATGCAGGCAAATTTGCCCAGATGTATCGATACA
597001 CTATTAAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (41 bp):
ATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTTT
Found at i:601069 original size:15 final size:15
Alignment explanation
Indices: 601049--601078 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
601039 CCATCAAAGA
601049 TGATGATGAAGATGG
1 TGATGATGAAGATGG
*
601064 TGATGATGATGATGG
1 TGATGATGAAGATGG
601079 AGAAGTTGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.40, T:0.30
Consensus pattern (15 bp):
TGATGATGAAGATGG
Found at i:605461 original size:27 final size:27
Alignment explanation
Indices: 605423--605494 Score: 144
Period size: 27 Copynumber: 2.7 Consensus size: 27
605413 AGTTTAAAAG
605423 TGGGGTTGGAGTATCCCCTCGGAAGAA
1 TGGGGTTGGAGTATCCCCTCGGAAGAA
605450 TGGGGTTGGAGTATCCCCTCGGAAGAA
1 TGGGGTTGGAGTATCCCCTCGGAAGAA
605477 TGGGGTTGGAGTATCCCC
1 TGGGGTTGGAGTATCCCC
605495 GATAAATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.24
Consensus pattern (27 bp):
TGGGGTTGGAGTATCCCCTCGGAAGAA
Found at i:607748 original size:20 final size:20
Alignment explanation
Indices: 607697--607771 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
607687 AAAAAGACAT
607697 AATGTATCGATACATT-AAA
1 AATGTATCGATACATTCAAA
* *
607716 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCAAA
* * * *
607737 CATGTATTGATATATTGAAA
1 AATGTATCGATACATTCAAA
607757 AATGTATCGATACAT
1 AATGTATCGATACAT
607772 CTGGGTAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:607765 original size:40 final size:39
Alignment explanation
Indices: 607694--607771 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
607684 GGTAAAAAGA
607694 CATAATGTATCGATACATTAAAGAATATATCGATACATT
1 CATAATGTATCGATACATTAAAGAATATATCGATACATT
* * *
607733 CATACATGTATTGATATATTGAAA-AATGTATCGATACAT
1 CATA-ATGTATCGATACATT-AAAGAATATATCGATACAT
607772 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 27 0.79
41 3 0.09
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTAAAGAATATATCGATACATT
Done.