Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 65 of 170
Found at i:19293600 original size:40 final size:40
Alignment explanation
Indices: 19293517--19293779 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
19293507 TTGAATGCTG
* * * * * *
19293517 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
19293557 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
19293597 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
19293637 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
19293677 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
19293717 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
19293756 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19293780 TGAACAAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:19293799 original size:79 final size:80
Alignment explanation
Indices: 19293556--19293814 Score: 220
Period size: 80 Copynumber: 3.3 Consensus size: 80
19293546 AAGTGAATAT
* * * * * * *
19293556 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * * *
19293620 TCGTGCGAGTTA-TTAA
65 TCGAACAAG-GAGCTAA
* * *
19293636 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** * ** *
19293701 CGTGCGAGTTGTTAA
66 CGAACAAGGAGCTAA
* * * *
19293716 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
19293780 TGAACAAGGAGCTAT
66 CGAACAAGGAGCTAA
*
19293795 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
19293815 TACGTGATTT
Statistics
Matches: 153, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 46 0.30
80 93 0.61
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACAAGGAGCTAA
Found at i:19297911 original size:200 final size:200
Alignment explanation
Indices: 19297562--19297929 Score: 637
Period size: 200 Copynumber: 1.8 Consensus size: 200
19297552 GCTCGGCGTG
*
19297562 TTCAGTCTCATCTCAAGAATATTTAAAAATATCATCAATAAATACCACAAAAAATCTATCTAAAT
1 TTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAAAT
*
19297627 ACGGTCTAAAGATTCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAGC
66 ACGGTCTAAAGATTCTATTCATCAAATCCATAAATACTGGAGCTGCATTAGTTAAACCAAACAGC
*
19297692 ATCACAAGAAATACATAGTGTCCGTACCTGGTTCTAAATATAGTTTTAAGCACATCCAAATCGAG
131 ATCACAAGAAATACATAGTGTCCGTACCTCGTTCTAAATATAGTTTTAAGCACATCCAAATCGAG
19297757 CATTA
196 CATTA
* * * *
19297762 TTCAGTCTCATCTCAATAATATATCAAAATATCATCAATAAATTCCACAAAAAATCTGTCTAAAT
1 TTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAAAT
* * *
19297827 ACGGTCTGAAGATTCTATTCTTCAAATCCATAAATACTGGAGCTGCATTAGTTAAACCAAACAGG
66 ACGGTCTAAAGATTCTATTCATCAAATCCATAAATACTGGAGCTGCATTAGTTAAACCAAACAGC
*
19297892 ATCACAAGAAATTCATAGTGTCCGTACCTCGTTCTAAA
131 ATCACAAGAAATACATAGTGTCCGTACCTCGTTCTAAA
19297930 GATCAGTCTT
Statistics
Matches: 157, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
200 157 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (200 bp):
TTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAAAT
ACGGTCTAAAGATTCTATTCATCAAATCCATAAATACTGGAGCTGCATTAGTTAAACCAAACAGC
ATCACAAGAAATACATAGTGTCCGTACCTCGTTCTAAATATAGTTTTAAGCACATCCAAATCGAG
CATTA
Found at i:19299135 original size:200 final size:200
Alignment explanation
Indices: 19298792--19299161 Score: 668
Period size: 200 Copynumber: 1.9 Consensus size: 200
19298782 ATGCTCGGCG
19298792 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTGTCTAA
* *
19298857 ATACGGTCTGAAGATTCTATTCATCAAATACATAAATACTGGAGGTGCATTAGTTAAACCAAACA
66 ATACGGTCTGAAGATTCTATTCATCAAATACATAAATACTAGAGGAGCATTAGTTAAACCAAACA
*
19298922 GCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
131 GCATCACAAGAAATTCATAGTGCCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
19298987 AGCAT
196 AGCAT
* * *
19298992 TGTTCAGTCTCATCTCAATAATATATCAAAATATCATCAATAAATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTGTCTAA
*
19299057 ATACGGTCTGAAGATTCTATTCATCAAATCCATAAATACTAGAGGAGCATTAGTTAAACCAAACA
66 ATACGGTCTGAAGATTCTATTCATCAAATACATAAATACTAGAGGAGCATTAGTTAAACCAAACA
*
19299122 GGATCACAAGAAATTCATAGTGCCCGTACCTGGTTCTAAA
131 GCATCACAAGAAATTCATAGTGCCCGTACCTGGTTCTAAA
19299162 GATCAGTCTT
Statistics
Matches: 162, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
200 162 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTGTCTAA
ATACGGTCTGAAGATTCTATTCATCAAATACATAAATACTAGAGGAGCATTAGTTAAACCAAACA
GCATCACAAGAAATTCATAGTGCCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
AGCAT
Found at i:19300400 original size:201 final size:200
Alignment explanation
Indices: 19300017--19300406 Score: 658
Period size: 201 Copynumber: 1.9 Consensus size: 200
19300007 CGGCATGCTC
19300017 AGTCTCATCTCAAGAATATATAAATATATCATCAATAAATACCACAAAAAATCTATCTAAATACG
1 AGTCTCATCTCAAGAATATATAAATATATCATCAATAAATACCACAAAAAATCTATCTAAATACG
19300082 GTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAGCATC
66 GTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAGCATC
19300147 ACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGAGCAT
131 ACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGAGCAT
19300212 TGTTT
196 TGTTT
* * * *
19300217 AGTCTTATCTCAAGAATATATCAAA-ATATCATTAATAAATACCACAACAAATCTGTCTAAATAC
1 AGTCTCATCTCAAGAATATAT-AAATATATCATCAATAAATACCACAAAAAATCTATCTAAATAC
*
19300281 GGTCTGAAGATTCTGTTCATCAAATCCATAAAATACTGGAGGTGC-TTCAGTTAAACCAAACAGG
65 GGTCTGAAGATTCTGTTCATCAAATCCAT-AAATACTGGAGGTGCATT-AGTTAAACCAAACAGC
* * **
19300345 ATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAGATGTAGTTTTTGGCACATCCAAATC
128 ATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
19300407 TTTCACTCGT
Statistics
Matches: 178, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
200 87 0.49
201 91 0.51
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (200 bp):
AGTCTCATCTCAAGAATATATAAATATATCATCAATAAATACCACAAAAAATCTATCTAAATACG
GTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAGCATC
ACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGAGCAT
TGTTT
Found at i:19301643 original size:200 final size:199
Alignment explanation
Indices: 19301300--19301692 Score: 633
Period size: 200 Copynumber: 2.0 Consensus size: 199
19301290 AATGCTCGGC
*
19301300 TTGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAATATGTCTAA
1 TTGTTCAGTCTCATCTCAACAATATATAAAAATATCATCAATAAATACCACAAAAATATGTCTAA
* * * *
19301365 ATATGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
66 ATATGGTCTGAACATCCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAAACAAACA
*
19301430 GCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCGAAATTG
131 GCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATTG
19301495 AGCA
196 AGCA
* * *
19301499 TTGTTCAGTCTCATCTCAACAATATATCAAAATATCATCAATAAATACCATAACAAATCTGTCTA
1 TTGTTCAGTCTCATCTCAACAATATATAAAAATATCATCAATAAATACCACAA-AAATATGTCTA
* *
19301564 AATATGGTCTGAACATCCTATTCATCAAATCCATAAATACTGGATGTGCATTAGTTAAAACAAAT
65 AATATGGTCTGAACATCCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAAACAAAC
* * * **
19301629 AGGATCATAAGAAATTCATAGTGTCTGTACCTGGTTCTAAATGTAGTTTTCGGCACATCCAAAT
130 AGCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAAT
19301693 CTTTCACTCG
Statistics
Matches: 177, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
199 50 0.28
200 127 0.72
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (199 bp):
TTGTTCAGTCTCATCTCAACAATATATAAAAATATCATCAATAAATACCACAAAAATATGTCTAA
ATATGGTCTGAACATCCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAAACAAACA
GCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATTG
AGCA
Found at i:19302471 original size:398 final size:398
Alignment explanation
Indices: 19301735--19302527 Score: 1381
Period size: 398 Copynumber: 2.0 Consensus size: 398
19301725 AGATCAATCT
*
19301735 TCGAGAAAATTGTGGCACCTTTCAACTGGTCAAACAAATCGTAAATTCAAGGCAGTGGATATTTG
1 TCGAGAAAACTGTGGCACCTTTCAACTGGTCAAACAAATCGTAAATTCAAGGCAGTGGATATTTG
* *
19301800 TTCTTGATTGTAACTTTTTGAAGCTGATGGTAATCAATGCATAATCTCATCGATCCATCTGTTTT
66 TTCTTGATTGTAAATTTTTGAAGCTGAGGGTAATCAATGCATAATCTCATCGATCCATCTGTTTT
* *
19301865 CTTAATAGACAGAACCAGTGCACCCCATGGTGAAAAACTAGGTCGAGCAAAACCCATGTCTGTCA
131 CTTAATAGACAGAACCAGTGCACCCCAAGGTGAAAAACTAGGTCGAGCAAAACCCATGTCAGTCA
* * * *
19301930 ATTCTTGCAACTGTGCTTATAACTCTTTTAACTGTATATGAGCCATTCTTTAAGGTGTTATCGAT
196 ATTCGTGCAACTGTGCTTATAACTCTTTTAACTCTATAGGAGCCATTCTCTAAGGTGTTATCGAT
*
19301995 CTCGGTGATGTTCTCGGTACAAGTTCTATAGCAAACTCGACCTGTCTATTCGGCGATAATCCAAG
261 CTCAGTGATGTTCTCGGTACAAGTTCTATAGCAAACTCGACCTGTCTATTCGGCGATAATCCAAG
19302060 TAACTCCTCTAGAAATGTATCGAGATACTCGCAAACCACTGGTACTTATTCAAACCTCTGGAAGC
326 TAACTCCTCTAGAAATGTATCGAGATACTCGCAAACCACTGGTACTTATTCAAACCTCTGGAAGC
19302125 ATAAGTTA
391 ATAAGTTA
* * *
19302133 TCGAGAATACTGTGGCACCTTTCAGCTGGTCAAACAAATCGTAAATTCGAGGCAGTGGATATTTG
1 TCGAGAAAACTGTGGCACCTTTCAACTGGTCAAACAAATCGTAAATTCAAGGCAGTGGATATTTG
* * *
19302198 TTCTTGATTGTAAATTTTTGAAGCTGAGGGTAATCAATGCATTATCTCATTGATCCGTCTGTTTT
66 TTCTTGATTGTAAATTTTTGAAGCTGAGGGTAATCAATGCATAATCTCATCGATCCATCTGTTTT
* *
19302263 CTTAATAGACAGAACTAGTGCACCCCAAGGTGAAAAATTAGGTCGAGCAAAACCCATGTCAGTCA
131 CTTAATAGACAGAACCAGTGCACCCCAAGGTGAAAAACTAGGTCGAGCAAAACCCATGTCAGTCA
*
19302328 ATTCGTGCAACTGTGCTT-TCAACTCTTTTAACTCTGTAGGAGCCATTCTCTAAGGTGTTATCGA
196 ATTCGTGCAACTGTGCTTAT-AACTCTTTTAACTCTATAGGAGCCATTCTCTAAGGTGTTATCGA
*
19302392 TGTCAGTGATGTTCTCGGTACAAGTTCTATAGCAAACTCGACCTGTCTATTCGGCGATAATCCAA
260 TCTCAGTGATGTTCTCGGTACAAGTTCTATAGCAAACTCGACCTGTCTATTCGGCGATAATCCAA
*
19302457 GTAACTCCTCTAGAAATGTATCGAGATACTCGCAAACCACTGGTACTTATTCAAACTTCTGGAAG
325 GTAACTCCTCTAGAAATGTATCGAGATACTCGCAAACCACTGGTACTTATTCAAACCTCTGGAAG
19302522 CATAAG
390 CATAAG
19302528 CTACCGCTTT
Statistics
Matches: 373, Mismatches: 21, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
397 1 0.00
398 372 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (398 bp):
TCGAGAAAACTGTGGCACCTTTCAACTGGTCAAACAAATCGTAAATTCAAGGCAGTGGATATTTG
TTCTTGATTGTAAATTTTTGAAGCTGAGGGTAATCAATGCATAATCTCATCGATCCATCTGTTTT
CTTAATAGACAGAACCAGTGCACCCCAAGGTGAAAAACTAGGTCGAGCAAAACCCATGTCAGTCA
ATTCGTGCAACTGTGCTTATAACTCTTTTAACTCTATAGGAGCCATTCTCTAAGGTGTTATCGAT
CTCAGTGATGTTCTCGGTACAAGTTCTATAGCAAACTCGACCTGTCTATTCGGCGATAATCCAAG
TAACTCCTCTAGAAATGTATCGAGATACTCGCAAACCACTGGTACTTATTCAAACCTCTGGAAGC
ATAAGTTA
Found at i:19307167 original size:200 final size:199
Alignment explanation
Indices: 19306825--19307216 Score: 631
Period size: 200 Copynumber: 2.0 Consensus size: 199
19306815 ATGCTCGGCG
*
19306825 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAATATGTCTAAA
1 TGTTCAGTCTCATCTCAACAATATATAAAAATATCATCAATAAATACCACAAAAATATGTCTAAA
* * * * *
19306890 TATGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
66 TACGGTCTGAACATCCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAAACAAACAG
*
19306955 CATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCGAAATTGA
131 CATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATTGA
19307020 GCAT
196 GCAT
* * *
19307024 TGTTCAGTCTCATCTCAACAATATATCAAAATATCATCAATAAATACCATAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAACAATATATAAAAATATCATCAATAAATACCACAA-AAATATGTCTAA
*
19307089 ATACGGTCTGAACATCCTATTCATCAAATCCATAAATACTGGATGTGCATTAGTTAAAACAAACA
65 ATACGGTCTGAACATCCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAAACAAACA
* * * **
19307154 GGATCATAAGAAATTCATAGTGTCTGTACCTGGTTCTAAATGTAGTTTTCGGCACATCCAAAT
130 GCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAAT
19307217 CTTTCACTCG
Statistics
Matches: 176, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
199 49 0.28
200 127 0.72
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (199 bp):
TGTTCAGTCTCATCTCAACAATATATAAAAATATCATCAATAAATACCACAAAAATATGTCTAAA
TACGGTCTGAACATCCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAAACAAACAG
CATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATTGA
GCAT
Found at i:19313581 original size:200 final size:199
Alignment explanation
Indices: 19313239--19313630 Score: 613
Period size: 200 Copynumber: 2.0 Consensus size: 199
19313229 ATGCTCGGCG
* *
19313239 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAATATGTCTAAA
1 TGTTCAGTCTCATCTCAACAATATATAAAAATATCATCAATAAATACCAAAAAAATATGTCTAAA
* * * * *
19313304 TATGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
66 TACGGTCTGAACATCCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAAACAAACAG
*
19313369 CATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCGAAATTGA
131 CATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATTGA
19313434 GCAT
196 GCAT
* *
19313438 TGTTCAGTCTCATCTCAACAATATATCAAAATATCATCAATAAATACCATAAAAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAACAATATATAAAAATATCATCAATAAATACCA-AAAAAATATGTCTAA
* * *
19313503 ATACGGTCTGAACATCCTATTCATCAAATTCATAAATGCTGGATGTGCATTAGTTAAAACAAACA
65 ATACGGTCTGAACATCCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAAACAAACA
* * * **
19313568 GGATCATAAGAAATTCATAGTGTCTGTACCTGGTTCTAAATGTAGTTTTCGGCACATCCAAAT
130 GCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAAT
19313631 CTTTCACTTG
Statistics
Matches: 174, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
199 47 0.27
200 127 0.73
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (199 bp):
TGTTCAGTCTCATCTCAACAATATATAAAAATATCATCAATAAATACCAAAAAAATATGTCTAAA
TACGGTCTGAACATCCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAAACAAACAG
CATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATTGA
GCAT
Found at i:19317376 original size:201 final size:200
Alignment explanation
Indices: 19316988--19317382 Score: 655
Period size: 200 Copynumber: 2.0 Consensus size: 200
19316978 ATGCTCGGTG
* *
19316988 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCATAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAAAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* *
19317053 ATACGGTCTGAAGATTCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAATA
66 ATACGGTCTGAAGATTCCATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
19317118 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
131 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
19317183 AGCAT
196 AGCAT
* * * *
19317188 TGTTTAGTCTCATCTCAAAAATATATCAAAATATCATCAATAAATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAAAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* *
19317253 ATACGGTCTGAAGATTCCGTTCATCAAATCCATAAAATACTGGAGGTGCTTTAGTTAAACCAAAC
66 ATACGGTCTGAAGATTCCATTCATCAAATCCAT-AAATACTGGAGGTGCATTAGTTAAACCAAAC
* * **
19317318 AGGATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTCGGCACATCCAAATC
130 AGCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
19317383 TTTCACTCGT
Statistics
Matches: 180, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
200 90 0.50
201 90 0.50
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAAAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATACGGTCTGAAGATTCCATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
AGCAT
Found at i:19318626 original size:201 final size:199
Alignment explanation
Indices: 19318277--19318655 Score: 625
Period size: 201 Copynumber: 1.9 Consensus size: 199
19318267 ATGCTCGGCA
*
19318277 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTGA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
19318342 ATACGTCTGAAGATTTTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAA
66 ATACGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAA
19318407 CATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGA
131 CATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGA
19318472 GCAT
196 GCAT
* * * *
19318476 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
19318541 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAAATACTTGAGGTGC-TTCAGTTAAACCAAA
66 ATAC-GTCTGAAGATTCTGTTCATCAAATCCAT-AAATACTGGAGGTGCATT-AGTTAAACCAAA
** * *
19318605 CAGGATCACAAGAAATTCATAGTGTCCGTACGTGGTTCTAAATGTAGTTTT
128 CAACATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTT
19318656 CGGCAATTCC
Statistics
Matches: 166, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
199 64 0.39
200 29 0.17
201 73 0.44
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (199 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATACGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAA
CATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGA
GCAT
Found at i:19321006 original size:200 final size:200
Alignment explanation
Indices: 19320652--19321045 Score: 655
Period size: 200 Copynumber: 2.0 Consensus size: 200
19320642 ATGCTCGGCA
*
19320652 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCTTCAATAAATACCACAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
19320717 CTACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
66 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
*
19320782 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
131 GCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
19320847 AGCAT
196 AGCAT
* * * * *
19320852 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGT-AATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
19320916 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAAATACTGGAGGTGCTTTAGTTAAACCAAAC
66 ATACGGTCTGAAGATTCTGTTCATCAAATCCAT-AAATACTGGAGGTGCATTAGTTAAACCAAAC
* * **
19320981 AGGATCACAAGAAATTCAAAGTGTCCGTACCTGGTTCTAAATGTAGTTTTCGGCACATCCAAATC
130 AGCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
19321046 TTTCACTCGT
Statistics
Matches: 180, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
199 53 0.29
200 127 0.71
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
GCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
AGCAT
Found at i:19322299 original size:201 final size:198
Alignment explanation
Indices: 19321937--19322329 Score: 619
Period size: 201 Copynumber: 2.0 Consensus size: 198
19321927 ATGCTCGGCA
*
19321937 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTGA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
19322002 ATACGTCTGAAATTTTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAGC
66 ATACGTCTGAAATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAGC
*
19322067 ATCACAAGAAATTCATAGTGTCCAGACCTGGTTCTTAATGTAGTTTTAAGAACATCCAAATCGAG
131 ATCACAAGAAATTCATAGTGTCCAGACCTGGTTCTAAATGTAGTTTTAAGAACATCCAAATCGAG
19322132 CAT
196 CAT
* * * *
19322135 TGTTTAGTCTCATCTTAAGAATATATCAAAATATCATCAATAAATACCACAACAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
19322200 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAAATACTTGAGGTGC-TTCAGTTAAACCAAA
66 ATAC-GTCTGAA-ATTCTGTTCATCAAATCCAT-AAATACTGGAGGTGCATT-AGTTAAACCAAA
* ** *
19322264 CAGGATCACAAGAAATTCATAGTGTCC-GTACCTGGTTCTAAATGTAGTTTTCGGCACATCCAAA
127 CAGCATCACAAGAAATTCATAGTGTCCAG-ACCTGGTTCTAAATGTAGTTTTAAGAACATCCAAA
19322328 TC
191 TC
19322330 TTTCACTCGT
Statistics
Matches: 178, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
198 64 0.36
199 7 0.04
200 22 0.12
201 85 0.48
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (198 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATACGTCTGAAATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAGC
ATCACAAGAAATTCATAGTGTCCAGACCTGGTTCTAAATGTAGTTTTAAGAACATCCAAATCGAG
CAT
Found at i:19323575 original size:201 final size:199
Alignment explanation
Indices: 19323224--19323602 Score: 634
Period size: 201 Copynumber: 1.9 Consensus size: 199
19323214 ATGCTCGGCA
*
19323224 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTGA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
19323289 ATACGTCTGAAGATTTTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
66 ATACGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
*
19323354 CATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGA
131 CATCACAAGAAATCCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGA
19323419 GCAT
196 GCAT
* * * *
19323423 TGTTTAGTCTCATCTCAAGAATATATTAAAATATCATCAATAAATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
19323488 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAAATACTTGAGGTGC-TTCAGTTAAACCAAA
66 ATAC-GTCTGAAGATTCTGTTCATCAAATCCAT-AAATACTGGAGGTGCATT-AGTTAAACCAAA
* *
19323552 CAGGATCACAAGAAATCCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTT
128 CAGCATCACAAGAAATCCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTT
19323603 CGGCAATTCC
Statistics
Matches: 167, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
199 64 0.38
200 29 0.17
201 74 0.44
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (199 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATACGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
CATCACAAGAAATCCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGA
GCAT
Found at i:19325954 original size:200 final size:200
Alignment explanation
Indices: 19325600--19325993 Score: 610
Period size: 200 Copynumber: 2.0 Consensus size: 200
19325590 ATGCTCGGCA
19325600 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* **
19325665 CTACGGTCTGAAGATTCCGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
66 ATAAAGTCTGAAGATTCCGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
*
19325730 GCATCACAAGAAATTCATAGTGTCCGGACCCGGTTCTAAATGTAGTTTTAAACACATCCAAATCG
131 GCATCACAAGAAATTCAAAGTGTCCGGACCCGGTTCTAAATGTAGTTTTAAACACATCCAAATCG
19325795 AGCAT
196 AGCAT
* * * * *
19325800 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGT-AATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
** *
19325864 ATAAAGTCTGAAGATTTTGTTCATCAAATCCATAAAATACTGGAGGTGCTTTAGTTAAACCAAAC
66 ATAAAGTCTGAAGATTCCGTTCATCAAATCCAT-AAATACTGGAGGTGCATTAGTTAAACCAAAC
* * * ***
19325929 AGGATCACAAGAAATTCAAAGTGTCCGTACCTGGTTCTAAATGTAGTTTTCGGCACATCCAAATC
130 AGCATCACAAGAAATTCAAAGTGTCCGGACCCGGTTCTAAATGTAGTTTTAAACACATCCAAATC
19325994 TTTCACTCGT
Statistics
Matches: 175, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
199 49 0.28
200 126 0.72
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.28
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATAAAGTCTGAAGATTCCGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
GCATCACAAGAAATTCAAAGTGTCCGGACCCGGTTCTAAATGTAGTTTTAAACACATCCAAATCG
AGCAT
Found at i:19327234 original size:200 final size:199
Alignment explanation
Indices: 19326887--19327264 Score: 636
Period size: 200 Copynumber: 1.9 Consensus size: 199
19326877 ATGCTCGGCA
*
19326887 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTGA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
19326952 ATACGTCTGAAGATTTTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
66 ATACGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
19327017 CATCACAAGAAATTCATAGTGTCCAG-ACCTGGTTCTAAATATAGTTTTAAGAACATCCGAATCG
131 CATCACAAGAAATTCATAGTGTCC-GTACCTGGTTCTAAATATAGTTTTAAGAACATCCGAATCG
19327081 AGCAT
195 AGCAT
* * *
19327086 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCACAACAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
19327151 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAAATACT-GAGGTGC-TTCAGTTAAACCAAA
66 ATAC-GTCTGAAGATTCTGTTCATCAAATCCAT-AAATACTGGAGGTGCATT-AGTTAAACCAAA
* *
19327214 CAGGATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTT
128 CAGCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATATAGTTTT
19327265 CGGCGCATCC
Statistics
Matches: 168, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
199 68 0.40
200 93 0.55
201 7 0.04
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (199 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATACGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
CATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATATAGTTTTAAGAACATCCGAATCGA
GCAT
Found at i:19328536 original size:201 final size:199
Alignment explanation
Indices: 19328173--19328551 Score: 636
Period size: 201 Copynumber: 1.9 Consensus size: 199
19328163 ATGCTCGGCA
*
19328173 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTGA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
19328238 ATACGTCTGAAGATTTTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
66 ATACGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
19328303 CATCACAAGAAATTCATAGTGTCCAGACCTGGTTCTAAATATAGTTTTAAGAACATCCGAATCGA
131 CATCACAAGAAATTCATAGTGTCCAGACCTGGTTCTAAATATAGTTTTAAGAACATCCGAATCGA
19328368 GCAT
196 GCAT
* * *
19328372 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCACAACAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
19328437 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAAATACTTGAGGTGC-TTCAGTTAAACCAAA
66 ATAC-GTCTGAAGATTCTGTTCATCAAATCCAT-AAATACTGGAGGTGCATT-AGTTAAACCAAA
* *
19328501 CAGGATCACAAGAAATTCATAGTGTCC-GTACCTGGTTCTAAATGTAGTTTT
128 CAGCATCACAAGAAATTCATAGTGTCCAG-ACCTGGTTCTAAATATAGTTTT
19328552 CGGCACATCC
Statistics
Matches: 168, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
199 65 0.39
200 30 0.18
201 73 0.43
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (199 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATACGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
CATCACAAGAAATTCATAGTGTCCAGACCTGGTTCTAAATATAGTTTTAAGAACATCCGAATCGA
GCAT
Found at i:19333277 original size:199 final size:200
Alignment explanation
Indices: 19332924--19333316 Score: 610
Period size: 199 Copynumber: 2.0 Consensus size: 200
19332914 ATGCTCGGCA
*
19332924 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTAGCTAA
* **
19332989 CTACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGCTGCATTAGTTAAACCAAACA
66 ATAAAGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGCTGCATTAGTTAAACCAAACA
*
19333054 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
131 GCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
19333119 AGCAT
196 AGCAT
* * * *
19333124 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGT-AATACCACAACAAATCT-GCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTAGCTAA
* * *
19333187 ATAAAGTCTGAAGATTTTGTTCATCAAATCCATAAAATACTGGAGGTGCTTTAGTTAAACCAAAC
66 ATAAAGTCTGAAGATTCTGTTCATCAAATCCAT-AAATACTGGAGCTGCATTAGTTAAACCAAAC
* * * **
19333252 AGGATCACAAGCAATTCAAAGTGTCCGTACCTGGTTCTAAATGTAGTTTTCGGCACATCCAAATC
130 AGCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
19333317 TTTCACTCGT
Statistics
Matches: 175, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
198 33 0.19
199 104 0.59
200 38 0.22
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTAGCTAA
ATAAAGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGCTGCATTAGTTAAACCAAACA
GCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
AGCAT
Found at i:19335852 original size:200 final size:200
Alignment explanation
Indices: 19335498--19335891 Score: 628
Period size: 200 Copynumber: 2.0 Consensus size: 200
19335488 ATGCTCGGCA
19335498 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* **
19335563 CTACGGTCTGAAGATTCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
66 ATAAAGTCTGAAGATTCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
*
19335628 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
131 GCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
19335693 AGCAT
196 AGCAT
* * * * *
19335698 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGT-AATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* * *
19335762 ATAAAGTCTGAAGATTTTGTTCATCAAATCCATAAAATACTGGAGGTGCTTTAGTTAAACCAAAC
66 ATAAAGTCTGAAGATTCTATTCATCAAATCCAT-AAATACTGGAGGTGCATTAGTTAAACCAAAC
* * **
19335827 AGGATCACAAGAAATTCAAAGTGTCCGTACCTGGTTCTAAATGTAGTTTTCGGCACATCCAAATC
130 AGCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
19335892 TTTCACTCGT
Statistics
Matches: 177, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
199 49 0.28
200 128 0.72
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATAAAGTCTGAAGATTCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
GCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
AGCAT
Found at i:19338423 original size:200 final size:200
Alignment explanation
Indices: 19338075--19338468 Score: 671
Period size: 200 Copynumber: 2.0 Consensus size: 200
19338065 ATGCTCGACA
19338075 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
19338140 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
66 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
* *
19338205 GCATCACAAGAAATTCATAGTGTCTGGACCTGGTTCTCAATGTAGTTTTAAGAACATCCAAATCA
131 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGAACATCCAAATCA
19338270 AGCAT
196 AGCAT
* * * *
19338275 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* *
19338340 ATACGGTCTGAATATTTTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
66 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
* * ** *
19338405 GGATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTCGGGACATCCAAATC
131 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGAACATCCAAATC
19338469 TTTCACTCGT
Statistics
Matches: 181, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
200 181 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGAACATCCAAATCA
AGCAT
Found at i:19340801 original size:200 final size:200
Alignment explanation
Indices: 19340452--19340840 Score: 591
Period size: 200 Copynumber: 1.9 Consensus size: 200
19340442 CGGCATGTTC
* **
19340452 AGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAACTACG
1 AGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAAATAAA
* *
19340517 GTCTGAAGATTCTATTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAAGAGCATC
66 GTCTGAAGATTCTATTCATCAAATCCATAAATACTAGAGGTGCATTAGTTAAACCAAACAGCATC
*
19340582 ACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGAGCAT
131 ACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGAGCAT
19340647 TATTT
196 TATTT
* * * ** *
19340652 AGTCTCATCTCAAGAATATATCAAAATATCATTAGT-AATACCACAACGAATCTGTCTAAATAAA
1 AGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAAATAAA
* * * *
19340716 GTCTGAAGATTTTGTTCATCAAATCCATAAAATACTAGAGGTGCTTTAGTTAAACCAAACAGGAT
66 GTCTGAAGATTCTATTCATCAAATCCAT-AAATACTAGAGGTGCATTAGTTAAACCAAACAGCAT
* **
19340781 CACAAGAAATTCAAAGTGTCCGTACCTGGTTCTAAATGTAGTTTTCGGCACATCCAAATC
130 CACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
19340841 TTTCACTCGT
Statistics
Matches: 169, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
199 48 0.28
200 121 0.72
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (200 bp):
AGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAAATAAA
GTCTGAAGATTCTATTCATCAAATCCATAAATACTAGAGGTGCATTAGTTAAACCAAACAGCATC
ACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGAGCAT
TATTT
Found at i:19342096 original size:200 final size:200
Alignment explanation
Indices: 19341733--19342126 Score: 628
Period size: 200 Copynumber: 2.0 Consensus size: 200
19341723 ATGCTCGGCA
19341733 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* **
19341798 CTACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
66 ATAAAGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
* *
19341863 GCATCACAAGAAATTCATAGTGTCTGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
131 GCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
19341928 AGCAT
196 AGCAT
* * * * *
19341933 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGT-AATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* *
19341997 ATAAAGTCTGAAGATTTTGTTCATCAAATCCATAAAATACTGGAGGTGCTTTAGTTAAACCAAAC
66 ATAAAGTCTGAAGATTCTGTTCATCAAATCCAT-AAATACTGGAGGTGCATTAGTTAAACCAAAC
* * **
19342062 AGGATCACAAGAAATTCAAAGTGTCCGTACCTGGTTCTAAATGTAGTTTTCGGCACATCCAAATC
130 AGCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
19342127 TTTCACTCGT
Statistics
Matches: 177, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
199 50 0.28
200 127 0.72
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATAAAGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
GCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
AGCAT
Found at i:19344453 original size:200 final size:201
Alignment explanation
Indices: 19344109--19344503 Score: 648
Period size: 200 Copynumber: 2.0 Consensus size: 201
19344099 ATGCTCGGCA
19344109 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAAATCTATCTA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAAATCTATCTA
* *
19344174 AATACGGTCTAAAGATTTTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAAC
66 AATACAGTCTAAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAAC
*
19344239 AGCATCACAAGAAATTCATAGTGTCCGTATCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
131 AGCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
19344304 GAGCAT
196 GAGCAT
* * *
19344310 TGTTCAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCAC-AACAAATCTGTCTA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAAATCTATCTA
* * *
19344374 AATACAGTTTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAATCCAAAC
66 AATACAGTCTAAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAAC
* * * * **
19344439 AGGATCACAAGAAATTCATAGTGTCCGTGCCTGTTTCTTAATGTAGTTTTTGGCACATCCAAATC
131 AGCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
19344504 TTTCACTCGT
Statistics
Matches: 179, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
200 130 0.73
201 49 0.27
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (201 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAAATCTATCTA
AATACAGTCTAAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAAC
AGCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
GAGCAT
Found at i:19358232 original size:26 final size:26
Alignment explanation
Indices: 19358196--19358245 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
19358186 AGGATATGGT
*
19358196 GGAATCAGCACTTAGCAACTCCTTGG
1 GGAATCAGCACTTAGCAACCCCTTGG
19358222 GGAATCAGCACTTAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCCCTT
19358246 TCACATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (26 bp):
GGAATCAGCACTTAGCAACCCCTTGG
Found at i:19358262 original size:69 final size:69
Alignment explanation
Indices: 19358151--19358283 Score: 266
Period size: 69 Copynumber: 1.9 Consensus size: 69
19358141 CCAGTGATTC
19358151 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGGATATGGTGGAATCAGCACTTAGCAACT
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGGATATGGTGGAATCAGCACTTAGCAACT
19358216 CCTT
66 CCTT
19358220 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGGATATGGTGGAATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGGATATGGTGGAATCAGCACTTAGCAAC
19358284 CACCAAAGAG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (69 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGGATATGGTGGAATCAGCACTTAGCAACT
CCTT
Found at i:19359813 original size:25 final size:25
Alignment explanation
Indices: 19359758--19359815 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
19359748 TTCATGTACA
19359758 AGTATGCTTATACGAGCTGTGAATC
1 AGTATGCTTATACGAGCTGTGAATC
**
19359783 -GATATGCTTATTTGAGCTGT-AGATC
1 AG-TATGCTTATACGAGCTGTGA-ATC
19359808 AGTATGCT
1 AGTATGCT
19359816 CTCACGAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 2 0.07
25 25 0.89
26 1 0.04
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (25 bp):
AGTATGCTTATACGAGCTGTGAATC
Found at i:19376816 original size:23 final size:23
Alignment explanation
Indices: 19376790--19376840 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
19376780 AGGTTATAAT
**
19376790 TGTAATATTCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
19376813 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
19376836 AGTAA
1 TGTAA
19376841 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:19383992 original size:68 final size:67
Alignment explanation
Indices: 19383874--19384085 Score: 253
Period size: 68 Copynumber: 3.1 Consensus size: 67
19383864 CTGGTTCACC
* * * *
19383874 GTCCTGACGAACTTCATATGTTGTCATAGCGCAACTATTGTATTACACAATATGTTCCCATGTTT
1 GTCCTGGCAAACTTCATATGTTGTCATAGC-CAACTATGGTCTTACACAATATGTTCCCATGTTT
*
19383939 ATT
65 ACT
* * *
19383942 GTCTTGGCAAACTTCATATGTTGTCGTAGCCTAGCTATGGTCTTACACAATATGTTCCCATGTTT
1 GTCCTGGCAAACTTCATATGTTGTCATAGCC-AACTATGGTCTTACACAATATGTTCCCATGTTT
19384007 ACT
65 ACT
** * * * * *
19384010 GTCCTGGTGAACTTCATATGTTGCCATAACCCAACTATGGCCCTACACAATATGTTCTCATGTTT
1 GTCCTGGCAAACTTCATATGTTGTCAT-AGCCAACTATGGTCTTACACAATATGTTCCCATGTTT
19384075 ACT
65 ACT
*
19384078 TTCCTGGC
1 GTCCTGGC
19384086 GGATTTCCAA
Statistics
Matches: 122, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
67 1 0.01
68 118 0.97
69 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (67 bp):
GTCCTGGCAAACTTCATATGTTGTCATAGCCAACTATGGTCTTACACAATATGTTCCCATGTTTA
CT
Found at i:19384988 original size:12 final size:13
Alignment explanation
Indices: 19384962--19385004 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
19384952 TTCTCCGAAG
19384962 AAGAAAAAATGAA
1 AAGAAAAAATGAA
*
19384975 AAGAAAAACT-AA
1 AAGAAAAAATGAA
* *
19384987 AAGCAAAATTGAA
1 AAGAAAAAATGAA
19385000 AAGAA
1 AAGAA
19385005 TTCCCTTAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.72, C:0.05, G:0.14, T:0.09
Consensus pattern (13 bp):
AAGAAAAAATGAA
Found at i:19387524 original size:132 final size:133
Alignment explanation
Indices: 19387277--19387529 Score: 384
Period size: 132 Copynumber: 1.9 Consensus size: 133
19387267 AGTCCTTATA
* ** * *
19387277 TTTTCTAATTTTTCCAATTTAGTTTCAAATTTGATTTCCATCGTACTAATGCATATTTCAACTAA
1 TTTTCTAAATTTTCCAATTTAGTCCCAAATTTGATTTCCATCATACCAATGCATATTTCAACTAA
* *
19387342 TTCTTATGTCATTAAATCAATAATAACTCATATTTTCACATTTTGGTCAAATTGTATTGTCCATG
66 TTCTTATATCATTAAATCAATAATAACTCATATTTTCACATTTTGATCAAATTGTATTGTCCATG
19387407 TAC
131 TAC
* * *
19387410 TTTT-TAAATTTTCCATTTTAGTCCCAAATTTGATTTCCATCATACCAATGCATATTTCATCTTA
1 TTTTCTAAATTTTCCAATTTAGTCCCAAATTTGATTTCCATCATACCAATGCATATTTCAACTAA
*
19387474 TTCTTATATCAATT-AATCAATAATAACTTATATTTTCACATTTTGATCAAATTGTA
66 TTCTTATATC-ATTAAATCAATAATAACTCATATTTTCACATTTTGATCAAATTGTA
19387530 CTTTACTCCT
Statistics
Matches: 108, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
132 101 0.94
133 7 0.06
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (133 bp):
TTTTCTAAATTTTCCAATTTAGTCCCAAATTTGATTTCCATCATACCAATGCATATTTCAACTAA
TTCTTATATCATTAAATCAATAATAACTCATATTTTCACATTTTGATCAAATTGTATTGTCCATG
TAC
Found at i:19392669 original size:19 final size:19
Alignment explanation
Indices: 19392647--19392685 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
19392637 CTACTAAGAT
19392647 ACTTTTTACTCCCAATATC
1 ACTTTTTACTCCCAATATC
* *
19392666 ACTTTTTATTTCCAATATC
1 ACTTTTTACTCCCAATATC
19392685 A
1 A
19392686 TGTTTTTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (19 bp):
ACTTTTTACTCCCAATATC
Found at i:19395228 original size:33 final size:34
Alignment explanation
Indices: 19395163--19395229 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
19395153 TCATTAGTGC
* * * *
19395163 ATTTGTTTCTGATATCCATAAATTTTTTTAGCAT
1 ATTTGTTTCCGAAATACACAAATTTTTTTAGCAT
19395197 ATTTGTTTCCGAAATACACAAA-TTTTTTAGCAT
1 ATTTGTTTCCGAAATACACAAATTTTTTTAGCAT
19395230 TGTTTTTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 11 0.38
34 18 0.62
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (34 bp):
ATTTGTTTCCGAAATACACAAATTTTTTTAGCAT
Found at i:19395721 original size:25 final size:25
Alignment explanation
Indices: 19395666--19395721 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
19395656 ATATGAATGA
*
19395666 ATAA-AAA-TATATTTTTTATAAAT
1 ATAATAAATTATATTTATTATAAAT
*
19395689 ATAGTAAATTATATTTATT-TAAAT
1 ATAATAAATTATATTTATTATAAAT
19395713 ATTAATAAA
1 A-TAATAAA
19395722 GTCAGTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.11
24 9 0.33
25 15 0.56
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
ATAATAAATTATATTTATTATAAAT
Found at i:19396794 original size:30 final size:28
Alignment explanation
Indices: 19396739--19396805 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 28
19396729 TTTAAATAGT
19396739 ATTTCTAAAAATGTTTAATAGTATTATAATA
1 ATTT-TAAAAATGTTTAATAGTATTA-AA-A
*
19396770 ATTTTAAAAATGCTTTAA-ATTATTAAAA
1 ATTTTAAAAATG-TTTAATAGTATTAAAA
19396798 A-TTTAAAA
1 ATTTTAAAA
19396806 GAAAATGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 7 0.21
28 2 0.06
29 2 0.06
30 14 0.41
31 9 0.26
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (28 bp):
ATTTTAAAAATGTTTAATAGTATTAAAA
Found at i:19412541 original size:256 final size:260
Alignment explanation
Indices: 19412046--19412556 Score: 764
Period size: 256 Copynumber: 2.0 Consensus size: 260
19412036 CTACAGTTGT
* * * *
19412046 AACAACCCGTTTTTCAGTGGTGTAAAAAATAGTGGTTTCGAAACCACAAATTCGATGAGTGAGCT
1 AACAACCCGCTTTTCAATGGTGTAAAAAATAGTGGTTTCGAAACCAAAAATTCGACGAGTGAGCT
* * *
19412111 TGTAAATATTATTAATTAATATTTACGGGTCAAGTATAATATTATTGAAGTTTCAATTTAATAAA
66 CGTAAATATTATTAATTAATATTTACGAGTCAAGTATAATATTATTGAAATTTCAATTTAATAAA
* *
19412176 AGTTGCTAATTCGTCGTATAGTCAAGTTCAAGTGGTTAATTCCTAAAGTCAAGTGGTTTTGGAAA
131 AGTTGCTAATTAGTCGTATAGTCAAGTTCAAGTGGTTAATTCCTAAAGTCAAGTGGTTTTAGAAA
* * *
19412241 ATGAGGAATCAAGACCTCGTTTCTATAAACCGAGCCTGTAAATATTTAACAAAATATTTAGTAGG
196 ACGAGCAATCAAGACCTCATTTCTATAAACCGAGCCTGTAAATATTTAACAAAATATTTAGTAGG
* *
19412306 AACAACCC-CTTTTCAATGGTGTCAAAAATAGTGGTTTCGAAACCAAAAATTGGACGAGTGAGCT
1 AACAACCCGCTTTTCAATGGTGTAAAAAATAGTGGTTTCGAAACCAAAAATTCGACGAGTGAGCT
* *
19412370 CGT-AA-A-TATTAATTAATATTTATGAGTCAAGTATAATATTATTGAAATTTCGATTTAATAAA
66 CGTAAATATTATTAATTAATATTTACGAGTCAAGTATAATATTATTGAAATTTCAATTTAATAAA
* *
19412432 ATTTGCTAATTAGTCGTATAGTCAAGTTCAAGTGGTTAATTCTTAAAGTCAAGTGGTTTTAGAAA
131 AGTTGCTAATTAGTCGTATAGTCAAGTTCAAGTGGTTAATTCCTAAAGTCAAGTGGTTTTAGAAA
* * * *
19412497 ACGA-CATATCGAGACCTCATTTTTATAAATCGAGCCCT-TAAATATTTAATAAAATATTTA
196 ACGAGCA-ATCAAGACCTCATTTCTATAAACCGAG-CCTGTAAATATTTAACAAAATATTTA
19412557 TGGAGTGTTA
Statistics
Matches: 227, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
255 1 0.00
256 160 0.70
257 4 0.02
258 2 0.01
259 52 0.23
260 8 0.04
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (260 bp):
AACAACCCGCTTTTCAATGGTGTAAAAAATAGTGGTTTCGAAACCAAAAATTCGACGAGTGAGCT
CGTAAATATTATTAATTAATATTTACGAGTCAAGTATAATATTATTGAAATTTCAATTTAATAAA
AGTTGCTAATTAGTCGTATAGTCAAGTTCAAGTGGTTAATTCCTAAAGTCAAGTGGTTTTAGAAA
ACGAGCAATCAAGACCTCATTTCTATAAACCGAGCCTGTAAATATTTAACAAAATATTTAGTAGG
Found at i:19414041 original size:46 final size:46
Alignment explanation
Indices: 19413918--19414495 Score: 651
Period size: 46 Copynumber: 12.6 Consensus size: 46
19413908 CATGATTCAG
* * * * *
19413918 ATGAGTAAAACCATAGTTGAAAGACACTATGACATCCTATC--AAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* *
19413962 TATGAATAAGACCATAGTTTAAAGACACTATGGCATCATATCGGAAA
1 -ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* * *
19414009 ATGAATAAGACCATGGTTGAAAAACACAATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* * * * * *
19414055 TTAAATAAGACCGTGGTTGAAAGACACTTTTGACAACATATC-GAGAA
1 ATGAATAAGACCATGGTTGAAAGACAC-TATGGCATCATATCGGA-AA
* * * * *
19414102 ATCAATAAGACCATAGTTGAAAGACACGATGACATCATATCGAAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* * *
19414148 ATTAATAAGACCATGGTTGAAATACACTATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* * *
19414194 ATGAATAAGACTATAGTTGGAAGACACTATGGCATCATATCGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* * ** *
19414240 ATGAATAAGACCATGGTTGAAAAAGAAAATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* * * * *
19414286 TTAAATAAGACCATGGTTGAAAGACACTTTGACATCATATCGGGAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* * *
19414332 ATGAATAAGACCATAGTTGAAAGACACGATGGCATCATATCGAAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* * **
19414378 ATTAATAAGACCATGGTTGAAATACACTATGGTGTCATATCGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* * * * *
19414424 ATGAATAAGACCATGGTTGAAAAACACTAAGACAACATATC-AAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
19414469 AGTGAATAAGACCATGGTTGAAAGACA
1 A-TGAATAAGACCATGGTTGAAAGACA
19414496 TCAGGGCATC
Statistics
Matches: 446, Mismatches: 81, Indels: 11
0.83 0.15 0.02
Matches are distributed among these distances:
45 40 0.09
46 367 0.82
47 39 0.09
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.23
Consensus pattern (46 bp):
ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
Found at i:19414445 original size:22 final size:22
Alignment explanation
Indices: 19414420--19414491 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
19414410 TGTCATATCG
19414420 GAAAATGAATAAGACCATGGTT
1 GAAAATGAATAAGACCATGGTT
** * * *
19414442 GAAAAACACTAAGACAACAT-ATC
1 GAAAATGAATAAGAC--CATGGTT
*
19414465 AAAAAGTGAATAAGACCATGGTT
1 GAAAA-TGAATAAGACCATGGTT
19414488 GAAA
1 GAAA
19414492 GACATCAGGG
Statistics
Matches: 34, Mismatches: 12, Indels: 7
0.64 0.23 0.13
Matches are distributed among these distances:
22 15 0.44
23 9 0.26
24 10 0.29
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.18
Consensus pattern (22 bp):
GAAAATGAATAAGACCATGGTT
Found at i:19420028 original size:19 final size:19
Alignment explanation
Indices: 19420004--19420042 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
19419994 CGATAGCTAA
19420004 TACATTGAGGCTACAAACT
1 TACATTGAGGCTACAAACT
19420023 TACATTGAGGCTACAAACT
1 TACATTGAGGCTACAAACT
19420042 T
1 T
19420043 TTAAGAGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (19 bp):
TACATTGAGGCTACAAACT
Found at i:19428807 original size:49 final size:49
Alignment explanation
Indices: 19428743--19429130 Score: 388
Period size: 51 Copynumber: 7.7 Consensus size: 49
19428733 TATCATTCGA
*
19428743 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACGG
* * *
19428792 TTCACGTAGTAGCCTTCACATAGTACTGCACACGTGATCAGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACGG
*
19428841 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACGG
* *
19428891 CT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTT-CGG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACGG
* * * * * * * *
19428942 TACCCATTGTAGCCTTCACTTAGTACTACACATGT-AACCGTAGTTTACCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT--TTTA-CGG
* * *
19428993 TACACGTAGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTTT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACGG
* * * * * * *
19429044 TACACATAGTAGCCTTCTCTTAGTACTACACATGTGACCATTATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT-TTTA-CGG
* *
19429095 TACACGTAGTAGCCTCCACACAGTACTACACACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
19429131 TTCATCGACA
Statistics
Matches: 281, Mismatches: 42, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 92 0.33
50 47 0.17
51 129 0.46
52 5 0.02
53 3 0.01
54 1 0.00
55 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (49 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACGG
Found at i:19429843 original size:16 final size:16
Alignment explanation
Indices: 19429822--19429871 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
19429812 TGATGTCAAA
19429822 AACATTAAAAACGGAG
1 AACATTAAAAACGGAG
19429838 AACATTAAAAACGGAG
1 AACATTAAAAACGGAG
*
19429854 AACATTAAAAACAGAG
1 AACATTAAAAACGGAG
19429870 AA
1 AA
19429872 GATGATTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.60, C:0.12, G:0.16, T:0.12
Consensus pattern (16 bp):
AACATTAAAAACGGAG
Found at i:19436598 original size:98 final size:98
Alignment explanation
Indices: 19436488--19436669 Score: 294
Period size: 98 Copynumber: 1.9 Consensus size: 98
19436478 TCATTCGATA
* * *
19436488 CACGTAGTAGCCTTCTCATAGTACTACACACGTGATC-AGTTTTACAGTTCACATAGTAGCCTTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAGCTCACATAGTAGCCTTC
19436552 ACATAGTACTACACACGTGATCAGTTTTACAGTT
66 ACAT-GTACTACACACGTGATCAGTTTTACAGTT
* *
19436586 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCTCACGTAGTAGCCTTC
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAGCTCACATAGTAGCCTTC
*
19436651 ACATGTACTACATACGTGA
66 ACATGTACTACACACGTGA
19436670 CCAAAGCTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
98 50 0.65
99 27 0.35
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (98 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAGCTCACATAGTAGCCTTC
ACATGTACTACACACGTGATCAGTTTTACAGTT
Found at i:19436747 original size:51 final size:50
Alignment explanation
Indices: 19436481--19436872 Score: 338
Period size: 51 Copynumber: 7.8 Consensus size: 50
19436471 ATTTTTATCA
* *
19436481 TTCGATACACGTAGTAGCCTTCTCATAGTACTACACACGTGATC--AGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * *
19436529 TTAC-AGTTCACATAGTAGCCTTTACATAGTACTACACACGTGATC--AGTT
1 TT-CGA-TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
19436578 TTAC-AGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTT
1 TT-CGA-TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
19436628 TTACGGCT-CACGTAGTAGCCTTCACAT-GTACTACATACGTGACCAAAGCTT
1 TT-C-GATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * * * * * **
19436679 TTCGGTACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCGTAGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * *
19436729 TATCGATACACGTAGTAGCATTCACACAGTACTACACACCTG-CTCAAAGCTT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAG-TT
* * * * *
19436781 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* *
19436831 TATCGATACACGTAGTAGCCTCCACACAGTACTACACACGTG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
19436873 TTCATCGACA
Statistics
Matches: 284, Mismatches: 45, Indels: 27
0.80 0.13 0.08
Matches are distributed among these distances:
48 3 0.01
49 100 0.35
50 53 0.19
51 123 0.43
52 5 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:19436990 original size:15 final size:16
Alignment explanation
Indices: 19436970--19437002 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19436960 GTTACGAAAC
19436970 ATAACAAA-AATAATT
1 ATAACAAAGAATAATT
19436985 ATAACAAAGTAATAATT
1 ATAACAAAG-AATAATT
19437002 A
1 A
19437003 CATACAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (16 bp):
ATAACAAAGAATAATT
Found at i:19439297 original size:15 final size:17
Alignment explanation
Indices: 19439279--19439311 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19439269 TTGTAAGCAA
19439279 TGAAATG-G-ATTAAGT
1 TGAAATGAGAATTAAGT
19439294 TGAAATGAGAATTAAGT
1 TGAAATGAGAATTAAGT
19439311 T
1 T
19439312 AAACATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (17 bp):
TGAAATGAGAATTAAGT
Found at i:19439703 original size:46 final size:46
Alignment explanation
Indices: 19439600--19439896 Score: 422
Period size: 46 Copynumber: 6.5 Consensus size: 46
19439590 CATGATTTAG
* * * *
19439600 ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCTTAT-TGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
*
19439645 ATGAATAAGACCATGGTTGAAAGACACTATGACATCATATCGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* *
19439691 ATGAATAAGACCATGGTTGAAAGACAC--TGGCATCATATTGAAAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCG-GAAA
* *
19439736 ATGAATAAGACTATGGTTGAAAGACACTATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* *
19439782 ATGAATAAGACCATGGTTGAAAAACATTATGGCATCATATCGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* * *
19439828 ATGAGTAAGACCATGGTTGAAAGACATTATGACATCATA-CGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
*
19439873 GTGAATAAGACCATGGTTGAAAGA
1 ATGAATAAGACCATGGTTGAAAGA
19439897 AGTCATAGCA
Statistics
Matches: 227, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
44 11 0.05
45 93 0.41
46 112 0.49
47 11 0.05
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (46 bp):
ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
Found at i:19439713 original size:91 final size:91
Alignment explanation
Indices: 19439600--19439896 Score: 438
Period size: 91 Copynumber: 3.3 Consensus size: 91
19439590 CATGATTTAG
* * *
19439600 ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCTTATTGAAAATGAATAAGACCATGGTTGA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATTGAAAATGAATAAGACCATGGTTGA
19439665 AAGACACTATGACATCATATCGGAAA
66 AAGACACTATGACATCATATCGGAAA
*
19439691 ATGAATAAGACCATGGTTGAAAGACAC--TGGCATCATATTGAAAAAATGAATAAGACTATGGTT
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATTG--AAAATGAATAAGACCATGGTT
* *
19439754 GAAAGACACTATGGCATCATATCAGAAA
64 GAAAGACACTATGACATCATATCGGAAA
* * * *
19439782 ATGAATAAGACCATGGTTGAAAAACATTATGGCATCATATCGGAAAATGAGTAAGACCATGGTTG
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATAT-TGAAAATGAATAAGACCATGGTTG
*
19439847 AAAGACATTATGACATCATA-CGGAAA
65 AAAGACACTATGACATCATATCGGAAA
*
19439873 GTGAATAAGACCATGGTTGAAAGA
1 ATGAATAAGACCATGGTTGAAAGA
19439897 AGTCATAGCA
Statistics
Matches: 185, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
89 12 0.06
91 123 0.66
92 38 0.21
93 11 0.06
94 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (91 bp):
ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATTGAAAATGAATAAGACCATGGTTGA
AAGACACTATGACATCATATCGGAAA
Found at i:19439908 original size:137 final size:136
Alignment explanation
Indices: 19439600--19439896 Score: 427
Period size: 137 Copynumber: 2.2 Consensus size: 136
19439590 CATGATTTAG
* * * *
19439600 ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCTTATTGAAAATGAATAAGACCATGGTTGA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATAGAAAATGAATAAGACCATGGTTGA
* * * *
19439665 AAGACACTATGACATCATATCGGAAAATGAATAAGACCATGGTTGAAAGACACTGGCATCATATT
66 AAAACACTATGACATCATATCGGAAAATGAATAAGACCATGGTTGAAAGACAATGACATCATATC
19439730 GAAAAA
131 GAAAAA
*
19439736 ATGAATAAGACTATGGTTGAAAGACACTATGGCATCATATCAGAAAATGAATAAGACCATGGTTG
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATAT-AGAAAATGAATAAGACCATGGTTG
* * *
19439801 AAAAACATTATGGCATCATATCGGAAAATGAGTAAGACCATGGTTGAAAGACATTATGACATCAT
65 AAAAACACTATGACATCATATCGGAAAATGAATAAGACCATGGTTGAAAGACA--ATGACATCAT
*
19439866 A-CG-GAAA
128 ATCGAAAAA
*
19439873 GTGAATAAGACCATGGTTGAAAGA
1 ATGAATAAGACCATGGTTGAAAGA
19439897 AGTCATAGCA
Statistics
Matches: 143, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
136 36 0.25
137 97 0.68
138 1 0.01
139 9 0.06
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (136 bp):
ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATAGAAAATGAATAAGACCATGGTTGA
AAAACACTATGACATCATATCGGAAAATGAATAAGACCATGGTTGAAAGACAATGACATCATATC
GAAAAA
Found at i:19444463 original size:21 final size:20
Alignment explanation
Indices: 19444434--19444484 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
19444424 TTGCATAAAT
* *
19444434 TAAACACAAAGTAATAAAAAC
1 TAAAAACAAAATAA-AAAAAC
*
19444455 TAAAAACAAAATAAAAACAC
1 TAAAAACAAAATAAAAAAAC
19444475 TATAAAACAA
1 TA-AAAACAA
19444485 GTCGTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.71, C:0.14, G:0.02, T:0.14
Consensus pattern (20 bp):
TAAAAACAAAATAAAAAAAC
Found at i:19450760 original size:40 final size:40
Alignment explanation
Indices: 19450717--19450946 Score: 273
Period size: 40 Copynumber: 5.8 Consensus size: 40
19450707 AATTGTTTAA
*
19450717 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCA
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
19450757 TGAATGCACATATGTGCCCTTGTTTGTA-TTTCGGTAACCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTT-GGTACCCC
* * *
19450797 TTAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * * * **
19450837 TTAATTCACATATGTGCCCCTATTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
19450877 TAAATGCACATACGTGCCCCTATTTATACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
19450917 TGAATGCACTTCCGTGCCCCTGTTTATACT
1 TGAATGCACATACGTGCCCCTGTTTGTACT
19450947 CTAGTAACTC
Statistics
Matches: 167, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 3 0.02
40 162 0.97
41 2 0.01
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.35
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
Found at i:19450934 original size:80 final size:80
Alignment explanation
Indices: 19450719--19450954 Score: 303
Period size: 80 Copynumber: 3.0 Consensus size: 80
19450709 TTGTTTAATG
* *
19450719 AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCATGAATGCACATATGTGCCCTTGTTTGT
1 AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTGT
* * *
19450784 ATTTCGGTAACCCTT
66 ACTTCAGTAACCCTA
* * * * *
19450799 AATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTTAATTCACATATGTGCCCCTATTTGT
1 AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTGT
*
19450864 ACTTCAGTACCCCTA
66 ACTTCAGTAACCCTA
* * * ** *
19450879 AATGCACATACGTGCCCCTATTTATACTTTGGTACCCCTGAATGCACTTCCGTGCCCCTGTTTAT
1 AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTGT
19450944 AC-TCTAGTAAC
66 ACTTC-AGTAAC
19450955 TCTGAATCAT
Statistics
Matches: 132, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
79 2 0.02
80 130 0.98
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (80 bp):
AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTGT
ACTTCAGTAACCCTA
Found at i:19456209 original size:24 final size:24
Alignment explanation
Indices: 19456164--19456212 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
19456154 AGTCATACCA
* *
19456164 ATCACAAACAAATTAGTCATTTAC
1 ATCACAAACAAATCAATCATTTAC
* *
19456188 ATCACGAACAAATCAATTATTTAC
1 ATCACAAACAAATCAATCATTTAC
19456212 A
1 A
19456213 CTCGAGGGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (24 bp):
ATCACAAACAAATCAATCATTTAC
Found at i:19456288 original size:27 final size:27
Alignment explanation
Indices: 19456233--19456469 Score: 157
Period size: 27 Copynumber: 8.8 Consensus size: 27
19456223 AAAACAGTTA
* * *
19456233 TTTACCCTTTAG-GGGCATTACGATCAT
1 TTTACCC-TTAGAGGGTATTTCGATAAT
19456260 TTTACCCTATAG-GGGTAATTT-GATAAT
1 TTTACCCT-TAGAGGGT-ATTTCGATAAT
*
19456287 TTTACCCTTCGAGGGTATTTCGATAAT
1 TTTACCCTTAGAGGGTATTTCGATAAT
* * *
19456314 TTTATCCTTCAG-GAGTATTTCGGTAAT
1 TTTACCCTT-AGAGGGTATTTCGATAAT
* * *
19456341 TTGACCCTTCA-AGGTTATTTCAATAAT
1 TTTACCCTT-AGAGGGTATTTCGATAAT
* * * *
19456368 CTTACCTTTCGGGGGTATTTCGATAAT
1 TTTACCCTTAGAGGGTATTTCGATAAT
* * **
19456395 TATACCCTTCG-GGAGT-TTTTTAGTAAT
1 TTTACCCTTAGAGG-GTATTTCGA-TAAT
* *
19456422 TTTACCCTTCGAGGATATTTC-AGTAAT
1 TTTACCCTTAGAGGGTATTTCGA-TAAT
*
19456449 TTTACCCTTCGAGGGTATTTC
1 TTTACCCTTAGAGGGTATTTC
19456470 AATCATTCGA
Statistics
Matches: 169, Mismatches: 30, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
26 13 0.08
27 147 0.87
28 9 0.05
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (27 bp):
TTTACCCTTAGAGGGTATTTCGATAAT
Found at i:19456404 original size:81 final size:81
Alignment explanation
Indices: 19456282--19456469 Score: 259
Period size: 81 Copynumber: 2.3 Consensus size: 81
19456272 GGGTAATTTG
* * *
19456282 ATAATTTTACCCTTCGAGGGTATTTCGATAATTTTATCCTTCAGGAGTATTTCGGTAATTTGACC
1 ATAATTTTACCCTTCGAGGGTATTTCGATAATTATACCCTTCAGGAGTATTTCAGTAATTTGACC
*
19456347 CTTCAAGGTTATTTCA
66 CTTCAAGGATATTTCA
* * * * * * *
19456363 ATAATCTTACCTTTCGGGGGTATTTCGATAATTATACCCTTCGGGAGTTTTTTAGTAATTTTACC
1 ATAATTTTACCCTTCGAGGGTATTTCGATAATTATACCCTTCAGGAGTATTTCAGTAATTTGACC
*
19456428 CTTCGAGGATATTTCA
66 CTTCAAGGATATTTCA
*
19456444 GTAATTTTACCCTTCGAGGGTATTTC
1 ATAATTTTACCCTTCGAGGGTATTTC
19456470 AATCATTCGA
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 91 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (81 bp):
ATAATTTTACCCTTCGAGGGTATTTCGATAATTATACCCTTCAGGAGTATTTCAGTAATTTGACC
CTTCAAGGATATTTCA
Found at i:19456470 original size:27 final size:27
Alignment explanation
Indices: 19456258--19456470 Score: 195
Period size: 27 Copynumber: 7.9 Consensus size: 27
19456248 CATTACGATC
* *
19456258 ATTTTACCCTATAG-GGGTAATTTGA-TA
1 ATTTTACCCT-TCGAGGGT-ATTTCAGTA
19456285 ATTTTACCCTTCGAGGGTATTTC-GATA
1 ATTTTACCCTTCGAGGGTATTTCAG-TA
* *
19456312 ATTTTATCCTTC-AGGAGTATTTCGGTA
1 ATTTTACCCTTCGAGG-GTATTTCAGTA
* * * *
19456339 ATTTGACCCTTCAAGGTTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
* * *
19456366 ATCTTACCTTTCGGGGGTATTTC-GATA
1 ATTTTACCCTTCGAGGGTATTTCAG-TA
* * *
19456393 ATTATACCCTTCG-GGAGTTTTTTAGTA
1 ATTTTACCCTTCGAGG-GTATTTCAGTA
*
19456420 ATTTTACCCTTCGAGGATATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
19456447 ATTTTACCCTTCGAGGGTATTTCA
1 ATTTTACCCTTCGAGGGTATTTCA
19456471 ATCATTCGAA
Statistics
Matches: 151, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
26 11 0.07
27 133 0.88
28 7 0.05
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCAGTA
Found at i:19457994 original size:25 final size:25
Alignment explanation
Indices: 19457957--19458010 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
19457947 TGAACCTCTA
19457957 ACCTCCTTACCACACCTGTGACACC
1 ACCTCCTTACCACACCTGTGACACC
* * *
19457982 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTACCACACCTGTGACACC
19458007 ACCT
1 ACCT
19458011 TACCACTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.19, C:0.48, G:0.11, T:0.22
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGACACC
Found at i:19461242 original size:40 final size:40
Alignment explanation
Indices: 19461180--19461300 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 40
19461170 TACGTGCCCC
* * *
19461180 TGTACTTCGGTACCACTTAATGCACATATGTGCCCCTCTT
1 TGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTATT
* * *
19461220 TGTACTTCAGTACCCCGAAATGCACATACGTGCCCCTATT
1 TGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTATT
* * * *
19461260 TGTACTGCGGGACCCCTAAATGCACTTGTGTGCCCCTATT
1 TGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTATT
19461300 T
1 T
19461301 ATACCCCGGT
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (40 bp):
TGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTATT
Found at i:19470123 original size:100 final size:101
Alignment explanation
Indices: 19469992--19470176 Score: 327
Period size: 100 Copynumber: 1.8 Consensus size: 101
19469982 CCTTGAGATC
* * **
19469992 ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAG-AGGTCCCAT
1 ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGACACCGACATGAGAACATCCCAT
19470056 GTAAGACCATGTCTGGGACAAGGTGTTGGCACCGAG
66 GTAAGACCATGTCTGGGACAAGGTGTTGGCACCGAG
19470092 ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGACACCGACATGAGAACATCCCAT
1 ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGACACCGACATGAGAACATCCCAT
19470157 GTAAGACCATGTCTGGGACA
66 GTAAGACCATGTCTGGGACA
19470177 TGGATTTGGC
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
100 53 0.66
101 27 0.34
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (101 bp):
ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGACACCGACATGAGAACATCCCAT
GTAAGACCATGTCTGGGACAAGGTGTTGGCACCGAG
Found at i:19470139 original size:50 final size:49
Alignment explanation
Indices: 19469939--19470179 Score: 284
Period size: 50 Copynumber: 4.7 Consensus size: 49
19469929 ATTTGGGTAA
* * *
19469939 AGAGATCCCATGTAAGGCCATGTCTGGGACATGACATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TGGCA-CC--GAG---ATG
*
19469995 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT-GGCACCGAGATG
* **
19470045 AGAGGTCCCATGTAAGACCATGTCTGGGACAAGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG-CATGGCACCGAGATG
* *
19470095 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGACACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGG-CACCGAGATG
**
19470145 AGAACATCCCATGTAAGACCATGTCTGGGACATGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGG
19470180 ATTTGGCATG
Statistics
Matches: 165, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
49 3 0.02
50 90 0.55
51 30 0.18
53 3 0.02
55 3 0.02
56 36 0.22
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (49 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGCACCGAGATG
Found at i:19472758 original size:22 final size:22
Alignment explanation
Indices: 19472730--19472772 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19472720 CAGTGTTATC
19472730 AGTGGCAGTTTATCTACAAATT
1 AGTGGCAGTTTATCTACAAATT
*
19472752 AGTGGCAGTTTATCTATAAAT
1 AGTGGCAGTTTATCTACAAAT
19472773 CAGTTGTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (22 bp):
AGTGGCAGTTTATCTACAAATT
Found at i:19473465 original size:21 final size:21
Alignment explanation
Indices: 19473439--19473484 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
19473429 TAAATACGTG
*
19473439 ATTTCAAAATTAAATCTGTTT
1 ATTTCAAAATTAAATATGTTT
* *
19473460 ATTTCAACATTATATATGTTT
1 ATTTCAAAATTAAATATGTTT
19473481 ATTT
1 ATTT
19473485 TAACTCATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTTCAAAATTAAATATGTTT
Found at i:19482826 original size:15 final size:15
Alignment explanation
Indices: 19482808--19482860 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
19482798 TTTCTATTAC
*
19482808 TATTATTGTATTTAT
1 TATTATTATATTTAT
19482823 TATTATTACTTACTTTAT
1 TATTATTA--TA-TTTAT
19482841 TATTATTATCA-TTAT
1 TATTATTAT-ATTTAT
19482856 TATTA
1 TATTA
19482861 CAATTAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 16 0.48
16 1 0.03
17 3 0.09
18 13 0.39
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTATTATATTTAT
Found at i:19482828 original size:6 final size:6
Alignment explanation
Indices: 19482819--19482973 Score: 71
Period size: 6 Copynumber: 25.8 Consensus size: 6
19482809 ATTATTGTAT
* * **
19482819 TTATTA TTATTA CTTACT- TTATTA TTATTA TCATTA TTATTA CAATTA
1 TTATTA TTATTA -TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * * * **
19482867 ATATTA ATATTA ATATTG TTATTA TTACTA TTGCTA TTACTT- TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTA-TTA TTATTA
** * * * * * ** * *
19482915 TTACCA ATATTT TTATTT TTATTT TTATTT TTACCA CTATTA TTATCA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
*
19482963 TTATTT TTATT
1 TTATTA TTATT
19482974 TTTAAACTGT
Statistics
Matches: 113, Mismatches: 32, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
5 6 0.05
6 102 0.90
7 5 0.04
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.60
Consensus pattern (6 bp):
TTATTA
Found at i:19482829 original size:18 final size:18
Alignment explanation
Indices: 19482773--19482849 Score: 65
Period size: 18 Copynumber: 4.4 Consensus size: 18
19482763 TAGTATTACC
19482773 ATTATT-TTTACTTTTATT
1 ATTATTATTTAC-TTTATT
* *
19482791 TTTAATATTT-C--TATT
1 ATTATTATTTACTTTATT
*
19482806 ACTATTATTGTA-TTTATT
1 ATTATTATT-TACTTTATT
*
19482824 ATTATTACTTACTTTATT
1 ATTATTATTTACTTTATT
19482842 ATTATTAT
1 ATTATTAT
19482850 CATTATTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
15 10 0.22
16 1 0.02
17 2 0.04
18 29 0.64
19 3 0.07
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.65
Consensus pattern (18 bp):
ATTATTATTTACTTTATT
Found at i:19482916 original size:12 final size:12
Alignment explanation
Indices: 19482766--19482918 Score: 73
Period size: 12 Copynumber: 12.5 Consensus size: 12
19482756 ATTTCAATAG
*
19482766 TATTACCATTAT
1 TATTACTATTAT
* *
19482778 TTTTACTTTTAT
1 TATTACTATTAT
* *
19482790 TTTTAATATT-T
1 TATTACTATTAT
19482801 CTATTACTATTATT
1 -TATTACTATTA-T
*
19482815 GTATTTATTATTAT
1 -TA-TTACTATTAT
19482829 TACTTACTTTATTAT
1 TA-TTAC--TATTAT
19482844 TATTA-TCATTAT
1 TATTACT-ATTAT
* *
19482856 TATTACAATTAA
1 TATTACTATTAT
19482868 TATTA--A-TAT
1 TATTACTATTAT
* * *
19482877 TAATATTGTTAT
1 TATTACTATTAT
**
19482889 TATTACTATTGC
1 TATTACTATTAT
*
19482901 TATTACTTTTAT
1 TATTACTATTAT
19482913 TATTAC
1 TATTAC
19482919 CAATATTTTT
Statistics
Matches: 106, Mismatches: 24, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
9 6 0.06
10 1 0.01
11 2 0.02
12 69 0.65
13 5 0.05
14 7 0.07
15 16 0.15
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTACTATTAT
Found at i:19482974 original size:30 final size:30
Alignment explanation
Indices: 19482902--19482977 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
19482892 TACTATTGCT
* * * *
19482902 ATTACTTTTATTATTACCAATATTTTTATT
1 ATTATTTTTATTTTTACCAATATTATTATC
* *
19482932 TTTATTTTTATTTTTACCACTATTATTATC
1 ATTATTTTTATTTTTACCAATATTATTATC
19482962 ATTATTTTTATTTTTA
1 ATTATTTTTATTTTTA
19482978 AACTGTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.64
Consensus pattern (30 bp):
ATTATTTTTATTTTTACCAATATTATTATC
Found at i:19483119 original size:12 final size:11
Alignment explanation
Indices: 19483102--19483131 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
19483092 TATTTTTTTA
19483102 TTTTATTTTGT
1 TTTTATTTTGT
19483113 TTCTTATTTTGT
1 TT-TTATTTTGT
19483125 TTTTATT
1 TTTTATT
19483132 CTTAATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTTATTTTGT
Found at i:19485057 original size:25 final size:25
Alignment explanation
Indices: 19485026--19485107 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
19485016 TTAACTATCA
* * *
19485026 CCTCTGCTGCATCGCCATCAACACT
1 CCTCTGCTGTATCACCATCGACACT
19485051 CCTCTGCCT-TATCACCATCGACACT
1 CCTCTG-CTGTATCACCATCGACACT
* *
19485076 CCTCTACTGTATCACCGTCGACACT
1 CCTCTGCTGTATCACCATCGACACT
19485101 CCTCTGC
1 CCTCTGC
19485108 CCCAAAACAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.04
25 45 0.92
26 2 0.04
ACGTcount: A:0.18, C:0.44, G:0.11, T:0.27
Consensus pattern (25 bp):
CCTCTGCTGTATCACCATCGACACT
Found at i:19485281 original size:21 final size:22
Alignment explanation
Indices: 19485234--19485283 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
19485224 CCGAAACATC
*
19485234 TATTTTTTGGGTTAATATTTAT
1 TATTTTTTGGGTTAATATTCAT
19485256 TATTTTTTGGGTT-ATA-TCAT
1 TATTTTTTGGGTTAATATTCAT
*
19485276 TAATTTTT
1 TATTTTTT
19485284 ATTATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 10 0.38
21 3 0.12
22 13 0.50
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.64
Consensus pattern (22 bp):
TATTTTTTGGGTTAATATTCAT
Found at i:19487453 original size:72 final size:72
Alignment explanation
Indices: 19487373--19487582 Score: 255
Period size: 71 Copynumber: 2.9 Consensus size: 72
19487363 TCAAGTAAAT
*
19487373 TCGTTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATCTTA
1 TCGTTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATATTA
19487438 AGCGA-AA
66 AG-GAGAA
19487445 TCGTTTATTTAATTATGTGTTTTTAAAAA-TTTAATTTAGTTAAATTTATTGAA-TTTTGATATT
1 TCGTTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATT-AAGTTTTGATATT
* *
19487508 ATGTAGAA
65 AAGGAGAA
* ** * ** * * * * *
19487516 CCGTTTATCCAATTATGTATTTTTAAAAAGGCTATTTTAGTTCAATTCATTGAGTTTCGATATTA
1 TCGTTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATATTA
19487581 AG
66 AG
19487583 TAAAACCGTT
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
70 1 0.01
71 60 0.50
72 58 0.49
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (72 bp):
TCGTTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATATTA
AGGAGAA
Found at i:19487591 original size:72 final size:72
Alignment explanation
Indices: 19487365--19487668 Score: 297
Period size: 72 Copynumber: 4.2 Consensus size: 72
19487355 ATTAATTATC
** *
19487365 AAGTAAATTCGTTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTT
1 AAGTAAAACCGTTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTGAGTTT
*
19487430 TGATCTT
66 TGATATT
** * *
19487437 AAGCGAAATCGTTTATTTAATTATGTGTTTTTAAAAA-TTTAATTTAGTTAAATTTATTGAATTT
1 AAGTAAAACCGTTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTGAGTTT
19487501 TGATATT
66 TGATATT
* * ** * ** * * *
19487508 ATGTAGAACCGTTTATCCAATTATGTATTTTTAAAAAGGCTATTTTAGTTCAATTCATTGAGTTT
1 AAGTAAAACCGTTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTGAGTTT
*
19487573 CGATATT
66 TGATATT
* * * * * * * * **
19487580 AAGTAAAACCGTTTACTCAAGTTATATG-TTTTGAGAAGATTAAATTAATTTGATTTATTGAGTT
1 AAGTAAAACCGTTTATTTAA-TTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTGAGTT
*
19487644 TTAATATT
65 TTGATATT
**
19487652 AAGTAAAATTGTTTATT
1 AAGTAAAACCGTTTATT
19487669 CGGTAATATG
Statistics
Matches: 188, Mismatches: 42, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
71 60 0.32
72 123 0.65
73 5 0.03
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.48
Consensus pattern (72 bp):
AAGTAAAACCGTTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTGAGTTT
TGATATT
Found at i:19488164 original size:13 final size:13
Alignment explanation
Indices: 19488146--19488173 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19488136 AAAAAAACCA
19488146 AAATAATCAATTT
1 AAATAATCAATTT
19488159 AAATAATCAATTT
1 AAATAATCAATTT
19488172 AA
1 AA
19488174 TATCTTTAAA
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:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATAATCAATTT
Found at i:19489629 original size:46 final size:46
Alignment explanation
Indices: 19489562--19489655 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
19489552 ATGCCAAGAT
19489562 ATGAAGAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
1 ATGAAGAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
*
19489608 ATGAATAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
1 ATGAAGAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
19489654 AT
1 AT
19489656 AGTTGCCCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (46 bp):
ATGAAGAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
Found at i:19494449 original size:66 final size:66
Alignment explanation
Indices: 19494338--19494471 Score: 162
Period size: 66 Copynumber: 2.0 Consensus size: 66
19494328 GAAAATTGCT
* * * * * * *
19494338 CAACTTAAAGTGGAGGCAGCATCGATAGAAACAGAGGCTTAAAGAAAATATGATGAACTCCAACT
1 CAACTTAAAATGGAGGCAACAGCGAGAGAAACAGAGGCTAAAAGAAAATACGACGAACTCCAACT
19494403 A
66 A
* * *
19494404 CAACTTAAAATGGAGGCAACAGCGAGGGAAATAGAGGC-AACAAGAAAATACGGCGAACTCCAAC
1 CAACTTAAAATGGAGGCAACAGCGAGAGAAACAGAGGCTAA-AAGAAAATACGACGAACTCCAAC
19494468 TA
65 TA
19494470 CA
1 CA
19494472 GCTTCAGAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 1 0.02
66 56 0.98
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (66 bp):
CAACTTAAAATGGAGGCAACAGCGAGAGAAACAGAGGCTAAAAGAAAATACGACGAACTCCAACT
A
Found at i:19501133 original size:20 final size:20
Alignment explanation
Indices: 19501108--19501188 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
19501098 TTGTACAGAA
19501108 TTGCACTTCGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
*
19501128 TTGCACAATT--GTGCCTTTGT
1 TTGCAC--TTCGGTGCCTCTGT
** *
19501148 TTGCACTTCAATTCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
19501168 TACT-CATCTTCGGTGCCTCTG
1 T--TGCA-CTTCGGTGCCTCTG
19501189 GGGTGGTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
18 2 0.04
20 29 0.62
21 2 0.04
22 14 0.30
ACGTcount: A:0.11, C:0.28, G:0.19, T:0.42
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:19503989 original size:15 final size:15
Alignment explanation
Indices: 19503966--19503999 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
19503956 ATTTCATGCC
19503966 TCAAACACCGTGTTA
1 TCAAACACCGTGTTA
*
19503981 TCAATCACCGTGTTA
1 TCAAACACCGTGTTA
19503996 TCAA
1 TCAA
19504000 GGAACAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (15 bp):
TCAAACACCGTGTTA
Found at i:19512720 original size:12 final size:12
Alignment explanation
Indices: 19512689--19512720 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
19512679 TCTTTGAAAC
19512689 AAATTGAAAAAA
1 AAATTGAAAAAA
19512701 AAA-T-AAAAAA
1 AAATTGAAAAAA
19512711 AAATTGAAAA
1 AAATTGAAAA
19512721 TTTTTTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.50
11 2 0.11
12 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (12 bp):
AAATTGAAAAAA
Found at i:19529684 original size:17 final size:17
Alignment explanation
Indices: 19529662--19529694 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19529652 ATTTGTACAC
*
19529662 ATTGTCGTTGCATTTTT
1 ATTGTCATTGCATTTTT
19529679 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
19529695 AATGATAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:19533575 original size:22 final size:22
Alignment explanation
Indices: 19533550--19533591 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
19533540 TAGAGCTATG
*
19533550 ATTTAATTGATTCTTGGACTAA
1 ATTTAATTGATTCTAGGACTAA
19533572 ATTTAATTGATTCTAGGACT
1 ATTTAATTGATTCTAGGACT
19533592 GAACGTAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (22 bp):
ATTTAATTGATTCTAGGACTAA
Found at i:19537584 original size:20 final size:21
Alignment explanation
Indices: 19537561--19537604 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
19537551 AGTGAACCTA
19537561 CCCT-CGATGTCATGACATAC
1 CCCTCCGATGTCATGACATAC
* *
19537581 CCCTCCTATGTCGTGACATAC
1 CCCTCCGATGTCATGACATAC
19537602 CCC
1 CCC
19537605 CTACGTAGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.20, C:0.41, G:0.14, T:0.25
Consensus pattern (21 bp):
CCCTCCGATGTCATGACATAC
Found at i:19546316 original size:23 final size:23
Alignment explanation
Indices: 19546289--19546333 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
19546279 CGGAACTAAA
19546289 AAAATGAATTGAGATTCAAAAAG
1 AAAATGAATTGAGATTCAAAAAG
* *
19546312 AAAATGAATTGTGGTTCAAAAA
1 AAAATGAATTGAGATTCAAAAA
19546334 AAGAGTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.24
Consensus pattern (23 bp):
AAAATGAATTGAGATTCAAAAAG
Found at i:19547420 original size:21 final size:21
Alignment explanation
Indices: 19547387--19547435 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
19547377 AAATCAAGAA
*
19547387 AAAAAGAGCTTGAGAGAAAAT-
1 AAAAAGAGATTGA-AGAAAATG
* *
19547408 AAAAATAGATTGAAGAACATG
1 AAAAAGAGATTGAAGAAAATG
19547429 AAAAAGA
1 AAAAAGA
19547436 AAAAGTGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.61, C:0.04, G:0.20, T:0.14
Consensus pattern (21 bp):
AAAAAGAGATTGAAGAAAATG
Found at i:19547492 original size:18 final size:19
Alignment explanation
Indices: 19547426--19547480 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
19547416 ATTGAAGAAC
***
19547426 ATGAAAAAGAAAAAGTGTG
1 ATGAAAAAGAAAAAGAAAG
19547445 -TGAGAAAAGAAAAA-AAAG
1 ATGA-AAAAGAAAAAGAAAG
19547463 ATGAAAAAGAAAAAGAAA
1 ATGAAAAAGAAAAAGAAA
19547481 AAGAATGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.09
Consensus pattern (19 bp):
ATGAAAAAGAAAAAGAAAG
Found at i:19551500 original size:27 final size:27
Alignment explanation
Indices: 19551462--19551712 Score: 278
Period size: 27 Copynumber: 9.3 Consensus size: 27
19551452 AACAGGCCAC
* *
19551462 AAATTACTGAAATACCCTTGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
*
19551489 AAATGACTGAAATACCCCCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* * * * *
19551516 AAATAACCGAAATACCCCCAAAGGGTT
1 AAATGACTGAAATACCCTCGAAGGGTA
*
19551543 AAATGACTGAAATA-CGTCCGAAGGGTA
1 AAATGACTGAAATACCCT-CGAAGGGTA
*
19551570 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* **
19551597 AAATAACCAAAATA-CCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
*
19551623 AAATGA-TGGAAATACCCT-AATAGGGTA
1 AAATGACT-GAAATACCCTCGA-AGGGTA
19551650 AAATGACTGAAATACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* * *
19551677 ACATGACCGAAATACCCTC-ATAGGGTG
1 AAATGACTGAAATACCCTCGA-AGGGTA
19551704 AAATGACTG
1 AAATGACTG
19551713 TTATACCCCT
Statistics
Matches: 189, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
26 25 0.13
27 160 0.85
28 4 0.02
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (27 bp):
AAATGACTGAAATACCCTCGAAGGGTA
Found at i:19551657 original size:107 final size:108
Alignment explanation
Indices: 19551470--19551695 Score: 305
Period size: 107 Copynumber: 2.1 Consensus size: 108
19551460 ACAAATTACT
* * **
19551470 GAAATACCCTTGAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATAACCGAAATACCCCC
1 GAAATACCCTCGAAGGGTAAAATAACCAAAATACCCCCGAAGGGTAAAATAACCGAAATACCCCC
* *
19551535 AAAGGGTTAAATGACTGAAATA-CGTCCGAAGGGTAAAATGACC
66 AAAGGGTAAAATGACTGAAATACCCT-CGAAGGGTAAAATGACC
* * ** *
19551578 GAAATACCCTCGAAGGGTAAAATAACCAAAATA-CCTCGAAGGGTAAAATGATGGAAATA-CCCT
1 GAAATACCCTCGAAGGGTAAAATAACCAAAATACCCCCGAAGGGTAAAATAACCGAAATACCCCC
*
19551641 AATAGGGTAAAATGACTGAAATACCCTCGAAGGGTAACATGACC
66 AA-AGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACC
19551685 GAAATACCCTC
1 GAAATACCCTC
19551696 ATAGGGTGAA
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
106 5 0.05
107 68 0.65
108 31 0.30
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (108 bp):
GAAATACCCTCGAAGGGTAAAATAACCAAAATACCCCCGAAGGGTAAAATAACCGAAATACCCCC
AAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACC
Found at i:19551719 original size:107 final size:106
Alignment explanation
Indices: 19551470--19551721 Score: 301
Period size: 107 Copynumber: 2.3 Consensus size: 106
19551460 ACAAATTACT
*
19551470 GAAATACCCTTGAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATAACCGAAATACCCCC
1 GAAATACCC-TCAAGGGTAAAATGACTGAAATA-CCCCGAAGGGTAAAATAACCGAAATACCCCC
* *
19551535 AAAGGGTTAAATGACTGAAATACGTCCGAAGGGTAAAATGACC
64 AAAGGGTAAAATGACTGAAATACCTCCGAAGGGTAAAATGACC
* ** * * ** *
19551578 GAAATACCCTCGAAGGGTAAAATAACCAAAATACCTCGAAGGGTAAAATGATGGAAATA-CCCTA
1 GAAATACCCTC-AAGGGTAAAATGACTGAAATACCCCGAAGGGTAAAATAACCGAAATACCCCCA
*
19551642 ATAGGGTAAAATGACTGAAATACC-CTCGAAGGGTAACATGACC
65 A-AGGGTAAAATGACTGAAATACCTC-CGAAGGGTAAAATGACC
* **
19551685 GAAATACCCTCATAGGGTGAAATGACTGTTATACCCC
1 GAAATACCCTCA-AGGGTAAAATGACTGAAATACCCC
19551722 TAGAAATTGA
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
106 7 0.06
107 87 0.72
108 27 0.22
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (106 bp):
GAAATACCCTCAAGGGTAAAATGACTGAAATACCCCGAAGGGTAAAATAACCGAAATACCCCCAA
AGGGTAAAATGACTGAAATACCTCCGAAGGGTAAAATGACC
Found at i:19551919 original size:26 final size:26
Alignment explanation
Indices: 19551890--19551979 Score: 108
Period size: 26 Copynumber: 3.5 Consensus size: 26
19551880 ACAAATATTG
* *
19551890 TTACTGGCAACTCTGTTGCGTTACTT
1 TTACTGGCAGCTCTGTTGCGTTACTA
* *
19551916 TTACTGGTAGCTCTGTTGCGTTACTG
1 TTACTGGCAGCTCTGTTGCGTTACTA
* * * *
19551942 TTACTGGTAGCTATGCTGCGTTACCA
1 TTACTGGCAGCTCTGTTGCGTTACTA
19551968 TTACTGGCAGCT
1 TTACTGGCAGCT
19551980 TTGCTGCGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (26 bp):
TTACTGGCAGCTCTGTTGCGTTACTA
Found at i:19554851 original size:42 final size:42
Alignment explanation
Indices: 19554764--19554913 Score: 194
Period size: 42 Copynumber: 3.6 Consensus size: 42
19554754 ACAACCTAGC
* *
19554764 ACACGACTTGACACACGGGCGTGTGAGG-CATTTCGAGAGTT
1 ACACGGCTTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTT
* * *
19554805 ACACGGCTTAGCACACGGGCGTGAGAGGCCATTTTGAGAGTT
1 ACACGGCTTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTT
** *
19554847 ACACGGCTTGGCACATAGGTGTGTGAGGCCATTTCGAGAGTT
1 ACACGGCTTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTT
** *
19554889 GTACGGCCTGGCACACGGGCGTGTG
1 ACACGGCTTGGCACACGGGCGTGTG
19554914 GTTCGGTCGT
Statistics
Matches: 91, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 24 0.26
42 67 0.74
ACGTcount: A:0.21, C:0.22, G:0.35, T:0.22
Consensus pattern (42 bp):
ACACGGCTTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTT
Found at i:19561243 original size:20 final size:19
Alignment explanation
Indices: 19561221--19561258 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19561211 TCAATTTTTT
19561221 TTTTGATTTTTTTTTTCGA
1 TTTTGATTTTTTTTTTCGA
19561240 TTTTGATTTTTTTTTTCGA
1 TTTTGATTTTTTTTTTCGA
19561259 ACTCCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.05, G:0.11, T:0.74
Consensus pattern (19 bp):
TTTTGATTTTTTTTTTCGA
Found at i:19561249 original size:31 final size:30
Alignment explanation
Indices: 19561196--19561255 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
19561186 GACTGTATGC
19561196 ATTTTTTTTTTCTTTTCAATTTTTTTTTTG
1 ATTTTTTTTTTCTTTTCAATTTTTTTTTTG
*
19561226 ATTTTTTTTTTCGATTTT-GATTTTTTTTTT
1 ATTTTTTTTTTC--TTTTCAATTTTTTTTTT
19561256 CGAACTCCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.44
31 11 0.41
32 4 0.15
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (30 bp):
ATTTTTTTTTTCTTTTCAATTTTTTTTTTG
Found at i:19561255 original size:12 final size:13
Alignment explanation
Indices: 19561201--19561243 Score: 61
Period size: 12 Copynumber: 3.3 Consensus size: 13
19561191 TATGCATTTT
*
19561201 TTTTTTCTTTTCAA
1 TTTTTT-TTTTCGA
19561215 TTTTTTTTTT-GA
1 TTTTTTTTTTCGA
19561227 TTTTTTTTTTCGA
1 TTTTTTTTTTCGA
19561240 TTTT
1 TTTT
19561244 GATTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.41
13 10 0.37
14 6 0.22
ACGTcount: A:0.09, C:0.07, G:0.05, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTTCGA
Found at i:19561596 original size:21 final size:21
Alignment explanation
Indices: 19561570--19561613 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
19561560 TTGGTATTTG
19561570 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
19561591 GGAATTTGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
19561612 GG
1 GG
19561614 TATTAAAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.34, T:0.32
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:19562704 original size:10 final size:10
Alignment explanation
Indices: 19562689--19562730 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
19562679 TTTGCAAGTT
19562689 TTGAGCTAAA
1 TTGAGCTAAA
* *
19562699 TTGAGCTGAT
1 TTGAGCTAAA
*
19562709 TTGAGCT-CA
1 TTGAGCTAAA
19562718 TTGAGCTAAA
1 TTGAGCTAAA
19562728 TTG
1 TTG
19562731 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:19570935 original size:30 final size:30
Alignment explanation
Indices: 19570899--19571178 Score: 214
Period size: 30 Copynumber: 9.4 Consensus size: 30
19570889 GGTTGTCATG
*
19570899 ATCCCTTTTCATAGTTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAGTCGAAGCT
*
19570929 ATCCCTTTTCATTATTCGATAG-CTGAAGCT
1 ATCCCTTTTCATAATTCGATAGTC-GAAGCT
* * * *
19570959 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTCGATAGTCG-AAGCT
* * * *
19570989 ATGCTTTTTCATAATTCCATAGTCGAAGAT
1 ATCCCTTTTCATAATTCGATAGTCGAAGCT
* * * * *
19571019 AACGCTTTTCATATTTC-AAAGTCGGAGCT
1 ATCCCTTTTCATAATTCGATAGTCGAAGCT
* * *
19571048 ATCCCTTTTCAT-ATTCCGATGGTCGTCA-CC
1 ATCCCTTTTCATAATT-CGATAGTCG-AAGCT
* * *
19571078 ATCCCTTTTCATTATT-GATGGTCGTCA-CT
1 ATCCCTTTTCATAATTCGATAGTCG-AAGCT
* ** *
19571107 ATCCTTTTTCATAATTCGATAACCGAAGCC
1 ATCCCTTTTCATAATTCGATAGTCGAAGCT
* * *
19571137 ATCCATTTTCATAATTCGATAGCCAAAGCT
1 ATCCCTTTTCATAATTCGATAGTCGAAGCT
19571167 ATCCCTTTTCAT
1 ATCCCTTTTCAT
19571179 TGATCGATGA
Statistics
Matches: 197, Mismatches: 43, Indels: 20
0.76 0.17 0.08
Matches are distributed among these distances:
28 2 0.01
29 49 0.25
30 140 0.71
31 6 0.03
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAGTCGAAGCT
Found at i:19571105 original size:29 final size:30
Alignment explanation
Indices: 19571048--19571126 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
19571038 AGTCGGAGCT
19571048 ATCCCTTTTCA-TATTCCGATGGTCGTCACC
1 ATCCCTTTTCATTATT-CGATGGTCGTCACC
*
19571078 ATCCCTTTTCATTATT-GATGGTCGTCACT
1 ATCCCTTTTCATTATTCGATGGTCGTCACC
* *
19571107 ATCCTTTTTCATAATTCGAT
1 ATCCCTTTTCATTATTCGAT
19571127 AACCGAAGCC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 26 0.59
30 14 0.32
31 4 0.09
ACGTcount: A:0.19, C:0.27, G:0.11, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTCATTATTCGATGGTCGTCACC
Found at i:19571139 original size:59 final size:60
Alignment explanation
Indices: 19570927--19571148 Score: 175
Period size: 59 Copynumber: 3.7 Consensus size: 60
19570917 ATAGTCGAAG
* * * *
19570927 CTATCCCTTTTCATTATTCGATAGCTGAAGCTATCCCTTTTCATAATTTGATGGTCGTCA
1 CTATCCCTTTTCATAATTCGATAGCCGAAGCCATCCCTTTTCATTATTTGATGGTCGTCA
* * * * * ** * * * ** *
19570987 CCATGCTTTTTCATAATTCCATAGTCGAAGATAACGCTTTTCA-TATTTCAAAGTCG-GA
1 CTATCCCTTTTCATAATTCGATAGCCGAAGCCATCCCTTTTCATTATTTGATGGTCGTCA
* * *
19571045 GCTATCCCTTTTCAT-ATTCCGATGGTCGTCA-CCATCCCTTTTCATTA-TTGATGGTCGTCA
1 -CTATCCCTTTTCATAATT-CGATAGCCG-AAGCCATCCCTTTTCATTATTTGATGGTCGTCA
* * *
19571105 CTATCCTTTTTCATAATTCGATAACCGAAGCCATCCATTTTCAT
1 CTATCCCTTTTCATAATTCGATAGCCGAAGCCATCCCTTTTCAT
19571149 AATTCGATAG
Statistics
Matches: 120, Mismatches: 35, Indels: 15
0.71 0.21 0.09
Matches are distributed among these distances:
58 5 0.04
59 75 0.62
60 40 0.33
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (60 bp):
CTATCCCTTTTCATAATTCGATAGCCGAAGCCATCCCTTTTCATTATTTGATGGTCGTCA
Found at i:19583474 original size:54 final size:54
Alignment explanation
Indices: 19583411--19583526 Score: 178
Period size: 54 Copynumber: 2.1 Consensus size: 54
19583401 TTTTAGTTGC
* * *
19583411 TGGAATAAATTACTCATCTTAGTTAATTGATTTCATCTTAGTTAATTAAGCTAT
1 TGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGCTAATTAAGCTAT
* * *
19583465 TGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGCTAATTTAGTTGT
1 TGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGCTAATTAAGCTAT
19583519 TGGAATAA
1 TGGAATAA
19583527 TTTATTATTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (54 bp):
TGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGCTAATTAAGCTAT
Found at i:19583502 original size:19 final size:19
Alignment explanation
Indices: 19583424--19583516 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 19
19583414 AATAAATTAC
* *
19583424 TCATCTTAGTTAATTGATT
1 TCATCTTAGTTAATTAAGT
*
19583443 TCATCTTAGTTAATTAAGC
1 TCATCTTAGTTAATTAAGT
* * * *
19583462 T-AT-TGGAATAAATT-A-C
1 TCATCT-TAGTTAATTAAGT
19583478 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* *
19583497 TCATCTTAGCTAATTTAGT
1 TCATCTTAGTTAATTAAGT
19583516 T
1 T
19583517 GTTGGAATAA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
16 2 0.04
17 10 0.18
18 10 0.18
19 35 0.61
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:19590276 original size:33 final size:33
Alignment explanation
Indices: 19590238--19590309 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
19590228 GATTACTCTC
19590238 TTCACTCG-TTTCTTTTGCAAACTCTCTTTCTTT
1 TTCACTCGATTTCTTTT-CAAACTCTCTTTCTTT
**
19590271 TTCACTCGATTTCTTTTCAGGCTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCAAACTCTCTTTCTTT
*
19590304 TCCACT
1 TTCACT
19590310 TTCATTTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 27 0.77
34 8 0.23
ACGTcount: A:0.11, C:0.29, G:0.07, T:0.53
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAACTCTCTTTCTTT
Found at i:19590302 original size:17 final size:15
Alignment explanation
Indices: 19590258--19590305 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
19590248 TCTTTTGCAA
19590258 ACTCTCTTTCTTTTTC
1 ACTCTCTTTC-TTTTC
**
19590274 ACTCGATTTCTTTTC
1 ACTCTCTTTCTTTTC
19590289 AGGCTCTCTTTCTTTTC
1 A--CTCTCTTTCTTTTC
19590306 CACTTTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 6 0.23
16 8 0.31
17 12 0.46
ACGTcount: A:0.08, C:0.29, G:0.06, T:0.56
Consensus pattern (15 bp):
ACTCTCTTTCTTTTC
Found at i:19590360 original size:21 final size:20
Alignment explanation
Indices: 19590297--19590360 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
19590287 TCAGGCTCTC
19590297 TTTC-TTTTCCA-CTTTCAT
1 TTTCTTTTTCCATCTTTCAT
** *
19590315 TTTCTTTTTCTTTTCTTTCAA
1 TTTCTTTTTC-CATCTTTCAT
*
19590336 TTTCTTTTTCCACTCTTTCTT
1 TTTCTTTTTCCA-TCTTTCAT
19590357 TTTC
1 TTTC
19590361 GATAATCATT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 4 0.11
19 5 0.14
21 26 0.74
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTCTTTTTCCATCTTTCAT
Found at i:19591714 original size:21 final size:21
Alignment explanation
Indices: 19591681--19591726 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
19591671 CTTTTTTTAA
19591681 TTTAATATTTTTTTGAACTTTT
1 TTTAATATTTTTTTGAA-TTTT
19591703 TTTAAT-TTTTTTTGAATTTT
1 TTTAATATTTTTTTGAATTTT
19591723 TTTA
1 TTTA
19591727 TTCTGAGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 8 0.33
21 10 0.42
22 6 0.25
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (21 bp):
TTTAATATTTTTTTGAATTTT
Found at i:19591725 original size:10 final size:11
Alignment explanation
Indices: 19591688--19591725 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
19591678 TAATTTAATA
19591688 TTTTTTTGAAC
1 TTTTTTTGAAC
*
19591699 TTTTTTT-AAT
1 TTTTTTTGAAC
19591709 TTTTTTTGAA-
1 TTTTTTTGAAC
19591719 TTTTTTT
1 TTTTTTT
19591726 ATTCTGAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (11 bp):
TTTTTTTGAAC
Found at i:19593575 original size:19 final size:19
Alignment explanation
Indices: 19593524--19593581 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 19
19593514 TATAAATTAC
* *
19593524 TCATCTTAGTTAACTGAGT
1 TCATCTTAGTTAATTAAGT
19593543 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
19593562 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
19593581 T
1 T
19593582 GCTAGAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:19593708 original size:9 final size:9
Alignment explanation
Indices: 19593694--19593731 Score: 58
Period size: 9 Copynumber: 4.0 Consensus size: 9
19593684 TATGTGTTAA
19593694 AATGTGTTT
1 AATGTGTTT
19593703 AATGTGTTT
1 AATGTGTTT
19593712 AATGTGTTTTT
1 AATGTG--TTT
19593723 AATGTGTTT
1 AATGTGTTT
19593732 GTTTGTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 18 0.67
11 9 0.33
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (9 bp):
AATGTGTTT
Found at i:19593723 original size:11 final size:11
Alignment explanation
Indices: 19593700--19593731 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
19593690 TTAAAATGTG
19593700 TTTAATGTG--
1 TTTAATGTGTT
19593709 TTTAATGTGTT
1 TTTAATGTGTT
19593720 TTTAATGTGTT
1 TTTAATGTGTT
19593731 T
1 T
19593732 GTTTGTAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (11 bp):
TTTAATGTGTT
Found at i:19595189 original size:20 final size:20
Alignment explanation
Indices: 19595166--19595207 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19595156 TAGCTCAACG
* *
19595166 AGCTCGTTCCTAGCTCACTT
1 AGCTCATTCCTACCTCACTT
*
19595186 AGCTCATTCCTACCTCATTT
1 AGCTCATTCCTACCTCACTT
19595206 AG
1 AG
19595208 TTTGCATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (20 bp):
AGCTCATTCCTACCTCACTT
Found at i:19606831 original size:17 final size:18
Alignment explanation
Indices: 19606804--19606837 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
19606794 AAATAATATA
19606804 AATAGTAAATAAAAAATT
1 AATAGTAAATAAAAAATT
19606822 AATA-TAAATAAAAAAT
1 AATAGTAAATAAAAAAT
19606838 AAACAATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AATAGTAAATAAAAAATT
Found at i:19609215 original size:44 final size:45
Alignment explanation
Indices: 19609098--19609218 Score: 129
Period size: 44 Copynumber: 2.7 Consensus size: 45
19609088 TTCGCCTAAA
* * *
19609098 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCATATTCAG
* * **
19609143 TCTCCCCCACTACAACTTCAAGGG-GATAAGACTT-CTTTATTCAG
1 TCTGCTCCACTACAACTTC-AGGGAGATAAGACTTGCCATATTCAG
** *
19609187 TCTGCTCCACTTTAACCTCAGGGAGATAAGAC
1 TCTGCTCCACTACAACTTCAGGGAGATAAGAC
19609219 CTGATATCTT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
43 4 0.06
44 29 0.47
45 25 0.40
46 4 0.06
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (45 bp):
TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCATATTCAG
Found at i:19609423 original size:100 final size:100
Alignment explanation
Indices: 19609245--19609434 Score: 256
Period size: 100 Copynumber: 1.9 Consensus size: 100
19609235 GTTTAACTGG
* *
19609245 AATGTCGGGGAAACAAGATTCACCATCGTAGCTTCAATCTATTCCACTATACCGCCAAGGAAGTA
1 AATGTCGGGGAAACAAGATTCACCATCGTAGCTTCAATCTACTCCACTACACCGCCAAGGAAGTA
19609310 AGATTCACCGTTGC-GCCTTCAATCTTTTTAATTAC
66 AGATTCACCGTTGCAG-CTTCAATCTTTTTAATTAC
** * * ** *
19609345 AATGTCGGGGAAACAAGATTGGCCGTCGTAGCTTCAATCTGCTCCACTACATTGCCAGGGAAGTA
1 AATGTCGGGGAAACAAGATTCACCATCGTAGCTTCAATCTACTCCACTACACCGCCAAGGAAGTA
** *
19609410 AGATTTGCTGTTGCAGCTTCAATCT
66 AGATTCACCGTTGCAGCTTCAATCT
19609435 ACTCCACTGT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 76 0.99
101 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (100 bp):
AATGTCGGGGAAACAAGATTCACCATCGTAGCTTCAATCTACTCCACTACACCGCCAAGGAAGTA
AGATTCACCGTTGCAGCTTCAATCTTTTTAATTAC
Found at i:19620539 original size:14 final size:14
Alignment explanation
Indices: 19620522--19620576 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
19620512 TAAGAGAAAA
*
19620522 AAATAAAATGTGTG
1 AAATAAAATGAGTG
19620536 AAATAAAATGAGTG
1 AAATAAAATGAGTG
*
19620550 AAGA-AAAA-GAGCAG
1 AA-ATAAAATGAG-TG
19620564 AAA-AAAATGAGTG
1 AAATAAAATGAGTG
19620577 TTTATGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 9 0.26
14 25 0.71
15 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.24, T:0.16
Consensus pattern (14 bp):
AAATAAAATGAGTG
Found at i:19623562 original size:20 final size:21
Alignment explanation
Indices: 19623539--19623586 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
19623529 CAGCTCAACT
19623539 CTAGCTCAAC-GAGCTCATTC
1 CTAGCTCAACTGAGCTCATTC
*
19623559 CTAGCTC-ACTTAGCTCATTC
1 CTAGCTCAACTGAGCTCATTC
*
19623579 GTAGCTCA
1 CTAGCTCA
19623587 TTTAGTGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (21 bp):
CTAGCTCAACTGAGCTCATTC
Found at i:19623591 original size:20 final size:20
Alignment explanation
Indices: 19623550--19623591 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
19623540 TAGCTCAACG
19623550 AGCTCATTCCTAGCTCACTT
1 AGCTCATTCCTAGCTCACTT
* *
19623570 AGCTCATTCGTAGCTCATTT
1 AGCTCATTCCTAGCTCACTT
19623590 AG
1 AG
19623592 TGTAACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (20 bp):
AGCTCATTCCTAGCTCACTT
Found at i:19626004 original size:15 final size:15
Alignment explanation
Indices: 19625962--19626014 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
19625952 AACTAATACA
19625962 AATAATAAT-ACTAAT
1 AATAATAATAAC-AAT
* ** *
19625977 AATTATAGGAACATT
1 AATAATAATAACAAT
19625992 AATAATAATAACAAT
1 AATAATAATAACAAT
19626007 AATAATAA
1 AATAATAA
19626015 AGAAAATAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 27 0.93
16 2 0.07
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:19626730 original size:18 final size:18
Alignment explanation
Indices: 19626707--19626745 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19626697 AACTAATATT
19626707 GAAGAAA-CAGAAAAGAAA
1 GAAGAAATC-GAAAAGAAA
*
19626725 GAAGAAATCTAAAAGAAA
1 GAAGAAATCGAAAAGAAA
19626743 GAA
1 GAA
19626746 AAGAATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.69, C:0.05, G:0.21, T:0.05
Consensus pattern (18 bp):
GAAGAAATCGAAAAGAAA
Found at i:19627731 original size:44 final size:44
Alignment explanation
Indices: 19627678--19628139 Score: 562
Period size: 44 Copynumber: 10.7 Consensus size: 44
19627668 ATTTGTAATT
* * **
19627678 TTCAACCTATTCAACTACTGGTCAGGGAGATAGGACTTGTAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
* *
19627722 TTCAACCTATTCCACTGCTGGTCAGAGAGATAGGACTTGCAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
* ** *
19627766 TTCAACTTATTCCACTATTGGTCAAGGAGATAGG----AC--T-
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
* * *
19627803 TTCGACCTATTCCACTGTTGGTCAGGGAGATAGCACTTACAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
***
19627847 TTCAACCTATTTTGCTGCTGGTCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
* * *
19627891 TTCAACCTATTCCATTGCTGGTCAGGGAGCTAGGACTTAGAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
**** * * *
19627935 TTCAACCTATTTTGTTGCTGGTCAGAGAGCTAGG-CTTAAAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
* * *
19627978 TTCAACCTATTCCACTGCTGGTTAGGTAGATAGGACTTGCAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
* * * *
19628022 TTCAACCTATTCCACTGCTGCTCAAGGAGCTAAGACTTACAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
*
19628066 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGGCTTACAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
19628110 TTCAACCTATTCCACTGCTGGTCAGGGAGA
1 TTCAACCTATTCCACTGCTGGTCAGGGAGA
19628140 CAAGGCTGGG
Statistics
Matches: 356, Mismatches: 54, Indels: 16
0.84 0.13 0.04
Matches are distributed among these distances:
37 29 0.08
38 1 0.00
40 1 0.00
41 2 0.01
43 35 0.10
44 288 0.81
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATC
Found at i:19628131 original size:175 final size:170
Alignment explanation
Indices: 19627678--19628139 Score: 561
Period size: 175 Copynumber: 2.7 Consensus size: 170
19627668 ATTTGTAATT
* **
19627678 TTCAACCTATTCAACTACTGGTCAGGGAGATAGGACTTGTAATCTTCAACCTATTCCACTGCTGG
1 TTCAACCTATTCAACTGCTGGTCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
* * * ** * *
19627743 TCAGAGAGATAGGACTTGCAATCTTCAACTTATTCCACTATTGGTCA-AGGAGATAGGACTTTCG
66 TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAGAGGAGATAGGAATTTCA
*
19627807 ACCTATTCCACTGTTGGTCAGGGAGATAGCACTTACAATC
131 ACCTATTCCACTGCTGGTCAGGGAGATAGCACTTACAATC
*** *
19627847 TTCAACCTATTTTGCTGCTGGTCAGGGAGATAGGACTTACAATCTTCAACCTATTCCATTGCTGG
1 TTCAACCTATTCAACTGCTGGTCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
* * **** *
19627912 TCAGGGAGCTAGGACTTAGAATCTTCAACCTATTTTGTTGCTGGTCAGA-GAGCTAGGCTTAAAA
66 TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAGAGGAGATAGG-----AA
* * * *
19627976 TCTTCAACCTATTCCACTGCTGGTTAGGTAGATAGGACTTGCAATC
126 T-TTCAACCTATTCCACTGCTGGTCAGGGAGATAGCACTTACAATC
* * * * *
19628022 TTCAACCTATTCCACTGCTGCTCAAGGAGCTAAGACTTACAATCTTCAACCTATTCCACTGCTGG
1 TTCAACCTATTCAACTGCTGGTCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
*
19628087 TCAGGGAGATAGGGCTTACAATCTTCAACCTATTCCACTGCTGGTCAG-GGAGA
66 TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAGAGGAGA
19628140 CAAGGCTGGG
Statistics
Matches: 243, Mismatches: 42, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
169 101 0.42
170 1 0.00
174 2 0.01
175 139 0.57
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (170 bp):
TTCAACCTATTCAACTGCTGGTCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGG
TCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAGAGGAGATAGGAATTTCA
ACCTATTCCACTGCTGGTCAGGGAGATAGCACTTACAATC
Found at i:19628202 original size:88 final size:86
Alignment explanation
Indices: 19628132--19628636 Score: 535
Period size: 88 Copynumber: 5.8 Consensus size: 86
19628122 CACTGCTGGT
* * * * * *
19628132 CAGGGAGACAAGGCTGGGGTCTTCGCTCTGCTTCACCGTTAGTACAGGAAGGCAAGATCTGTTAT
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTAT
* *
19628197 TTTCAACCTGCTTCACTGCAACC
66 TTT-AACCTACTCCACTGCAA-C
* * * * * * * *
19628220 CAAGGAGGCAAGGCTAGTGTCTTCGATCAGCTTCACTGTCAGTATAGGAAGGTAAGGTCTGCTAC
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTA-
*
19628285 CTTTAACCTACTCCACTGCAAC
65 TTTTAACCTACTCCACTGCAAC
* * * * * * *
19628307 TCAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTTGCTGTCAATGCAGGAAGGCAAGATCTGTTA
1 -CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTA
19628372 TCTTTAACCTACTCCACTGCAAC
65 T-TTTAACCTACTCCACTGCAAC
* * *
19628395 CGAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTG-TCGTTGCAGGAAGGCAAGATCTGCT
1 C-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAG-TACAGGAAGGCAAGATCTGCT
*
19628459 ATCTTTAACCTGCTCCACTGCAAC
64 AT-TTTAACCTACTCCACTGCAAC
* * *
19628483 CGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATTGGTACAGGAAGGCAAGATCTGGTA
1 C-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTA
* * *
19628548 TGTTCAACCTGCTCCACTACAAC
65 T-TTTAACCTACTCCACTGCAAC
* * * ** * *
19628571 CGAGGGAGGCAAGACTGGTGTCTTCAATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATATGCTA
1 C-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTA
19628636 T
65 T
19628637 CTTCACTGAT
Statistics
Matches: 357, Mismatches: 54, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
87 2 0.01
88 350 0.98
89 5 0.01
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.26
Consensus pattern (86 bp):
CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAGGAAGGCAAGATCTGCTAT
TTTAACCTACTCCACTGCAAC
Found at i:19628405 original size:44 final size:44
Alignment explanation
Indices: 19628277--19628584 Score: 137
Period size: 44 Copynumber: 7.0 Consensus size: 44
19628267 GAAGGTAAGG
* * *
19628277 TCTGCTACCTTTAACCTACTCCACTGCAACTC-AGGGAGGCAAGG
1 TCTGCTATCTTTAACCTGCTCCACTGCAAC-CGAGGGAGGCAAGA
* ** * *** * *
19628321 T-TGGTATCTTCGATCTGCTTTGCTGTCAA-TGCAGGAAGGCAAGA
1 TCTGCTATCTTTAACCTGCTCCACTG-CAACCG-AGGGAGGCAAGA
* *
19628365 TCTGTTATCTTTAACCTACTCCACTGCAACCGAGGGAGGCAAGA
1 TCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAAGA
* * ** * * * *** *
19628409 -CTGGTGTCTTCGATCTGCTTCGCTGTC-GTTGCAGGAAGGCAAGA
1 TCTGCTATCTTTAACCTGCTCCACTG-CAACCG-AGGGAGGCAAGA
19628453 TCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAAG-
1 TCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAAGA
* * * ** * * ** *
19628496 GCTGGTGTCTTCGATCTGCTTCGCTATTGGTA-C-AGGAAGGCAAGA
1 TCTGCTATCTTTAACCTGC-TC-C-ACTGCAACCGAGGGAGGCAAGA
* * * *
19628541 TCTGGTATGTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGA
1 TCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAAGA
19628585 CTGGTGTCTT
Statistics
Matches: 184, Mismatches: 65, Indels: 30
0.66 0.23 0.11
Matches are distributed among these distances:
42 3 0.02
43 48 0.26
44 77 0.42
45 52 0.28
46 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (44 bp):
TCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAAGA
Found at i:19628625 original size:44 final size:44
Alignment explanation
Indices: 19628308--19628628 Score: 141
Period size: 44 Copynumber: 7.3 Consensus size: 44
19628298 CACTGCAACT
* ** * * * * *
19628308 CAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTTGCTGTCAATG
1 CAGGAAGGCAAGACTGGTGTCTTCAATCTGCTTCGCTGTCGATC
* * * * * * * *
19628352 CAGGAAGGCAAGATCTGTTATCTTTAACCTACTCCACTG-C-AAC
1 CAGGAAGGCAAGA-CTGGTGTCTTCAATCTGCTTCGCTGTCGATC
* * * *
19628395 CGAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCGTTG
1 C-AGGAAGGCAAGACTGGTGTCTTCAATCTGCTTCGCTGTCGATC
* * * * * * *
19628440 CAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTG-C-AAC
1 CAGGAAGGCAAGA-CTGGTGTCTTCAATCTGCTTCGCTGTCGATC
* * * * * * *
19628483 CGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATTGGTA
1 C-AGGAAGGCAAGACTGGTGTCTTCAATCTGCTTCGCTGTCGATC
* * * * * * *
19628528 CAGGAAGGCAAGATCTGGTATGTTCAACCTGCTCCACT-AC-AAC
1 CAGGAAGGCAAGA-CTGGTGTCTTCAATCTGCTTCGCTGTCGATC
* * * *
19628571 CGAGGGAGGCAAGACTGGTGTCTTCAATCTACTTCGCTGTCGGTG
1 C-AGGAAGGCAAGACTGGTGTCTTCAATCTGCTTCGCTGTCGATC
19628616 CAGGAAGGCAAGA
1 CAGGAAGGCAAGA
19628629 TATGCTATCT
Statistics
Matches: 190, Mismatches: 75, Indels: 24
0.66 0.26 0.08
Matches are distributed among these distances:
43 56 0.29
44 79 0.42
45 55 0.29
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGACTGGTGTCTTCAATCTGCTTCGCTGTCGATC
Found at i:19628637 original size:176 final size:176
Alignment explanation
Indices: 19628107--19628639 Score: 665
Period size: 176 Copynumber: 3.0 Consensus size: 176
19628097 AGGGCTTACA
* * *** * * * * *
19628107 ATCTTCAACCTATTCCACTGCTGGTCAGGGAGACAAGGCTGGGGTCTTCGCTCTGCTTCACCGTT
1 ATCTTTAACCTACTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTT
* * * * * *
19628172 AGTACAGGAAGGCAAGATCTGTTATTTTCAACCTGCTTCACTGCAACCCAAGGAGGCAAGGCTAG
66 AGTACAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGACTGG
* * ** * *
19628237 TGTCTTCGATC-AGCTTCACTGTCAGTATAGGAAGGTAAGGTCTGCT
131 TGTCTTCGATCTA-CTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT
* * * * *
19628283 ACCTTTAACCTACTCCACTGCAACTCAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTTGCTGTC
1 ATCTTTAACCTACTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTT
* * * *
19628348 AATGCAGGAAGGCAAGATCTGTTATCTTTAACCTACTCCACTGCAACCGAGGGAGGCAAGACTGG
66 AGTACAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGACTGG
* *
19628413 TGTCTTCGATCTGCTTCGCTGTCGTTGCAGGAAGGCAAGATCTGCT
131 TGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT
* *
19628459 ATCTTTAACCTGCTCCACTGCAAC-CGAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTAT
1 ATCTTTAACCTACTCCACTGCAACTC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGT
* * * *
19628523 TGGTACAGGAAGGCAAGATCTGGTATGTTCAACCTGCTCCACTACAACCGAGGGAGGCAAGACTG
65 TAGTACAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGACTG
* *
19628588 GTGTCTTCAATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATATGCT
130 GTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT
19628635 ATCTT
1 ATCTT
19628640 CACTGATTTG
Statistics
Matches: 303, Mismatches: 52, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
175 1 0.00
176 302 1.00
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.27
Consensus pattern (176 bp):
ATCTTTAACCTACTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTT
AGTACAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGACTGG
TGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT
Done.