Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 112 of 136
Found at i:37923357 original size:84 final size:82
Alignment explanation
Indices: 37923238--37923504 Score: 308
Period size: 84 Copynumber: 3.2 Consensus size: 82
37923228 ACGTCGCTAA
* *
37923238 CTTTTGCGGCGCTTACAGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAA
1 CTTTAGCGGCGCTT--AGAAAAAACGCCGCAAAAGATCATGTTCTTTAGCGGCGCTTAGG-AAAA
37923303 AACGCCGCAAAAGATCATGTT
63 AA-GCCGCAAAAGATCATGTT
*
37923324 CTTTAGCGGCGCTTAGAAAAAAAGCCGCAAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAG
1 CTTTAGCGGCGCTTAGAAAAAACGCCGCAAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAG
*
37923389 CCGCTAAAGATCATGTT
66 CCGCAAAAGATCATGTT
* * * * *
37923406 CTTTAGCGGGGCTTTAGAAGAAAACGCCTCTAAAAG-TAATGTTCTATAGCGGCGCTT-GTTCAA
1 CTTTAGCGGCGC-TTAGAA-AAAACGCCGC-AAAAGATCATGTTCTTTAGCGGCGCTTAG--GAA
*
37923469 AAATGCCGCTAAAAG-T-AGTGTT
61 AAAAGCCGC-AAAAGATCA-TGTT
*
37923491 TTTTAGCGGCGCTT
1 CTTTAGCGGCGCTT
37923505 GTTTCACAAA
Statistics
Matches: 160, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
82 28 0.17
83 13 0.08
84 72 0.45
85 30 0.19
86 17 0.11
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (82 bp):
CTTTAGCGGCGCTTAGAAAAAACGCCGCAAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAG
CCGCAAAAGATCATGTT
Found at i:37923505 original size:42 final size:42
Alignment explanation
Indices: 37923257--37923518 Score: 155
Period size: 43 Copynumber: 6.2 Consensus size: 42
37923247 CGCTTACAGA
* * ***
37923257 AAAAACGCCGCT-AAAGATCATGTTCTTTAGCGGCGCTTAGGAA
1 AAAAACGCCGCTAAAAG-TAATGTTCTATAGCGGCGCTT-GTTC
* * *
37923300 AAAAACGCCGC-AAAAGATCATGTTCTTTAGCGGCGCTTAG--A
1 AAAAACGCCGCTAAAAG-TAATGTTCTATAGCGGCGCTT-GTTC
* * * *
37923341 AAAAAAGCCGC-AAAAGATCATGTTCTTTAGCGGCGCTTAG--G
1 AAAAACGCCGCTAAAAG-TAATGTTCTATAGCGGCGCTT-GTTC
* * * * **
37923382 AAAAAAGCCGCT-AAAGATCATGTTCTTTAGCGGGGCTT-TAGA
1 AAAAACGCCGCTAAAAG-TAATGTTCTATAGCGGCGCTTGT-TC
*
37923424 AGAAAACGCCTCTAAAAGTAATGTTCTATAGCGGCGCTTGTTC
1 A-AAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTGTTC
* * * *
37923467 AAAAATGCCGCTAAAAGTAGTGTTTTTTAGCGGCGCTTGTTTC
1 AAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTG-TTC
*
37923510 ACAAACGCC
1 AAAAACGCC
37923519 ACTGTTTTGA
Statistics
Matches: 192, Mismatches: 18, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
41 76 0.40
42 34 0.18
43 77 0.40
44 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTGTTC
Found at i:37934215 original size:21 final size:21
Alignment explanation
Indices: 37934098--37934213 Score: 160
Period size: 21 Copynumber: 5.4 Consensus size: 21
37934088 CACTTCATTC
37934098 AACAGAAAATAGCAAAACAGAA
1 AACAGAAAATAG-AAAACAGAA
*
37934120 AACATAAAATAGAAAACAGAA
1 AACAGAAAATAGAAAACAGAA
* *
37934141 AACATAAAATAGAAAATAGAA
1 AACAGAAAATAGAAAACAGAA
*
37934162 AACAGAAAAATATAAAACAGAA
1 AACAG-AAAATAGAAAACAGAA
* *
37934184 AACAAAAAACAGAAAACAGAA
1 AACAGAAAATAGAAAACAGAA
37934205 AACAGAAAA
1 AACAGAAAA
37934214 CAAAAAATAA
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
21 55 0.65
22 29 0.35
ACGTcount: A:0.72, C:0.10, G:0.10, T:0.07
Consensus pattern (21 bp):
AACAGAAAATAGAAAACAGAA
Found at i:37934220 original size:7 final size:7
Alignment explanation
Indices: 37934098--37934219 Score: 138
Period size: 7 Copynumber: 17.3 Consensus size: 7
37934088 CACTTCATTC
37934098 AACAGAA
1 AACAGAA
*
37934105 AATAGCAA
1 AACAG-AA
37934113 AACAGAA
1 AACAGAA
*
37934120 AACATAA
1 AACAGAA
*
37934127 AATAGAA
1 AACAGAA
37934134 AACAGAA
1 AACAGAA
*
37934141 AACATAA
1 AACAGAA
*
37934148 AATAGAA
1 AACAGAA
*
37934155 AATAGAA
1 AACAGAA
37934162 AACAGAAA
1 AACAG-AA
* *
37934170 AATATAA
1 AACAGAA
37934177 AACAGAA
1 AACAGAA
*
37934184 AACAAAA
1 AACAGAA
37934191 AACAGAA
1 AACAGAA
37934198 AACAGAA
1 AACAGAA
37934205 AACAGAA
1 AACAGAA
37934212 AACA-AA
1 AACAGAA
37934218 AA
1 AA
37934220 ATAAAGAAAC
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
6 4 0.04
7 82 0.85
8 11 0.11
ACGTcount: A:0.73, C:0.11, G:0.10, T:0.07
Consensus pattern (7 bp):
AACAGAA
Found at i:37934266 original size:18 final size:19
Alignment explanation
Indices: 37934224--37934267 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
37934214 CAAAAAATAA
*
37934224 AGAAACATAAAAATGGTAC
1 AGAAACATAAAAATGCTAC
* *
37934243 AGAAACAT-AACATGCTAG
1 AGAAACATAAAAATGCTAC
37934261 AGAAACA
1 AGAAACA
37934268 GAAATTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (19 bp):
AGAAACATAAAAATGCTAC
Found at i:37935487 original size:198 final size:198
Alignment explanation
Indices: 37935143--37935568 Score: 739
Period size: 198 Copynumber: 2.2 Consensus size: 198
37935133 TAATTAACCC
37935143 ATTTGCGGCGTTTATATACAAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATTAGT
1 ATTTGCGGCGTTTATATACAAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATTAGT
37935208 TAACTAAAACTCATGGCATTTTAGAGAAAACAGCATCGTCTCCATAAAAATTAAAACATTTTTGC
66 TAACTAAAACTCATGGCATTTTAGAGAAAACAGCATCGTCTCCATAAAAATTAAAACATTTTTGC
* *
37935273 GGCGTTTACTAAAAGCGCCACTAAAAG-TAAATAAGAAAATGAAGTCGTTTTCCTAAACAATTTC
131 GGCGTTTACTAAAAGCGCCACT-AAAGTTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
37935337 TGTA
195 TGTA
* *
37935341 ATTTGTGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATTAGT
1 ATTTGCGGCGTTTATATACAAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATTAGT
37935406 TAACTAAAACTCATGGCATTTTAGAGAAAACAGCATCGTCTCCATAAAAATTAAAACCA-TTTTG
66 TAACTAAAACTCATGGCATTTTAGAGAAAACAGCATCGTCTCCATAAAAATTAAAA-CATTTTTG
*
37935470 CGGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACGGAGCCGTTTTCCTAAACAATTTC
130 CGGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
37935535 TGTA
195 TGTA
* * * *
37935539 AATTGCGGCATTTATACATAAGCGCCACTA
1 ATTTGCGGCGTTTATATACAAGCGCCACTA
37935569 AATATTAGAC
Statistics
Matches: 215, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
197 4 0.02
198 209 0.97
199 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (198 bp):
ATTTGCGGCGTTTATATACAAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATTAGT
TAACTAAAACTCATGGCATTTTAGAGAAAACAGCATCGTCTCCATAAAAATTAAAACATTTTTGC
GGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCT
GTA
Found at i:37936877 original size:74 final size:74
Alignment explanation
Indices: 37936745--37936883 Score: 197
Period size: 74 Copynumber: 1.9 Consensus size: 74
37936735 NTTTTTTTAA
* * * *
37936745 AAACGCCACTAACACTAATCTACCTCAAGACCAAACGGTGCGTTTTCGCTAAGATATTTGCGGCG
1 AAACGCCACTAACACTAATATACCTCAAAACCAAACGCTGCATTTTCGCTAAGATATTTGCGGCG
37936810 TTTTATCGT
66 TTTTATCGT
** * * *
37936819 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCATTTTGGTTAAGGTATTTGCGGCG
1 AAACGCCACTAACACTAATATACCTCAAAACCAAACGCTGCATTTTCGCTAAGATATTTGCGGCG
37936884 CTTACAAATA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 56 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (74 bp):
AAACGCCACTAACACTAATATACCTCAAAACCAAACGCTGCATTTTCGCTAAGATATTTGCGGCG
TTTTATCGT
Found at i:37936896 original size:74 final size:74
Alignment explanation
Indices: 37936745--37936905 Score: 191
Period size: 74 Copynumber: 2.2 Consensus size: 74
37936735 NTTTTTTTAA
* * * * *
37936745 AAACGCCACTAACACTAATCTACCTCAAGACCAAACGGTGCGTTTTCGCTAAGATATTTGCGGCG
1 AAACGCCACTAATACTAATATACCTCAAAACCAAACGCTGCATTTTCGCTAAGATATTTGCGGCG
* *
37936810 TTTTATCGT
66 TCTTATCAT
* * * *
37936819 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCATTTTGGTTAAGGTATTTGCGGCG
1 AAACGCCACTAATACTAATATACCTCAAAACCAAACGCTGCATTTTCGCTAAGATATTTGCGGCG
37936884 -CTTA-CAAAT
66 TCTTATC--AT
37936893 AAACGCCACTAAT
1 AAACGCCACTAAT
37936906 GATGTTCTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
72 1 0.01
73 3 0.04
74 70 0.95
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (74 bp):
AAACGCCACTAATACTAATATACCTCAAAACCAAACGCTGCATTTTCGCTAAGATATTTGCGGCG
TCTTATCAT
Found at i:37937271 original size:113 final size:114
Alignment explanation
Indices: 37936958--37938000 Score: 608
Period size: 113 Copynumber: 9.2 Consensus size: 114
37936948 AATCTACCTC
* * * *
37936958 TGGTTAAGATA-TTTGCGGTGCTTATTGTGATACGCCGCTAATACTATTCTTTAGCTGCGTTTTA
1 TGGTTAAGATATTTTGCGGCGCTTATTGTAAAACGCCGCTAATACTATTCTTTAGCGGCGTTTTA
37937022 TAGAAAACGCCACTAATTCTAATATA---CAATTGATCCAAACGCTGCGTTT
66 TAGAAAACGCCACTAATTCTAATATACCTCAA--GA-CCAAACGCTGCGTTT
* ** * * * *
37937071 TGGTTAAGGTATTTTGCGGCGCTTGAAAG-CAAATGCCACTAATTA-TGTTCTTTTA-CGGCGTT
1 TGGTTAAGATATTTTGCGGCGCTT-ATTGTAAAACGCCGCTAA-TACTATTC-TTTAGCGGCG-T
* ** * *
37937133 TTTTTA-AAAACGCCACTAACACTAATCTACCTCAAGACCAAACGGTGCGTTT
62 TTTATAGAAAACGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTT
* * * *
37937185 TCGTTAAGATA-TTTGCGGCGCTTTTTGTAAAACGGCGCTAATACTATTCTTTAGCTGCGTTTTA
1 TGGTTAAGATATTTTGCGGCGCTTATTGTAAAACGCCGCTAATACTATTCTTTAGCGGCGTTTTA
* *
37937249 TAGAAAACGCCACTAATTCTAATATACCTCAAAACCAAGCGCTGCGTTT
66 TAGAAAACGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTT
* ** * * * *
37937298 TGGTTAAGGTATTTTGCGGCGCTTGAAAG-CAAATGCCACTAATTA-TGTTCTTTTA-CGGCGTT
1 TGGTTAAGATATTTTGCGGCGCTT-ATTGTAAAACGCCGCTAA-TACTATTC-TTTAGCGGCGTT
* * * *
37937360 TGTTTA-AAAACGCCACTAATACTAATCTACCTCGAGACCAAACGCTGCGTTT
63 T-TATAGAAAACGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTT
* * * *
37937412 TCGTTAAGATA-TTTGCGGCGCTTTTTGTAAAACGGCGCTAATACTATTCTTTAGCGACGTTTTA
1 TGGTTAAGATATTTTGCGGCGCTTATTGTAAAACGCCGCTAATACTATTCTTTAGCGGCGTTTTA
* * * *
37937476 TCGAAAATGCCACTAATTCTAATATACAATTAA-ACCAAACGCTGCGTTT
66 TAGAAAACGCCACTAATTCTAATATAC-CTCAAGACCAAACGCTGCGTTT
* *** * * *
37937525 TGGTTAAGGTATTTTGCGGCGCTTACAAT-AAACGCCACTAATTA-TGTTCTTTTA-CGGAGTTT
1 TGGTTAAGATATTTTGCGGCGCTTATTGTAAAACGCCGCTAA-TACTATTC-TTTAGCGGCG-TT
* * ****
37937587 TTTTAG-AAACGCCACTAA-T-T-ATGT---TC----TTTTACG--GCGTTT
63 TTATAGAAAACGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTT
* * *** ** * * ** * * *
37937626 T-TTTAAAAACGCCACTAACACTAAACTAC-CTCA-AG-ACCAAACGGTGCGT-TTTCGTTAAGA
1 TGGTT---AA-G--A-T---ATTTTGCGGCGCTTATTGTA--AAACGCCGC-TAATAC--T-A-T
* * * * * *
37937686 TATTT-GCTGCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAGCGCTGCGTT
49 TCTTTAGCGGCGTTTTATAGAAAACGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTT
37937750 T
114 T
* *** * *
37937751 TGGTTAAGGTATTTTGCGGCGCTTA-CAAATAAACGCCACTAAT--GATTCTTTTA-CGGCGTTT
1 TGGTTAAGATATTTTGCGGCGCTTATTGTA-AAACGCCGCTAATACTATTC-TTTAGCGGCGTTT
* * * * * *
37937812 GTTTA-AAAATGCCACTAATACTAATCTACCTCGAGACCAAACGCTGTGTTT
64 -TATAGAAAACGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTT
* * *
37937863 TCGTTAAGATA-TTTGCGGTGCTTTTTGTAAAACGCCGCTAATACTATTCTTTAGCGGCGTTTTA
1 TGGTTAAGATATTTTGCGGCGCTTATTGTAAAACGCCGCTAATACTATTCTTTAGCGGCGTTTTA
* * **
37937927 TCGAAAACGCCACTAATTCTAATATACAATTGA-ACCAAACGCTGCGTTT
66 TAGAAAACGCCACTAATTCTAATATAC-CTCAAGACCAAACGCTGCGTTT
*
37937976 TGGTTAAGGTATTTTGCGGCGCTTA
1 TGGTTAAGATATTTTGCGGCGCTTA
37938001 CAATAAACGC
Statistics
Matches: 689, Mismatches: 168, Indels: 145
0.69 0.17 0.14
Matches are distributed among these distances:
100 2 0.00
101 7 0.01
103 5 0.01
104 1 0.00
106 1 0.00
107 1 0.00
108 1 0.00
109 4 0.01
110 13 0.02
111 26 0.04
112 95 0.14
113 271 0.39
114 196 0.28
115 27 0.04
116 8 0.01
117 13 0.02
118 1 0.00
119 3 0.00
122 1 0.00
123 4 0.01
125 7 0.01
126 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (114 bp):
TGGTTAAGATATTTTGCGGCGCTTATTGTAAAACGCCGCTAATACTATTCTTTAGCGGCGTTTTA
TAGAAAACGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTT
Found at i:37937355 original size:227 final size:226
Alignment explanation
Indices: 37936960--37938054 Score: 1269
Period size: 227 Copynumber: 4.8 Consensus size: 226
37936950 TCTACCTCTG
* * * * * *
37936960 GTTAAGATATTTGCGGTGCTTATTGTGATACGCCGCTAATACTATTCTTTAGCTGCGTTTTATAG
1 GTTAAGATATTTGCGGCGCTTTTTGTAAAACGGCGCTAATACTATTCTTTAGCTGCGTTTTATCG
* *
37937025 AAAACGCCACTAATTCTAATATACAATTGATCCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
66 AAAACGCCACTAATTCTAATATACAATTAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
* * *
37937090 CGCTTGA-AAGCAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAACGCCACTAACA
131 CGCTT-ACAA-TAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAACGCCACTAATA
* *
37937154 CTAATCTACCTCAAGACCAAACGGTGCGTTTTC
194 CTAATCTACCTCGAGACCAAACGCTGCGTTTTC
*
37937187 GTTAAGATATTTGCGGCGCTTTTTGTAAAACGGCGCTAATACTATTCTTTAGCTGCGTTTTATAG
1 GTTAAGATATTTGCGGCGCTTTTTGTAAAACGGCGCTAATACTATTCTTTAGCTGCGTTTTATCG
* * *
37937252 AAAACGCCACTAATTCTAATATAC-CTCAAAACCAAGCGCTGCGTTTTGGTTAAGGTATTTTGCG
66 AAAACGCCACTAATTCTAATATACAAT-TAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCG
* * *
37937316 GCGCTTGA-AAGCAAATGCCACTAATTATGTTCTTTTACGGCGTTTGTTTAAAAACGCCACTAAT
130 GCGCTT-ACAA-TAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAACGCCACTAAT
37937380 ACTAATCTACCTCGAGACCAAACGCTGCGTTTTC
193 ACTAATCTACCTCGAGACCAAACGCTGCGTTTTC
37937414 GTTAAGATATTTGCGGCGCTTTTTGTAAAACGGCGCTAATACTATTCTTTAGC-GACGTTTTATC
1 GTTAAGATATTTGCGGCGCTTTTTGTAAAACGGCGCTAATACTATTCTTTAGCTG-CGTTTTATC
*
37937478 GAAAATGCCACTAATTCTAATATACAATTAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCG
65 GAAAACGCCACTAATTCTAATATACAATTAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCG
* *
37937543 GCGCTTACAATAAACGCCACTAATTATGTTCTTTTACGGAGTTTTTTTAGAAACGCCACTAATTA
130 GCGCTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAACGCCACTAA-TA
** ** ***** **
37937608 -TGTTCTTTTACGGCGTTTTTTTAAAAAC-GC-----C
194 CTAATC---TACCTCG--AGACCAAACGCTGCGTTTTC
** * ** ** *** * * * * *
37937639 ACTAACACTA--AACTAC-C-TCAAG-ACCAAACGGTGCGT-TTTCGTTAAGATATTT-GCTGCG
1 GTTAAGA-TATTTGCGGCGCTTTTTGTA--AAACGGCGC-TAATAC--T-A-TTCTTTAGCTGCG
* * * *
37937697 TTTTATCGTAAACGCCACTAATTCTAATATAC-CTCAAAACCAAGCGCTGCGTTTTGGTTAAGGT
58 TTTTATCGAAAACGCCACTAATTCTAATATACAAT-TAAACCAAACGCTGCGTTTTGGTTAAGGT
* * *
37937761 ATTTTGCGGCGCTTACAAATAAACGCCACTAATGA--TTCTTTTACGGCGTTTGTTTAAAAATGC
122 ATTTTGCGGCGCTTAC-AATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAACGC
*
37937824 CACTAATACTAATCTACCTCGAGACCAAACGCTGTGTTTTC
186 CACTAATACTAATCTACCTCGAGACCAAACGCTGCGTTTTC
* * *
37937865 GTTAAGATATTTGCGGTGCTTTTTGTAAAACGCCGCTAATACTATTCTTTAGCGGCGTTTTATCG
1 GTTAAGATATTTGCGGCGCTTTTTGTAAAACGGCGCTAATACTATTCTTTAGCTGCGTTTTATCG
*
37937930 AAAACGCCACTAATTCTAATATACAATTGAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
66 AAAACGCCACTAATTCTAATATACAATTAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
** *
37937995 CGCTTACAATAAACGCCACTAATTATGTTCTTTTACGGTATTTTTTTAGAAACGCCACTA
131 CGCTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAACGCCACTA
37938055 GTTGTTCAGG
Statistics
Matches: 729, Mismatches: 101, Indels: 77
0.80 0.11 0.08
Matches are distributed among these distances:
220 4 0.01
221 2 0.00
222 7 0.01
223 11 0.02
224 26 0.04
225 121 0.17
226 168 0.23
227 365 0.50
228 11 0.02
229 7 0.01
230 3 0.00
231 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (226 bp):
GTTAAGATATTTGCGGCGCTTTTTGTAAAACGGCGCTAATACTATTCTTTAGCTGCGTTTTATCG
AAAACGCCACTAATTCTAATATACAATTAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
CGCTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAACGCCACTAATACT
AATCTACCTCGAGACCAAACGCTGCGTTTTC
Found at i:37937598 original size:39 final size:39
Alignment explanation
Indices: 37937554--37937643 Score: 162
Period size: 39 Copynumber: 2.3 Consensus size: 39
37937544 CGCTTACAAT
*
37937554 AAACGCCACTAATTATGTTCTTTTACGGAGTTTTTTTAG
1 AAACGCCACTAATTATGTTCTTTTACGGAGTTTTTTTAA
*
37937593 AAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAA
1 AAACGCCACTAATTATGTTCTTTTACGGAGTTTTTTTAA
37937632 AAACGCCACTAA
1 AAACGCCACTAA
37937644 CACTAAACTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (39 bp):
AAACGCCACTAATTATGTTCTTTTACGGAGTTTTTTTAA
Found at i:37937941 original size:451 final size:452
Alignment explanation
Indices: 37937238--37938054 Score: 1469
Period size: 451 Copynumber: 1.8 Consensus size: 452
37937228 CTATTCTTTA
37937238 GCTGCGTTTTATAGAAAACGCCACTAATTCTAATATACCTCAAAACCAAGCGCTGCGTTTTGGTT
1 GCTGCGTTTTATAGAAAACGCCACTAATTCTAATATACCTCAAAACCAAGCGCTGCGTTTTGGTT
* * *
37937303 AAGGTATTTTGCGGCGCTTGAAAGCAAATGCCACTAATTATGTTCTTTTACGGCGTTTGTTTAAA
66 AAGGTATTTTGCGGCGCTTGAAAACAAACGCCACTAATGA-GTTCTTTTACGGCGTTTGTTTAAA
37937368 AACGCCACTAATACTAATCTACCTCGAGACCAAACGCTGCGTTTTCGTTAAGATATTTGCGGCGC
130 AACGCCACTAATACTAATCTACCTCGAGACCAAACGCTGCGTTTTCGTTAAGATATTTGCGGCGC
* *
37937433 TTTTTGTAAAACGGCGCTAATACTATTCTTTAGCGACGTTTTATCGAAAATGCCACTAATTCTAA
195 TTTTTGTAAAACGCCGCTAATACTATTCTTTAGCGACGTTTTATCGAAAACGCCACTAATTCTAA
37937498 TATACAATTAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAATAAACGCCAC
260 TATACAATTAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAATAAACGCCAC
37937563 TAATTATGTTCTTTTACGG-AGTTTTTTTAGAAACGCCACTAATTATGTTCTTTTACGGCGTTTT
325 TAATTATGTTCTTTTACGGTA-TTTTTTTAGAAACGCCACTAATTATGTTCTTTTACGGCGTTTT
37937627 TTTAAAAACGCCACTAACACTAAACTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATATTT
389 TTTAAAAACGCCACTAACACTAAACTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATATTT
* *
37937691 GCTGCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAGCGCTGCGTTTTGGTT
1 GCTGCGTTTTATAGAAAACGCCACTAATTCTAATATACCTCAAAACCAAGCGCTGCGTTTTGGTT
*
37937756 AAGGTATTTTGCGGCGCTT-ACAAATAAACGCCACTAATGA-TTCTTTTACGGCGTTTGTTTAAA
66 AAGGTATTTTGCGGCGCTTGA-AAACAAACGCCACTAATGAGTTCTTTTACGGCGTTTGTTTAAA
* * *
37937819 AATGCCACTAATACTAATCTACCTCGAGACCAAACGCTGTGTTTTCGTTAAGATATTTGCGGTGC
130 AACGCCACTAATACTAATCTACCTCGAGACCAAACGCTGCGTTTTCGTTAAGATATTTGCGGCGC
*
37937884 TTTTTGTAAAACGCCGCTAATACTATTCTTTAGCGGCGTTTTATCGAAAACGCCACTAATTCTAA
195 TTTTTGTAAAACGCCGCTAATACTATTCTTTAGCGACGTTTTATCGAAAACGCCACTAATTCTAA
*
37937949 TATACAATTGAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAATAAACGCCAC
260 TATACAATTAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAATAAACGCCAC
37938014 TAATTATGTTCTTTTACGGTATTTTTTTAGAAACGCCACTA
325 TAATTATGTTCTTTTACGGTATTTTTTTAGAAACGCCACTA
37938055 GTTGTTCAGG
Statistics
Matches: 349, Mismatches: 13, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
451 250 0.72
452 2 0.01
453 97 0.28
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (452 bp):
GCTGCGTTTTATAGAAAACGCCACTAATTCTAATATACCTCAAAACCAAGCGCTGCGTTTTGGTT
AAGGTATTTTGCGGCGCTTGAAAACAAACGCCACTAATGAGTTCTTTTACGGCGTTTGTTTAAAA
ACGCCACTAATACTAATCTACCTCGAGACCAAACGCTGCGTTTTCGTTAAGATATTTGCGGCGCT
TTTTGTAAAACGCCGCTAATACTATTCTTTAGCGACGTTTTATCGAAAACGCCACTAATTCTAAT
ATACAATTAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAATAAACGCCACT
AATTATGTTCTTTTACGGTATTTTTTTAGAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTT
TAAAAACGCCACTAACACTAAACTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATATTT
Found at i:37938048 original size:113 final size:110
Alignment explanation
Indices: 37937706--37938054 Score: 337
Period size: 113 Copynumber: 3.1 Consensus size: 110
37937696 GTTTTATCGT
* *
37937706 AAACGCCACTAATTCTAATATACCTCAAAACCAAGCGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACCT-AGAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
* * * *
37937771 GCTTACAAATAAACGCCACTAATGA-TTCTTTTACGGCGTTTGTTTAA
65 GCTTAC-AATAAACGCCACTAATTATTTCTTTTACGG-ATTTTTTTAG
* * * * * * * *
37937818 AAATGCCACTAATACTAATCTACCTCGAGACCAAACGCTGTGTTTTCGTTAAGATA-TTTGCGGT
1 AAACGCCACTAATTCTAATATACCTAGA-ACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
**** * ** * *
37937882 GCTTTTTGTAAAACGCCGCTAA-TACTATTC-TTTAGCGGCGTTTTATCG
65 GCTTACAAT-AAACGCCACTAATTA-T-TTCTTTTA-CGGATTTTTTTAG
* *
37937930 AAAACGCCACTAATTCTAATATACAATTGAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
1 -AAACGCCACTAATTCTAATATAC-CTAGAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
37937995 CGCTTACAATAAACGCCACTAATTATGTTCTTTTACGGTATTTTTTTAG
64 CGCTTACAATAAACGCCACTAATTAT-TTCTTTTACGG-ATTTTTTTAG
37938044 AAACGCCACTA
1 AAACGCCACTA
37938055 GTTGTTCAGG
Statistics
Matches: 184, Mismatches: 41, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
110 2 0.01
111 23 0.12
112 53 0.29
113 79 0.43
114 27 0.15
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (110 bp):
AAACGCCACTAATTCTAATATACCTAGAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCG
CTTACAATAAACGCCACTAATTATTTCTTTTACGGATTTTTTTAG
Found at i:37939348 original size:18 final size:18
Alignment explanation
Indices: 37939306--37939342 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
37939296 CACCATAGTC
37939306 ATCATTGAAGATTATGAA
1 ATCATTGAAGATTATGAA
37939324 ATCATTGAAGATTATGAA
1 ATCATTGAAGATTATGAA
37939342 A
1 A
37939343 CAATTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (18 bp):
ATCATTGAAGATTATGAA
Found at i:37941381 original size:6 final size:6
Alignment explanation
Indices: 37941370--37941408 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
37941360 GATTTTAGAT
*
37941370 TTTTAG TTTTAG TTTTAG TTTTAA TTTTAG TTTTAG TTT
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTT
37941409 CATTATGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.69
Consensus pattern (6 bp):
TTTTAG
Found at i:37946643 original size:9 final size:9
Alignment explanation
Indices: 37946625--37946661 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
37946615 TATAGTTTGA
*
37946625 TATTCTAAT
1 TATTCGAAT
37946634 TATTCGAAT
1 TATTCGAAT
*
37946643 TATTCGAGT
1 TATTCGAAT
37946652 TATTCGAAT
1 TATTCGAAT
37946661 T
1 T
37946662 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:37951350 original size:22 final size:22
Alignment explanation
Indices: 37951325--37951375 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
37951315 TCTTAACTCT
37951325 TATTTACTGAA-ATATTTAGGCG
1 TATTTACT-AATATATTTAGGCG
*
37951347 TATTTTCTAACTTATATTTAGGCG
1 TATTTACTAA--TATATTTAGGCG
37951371 TATTT
1 TATTT
37951376 TCTTTGCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 2 0.08
22 7 0.28
24 16 0.64
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (22 bp):
TATTTACTAATATATTTAGGCG
Found at i:37954805 original size:50 final size:50
Alignment explanation
Indices: 37954720--37955180 Score: 260
Period size: 50 Copynumber: 9.3 Consensus size: 50
37954710 AACTGTGATG
* * * * * *
37954720 TCGGGAAAGTAAGATTCGCTGTCGTAGCTTTAATCTATTCCATTACACCGC
1 TCGGG-AAGTAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGC
* * ** ***
37954771 TAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCT-TCTTAACTGCA-ATT
1 TCGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTAT-TCCACTGCACCGC
* * *
37954820 TCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCATCGC
1 TCG-GGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGC
** **
37954871 -CTGGGAAGTAAGATTCACCGTTGTAGCTTCAA--TATTTAACTGCAATG-
1 TC-GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGC
** ** * * * *
37954918 TCGGGAAAACAAGATTCGTCGTTGTGGCTTTAATCTGTTCCATTGCACCGC
1 TCGGG-AAGTAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGC
* * * * ** * **
37954969 TTGGGAAGTAAGATTCGCTGTTGTAGCTTCAATAT-TTTAACTGGAATG-
1 TCGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGC
** ** * *
37955017 TCGGGAAAACAAGATTTGCTGTTGTGGCTTCAATCTATTCCACTGCACCGC
1 TCGGG-AAGTAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGC
* * ** **
37955068 -CTGAGAAGTAAGATTCACCGTTGTAGCTTCAATCTTTTTAACTGCAATG-
1 TC-GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGC
* * * * * *
37955117 TCGGGGAAGCAAGGTTCGCCATTGTTGCTTCAATCTGTTCCACTGCACCGC
1 TC-GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGC
*
37955168 -CTAGGAAGTAAGA
1 TC-GGGAAGTAAGA
37955181 CCTGATGCGA
Statistics
Matches: 302, Mismatches: 92, Indels: 33
0.71 0.22 0.08
Matches are distributed among these distances:
47 3 0.01
48 36 0.12
49 35 0.12
50 216 0.72
51 12 0.04
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (50 bp):
TCGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGC
Found at i:37954877 original size:100 final size:99
Alignment explanation
Indices: 37954701--37955180 Score: 570
Period size: 100 Copynumber: 4.8 Consensus size: 99
37954691 TCGTAACTTT
** ** * * * * * * *
37954701 AATCTGTTTAACTGTGATGTCGGGAAAGTAAGATTCGCTGTCGTAGCTTTAATCTATTCCATTAC
1 AATCT-TTTAACTGCAATGTCGGGAAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGC
*
37954766 ACCG-CTAGGGAAGTAAGATTCACCGTTGTGGCTTC
65 ACCGCCT-GGGAAGTAAGATTCACCGTTGTAGCTTC
* * * *
37954801 AATCTTCTTAACTGCAATTTCGAGG-AAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTG
1 AATCTT-TTAACTGCAATGTCG-GGAAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTG
*
37954865 CATCGCCTGGGAAGTAAGATTCACCGTTGTAGCTTC
64 CACCGCCTGGGAAGTAAGATTCACCGTTGTAGCTTC
* * * *
37954901 AAT-ATTTAACTGCAATGTCGGGAAAACAAGATTCGTCGTTGTGGCTTTAATCTGTTCCATTGCA
1 AATCTTTTAACTGCAATGTCGGGAAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCA
* * *
37954965 CCGCTTGGGAAGTAAGATTCGCTGTTGTAGCTTC
66 CCGCCTGGGAAGTAAGATTCACCGTTGTAGCTTC
* * * * *
37954999 AATATTTTAACTGGAATGTCGGGAAAACAAGATTTGCTGTTGTGGCTTCAATCTATTCCACTGCA
1 AATCTTTTAACTGCAATGTCGGGAAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCA
*
37955064 CCGCCTGAGAAGTAAGATTCACCGTTGTAGCTTC
66 CCGCCTGGGAAGTAAGATTCACCGTTGTAGCTTC
* * * * *
37955098 AATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCATTGTTGCTTCAATCTGTTCCACTGC
1 AATC-TTTTAACTGCAATGTCGGGAAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGC
*
37955163 ACCGCCTAGGAAGTAAGA
65 ACCGCCTGGGAAGTAAGA
37955181 CCTGATGCGA
Statistics
Matches: 325, Mismatches: 49, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
97 2 0.01
98 82 0.25
99 88 0.27
100 149 0.46
101 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (99 bp):
AATCTTTTAACTGCAATGTCGGGAAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCA
CCGCCTGGGAAGTAAGATTCACCGTTGTAGCTTC
Found at i:37955396 original size:44 final size:45
Alignment explanation
Indices: 37955199--37955398 Score: 133
Period size: 44 Copynumber: 4.5 Consensus size: 45
37955189 GATCTACTCT
* * * * * *
37955199 ACTGCAACCTCAGAGAGATAAGA-TCTATTGT-TTTAATCCGCTCC
1 ACTGCAACCTCAGGGAGATAAGATTC-ACTATCTTCAGTCTGCTCC
* * * * ** *
37955243 ATTGTAACTTCAGGGAGATAGGATT-ACTGGCTTCAATCTGCTCC
1 ACTGCAACCTCAGGGAGATAAGATTCACTATCTTCAGTCTGCTCC
* *
37955287 ACTGCAAACTCAGGGAGATAAGATTCACTATCTTCAGTCTGCCCC
1 ACTGCAACCTCAGGGAGATAAGATTCACTATCTTCAGTCTGCTCC
* * * * * *
37955332 ACTACAACTTTATGGG-GATAATACTT-GCTTTCTT-AGTCTGCTCC
1 ACTGCAACCTCA-GGGAGATAAGA-TTCACTATCTTCAGTCTGCTCC
*
37955376 GCTGCAACCTCAGGGAGATAAGA
1 ACTGCAACCTCAGGGAGATAAGA
37955399 CCTGATGCGA
Statistics
Matches: 119, Mismatches: 31, Indels: 12
0.73 0.19 0.07
Matches are distributed among these distances:
43 6 0.05
44 72 0.61
45 36 0.30
46 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
ACTGCAACCTCAGGGAGATAAGATTCACTATCTTCAGTCTGCTCC
Found at i:37955583 original size:88 final size:88
Alignment explanation
Indices: 37955491--37955763 Score: 312
Period size: 88 Copynumber: 3.1 Consensus size: 88
37955481 GGATTATTGG
* * * * * * ** *
37955491 CTTCGATCTGCTTCATTGCCAATACAAGAAGGCAAGATCTGGTGTTTTTGACCTGCTCCGTTGCA
1 CTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCA
*
37955556 ACCCAGGGAGGCAAGGCTGGTGT
66 ACCCAGGGAGGCAAGGCTAGTGT
* * * * * * *
37955579 CTTCGATCTACTACGCTACCAGTATAGGAAGGCAAGATCTGCTATCTTCAACTTGCTCCACTGCA
1 CTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCA
*
37955644 ACCCAGGGAGGTAAGGCTAGTGT
66 ACCCAGGGAGGCAAGGCTAGTGT
* ** * * *
37955667 CTTCGATCTGTTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCTGCTGTA
1 CTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCA
*
37955732 ACCCCGGGAGGCAAGGCTAGTGT
66 ACCCAGGGAGGCAAGGCTAGTGT
*
37955755 CTTTGATCT
1 CTTCGATCT
37955764 ACTCTACTAT
Statistics
Matches: 151, Mismatches: 34, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
88 151 1.00
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (88 bp):
CTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCA
ACCCAGGGAGGCAAGGCTAGTGT
Found at i:37957110 original size:21 final size:21
Alignment explanation
Indices: 37957086--37957134 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
37957076 TAGCCTCTCT
37957086 ATTTTTACTTTTTCATTTTTC
1 ATTTTTACTTTTTCATTTTTC
* * *
37957107 ATTTTCATTTTTTTATTTTTC
1 ATTTTTACTTTTTCATTTTTC
37957128 ACTTTTT
1 A-TTTTT
37957135 TTCGACTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.73
Consensus pattern (21 bp):
ATTTTTACTTTTTCATTTTTC
Found at i:37957119 original size:15 final size:17
Alignment explanation
Indices: 37957101--37957137 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
37957091 TACTTTTTCA
37957101 TTTTTCA-TTTTCA-TT
1 TTTTTCATTTTTCACTT
37957116 TTTTT-ATTTTTCACTT
1 TTTTTCATTTTTCACTT
37957132 TTTTTC
1 TTTTTC
37957138 GACTCAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 11 0.58
16 7 0.37
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCATTTTTCACTT
Found at i:37957979 original size:13 final size:13
Alignment explanation
Indices: 37957950--37958027 Score: 72
Period size: 12 Copynumber: 6.1 Consensus size: 13
37957940 TTTTTCTTTC
37957950 TTTTTATTTTGATT
1 TTTTTATTTTGA-T
37957964 TTTTTATTTTGAT
1 TTTTTATTTTGAT
**
37957977 TTTTTA-TTAAAT
1 TTTTTATTTTGAT
*
37957989 TTTTTATTTCGA-
1 TTTTTATTTTGAT
* *
37958001 TTTTTCTTTT-CT
1 TTTTTATTTTGAT
37958013 TTTTTGATTTTGAT
1 TTTTT-ATTTTGAT
37958027 T
1 T
37958028 GTGATTTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
12 23 0.45
13 14 0.27
14 14 0.27
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.74
Consensus pattern (13 bp):
TTTTTATTTTGAT
Found at i:37957979 original size:25 final size:24
Alignment explanation
Indices: 37957951--37958027 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 24
37957941 TTTTCTTTCT
*
37957951 TTTTATTTTGATTTTTTTATTTTGA
1 TTTT-TTTTAATTTTTTTATTTTGA
* *
37957976 TTTTTTATTAAATTTTTTATTTCGA
1 TTTTTT-TTAATTTTTTTATTTTGA
** *
37958001 TTTTTCTTTTCTTTTTTGATTTTGA
1 TTTTT-TTTAATTTTTTTATTTTGA
37958026 TT
1 TT
37958028 GTGATTTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 2 0.05
25 39 0.93
26 1 0.02
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (24 bp):
TTTTTTTTAATTTTTTTATTTTGA
Found at i:37967064 original size:30 final size:30
Alignment explanation
Indices: 37967019--37967140 Score: 145
Period size: 30 Copynumber: 4.1 Consensus size: 30
37967009 CATGGCCGTA
* *
37967019 TGTCTAGCCCGTGTGTCTCACACGACTGTG
1 TGTCCAGCTCGTGTGTCTCACACGACTGTG
* * *
37967049 TGTCCAGCTCGTGTGTCTCACATGGCTATG
1 TGTCCAGCTCGTGTGTCTCACACGACTGTG
* * ** *
37967079 TGTCCAGCTCATGTGTCTCACAAGGTTGTA
1 TGTCCAGCTCGTGTGTCTCACACGACTGTG
*
37967109 TGTCCAGCTCGTGTGTCTCACACGACCGTG
1 TGTCCAGCTCGTGTGTCTCACACGACTGTG
37967139 TG
1 TG
37967141 GGAAGGCCTA
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 76 1.00
ACGTcount: A:0.15, C:0.28, G:0.26, T:0.31
Consensus pattern (30 bp):
TGTCCAGCTCGTGTGTCTCACACGACTGTG
Found at i:37968759 original size:6 final size:6
Alignment explanation
Indices: 37968748--37968799 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
37968738 GAAATCTAAG
* * *
37968748 AAATAA AAATAAA ACAACTAA AAACAA AAACAA AAATAA AACTAA AAATAA
1 AAATAA AAAT-AA A-AA-TAA AAATAA AAATAA AAATAA AAATAA AAATAA
37968799 A
1 A
37968800 TTTGAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 28 0.72
7 5 0.13
8 5 0.13
9 1 0.03
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.12
Consensus pattern (6 bp):
AAATAA
Found at i:37968788 original size:12 final size:13
Alignment explanation
Indices: 37968751--37968799 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
37968741 ATCTAAGAAA
37968751 TAAAAATAAAACAAC
1 TAAAAAT-AAA-AAC
*
37968766 TAAAAACAAAAAC
1 TAAAAATAAAAAC
37968779 -AAAAAT-AAAAC
1 TAAAAATAAAAAC
37968790 TAAAAATAAA
1 TAAAAATAAA
37968800 TTTGAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 5 0.17
12 11 0.37
13 5 0.17
14 3 0.10
15 6 0.20
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (13 bp):
TAAAAATAAAAAC
Found at i:37971551 original size:12 final size:12
Alignment explanation
Indices: 37971534--37971563 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
37971524 CATGGCTTAA
37971534 CACACGACCTAG
1 CACACGACCTAG
37971546 CACACGACCTAG
1 CACACGACCTAG
37971558 CACACG
1 CACACG
37971564 GAGGTCTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.43, G:0.17, T:0.07
Consensus pattern (12 bp):
CACACGACCTAG
Found at i:37978787 original size:20 final size:20
Alignment explanation
Indices: 37978764--37978811 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
37978754 AACCACTCCG
*
37978764 TTTACTTTCTTACCATTCCA
1 TTTACTTACTTACCATTCCA
* * *
37978784 TTTACTCACTTTCCATTTCA
1 TTTACTTACTTACCATTCCA
37978804 TTTACTTA
1 TTTACTTA
37978812 GCATAAACTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTACTTACTTACCATTCCA
Found at i:37979719 original size:35 final size:35
Alignment explanation
Indices: 37979680--37979756 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
37979670 CCTGCAAAAT
37979680 ACACCAATGCTCATAAA-AGCTAGTCCAACCGAAAC
1 ACACCAATGCTCA-AAAGAGCTAGTCCAACCGAAAC
***
37979715 ACACCAATGCTCAAAAGAGCTAGTCCCTTCGAAAC
1 ACACCAATGCTCAAAAGAGCTAGTCCAACCGAAAC
37979750 ACACCAA
1 ACACCAA
37979757 ACAGAGAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 3 0.08
35 35 0.92
ACGTcount: A:0.42, C:0.32, G:0.12, T:0.14
Consensus pattern (35 bp):
ACACCAATGCTCAAAAGAGCTAGTCCAACCGAAAC
Found at i:37984041 original size:25 final size:24
Alignment explanation
Indices: 37984013--37984059 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
37984003 AATGTAAATG
*
37984013 TAAAAATTAAATTAAAACAAAATTA
1 TAAAAA-TAAAATAAAACAAAATTA
*
37984038 TAAAAATAAAATAAAATAAAAT
1 TAAAAATAAAATAAAACAAAAT
37984060 AATGGCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
TAAAAATAAAATAAAACAAAATTA
Found at i:37984089 original size:31 final size:31
Alignment explanation
Indices: 37984042--37984116 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
37984032 AAATTATAAA
* *
37984042 AATA-AAATAAAATAAAATAATGGCTAAATT
1 AATAGAAATAAAGTAAAATAATAGCTAAATT
37984072 AATAGAAATAAAGTAAAATAATAGCTAAATT
1 AATAGAAATAAAGTAAAATAATAGCTAAATT
37984103 AATAGAAATAAAGT
1 AATAGAAATAAAGT
37984117 GTTCCTAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
30 4 0.10
31 38 0.90
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.25
Consensus pattern (31 bp):
AATAGAAATAAAGTAAAATAATAGCTAAATT
Found at i:37995599 original size:16 final size:15
Alignment explanation
Indices: 37995575--37995604 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37995565 TGGGTTGAGA
37995575 AAATTATTTAATTAG
1 AAATTATTTAATTAG
37995590 AAATTAATTTAATTA
1 AAATT-ATTTAATTA
37995605 ATTAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
AAATTATTTAATTAG
Found at i:38011977 original size:171 final size:172
Alignment explanation
Indices: 38011644--38011977 Score: 442
Period size: 171 Copynumber: 1.9 Consensus size: 172
38011634 TTATATATCA
*
38011644 TAATTTAATATCAAGTACCATTAAGGTAATCTATACATGTATCATCACATTTCATAGCATATTGC
1 TAATTTAATATCAAGTACCATTAAGG-AATCTATACATGTATCATCACATTTCATAGCATATTAC
* ** *
38011709 TTTGATGTTATGAATTGAGAGTCTCAACTAAGGTCTTTAGACCATATAGGTCTATACCATATTTC
65 TTTGATATTATGAATTGAGAGTCTCAACTAAGGTCTTTAGACCATATAAATCCATACCATATTTC
* * *
38011774 ATTCATATCACTATGGCCACTCACATCAAAGTTACATTATTCT
130 ATTCATATCACTACGACCACTCACACCAAAGTTACATTATTCT
* * * * *
38011817 TAATTTCATATCAAGTGCCATTAAGG-CTCTATACATGTATCATCACTTTTCATAGCATATTATT
1 TAATTTAATATCAAGTACCATTAAGGAATCTATACATGTATCATCACATTTCATAGCATATTACT
* * *
38011881 TTGATATTATTAACTT-AG-GTTCTCAGCTAAGGTCTTTAGACCATATAAATCCATACCATGTTT
66 TTGATATTATGAA-TTGAGAG-TCTCAACTAAGGTCTTTAGACCATATAAATCCATACCATATTT
* *
38011944 CATTCATATTC-CTACGACCACTTATACCAAAGTT
129 CATTCATA-TCACTACGACCACTCACACCAAAGTT
38011978 GTAATGACCT
Statistics
Matches: 140, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
170 1 0.01
171 111 0.79
172 4 0.03
173 24 0.17
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (172 bp):
TAATTTAATATCAAGTACCATTAAGGAATCTATACATGTATCATCACATTTCATAGCATATTACT
TTGATATTATGAATTGAGAGTCTCAACTAAGGTCTTTAGACCATATAAATCCATACCATATTTCA
TTCATATCACTACGACCACTCACACCAAAGTTACATTATTCT
Found at i:38012384 original size:24 final size:24
Alignment explanation
Indices: 38012357--38012404 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
38012347 TTTAAAGAAA
38012357 AATAAATCTTGTCATCCTTTTTAT
1 AATAAATCTTGTCATCCTTTTTAT
* *
38012381 AATAAATCTTTTCATCTTTTTTAT
1 AATAAATCTTGTCATCCTTTTTAT
38012405 TCTTCTCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.15, G:0.02, T:0.54
Consensus pattern (24 bp):
AATAAATCTTGTCATCCTTTTTAT
Found at i:38029009 original size:2 final size:2
Alignment explanation
Indices: 38028726--38028994 Score: 520
Period size: 2 Copynumber: 134.5 Consensus size: 2
38028716 GTATGTGATT
38028726 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38028768 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38028810 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38028852 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38028894 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
38028936 TA TA TA TA TA TA TA TA TA TA TT TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38028978 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
38028995 GCTTTCTTTA
Statistics
Matches: 264, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
2 264 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38031863 original size:127 final size:126
Alignment explanation
Indices: 38031612--38031839 Score: 291
Period size: 127 Copynumber: 1.8 Consensus size: 126
38031602 AAAGTCATAA
* * *
38031612 TTTAAAAGGATATTTTGCTATTTAGGTTTAACGAAAAGATCGAAACCCCGTAAGTTAGGGTACAA
1 TTTAAAACGATATTTTGCTATTCAGGTTTAACGAAAAAATCGAAACCCCGTAAGTTAGGGTACAA
* * ** *
38031677 TTCCTCGAATCACCAAAGCGCATAAATATTGCCTTATCGGGACTTCATTTATCTTTTGAAAT
66 TTCCTCGAATCACCAAAGCACAGAAATATTGCCTTATCGAAAATT-ATTTATCTTTTGAAAT
* * * *
38031739 TTTAAAACGATATTTTGCTATTCAGTTTTAGC-AAGAAAATCGAAACCCTGTAAGTTAGGGTACG
1 TTTAAAACGATATTTTGCTATTCAGGTTTAACGAA-AAAATCGAAACCCCGTAAGTTAGGGTACA
*
38031803 ATTTCTCGAATCACCGAAA-CAC-GAAATATTGCCTTAT
65 ATTCCTCGAATCACC-AAAGCACAGAAATATTGCCTTAT
38031840 TTTTAAAATT
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
126 16 0.18
127 70 0.79
128 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (126 bp):
TTTAAAACGATATTTTGCTATTCAGGTTTAACGAAAAAATCGAAACCCCGTAAGTTAGGGTACAA
TTCCTCGAATCACCAAAGCACAGAAATATTGCCTTATCGAAAATTATTTATCTTTTGAAAT
Found at i:38034127 original size:89 final size:89
Alignment explanation
Indices: 38033975--38034434 Score: 668
Period size: 89 Copynumber: 5.2 Consensus size: 89
38033965 TGACATGATG
* * * * * *
38033975 AGATCCGCTATCTACAGTCTGCTCCACTGCAAACTCAAGGAGACGAGGCTGGTGTCTTTGATCTG
1 AGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCGAGGCTGGTGTCTTCGATCTG
* * *
38034040 CTTCGCTGCCAATATATGAAGACA
66 CTTCGCTGCTAATACAGGAAGACA
*
38034064 AGATCTGCTATCTTCAGTCTGCTCCGCTGTAAACTCAGGGAGGCGAGGCTGGTGTCTTCGATCTG
1 AGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCGAGGCTGGTGTCTTCGATCTG
* * *
38034129 TTTCGCTGCTAATACAAGAAGATA
66 CTTCGCTGCTAATACAGGAAGACA
* * * * *
38034153 AGACCTGATATCTTCAGTCTGCTCCGCTGTAAACTCAAGGAGGCGAGGCTAGTGTCTTCGATCTG
1 AGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCGAGGCTGGTGTCTTCGATCTG
38034218 CTTCGCTGCTAATACAGGAAGACA
66 CTTCGCTGCTAATACAGGAAGACA
* * * *
38034242 AGATCTACTATCTTCAGTCTACTCCACTGCAAACTCAGGGAGGTGAGGCTGGTGTCTTCGATCTG
1 AGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCGAGGCTGGTGTCTTCGATCTG
38034307 CTTCGCTGCTAATACAGGAAGACA
66 CTTCGCTGCTAATACAGGAAGACA
* * * * * *
38034331 AGATCTGCTATATTTAGTCTGCTCTGCTGCAAACTCAGGGAGGCGATGCTGTTGTCTTCGATTTG
1 AGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCGAGGCTGGTGTCTTCGATCTG
38034396 CTTCGCTGCTAATACAGGAAGACA
66 CTTCGCTGCTAATACAGGAAGACA
38034420 AGATCTGCTATCTTC
1 AGATCTGCTATCTTC
38034435 TTCAATCCAT
Statistics
Matches: 331, Mismatches: 40, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 331 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (89 bp):
AGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCGAGGCTGGTGTCTTCGATCTG
CTTCGCTGCTAATACAGGAAGACA
Found at i:38034136 original size:44 final size:44
Alignment explanation
Indices: 38034005--38034225 Score: 130
Period size: 44 Copynumber: 5.0 Consensus size: 44
38033995 GCTCCACTGC
* * *
38034005 AAACTCAAGGAGACGAGGCTGGTGTCTTTGATCTGCTTCGCTGCC
1 AAACTCAAGGAGGCGAGGCTGGTGTCTTCGATCTGCTTCGCTG-T
* * * * * * * *
38034050 AATA-T-ATGAAGACAAGATCTGCTATCTTC-AGTCTGCTCCGCTGT
1 AA-ACTCAAGGAGGCGAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGT
* *
38034094 AAACTCAGGGAGGCGAGGCTGGTGTCTTCGATCTGTTTCGCTGCT
1 AAACTCAAGGAGGCGAGGCTGGTGTCTTCGATCTGCTTCGCTG-T
* *** * * * *
38034139 -AA-TACAAGAAGATAAGACCTGATATCTTC-AGTCTGCTCCGCTGT
1 AAACT-CAAGGAGGCGAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGT
*
38034183 AAACTCAAGGAGGCGAGGCTAGTGTCTTCGATCTGCTTCGCTG
1 AAACTCAAGGAGGCGAGGCTGGTGTCTTCGATCTGCTTCGCTG
38034226 CTAATACAGG
Statistics
Matches: 126, Mismatches: 37, Indels: 27
0.66 0.19 0.14
Matches are distributed among these distances:
43 2 0.02
44 61 0.48
45 61 0.48
46 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (44 bp):
AAACTCAAGGAGGCGAGGCTGGTGTCTTCGATCTGCTTCGCTGT
Found at i:38034434 original size:45 final size:45
Alignment explanation
Indices: 38034029--38034434 Score: 191
Period size: 45 Copynumber: 9.1 Consensus size: 45
38034019 GAGGCTGGTG
* * * *
38034029 TCTTTGATCTGCTTCGCTGCCAATATATGAAGACAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGCTAATACAGGAAGACAAGATCTGCTA
* * * * * * *
38034074 TCTTC-AGTCTGCTCCGCTG-TAA-ACTCAGGGAGGCGAG-GCTGGTG
1 TCTTCGA-TCTGCTTCGCTGCTAATA--CAGGAAGACAAGATCTGCTA
* * * * *
38034118 TCTTCGATCTGTTTCGCTGCTAATACAAGAAGATAAGACCTGATA
1 TCTTCGATCTGCTTCGCTGCTAATACAGGAAGACAAGATCTGCTA
* * * * *
38034163 TCTTC-AGTCTGCTCCGCTG-TAA-ACTCAAGG-AGGCGAG-GCTAG-TG
1 TCTTCGA-TCTGCTTCGCTGCTAATA--C-AGGAAGACAAGATCT-GCTA
*
38034207 TCTTCGATCTGCTTCGCTGCTAATACAGGAAGACAAGATCTACTA
1 TCTTCGATCTGCTTCGCTGCTAATACAGGAAGACAAGATCTGCTA
* * * * * *** * * *
38034252 TCTTC-AGTCTACTCCACTGCAAACT-CAGGGAGGTGAG-GCTGGTG
1 TCTTCGA-TCTGCTTCGCTGCTAA-TACAGGAAGACAAGATCTGCTA
38034296 TCTTCGATCTGCTTCGCTGCTAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGCTAATACAGGAAGACAAGATCTGCTA
* * * * * * *
38034341 TATT-TAGTCTGC-TCTGCTGCAAACT-CAGGGAGGC--GATGCTGTTG
1 TCTTCGA-TCTGCTTC-GCTGCTAA-TACAGGAAGACAAGAT-CTGCTA
*
38034385 TCTTCGATTTGCTTCGCTGCTAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGCTAATACAGGAAGACAAGATCTGCTA
38034430 TCTTC
1 TCTTC
38034435 TTCAATCCAT
Statistics
Matches: 256, Mismatches: 73, Indels: 64
0.65 0.19 0.16
Matches are distributed among these distances:
43 10 0.04
44 115 0.45
45 122 0.48
46 9 0.04
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTGCTTCGCTGCTAATACAGGAAGACAAGATCTGCTA
Found at i:38046785 original size:21 final size:22
Alignment explanation
Indices: 38046755--38046805 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
38046745 GAAGAAAATG
* *
38046755 TAATAAAATAGTTT-ATATAAA
1 TAATATAATAGTTTAAAATAAA
38046776 TAATATAATAGTTTAAAATAAA
1 TAATATAATAGTTTAAAATAAA
*
38046798 TAGTATAA
1 TAATATAA
38046806 CAAAAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (22 bp):
TAATATAATAGTTTAAAATAAA
Found at i:38046789 original size:93 final size:94
Alignment explanation
Indices: 38046680--38046894 Score: 378
Period size: 93 Copynumber: 2.3 Consensus size: 94
38046670 TTTTTTAAAA
*
38046680 AAATAATATAAAAGTTTAAAATAAATAGTATAACAAAAATAAACATTAGGTGAAAAAAATAAATA
1 AAATAATATAATAGTTTAAAATAAATAGTATAACAAAAATAAACATTAGGTGAAAAAAATAAATA
38046745 GAAGAAAATGTAATAAAATAGTTTAT-AT
66 GAAGAAAATGTAATAAAATAGTTTATAAT
38046773 AAATAATATAATAGTTTAAAATAAATAGTATAACAAAAATAAACATTAGGTGAAAAAAATAAATA
1 AAATAATATAATAGTTTAAAATAAATAGTATAACAAAAATAAACATTAGGTGAAAAAAATAAATA
38046838 GAAGAAAATGTAATAAAATAGTTTATAAT
66 GAAGAAAATGTAATAAAATAGTTTATAAT
*
38046867 AAATAATATATATAAAGCTTAAAATAAA
1 AAATAATATA-AT--AGTTTAAAATAAA
38046895 GAATAATAAA
Statistics
Matches: 116, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
93 90 0.78
94 12 0.10
95 2 0.02
97 12 0.10
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.27
Consensus pattern (94 bp):
AAATAATATAATAGTTTAAAATAAATAGTATAACAAAAATAAACATTAGGTGAAAAAAATAAATA
GAAGAAAATGTAATAAAATAGTTTATAAT
Found at i:38055301 original size:41 final size:41
Alignment explanation
Indices: 38055241--38055321 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
38055231 TTTAAAATTT
* *
38055241 ATTTTCTTTGCATGGTTTTAAAGATCTATCGTAAGAGAATC
1 ATTTTCTTTGCATGATTTTAAACATCTATCGTAAGAGAATC
*
38055282 ATTTTTTTTGCATGATTTTAAACATCTATCGTAAGAGAAT
1 ATTTTCTTTGCATGATTTTAAACATCTATCGTAAGAGAAT
38055322 AGATCCAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (41 bp):
ATTTTCTTTGCATGATTTTAAACATCTATCGTAAGAGAATC
Found at i:38059842 original size:24 final size:24
Alignment explanation
Indices: 38059796--38059842 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
38059786 GAAGAATTGG
* * *
38059796 TGGCTTCGTCCACGACTTGCATGA
1 TGGCTTCGTCCACAACATACATGA
*
38059820 TGGCTTTGTCCACAACATACATG
1 TGGCTTCGTCCACAACATACATG
38059843 GTAGCTTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (24 bp):
TGGCTTCGTCCACAACATACATGA
Found at i:38060802 original size:19 final size:18
Alignment explanation
Indices: 38060761--38060803 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
38060751 GTTTTTTGTC
*
38060761 ATAAAATAATTAATTTTT
1 ATAAAATAATTAATTTAT
38060779 ATAAAATAATTGAATTGTAT
1 ATAAAATAATT-AATT-TAT
38060799 -TAAAA
1 ATAAAA
38060804 ATTTGAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 11 0.50
19 9 0.41
20 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
ATAAAATAATTAATTTAT
Found at i:38068933 original size:6 final size:6
Alignment explanation
Indices: 38068918--38069048 Score: 135
Period size: 6 Copynumber: 22.5 Consensus size: 6
38068908 ATTTGAATAT
* * * * * *
38068918 AAAATG AAATTG -AAATG AAATTG AAATTG AAATTG AAATTG AAATTG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
* *
38068965 -AAATG AAAATG AAAATG AAAATG AGAATG -ATATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
* * *
38069011 AAAATG AAAATG AGAATG -ATATG AAAATG GAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAA
38069049 CGAATTACAG
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
5 14 0.13
6 93 0.87
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (6 bp):
AAAATG
Found at i:38069020 original size:35 final size:35
Alignment explanation
Indices: 38068930--38069048 Score: 161
Period size: 35 Copynumber: 3.4 Consensus size: 35
38068920 AATGAAATTG
* * * *
38068930 AAATGAAATTGAAATTGAAATTGA-AATTGAAATTG-
1 AAATGAAAATGAAAATGAAAATGAGAA-TGATA-TGA
38068965 AAATGAAAATGAAAATGAAAATGAGAATGATATGA
1 AAATGAAAATGAAAATGAAAATGAGAATGATATGA
38069000 AAATGAAAATGAAAATGAAAATGAGAATGATATGA
1 AAATGAAAATGAAAATGAAAATGAGAATGATATGA
*
38069035 AAATGGAAATGAAA
1 AAATGAAAATGAAA
38069049 CGAATTACAG
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
34 2 0.03
35 73 0.95
36 2 0.03
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (35 bp):
AAATGAAAATGAAAATGAAAATGAGAATGATATGA
Found at i:38069034 original size:29 final size:28
Alignment explanation
Indices: 38068918--38069048 Score: 147
Period size: 29 Copynumber: 4.5 Consensus size: 28
38068908 ATTTGAATAT
* *
38068918 AAAATGAAATTGAAATGAAATTGAAATTG
1 AAAATGAAAATGAAATGAAA-TGAAAATG
* *
38068947 AAATTGAAATTGAAATTGAAATGAAAATG
1 AAAATGAAAATGAAA-TGAAATGAAAATG
*
38068976 AAAATGAAAATGAGAATGATATGAAAATG
1 AAAATGAAAATGA-AATGAAATGAAAATG
*
38069005 AAAATGAAAATGAAAATGAGAATG-ATATG
1 AAAATGAAAATG-AAATGA-AATGAAAATG
*
38069034 AAAATGGAAATGAAA
1 AAAATGAAAATGAAA
38069049 CGAATTACAG
Statistics
Matches: 90, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
28 3 0.03
29 76 0.84
30 11 0.12
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (28 bp):
AAAATGAAAATGAAATGAAATGAAAATG
Found at i:38069720 original size:4 final size:4
Alignment explanation
Indices: 38069711--38069737 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
38069701 AATAAAATAA
38069711 TTAG TTAG TTAG TTAG TTAG TTAG TTA
1 TTAG TTAG TTAG TTAG TTAG TTAG TTA
38069738 ATAATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TTAG
Found at i:38069773 original size:18 final size:17
Alignment explanation
Indices: 38069731--38069773 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
38069721 AGTTAGTTAG
*
38069731 TTAGTTAATAATAATAA
1 TTAGTTAATAAAAATAA
*
38069748 TTGGGTTAATAAAAATAGA
1 TT-AGTTAATAAAAATA-A
38069767 TTAGTTA
1 TTAGTTA
38069774 GGATTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.10
18 16 0.76
19 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (17 bp):
TTAGTTAATAAAAATAA
Found at i:38070950 original size:26 final size:28
Alignment explanation
Indices: 38070884--38070954 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 28
38070874 TGTCCAAACC
* *
38070884 TATATGATATGCGAGCCCTGATATGTTTA
1 TATATGATGTGCGAACCCTGATATG-TTA
38070913 TATATGATGTGCGAACCCTGATATG-TA
1 TATATGATGTGCGAACCCTGATATGTTA
*
38070940 -ATATTATGTGCGAAC
1 TATATGATGTGCGAAC
38070955 TCTTAAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 14 0.36
27 2 0.05
29 23 0.59
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (28 bp):
TATATGATGTGCGAACCCTGATATGTTA
Found at i:38071019 original size:18 final size:19
Alignment explanation
Indices: 38070998--38071033 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38070988 CCTATATGCT
38070998 ATGC-AAACCCTATGTGAC
1 ATGCGAAACCCTATGTGAC
*
38071016 ATGCGAAGCCCTATGTGA
1 ATGCGAAACCCTATGTGA
38071034 ACCCTATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (19 bp):
ATGCGAAACCCTATGTGAC
Found at i:38071074 original size:34 final size:34
Alignment explanation
Indices: 38071028--38071105 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
38071018 GCGAAGCCCT
* *
38071028 ATGTGAACCCTATGTTATGCGAATCC-TATGTGAC
1 ATGTGAACCCTATATTATGCG-AGCCATATGTGAC
*
38071062 ATGTGAAGCCTATATTATGCGAGCCATATGTGAC
1 ATGTGAACCCTATATTATGCGAGCCATATGTGAC
38071096 ATGTGAACCC
1 ATGTGAACCC
38071106 ACGGTTATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 3 0.08
34 36 0.92
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (34 bp):
ATGTGAACCCTATATTATGCGAGCCATATGTGAC
Found at i:38077716 original size:18 final size:18
Alignment explanation
Indices: 38077676--38077716 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
38077666 GCAATGCTTC
*
38077676 TAAAAAACACTTTTGGGA
1 TAAAAAACACTTTTGAGA
* *
38077694 CAAAAAACGCTTTTGAGA
1 TAAAAAACACTTTTGAGA
38077712 TAAAA
1 TAAAA
38077717 GCTTTCCTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
TAAAAAACACTTTTGAGA
Found at i:38079937 original size:42 final size:42
Alignment explanation
Indices: 38079883--38079976 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
38079873 TGTTAACTCA
* * *
38079883 TATGAGTTTCTGTTTAACCCTAATAGGTTTTCGTTTAGCTCT
1 TATGAGCTTCTGTTTAACCCTAATAGGTTTTCATTTAGCTAT
* * *
38079925 TTTGAGCTTCTGTTTAACCCTTATGGGTTTTCATTTAGCTAT
1 TATGAGCTTCTGTTTAACCCTAATAGGTTTTCATTTAGCTAT
38079967 TATGAGCTTC
1 TATGAGCTTC
38079977 CATTCAACCC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (42 bp):
TATGAGCTTCTGTTTAACCCTAATAGGTTTTCATTTAGCTAT
Found at i:38079986 original size:42 final size:42
Alignment explanation
Indices: 38079898--38080017 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 42
38079888 GTTTCTGTTT
* * * * * ** *
38079898 AACCCTAATAGGTTTTCGTTTAGCTCTTTTGAGCTTCTGTTT
1 AACCCTTATGGGTTTTCATTTAGCTATTATGAGCTTCCATTC
38079940 AACCCTTATGGGTTTTCATTTAGCTATTATGAGCTTCCATTC
1 AACCCTTATGGGTTTTCATTTAGCTATTATGAGCTTCCATTC
*
38079982 AACCCTTACGGG-TTTCTATTTAGC-ATTTATGAGCTT
1 AACCCTTATGGGTTTTC-ATTTAGCTA-TTATGAGCTT
38080018 TTATTTAGCA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 5 0.07
42 62 0.93
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (42 bp):
AACCCTTATGGGTTTTCATTTAGCTATTATGAGCTTCCATTC
Found at i:38086892 original size:42 final size:43
Alignment explanation
Indices: 38086832--38086941 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 43
38086822 CATAGGATTC
* * * *
38086832 CGATATGTGATTACGTGTAAGACCATGTTTGGGACATTGGCGT
1 CGATATATGATTACGTGTAAGACCATATCTGGGACAGTGGCGT
* *
38086875 CG-TATATGATTTCGTGTAAGACCCTATCTGGGACAGTGGCGT
1 CGATATATGATTACGTGTAAGACCATATCTGGGACAGTGGCGT
* *
38086917 CGATATTTGATTACATGTAAGACCA
1 CGATATATGATTACGTGTAAGACCA
38086942 CGTCTAGGAC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 36 0.64
43 20 0.36
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
CGATATATGATTACGTGTAAGACCATATCTGGGACAGTGGCGT
Found at i:38089206 original size:27 final size:27
Alignment explanation
Indices: 38089176--38089268 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 27
38089166 TTATTTTACT
38089176 TTTACGAAATTATTAAAAATATGTGAA
1 TTTACGAAATTATTAAAAATATGTGAA
* * *
38089203 TTTA-TAAATTTATTAATAAAATATATTATTTTA
1 TTTACGAAA-TTATT-A-AAAATATGTGA----A
38089236 CTTTTACGAAATTATTAAAAATATGTGAA
1 --TTTACGAAATTATTAAAAATATGTGAA
38089265 TTTA
1 TTTA
38089269 TAAATTTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 20
0.66 0.08 0.26
Matches are distributed among these distances:
26 3 0.06
27 13 0.26
28 1 0.02
29 10 0.20
33 10 0.20
34 1 0.02
35 9 0.18
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (27 bp):
TTTACGAAATTATTAAAAATATGTGAA
Found at i:38089240 original size:62 final size:63
Alignment explanation
Indices: 38089165--38089289 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 63
38089155 TTTTTTTTAA
38089165 ATTATTTTACTTTTACGAAATTATTAAAAATATGTGAATTTATAAATTTA-TTAATAAAATAT
1 ATTATTTTACTTTTACGAAATTATTAAAAATATGTGAATTTATAAATTTATTTAATAAAATAT
38089227 ATTATTTTACTTTTACGAAATTATTAAAAATATGTGAATTTATAAATTTATTTAATAAAATAT
1 ATTATTTTACTTTTACGAAATTATTAAAAATATGTGAATTTATAAATTTATTTAATAAAATAT
38089290 TAAAATGTAT
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 50 0.81
63 12 0.19
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (63 bp):
ATTATTTTACTTTTACGAAATTATTAAAAATATGTGAATTTATAAATTTATTTAATAAAATAT
Found at i:38090142 original size:21 final size:21
Alignment explanation
Indices: 38090116--38090170 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
38090106 AACAGCGGTG
* *
38090116 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTATA
*
38090137 GCGGTGAGATTGGGTACTATA
1 GCGGTGAGATTAGGTACTATA
38090158 GCGGTGAGATTAG
1 GCGGTGAGATTAG
38090171 AAATAATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTATA
Found at i:38097994 original size:21 final size:20
Alignment explanation
Indices: 38097970--38098032 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
38097960 GAACAAAGTA
*
38097970 AAAAAGAGGGGAGAAACTAGC
1 AAAAAGA-GGGAGAAACCAGC
* *
38097991 AAAAACGAGGGACAAACCAGT
1 AAAAA-GAGGGAGAAACCAGC
*
38098012 AAACA-AGGGAGAAACCAGC
1 AAAAAGAGGGAGAAACCAGC
38098031 AA
1 AA
38098033 GAACGAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 14 0.40
21 19 0.54
22 2 0.06
ACGTcount: A:0.54, C:0.16, G:0.27, T:0.03
Consensus pattern (20 bp):
AAAAAGAGGGAGAAACCAGC
Found at i:38098020 original size:19 final size:19
Alignment explanation
Indices: 38097993--38098029 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38097983 AAACTAGCAA
*
38097993 AAACGAGGGACAAACCAGT
1 AAACAAGGGACAAACCAGT
*
38098012 AAACAAGGGAGAAACCAG
1 AAACAAGGGACAAACCAG
38098030 CAAGAACGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.19, G:0.27, T:0.03
Consensus pattern (19 bp):
AAACAAGGGACAAACCAGT
Found at i:38101429 original size:12 final size:12
Alignment explanation
Indices: 38101414--38101443 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
38101404 TTCCATTTGT
38101414 TGTTTAGACAAA
1 TGTTTAGACAAA
*
38101426 TGTTTAGACAAG
1 TGTTTAGACAAA
38101438 TGTTTA
1 TGTTTA
38101444 AACATCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (12 bp):
TGTTTAGACAAA
Found at i:38101767 original size:22 final size:23
Alignment explanation
Indices: 38101723--38101773 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
38101713 ACTTTCCAAT
*
38101723 AAAAA-ACCAAATATAAGAGTAC
1 AAAAATACCAAATAAAAGAGTAC
*
38101745 AAAAATACCAAGTAAAAGA-TAC
1 AAAAATACCAAATAAAAGAGTAC
*
38101767 ACAAATA
1 AAAAATA
38101774 ACCAGTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.65, C:0.14, G:0.08, T:0.14
Consensus pattern (23 bp):
AAAAATACCAAATAAAAGAGTAC
Found at i:38101777 original size:23 final size:24
Alignment explanation
Indices: 38101723--38101785 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
38101713 ACTTTCCAAT
* *
38101723 AAAA-AACCAAATATAAGAGTACA
1 AAAATAACCAAGTAAAAGAGTACA
38101746 AAAAT-ACCAAGTAAAAGA-TACA
1 AAAATAACCAAGTAAAAGAGTACA
*
38101768 CAAATAACC-AGTCAAAAG
1 AAAATAACCAAGT-AAAAG
38101786 CTCTCAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 11 0.32
23 23 0.68
ACGTcount: A:0.62, C:0.16, G:0.10, T:0.13
Consensus pattern (24 bp):
AAAATAACCAAGTAAAAGAGTACA
Found at i:38107374 original size:6 final size:7
Alignment explanation
Indices: 38107359--38107388 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
38107349 AATTGTTAGA
38107359 TTTTATT
1 TTTTATT
38107366 TTTTATT
1 TTTTATT
38107373 TTTTATT
1 TTTTATT
38107380 TTTATATT
1 TTT-TATT
38107388 T
1 T
38107389 CACTCAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTATT
Found at i:38108002 original size:18 final size:19
Alignment explanation
Indices: 38107976--38108011 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38107966 GGATTTTAAT
*
38107976 TAAATATATTA-TAAAAAG
1 TAAAAATATTACTAAAAAG
38107994 TAAAAATATTACTAAAAA
1 TAAAAATATTACTAAAAA
38108012 TGGTAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (19 bp):
TAAAAATATTACTAAAAAG
Found at i:38110403 original size:19 final size:19
Alignment explanation
Indices: 38110375--38110414 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
38110365 CTTAGAGAAT
*
38110375 TTTCAGGAGAATTCTTATC
1 TTTCAAGAGAATTCTTATC
38110394 TTTCAAGAGAATTCTTATC
1 TTTCAAGAGAATTCTTATC
38110413 TT
1 TT
38110415 AAGTTCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (19 bp):
TTTCAAGAGAATTCTTATC
Found at i:38112798 original size:16 final size:15
Alignment explanation
Indices: 38112773--38112802 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38112763 TTCTCAAAAT
38112773 ATTAATTAATTAATA
1 ATTAATTAATTAATA
38112788 ATTATATTAATTAAT
1 ATTA-ATTAATTAAT
38112803 TTTACACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAATTAATTAATA
Found at i:38113522 original size:35 final size:36
Alignment explanation
Indices: 38113441--38113531 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 36
38113431 CGGCATAAGT
* *
38113441 GTATATATATTATAAATATTTAAAGTTAAAAAATATA
1 GTATATATATTAT-AATATTAAAACTTAAAAAATATA
* **
38113478 TTATA-ATATTATAATATTAAAACTTAAAAGTTA-A
1 GTATATATATTATAATATTAAAACTTAAAAAATATA
*
38113512 GTATATATATTATTATATTA
1 GTATATATATTATAATATTA
38113532 TAATGATAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
34 5 0.11
35 30 0.65
36 7 0.15
37 4 0.09
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (36 bp):
GTATATATATTATAATATTAAAACTTAAAAAATATA
Found at i:38113553 original size:6 final size:6
Alignment explanation
Indices: 38113544--38113622 Score: 51
Period size: 6 Copynumber: 13.3 Consensus size: 6
38113534 ATGATAAGGT
** * *
38113544 AAAAGA AAAAGA AAAAGA AAAAGA AGGAGA GAAAG- AAACGA AACAGAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA-A-AGA
38113593 AGGAAAG- AAAA-A AAAAG- AAAA-A AAAAGA AA
1 A--AAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
38113623 GAAAGAAGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
5 18 0.32
6 29 0.52
7 2 0.04
8 5 0.09
9 1 0.02
10 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:38113593 original size:17 final size:16
Alignment explanation
Indices: 38113571--38113629 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 16
38113561 AAAAAGAAGG
38113571 AGAGAAAGAAACGAAAC
1 AGAGAAAGAAA-GAAAC
*
38113588 AGAGAAGGAAAGAAA-
1 AGAGAAAGAAAGAAAC
*
38113603 A-AAAAAGAAA-AAA-
1 AGAGAAAGAAAGAAAC
*
38113616 AAAGAAAGAAAGAA
1 AGAGAAAGAAAGAA
38113630 GGAGAAAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 4 0.11
14 15 0.42
15 3 0.08
16 4 0.11
17 10 0.28
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (16 bp):
AGAGAAAGAAAGAAAC
Found at i:38113611 original size:10 final size:10
Alignment explanation
Indices: 38113596--38113622 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38113586 ACAGAGAAGG
38113596 AAAGAAAAAA
1 AAAGAAAAAA
38113606 AAAGAAAAAA
1 AAAGAAAAAA
38113616 AAAGAAA
1 AAAGAAA
38113623 GAAAGAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:38113623 original size:4 final size:4
Alignment explanation
Indices: 38113563--38113629 Score: 52
Period size: 4 Copynumber: 17.5 Consensus size: 4
38113553 AGAAAAAGAA
* * * * *
38113563 AAAG AAGG AGAG AAAG AAACG AAAC AGAG AAGG AAAG AAA- AAA- AAAG
1 AAAG AAAG AAAG AAAG AAA-G AAAG AAAG AAAG AAAG AAAG AAAG AAAG
38113610 AAA- AAA- AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AA
38113630 GGAGAAAAGT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
3 12 0.24
4 34 0.68
5 4 0.08
ACGTcount: A:0.73, C:0.03, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:38114313 original size:24 final size:24
Alignment explanation
Indices: 38114281--38114338 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
38114271 GTGTCTTACA
38114281 ATTGAAATTGATTG-ATTTAGTATGTG
1 ATTG-AATTGATTGAATTTA-TAT-TG
*
38114307 A-TGAATTTATTGAATTTATATTG
1 ATTGAATTGATTGAATTTATATTG
38114330 ATTGAATTG
1 ATTGAATTG
38114339 GTATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 3 0.11
24 17 0.61
25 7 0.25
26 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (24 bp):
ATTGAATTGATTGAATTTATATTG
Found at i:38120344 original size:4 final size:4
Alignment explanation
Indices: 38120277--38120370 Score: 63
Period size: 4 Copynumber: 23.5 Consensus size: 4
38120267 TGATAAAGTA
* * * *
38120277 AAAG AAA- AAAG AAAT AGAA- AAAG AATG AGAG AAAG AAAC AAA- ACAGAG
1 AAAG AAAG AAAG AAAG A-AAG AAAG AAAG AAAG AAAG AAAG AAAG A-A-AG
*
38120325 AAGG AAAG AAATG AAAG AAAG AAAAG AAA- AAA- AAAG AAAG AAAG AA
1 AAAG AAAG AAA-G AAAG AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AA
38120371 GGAGAAAAGT
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
3 12 0.16
4 48 0.66
5 12 0.16
6 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:38120376 original size:14 final size:14
Alignment explanation
Indices: 38120279--38120377 Score: 57
Period size: 13 Copynumber: 7.4 Consensus size: 14
38120269 ATAAAGTAAA
*
38120279 AGAAA-AAAGAAAT
1 AGAAAGAAAGAAAG
38120292 AG-AA-AAAGAATGAG
1 AGAAAGAAAGAA--AG
*
38120306 AGAAAGAAACAAA-
1 AGAAAGAAAGAAAG
* * *
38120319 ACAGAGAAGGAAAG
1 AGAAAGAAAGAAAG
*
38120333 A-AATGAAAGAAAG
1 AGAAAGAAAGAAAG
* *
38120346 A-AAAGAAAAAAAA
1 AGAAAGAAAGAAAG
*
38120359 AGAAAGAAAGAAGG
1 AGAAAGAAAGAAAG
38120373 AGAAA
1 AGAAA
38120378 AGTTGGGGTT
Statistics
Matches: 65, Mismatches: 15, Indels: 11
0.71 0.16 0.12
Matches are distributed among these distances:
12 8 0.12
13 31 0.48
14 19 0.29
15 2 0.03
16 5 0.08
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.03
Consensus pattern (14 bp):
AGAAAGAAAGAAAG
Found at i:38120379 original size:19 final size:19
Alignment explanation
Indices: 38120271--38120367 Score: 65
Period size: 19 Copynumber: 5.1 Consensus size: 19
38120261 TTATAATGAT
* *
38120271 AAAGTAAAAGAAA-AAAGA
1 AAAGAAAAAAAAAGAAAGA
* * *
38120289 AATAGAAAAAGAATGAGAG-
1 AA-AGAAAAAAAAAGAAAGA
* *
38120308 AAAGAAACAAAACAGAGAAGG
1 AAAGAAA-AAAAAAGA-AAGA
**
38120329 AAAG-AAATGAAAGAAAGA
1 AAAGAAAAAAAAAGAAAGA
38120347 AAAGAAAAAAAAAGAAAGA
1 AAAGAAAAAAAAAGAAAGA
38120366 AA
1 AA
38120368 GAAGGAGAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
18 14 0.23
19 35 0.58
20 7 0.12
21 4 0.07
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (19 bp):
AAAGAAAAAAAAAGAAAGA
Found at i:38120513 original size:17 final size:17
Alignment explanation
Indices: 38120491--38120528 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
38120481 AATGTCAAAA
38120491 TTTTAGAAATTATTAAG
1 TTTTAGAAATTATTAAG
* *
38120508 TTTTAGCAATTATTGAG
1 TTTTAGAAATTATTAAG
38120525 TTTT
1 TTTT
38120529 TAAGTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.53
Consensus pattern (17 bp):
TTTTAGAAATTATTAAG
Found at i:38125390 original size:16 final size:19
Alignment explanation
Indices: 38125363--38125400 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
38125353 ATTAATTAGA
38125363 TAAATGAATTTT-TCAA-T
1 TAAATGAATTTTCTCAACT
38125380 TAAAT-AATTTTCTCAACT
1 TAAATGAATTTTCTCAACT
38125398 TAA
1 TAA
38125401 TTCTAATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 9 0.47
18 4 0.21
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (19 bp):
TAAATGAATTTTCTCAACT
Found at i:38132795 original size:161 final size:161
Alignment explanation
Indices: 38132530--38132851 Score: 626
Period size: 161 Copynumber: 2.0 Consensus size: 161
38132520 AAGTTAGCTG
38132530 AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGAGTAGGAAAATCACTTACAT
1 AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGAGTAGGAAAATCACTTACAT
38132595 GCAAGAAGAAAATTAAAGCCGAAGCTTTAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
66 GCAAGAAGAAAATTAAAGCCGAAGCTTTAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
*
38132660 AAGAATGAAAGAGATGAAGCTTATTTTCTTC
131 AAGAATGAAAGAGATAAAGCTTATTTTCTTC
*
38132691 AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGGGTAGGAAAATCACTTACAT
1 AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGAGTAGGAAAATCACTTACAT
38132756 GCAAGAAGAAAATTAAAGCCGAAGCTTTAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
66 GCAAGAAGAAAATTAAAGCCGAAGCTTTAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
38132821 AAGAATGAAAGAGATAAAGCTTATTTTCTTC
131 AAGAATGAAAGAGATAAAGCTTATTTTCTTC
38132852 TTTTGTTTTA
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 159 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (161 bp):
AACCTAGTTGCAATAATATCAAAAACATAAAAATTACAAGAAACGAGTAGGAAAATCACTTACAT
GCAAGAAGAAAATTAAAGCCGAAGCTTTAAGGTCCTCTAATGGTGGTTCGACTTTGGAAAATGAA
AAGAATGAAAGAGATAAAGCTTATTTTCTTC
Found at i:38134055 original size:12 final size:12
Alignment explanation
Indices: 38134038--38134081 Score: 63
Period size: 11 Copynumber: 3.7 Consensus size: 12
38134028 GTTAAATAGA
38134038 AATTTTTTTAAT
1 AATTTTTTTAAT
38134050 AATTTTTTT-AT
1 AATTTTTTTAAT
*
38134061 AATTTTTTTATT
1 AATTTTTTTAAT
38134073 ATATTTTTT
1 A-ATTTTTT
38134082 CTTTTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 11 0.38
12 11 0.38
13 7 0.24
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
AATTTTTTTAAT
Found at i:38135995 original size:23 final size:23
Alignment explanation
Indices: 38135968--38136029 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
38135958 TTTAATTTAA
**
38135968 TATTTAATAATTTCATATATTTT
1 TATTTAATAATTTCATATATAAT
* *
38135991 TATTTACTAAAATTTTATATATAAT
1 TATTTA--ATAATTTCATATATAAT
38136016 TATCTTAATAATTT
1 TAT-TTAATAATTT
38136030 TTTATGTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 6 0.19
24 6 0.19
25 16 0.52
26 3 0.10
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTAATAATTTCATATATAAT
Found at i:38137071 original size:19 final size:19
Alignment explanation
Indices: 38137047--38137100 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
38137037 AATCTTCAAG
38137047 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
38137066 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
38137085 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
38137101 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:38137077 original size:36 final size:36
Alignment explanation
Indices: 38137036--38137107 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
38137026 TATGAAAACA
38137036 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
38137072 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
38137108 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:38144571 original size:44 final size:43
Alignment explanation
Indices: 38144516--38144986 Score: 170
Period size: 44 Copynumber: 10.9 Consensus size: 43
38144506 GAAGATGGCG
38144516 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * * ** *
38144560 AATCCTATCTCCCTAAAGTCGCAGTGGAGTGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * * * * *
38144604 GATCTTATCT--CTAAAGTTGCAG-AGAGAAGA-T--CGCATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * * * * *
38144642 AGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * * *
38144685 AAGCCTTATC-CTCCTGAAGTTGTAGT-GAGACAGACTGAAGATGGC--G
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGA-TTAA-A--GCAAT
38144731 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * ** *
38144775 AATCCTATCTCCCTGAATTTGCAGTGGAGTGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * ** **
38144819 GATCTTATCTCTCTGAAGTTGCAG-AAAGC--A-TATCGC-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
** * *** * *
38144857 CGGGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAGAAAGCG
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA--T
* * * * *
38144904 AGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* * *
38144947 CAAGTCTTATC-CCACTGAAATTGCAGTGGGGCAGACTAAA
1 -AA-TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAA
38144987 TAAACAAATC
Statistics
Matches: 317, Mismatches: 73, Indels: 73
0.68 0.16 0.16
Matches are distributed among these distances:
37 3 0.01
38 8 0.03
39 2 0.01
40 35 0.11
41 16 0.05
42 13 0.04
43 11 0.03
44 121 0.38
45 99 0.31
46 7 0.02
47 1 0.00
49 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
Found at i:38144983 original size:45 final size:45
Alignment explanation
Indices: 38144642--38144983 Score: 178
Period size: 45 Copynumber: 7.8 Consensus size: 45
38144632 GATCGCATCT
* *
38144642 AGTCTTATCTCTCT-AAAGTTGCAGTGGAGCAGACT-AAGTAAGCA
1 AGTCTTATCTCCCTGAAA-TTGCAGTGGAGCAGACTCAAGAAAGCA
* * * * **
38144686 AGCCTTATC-CTCCTGAAGTTGTAGT-GAGACAGACTGAAGATGGCGA
1 AGTCTTATCTC-CCTGAAATTGCAGTGGAG-CAGACTCAAGAAAGC-A
* * * * *
38144732 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TA
1 AGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTCAAG-AAAGCA
* * ** * *
38144776 A-TCCTATCTCCCTGAATTTGCAGTGGAGTGGA-T-TA-AAATCA
1 AGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTCAAGAAAGCA
* * ** * * * *
38144817 CAGATCTTATCTCTCTGAAGTTGCAG-AAAGCATA-TC--G-CATCG
1 -AG-TCTTATCTCCCTGAAATTGCAGTGGAGCAGACTCAAGAAAGCA
* * *
38144859 GGTCTTATCTCCCT-AAAGTTGCAGTGGAGCAGACCCAAGAAAGCG
1 AGTCTTATCTCCCTGAAA-TTGCAGTGGAGCAGACTCAAGAAAGCA
* * *
38144904 AGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTCAAGAAAGCA
*
38144949 AGTCTTATC-CCACTGAAATTGCAGTGGGGCAGACT
1 AGTCTTATCTCC-CTGAAATTGCAGTGGAGCAGACT
38144984 AAATAAACAA
Statistics
Matches: 226, Mismatches: 50, Indels: 43
0.71 0.16 0.13
Matches are distributed among these distances:
39 2 0.01
40 19 0.08
41 7 0.03
42 6 0.03
43 9 0.04
44 73 0.32
45 102 0.45
46 8 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTCAAGAAAGCA
Found at i:38145553 original size:19 final size:19
Alignment explanation
Indices: 38145529--38145617 Score: 74
Period size: 19 Copynumber: 4.4 Consensus size: 19
38145519 AATCTTCAAG
38145529 GATATGAAATCTTAGATAT
1 GATATGAAATCTTAGATAT
*
38145548 GATATGTAATCTTAGATATGT
1 GATATGAAATCTTAGATA--T
38145569 AGATATGATATGTAATCTTAGATAT
1 -GATATG--A---AATCTTAGATAT
*
38145594 GATATGCAATCTTAGA-A-
1 GATATGAAATCTTAGATAT
38145611 GATATGA
1 GATATGA
38145618 TTTTGTAATC
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
17 6 0.10
18 1 0.02
19 26 0.45
21 1 0.02
22 6 0.10
24 6 0.10
25 1 0.02
27 11 0.19
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (19 bp):
GATATGAAATCTTAGATAT
Found at i:38145565 original size:14 final size:14
Alignment explanation
Indices: 38145548--38145594 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
38145538 TCTTAGATAT
38145548 GATATGTAATCTTA
1 GATATGTAATCTTA
*
38145562 GATATGTAGAT-AT-
1 GATATGTA-ATCTTA
38145575 GATATGTAATCTTA
1 GATATGTAATCTTA
38145589 GATATG
1 GATATG
38145595 ATATGCAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 2 0.07
13 9 0.32
14 15 0.54
15 2 0.07
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.40
Consensus pattern (14 bp):
GATATGTAATCTTA
Found at i:38145579 original size:27 final size:27
Alignment explanation
Indices: 38145541--38145594 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
38145531 TATGAAATCT
38145541 TAGATATGATATGTAATCTTAGATATG
1 TAGATATGATATGTAATCTTAGATATG
38145568 TAGATATGATATGTAATCTTAGATATG
1 TAGATATGATATGTAATCTTAGATATG
38145595 ATATGCAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.41
Consensus pattern (27 bp):
TAGATATGATATGTAATCTTAGATATG
Found at i:38145580 original size:13 final size:13
Alignment explanation
Indices: 38145541--38145582 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
38145531 TATGAAATCT
38145541 TAGATATGATATG
1 TAGATATGATATG
*
38145554 TA-ATCTTAGATATG
1 TAGAT-AT-GATATG
38145568 TAGATATGATATG
1 TAGATATGATATG
38145581 TA
1 TA
38145583 ATCTTAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 2 0.08
13 11 0.46
14 9 0.38
15 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (13 bp):
TAGATATGATATG
Found at i:38146837 original size:28 final size:28
Alignment explanation
Indices: 38146797--38146855 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
38146787 AATGTCGTGC
38146797 TCTAACGCATTGGGTGTGACATTTTCTT
1 TCTAACGCATTGGGTGTGACATTTTCTT
38146825 TCTAACGCATTGGGTGTGACATTTTCTT
1 TCTAACGCATTGGGTGTGACATTTTCTT
38146853 TCT
1 TCT
38146856 CCGAAATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (28 bp):
TCTAACGCATTGGGTGTGACATTTTCTT
Found at i:38147509 original size:180 final size:181
Alignment explanation
Indices: 38147207--38147567 Score: 715
Period size: 180 Copynumber: 2.0 Consensus size: 181
38147197 GTAAGTCACG
38147207 GTCACCCCTACAAACCCCCAACCTTTGTTTTTTTTTACGTTAAATTAACTAAAGGGGGAGGGAGT
1 GTCACCCCTACAAACCCCCAACCTTTGTTTTTTTTTACGTTAAATTAACTAAAGGGGGAGGGAGT
38147272 TATTTGCATAGTTATGGGAATCGGATCGGTATTAAATTGGTTGAGTAATGAACAAGTATGAGTTA
66 TATTTGCATAGTTATGGGAATCGGATCGGTATTAAATTGGTTGAGTAATGAACAAGTATGAGTTA
38147337 AATTAAAAAATCGATGAATTATTTTTAAATATTTTTTA-TTTTATATTTTT
131 AATTAAAAAATCGATGAATTATTTTTAAATATTTTTTATTTTTATATTTTT
38147387 GTCACCCCTACAAACCCCCAACCTTTGTTTTTTTTTACGTTAAATTAACTAAAGGGGGAGGGAGT
1 GTCACCCCTACAAACCCCCAACCTTTGTTTTTTTTTACGTTAAATTAACTAAAGGGGGAGGGAGT
38147452 TATTTGCATAGTTATGGGAATCGGATCGGTATTAAATTGGTTGAGTAATGAACAAGTATGAGTTA
66 TATTTGCATAGTTATGGGAATCGGATCGGTATTAAATTGGTTGAGTAATGAACAAGTATGAGTTA
38147517 AATTAAAAAATCGATGAATTATTTTTAAATATTTTTTATTTTTATATTTTT
131 AATTAAAAAATCGATGAATTATTTTTAAATATTTTTTATTTTTATATTTTT
38147568 TTAATAATTT
Statistics
Matches: 180, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
180 168 0.93
181 12 0.07
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (181 bp):
GTCACCCCTACAAACCCCCAACCTTTGTTTTTTTTTACGTTAAATTAACTAAAGGGGGAGGGAGT
TATTTGCATAGTTATGGGAATCGGATCGGTATTAAATTGGTTGAGTAATGAACAAGTATGAGTTA
AATTAAAAAATCGATGAATTATTTTTAAATATTTTTTATTTTTATATTTTT
Found at i:38147557 original size:17 final size:16
Alignment explanation
Indices: 38147535--38147570 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
38147525 AATCGATGAA
38147535 TTATTTTTAAATATTTT
1 TTATTTTTAAAT-TTTT
*
38147552 TTATTTTTATATTTTT
1 TTATTTTTAAATTTTT
38147568 TTA
1 TTA
38147571 ATAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTTTTAAATTTTT
Found at i:38147565 original size:15 final size:16
Alignment explanation
Indices: 38147535--38147568 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
38147525 AATCGATGAA
38147535 TTATTTTTAAATATTTT
1 TTATTTTT-AATATTTT
38147552 TTATTTTT-ATATTTT
1 TTATTTTTAATATTTT
38147567 TT
1 TT
38147569 TAATAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTTAATATTTT
Found at i:38149052 original size:14 final size:15
Alignment explanation
Indices: 38149021--38149053 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38149011 AAGTTACATG
38149021 ATGTCATAAGCTTAT
1 ATGTCATAAGCTTAT
*
38149036 ATGTCATAATC-TAT
1 ATGTCATAAGCTTAT
38149050 ATGT
1 ATGT
38149054 TAAATTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (15 bp):
ATGTCATAAGCTTAT
Found at i:38151879 original size:12 final size:12
Alignment explanation
Indices: 38151862--38151893 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
38151852 TATTAAAATG
38151862 AATTAAAAACAA
1 AATTAAAAACAA
38151874 AATTAAAAACAA
1 AATTAAAAACAA
38151886 AATTAAAA
1 AATTAAAA
38151894 GCCAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (12 bp):
AATTAAAAACAA
Found at i:38152606 original size:51 final size:49
Alignment explanation
Indices: 38152438--38152624 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 49
38152428 AGTGAAAGTG
* * *
38152438 ATGGTCACGTGTGTATTACTATGTGCAGGCTACTACGTGTACAGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC--GAATGGT
* * * * *
38152489 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAATGGT
* * * ** * *
38152538 TTCGATCACGTAAGTAGTACTATGTGCAGGCTGCTCCGTGTATCGAATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAATGGT
38152589 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
38152625 TGTGAACCGA
Statistics
Matches: 104, Mismatches: 28, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
49 4 0.04
50 34 0.33
51 65 0.62
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGAATGGT
Found at i:38152686 original size:45 final size:45
Alignment explanation
Indices: 38152630--38152724 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
38152620 TACTATGTGA
* * *
38152630 ACCGAACATCATTGATTAGTAAAGTGGTTGTTATGTGCTGATTTC
1 ACCGAACATCATTGATTAATAAAGTGATTGATATGTGCTGATTTC
* * * *
38152675 ACCGGACATCATTGATTAATAAGGTGATTGATATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGATTGATATGTGCTGATTTC
38152720 ACCGA
1 ACCGA
38152725 TTATCTGTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGATTGATATGTGCTGATTTC
Found at i:38155369 original size:47 final size:47
Alignment explanation
Indices: 38155255--38155374 Score: 116
Period size: 47 Copynumber: 2.6 Consensus size: 47
38155245 ATTGACGAAA
* * * * * * *
38155255 AAGACCATAGTTGGACCATGACAACATGTGATATGTGATTTCTGTAT
1 AAGACCATAGCTGGGCTATGGCATCATGTGATATGTGACTACTGTAT
* * * *
38155302 AAGACCATATCCGGGATATGGCATCAGTGTGATATGTG-CTACTGTGT
1 AAGACCATAGCTGGGCTATGGCATCA-TGTGATATGTGACTACTGTAT
*
38155349 AAGACCATAGCTGGGCTATGGAATCA
1 AAGACCATAGCTGGGCTATGGCATCA
38155375 ATATATAAAT
Statistics
Matches: 57, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
47 46 0.81
48 11 0.19
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (47 bp):
AAGACCATAGCTGGGCTATGGCATCATGTGATATGTGACTACTGTAT
Found at i:38158047 original size:51 final size:51
Alignment explanation
Indices: 38157981--38158116 Score: 139
Period size: 51 Copynumber: 2.7 Consensus size: 51
38157971 GGTCGCATGT
* * * *
38157981 GTAGTACTATATGCAGGCTACTATGCGTACCGGATAGT-TTCGATCACGTAA
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAAT-GATCACATAA
* * * * * **
38158032 GTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGGTCACATGT
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAATGATCACATAA
* *
38158083 GTAGTACTATGTGCAGGCTACTATGTGAACCGAA
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGAA
38158117 CATAATTGAT
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
51 69 0.99
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (51 bp):
GTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAATGATCACATAA
Found at i:38158605 original size:9 final size:10
Alignment explanation
Indices: 38158583--38158607 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38158573 CTGACTTTGG
38158583 AAAATTGTTA
1 AAAATTGTTA
38158593 AAAATTGTTA
1 AAAATTGTTA
38158603 AAAAT
1 AAAAT
38158608 ATGGGATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (10 bp):
AAAATTGTTA
Found at i:38163000 original size:14 final size:14
Alignment explanation
Indices: 38162981--38163010 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38162971 TAGAAATGCA
38162981 AATTACAGCCAAAC
1 AATTACAGCCAAAC
*
38162995 AATTACAGGCAAAC
1 AATTACAGCCAAAC
38163009 AA
1 AA
38163011 CCAAACCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.23, G:0.10, T:0.13
Consensus pattern (14 bp):
AATTACAGCCAAAC
Found at i:38168072 original size:90 final size:91
Alignment explanation
Indices: 38167954--38168134 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 91
38167944 AGGTCCTGTA
38167954 AAACACAAAATGTAGGATAAAAGGAAACAAAACAATTGAGATCTTTGGTGAGTTTAGAAATGGAG
1 AAACACAAAATGTAGGATAAAAGGAAACAAAACAATTGAGATCTTTGGTGAGTTTAGAAATGGAG
38168019 AGAAGGTTAAAATTG-ATGAGGGAAT
66 AGAAGGTTAAAATTGAATGAGGGAAT
38168044 AAACACAAAATGTAGGATAAAAGGAAACAAAACAATTGAGATCTTTGGTGAGTTTAGAAATGGAG
1 AAACACAAAATGTAGGATAAAAGGAAACAAAACAATTGAGATCTTTGGTGAGTTTAGAAATGGAG
38168109 AGAAGGTTAAAATTGAATGAGGGAAT
66 AGAAGGTTAAAATTGAATGAGGGAAT
38168135 GTAAATAACA
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 80 0.89
91 10 0.11
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (91 bp):
AAACACAAAATGTAGGATAAAAGGAAACAAAACAATTGAGATCTTTGGTGAGTTTAGAAATGGAG
AGAAGGTTAAAATTGAATGAGGGAAT
Found at i:38175615 original size:30 final size:32
Alignment explanation
Indices: 38175561--38175634 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 32
38175551 TATATATTGC
* *
38175561 CGAATTGATTTATATGTAGATATATACATTACT
1 CGAATTGATTTGTATATAGATATATACATT-CT
* *
38175594 -GAATTGATTTGTATAT-G-TATATATATTGT
1 CGAATTGATTTGTATATAGATATATACATTCT
38175623 CGAATTGATTTG
1 CGAATTGATTTG
38175635 AGATCCCGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 1 0.03
30 20 0.56
31 1 0.03
32 14 0.39
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.46
Consensus pattern (32 bp):
CGAATTGATTTGTATATAGATATATACATTCT
Found at i:38175700 original size:48 final size:48
Alignment explanation
Indices: 38175629--38175847 Score: 321
Period size: 48 Copynumber: 4.6 Consensus size: 48
38175619 TTGTCGAATT
*
38175629 GATTTGAGATCCCGTATAAGACCATATCTAGGATATGGCATCGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
* *
38175677 GATTTGAGATCCCGTATAAGACCATATCTGGGGTATGGCATTGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
** * *
38175725 GATTTGAGATATCGTATAAGACCATATCTGGGATATGGCATCGACATT
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
* * * *
38175773 GATTTGAGATCCCATATAAGACCATATCTGGGATATGACATTGGCATT
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
**
38175821 GATTTGAGATTTCGTATAAGACCATAT
1 GATTTGAGATCCCGTATAAGACCATAT
38175848 AAGGATATGA
Statistics
Matches: 153, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 153 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (48 bp):
GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
Found at i:38175793 original size:96 final size:96
Alignment explanation
Indices: 38175629--38175863 Score: 355
Period size: 96 Copynumber: 2.5 Consensus size: 96
38175619 TTGTCGAATT
** * *
38175629 GATTTGAGATCCCGTATAAGACCATATCTAGGATATGGCATCGGCATCGATTTGAGATCCCGTAT
1 GATTTGAGATATCGTATAAGACCATATCTAGGATATGGCATCGACATCGATTTGAGATCCCATAT
* *
38175694 AAGACCATATCTGGGGTATGGCATTGGCATC
66 AAGACCATATCTGGGATATGACATTGGCATC
* *
38175725 GATTTGAGATATCGTATAAGACCATATCTGGGATATGGCATCGACATTGATTTGAGATCCCATAT
1 GATTTGAGATATCGTATAAGACCATATCTAGGATATGGCATCGACATCGATTTGAGATCCCATAT
*
38175790 AAGACCATATCTGGGATATGACATTGGCATT
66 AAGACCATATCTGGGATATGACATTGGCATC
* * *
38175821 GATTTGAGATTTCGTATAAGACCATAT-AAGGATATGACATCGA
1 GATTTGAGATATCGTATAAGACCATATCTAGGATATGGCATCGA
38175864 TATGAGACTT
Statistics
Matches: 126, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 13 0.10
96 113 0.90
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (96 bp):
GATTTGAGATATCGTATAAGACCATATCTAGGATATGGCATCGACATCGATTTGAGATCCCATAT
AAGACCATATCTGGGATATGACATTGGCATC
Found at i:38175882 original size:41 final size:42
Alignment explanation
Indices: 38175825--38175932 Score: 119
Period size: 41 Copynumber: 2.5 Consensus size: 42
38175815 GGCATTGATT
*
38175825 TGAGATTTCGTATAAGACCATATAAGGATA-TGACATCGATA
1 TGAGATTTCGTGTAAGACCATATAAGGATATTGACATCGATA
* ** * *
38175866 TGAGACTTCGTGTAAGACCATAGTTGGGCTATTGGCATCGATA
1 TGAGATTTCGTGTAAGACCATA-TAAGGATATTGACATCGATA
**
38175909 TGAGATTTTTATGTAAGACCATAT
1 TGAGA-TTTCGTGTAAGACCATAT
38175933 TTGGGACATA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 20 0.36
42 5 0.09
43 16 0.29
44 14 0.25
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.32
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATATAAGGATATTGACATCGATA
Found at i:38196017 original size:24 final size:24
Alignment explanation
Indices: 38195989--38196051 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
38195979 GAAACCCAAC
38195989 TTACCACCAACGATAACCCTCCGT
1 TTACCACCAACGATAACCCTCCGT
38196013 TTACCACCAACGATAACCCTCCGT
1 TTACCACCAACGATAACCCTCCGT
*
38196037 TTACCACCAATGATA
1 TTACCACCAACGATA
38196052 CGCCCAAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.22
Consensus pattern (24 bp):
TTACCACCAACGATAACCCTCCGT
Found at i:38203036 original size:44 final size:44
Alignment explanation
Indices: 38202973--38203075 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
38202963 TCTGACCTAT
* * * * *
38202973 TGCAACTTCAGAGG-TATAGGATTCATCGTTTTAATCCGCTCCAC
1 TGCAACTTCAG-GGAGATAGGATTAATAGCTTCAATCCGCTCCAC
* * *
38203017 TTCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTCTAC
1 TGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCCGCTCCAC
*
38203061 TGCAACTTTAGGGAG
1 TGCAACTTCAGGGAG
38203076 CTAAAGTTGG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 2 0.04
44 46 0.96
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCCGCTCCAC
Found at i:38203349 original size:72 final size:72
Alignment explanation
Indices: 38203232--38203377 Score: 166
Period size: 72 Copynumber: 2.0 Consensus size: 72
38203222 GATTCGCTGC
* * * * *
38203232 CTTCAGCTTTAATCTTTTCCACTGCAACGCCAAGGAGATAGGATTCGCCGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAACGCCAAGGAAACAAGATTCGCCACCTTCAGCTTTAATC
38203297 CGCTCCA
66 CGCTCCA
* * * ** * *
38203304 CTTCAGTTTTAATCTATTCCACTGTAATGCCTGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAACGCCAAGGAAACAAGATTCGCCACCTTCAGCTTTAATC
* *
38203369 TGTTCCA
66 CGCTCCA
38203376 CT
1 CT
38203378 GCAACGCCAG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (72 bp):
CTTCAGCTTTAATCTATTCCACTGCAACGCCAAGGAAACAAGATTCGCCACCTTCAGCTTTAATC
CGCTCCA
Found at i:38203714 original size:130 final size:128
Alignment explanation
Indices: 38203392--38203720 Score: 480
Period size: 129 Copynumber: 2.5 Consensus size: 128
38203382 CGCCAGGGAA
*
38203392 ATAAGATTCGATGTATTCGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAAC
1 ATAAGATTC-ATCT-TT-GATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAAC
** ** * * *
38203457 CTACTCCCTTGCTGCTCAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGCA
63 CTACTCCAATGCTGCTCAAAGAGATA-GACTGGTGGCTTAAATCTACTTCCCTACTACATTGGCA
38203522 AG
127 AG
*
38203524 ATAAGATTCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
1 ATAAGATTCATCTTTGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTA
* *
38203589 CTCCAATGTTGCTCAAAGAGATA-ACTGGTGGCTTAAATCTACTTCCCTACTACATTGGGAAG
66 CTCCAATGCTGCTCAAAGAGATAGACTGGTGGCTTAAATCTACTTCCCTACTACATTGGCAAG
*
38203651 ATAAGATTCACCGTCTTTGATCTGCTTCACTACTACTTAGGGAGACAGGATCTACAATCTTCAAC
1 ATAAGATTCA---TCTTTGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAAC
38203716 CTACT
63 CTACT
38203721 TCACTACAAA
Statistics
Matches: 181, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
127 45 0.25
129 67 0.37
130 57 0.31
131 3 0.02
132 9 0.05
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (128 bp):
ATAAGATTCATCTTTGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTA
CTCCAATGCTGCTCAAAGAGATAGACTGGTGGCTTAAATCTACTTCCCTACTACATTGGCAAG
Found at i:38203914 original size:89 final size:88
Alignment explanation
Indices: 38203707--38203917 Score: 212
Period size: 89 Copynumber: 2.4 Consensus size: 88
38203697 AGGATCTACA
* * * *
38203707 ATCTTCAAC-CTACTTCACTACAAACTTAGAGAGGCAGGGCTGGTGTTTTCGATCTATTTCACTG
1 ATCTTC-ACTCTACTCCACTAC-AACTTAGGGAGGCAGGGCTGGTGTCTTCGATCTACTTCACTG
* * *
38203771 CCAGTACAGGAAGACAAGATCTGCT
64 CCAATACAAGAAGACAAGATATGCT
* * * * *
38203796 ATTTTCAGTCTACTCCGCTGTA-AACTTAGGGAGGC-GAGGCTGGTGTCTTCGATCTGCTTCGCT
1 ATCTTCACTCTACTCCAC--TACAACTTAGGGAGGCAG-GGCTGGTGTCTTCGATCTACTTCACT
*
38203859 GCCAATACAAGAAGACAAGATATGTT
63 GCCAATACAAGAAGACAAGATATGCT
* *
38203885 ATCTTCACTTTGCTCCACTACAACTTTAGGGAG
1 ATCTTCACTCTACTCCACTACAAC-TTAGGGAG
38203918 ATAAGACTTG
Statistics
Matches: 98, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
87 2 0.02
88 5 0.05
89 89 0.91
91 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (88 bp):
ATCTTCACTCTACTCCACTACAACTTAGGGAGGCAGGGCTGGTGTCTTCGATCTACTTCACTGCC
AATACAAGAAGACAAGATATGCT
Found at i:38205284 original size:11 final size:11
Alignment explanation
Indices: 38205270--38205312 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
38205260 GGGCTCTCCT
*
38205270 TTTTCTTTTCC
1 TTTTCTTTTTC
38205281 TTTTCTTTTTC
1 TTTTCTTTTTC
*
38205292 TTCTCTTTTTC
1 TTTTCTTTTTC
38205303 TTTTCTTTTT
1 TTTTCTTTTT
38205313 TCATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:38205290 original size:17 final size:17
Alignment explanation
Indices: 38205268--38205311 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
38205258 TTGGGCTCTC
38205268 CTTTTTCTTTTCCTTTT
1 CTTTTTCTTTTCCTTTT
* *
38205285 CTTTTTCTTCTCTTTTT
1 CTTTTTCTTTTCCTTTT
38205302 C-TTTTCTTTT
1 CTTTTTCTTTT
38205312 TTCATTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
CTTTTTCTTTTCCTTTT
Found at i:38205312 original size:6 final size:6
Alignment explanation
Indices: 38205268--38205312 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
38205258 TTGGGCTCTC
* *
38205268 CTTTTT C-TTTT CCTTTT CTTTTT C-TTCT CTTTTT C-TTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
38205313 TCATTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
5 14 0.42
6 19 0.58
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
CTTTTT
Found at i:38205322 original size:22 final size:22
Alignment explanation
Indices: 38205275--38205323 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
38205265 CTCCTTTTTC
* *
38205275 TTTTCCTTTTCTTTTTCTTCTC
1 TTTTCCTTTTCTTTTTCATCTA
*
38205297 TTTTTCTTTTCTTTTTTCAT-TA
1 TTTTCCTTTTC-TTTTTCATCTA
38205319 TTTTC
1 TTTTC
38205324 ATTATTTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTCCTTTTCTTTTTCATCTA
Found at i:38205340 original size:9 final size:9
Alignment explanation
Indices: 38205310--38205339 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
38205300 TTCTTTTCTT
38205310 TTTTCATTA
1 TTTTCATTA
38205319 TTTTCATTA
1 TTTTCATTA
38205328 TTTTCATT-
1 TTTTCATTA
38205336 TTTT
1 TTTT
38205340 TGAAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTCATTA
Found at i:38212234 original size:117 final size:117
Alignment explanation
Indices: 38212028--38212381 Score: 474
Period size: 117 Copynumber: 3.0 Consensus size: 117
38212018 TGGGTGCATT
* * * * *
38212028 TTACTTCGGACGTTCCGATGAGGTACTAGGTGTCAAATGATTACTTCGACTACGTGCCCATGAGT
1 TTACTTCGGACGTTCCAATGAGGCACTGGGTGTCAAATGATTACTTCGACTACGTGTCAATGAGT
* * *
38212093 GCTGGACATAATTTTCACTTCAGTCAACCGATGAGCGTTGGGTGCAAACTAA
66 GCTGGACACAATTTTTACTTCAGTCAACCGATGAGCGTTGGGCGCAAACTAA
*
38212145 TTACTTCGGAGGTTCCAATGAGGCACTGGGTGTCAAATGATTACTTCGACTACGTGTCAATGAGT
1 TTACTTCGGACGTTCCAATGAGGCACTGGGTGTCAAATGATTACTTCGACTACGTGTCAATGAGT
* * *
38212210 GCTAGACACAATTTTTACTTCAGTCAACCGATGAGTGTTGGGCGCAAATTAA
66 GCTGGACACAATTTTTACTTCAGTCAACCGATGAGCGTTGGGCGCAAACTAA
* * * * * *
38212262 TTACTTTGAACATTCCAATGAGGCACTGGGTGCCAAATGATTACTTCGACTACGTATCGATGAGT
1 TTACTTCGGACGTTCCAATGAGGCACTGGGTGTCAAATGATTACTTCGACTACGTGTCAATGAGT
* * * * * * *
38212327 GTTGGGCACAATTTGTACTTCGGTCATACTGATGAGCGTTGGGGGCAATCTAA
66 GCTGGACACAATTTTTACTTCAGTCA-ACCGATGAGCGTTGGGCGCAAACTAA
38212380 TT
1 TT
38212382 TTCTTCGAAA
Statistics
Matches: 207, Mismatches: 29, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
117 184 0.89
118 23 0.11
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (117 bp):
TTACTTCGGACGTTCCAATGAGGCACTGGGTGTCAAATGATTACTTCGACTACGTGTCAATGAGT
GCTGGACACAATTTTTACTTCAGTCAACCGATGAGCGTTGGGCGCAAACTAA
Done.