Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000692.1 Hibiscus syriacus cultivar Beakdansim tig00001349_pilon, whole genome shotgun sequence
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: 1095174
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 5
Found at i:4872 original size:21 final size:21
Alignment explanation
Indices: 4848--4924 Score: 154
Period size: 21 Copynumber: 3.7 Consensus size: 21
4838 TTCGGTTGAG
4848 GGGTACCGATTCCCATTGAAT
1 GGGTACCGATTCCCATTGAAT
4869 GGGTACCGATTCCCATTGAAT
1 GGGTACCGATTCCCATTGAAT
4890 GGGTACCGATTCCCATTGAAT
1 GGGTACCGATTCCCATTGAAT
4911 GGGTACCGATTCCC
1 GGGTACCGATTCCC
4925 CTAGCCCATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (21 bp):
GGGTACCGATTCCCATTGAAT
Found at i:19078 original size:24 final size:24
Alignment explanation
Indices: 19050--19129 Score: 115
Period size: 24 Copynumber: 3.3 Consensus size: 24
19040 GAATGTTTTA
19050 TCTGATTTCCGATTTGAATTATGT
1 TCTGATTTCCGATTTGAATTATGT
19074 TCTGATTTCCGATTTGAATTATGT
1 TCTGATTTCCGATTTGAATTATGT
* ** * *
19098 TTTGATTTCTTATCTGAATTTTGT
1 TCTGATTTCCGATTTGAATTATGT
19122 TCTGATTT
1 TCTGATTT
19130 ATGATATGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.19, C:0.11, G:0.15, T:0.55
Consensus pattern (24 bp):
TCTGATTTCCGATTTGAATTATGT
Found at i:19152 original size:48 final size:49
Alignment explanation
Indices: 19050--19153 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 49
19040 GAATGTTTTA
* * *
19050 TCTGATTTCCGATTTGAATTATGTTCTGATTTCCGATTTGAATTATGTT
1 TCTGATTTCCGATCTGAATTATGTTCTGATTTACGATATGAATTATGTT
** * * * *
19099 T-TGATTTCTTATCTGAATTTTGTTCTGATTTATGATATGGATTCT-TT
1 TCTGATTTCCGATCTGAATTATGTTCTGATTTACGATATGAATTATGTT
19146 TCTGATTT
1 TCTGATTT
19154 GAATTATGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
47 3 0.07
48 41 0.91
49 1 0.02
ACGTcount: A:0.19, C:0.11, G:0.15, T:0.55
Consensus pattern (49 bp):
TCTGATTTCCGATCTGAATTATGTTCTGATTTACGATATGAATTATGTT
Found at i:19503 original size:154 final size:155
Alignment explanation
Indices: 19196--19502 Score: 378
Period size: 154 Copynumber: 2.0 Consensus size: 155
19186 ACTGACGGAA
* *
19196 AAATGTTTTAATTGGGCGGTTTATTGTTGGAGGAAGAATACTTACAGGTTCCTCGGTTTTGTGCT
1 AAATGTTTTAATTGGGCGG-TTATTGTTGGAGGAAGAATACTTACAGGCTCCTCGGCTTTGTGCT
*
19261 CATGGCCTTACTGTTGTGCAGGGGGTGTATGATTCTGGGGAACCTACACATTATGATGTATTCGG
65 CATGGCCTTACTGTTGTGCAGGGGGTGTATGATTCTGGGGAACCTACACATTATGATGTA-TCAG
* *
19326 TTGGGGGAATTTATTATGGTTTTTGAT
129 ATGGGGGAATTTACTATGGTTTTTGAT
* * *
19353 AAATGTTTTATTTGGG-GG-TATTGTTGGAGGAA-ATATA-TATGCATGCTCCTCGGCTTTGTGC
1 AAATGTTTTAATTGGGCGGTTATTGTTGGAGGAAGA-ATACT-TACAGGCTCCTCGGCTTTGTGC
* * * *
19414 TCA-GAGCCTTACTGTTGTGCAGGGGTTGTAT-AGTTCTGGGGAACCTATACATTTTGTTCGTGA
64 TCATG-GCCTTACTGTTGTGCAGGGGGTGTATGA-TTCTGGGGAACCTACACATTATGAT-GT-A
19477 -CAGATGGGGGAA-TTACTATGGTTTTT
125 TCAGATGGGGGAATTTACTATGGTTTTT
19503 TTAAAATTTT
Statistics
Matches: 132, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
153 17 0.13
154 95 0.72
155 2 0.02
156 3 0.02
157 15 0.11
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.38
Consensus pattern (155 bp):
AAATGTTTTAATTGGGCGGTTATTGTTGGAGGAAGAATACTTACAGGCTCCTCGGCTTTGTGCTC
ATGGCCTTACTGTTGTGCAGGGGGTGTATGATTCTGGGGAACCTACACATTATGATGTATCAGAT
GGGGGAATTTACTATGGTTTTTGAT
Found at i:19537 original size:15 final size:13
Alignment explanation
Indices: 19509--19533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19499 TTTTTTAAAA
19509 TTTTAAAAATATG
1 TTTTAAAAATATG
19522 TTTTAAAAATAT
1 TTTTAAAAATAT
19534 ATGTATCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTTTAAAAATATG
Found at i:20451 original size:11 final size:12
Alignment explanation
Indices: 20411--20452 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
20401 ATTTTATGGC
*
20411 TAAAATAAATCAA
1 TAAATTAAAT-AA
20424 CTAAATTAAATAA
1 -TAAATTAAATAA
20437 TAAATTAAA-AA
1 TAAATTAAATAA
20448 TAAAT
1 TAAAT
20453 ATCACTCAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 7 0.26
12 9 0.33
13 2 0.07
14 9 0.33
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAATTAAATAA
Found at i:21243 original size:27 final size:27
Alignment explanation
Indices: 21213--21276 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
21203 ACAACTGGAT
21213 ATTACGTGATGAAATTAATTTTTTAAA
1 ATTACGTGATGAAATTAATTTTTTAAA
21240 ATTACGTGATGAAATTAATTTTTTAAA
1 ATTACGTGATGAAATTAATTTTTTAAA
21267 ATTACGTGAT
1 ATTACGTGAT
21277 TAAAATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (27 bp):
ATTACGTGATGAAATTAATTTTTTAAA
Found at i:29567 original size:223 final size:227
Alignment explanation
Indices: 29171--29608 Score: 753
Period size: 225 Copynumber: 1.9 Consensus size: 227
29161 GTAAATTATC
* * *
29171 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATCATTAGT
*
29236 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAATTTT
29301 GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG-AACACTATTAAA-AAATTGA
131 GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTGA
29364 AACATAAATTACATAACTTTCAAAAAAGTATA
196 AACATAAATTACATAACTTTCAAAAAAGTATA
*
29396 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTAT-ATTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATCATTAG
*
29460 TTAATATTGTTAAATTTAAATTCTAAAT-ATA-TTTAT-AAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAAT-AAATT
*
29522 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
129 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
29587 GAAACATAAATTACATAACTTT
194 GAAACATAAATTACATAACTTT
29609 AAAGCAGTTT
Statistics
Matches: 202, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
222 20 0.10
223 54 0.27
224 15 0.07
225 93 0.46
226 20 0.10
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATCATTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAATTTT
GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTGA
AACATAAATTACATAACTTTCAAAAAAGTATA
Found at i:29701 original size:20 final size:19
Alignment explanation
Indices: 29678--29723 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
29668 CGATATACCA
29678 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
29698 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
29718 GGTAAA
1 GGTAAA
29724 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:29868 original size:20 final size:19
Alignment explanation
Indices: 29845--29891 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
29835 CGATATAACA
29845 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
29865 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
29885 GGTAAAA
1 GGTAAAA
29892 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:29893 original size:17 final size:19
Alignment explanation
Indices: 29854--29896 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
29844 AGGTAAAAAT
29854 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
29874 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
29891 ATGATA
1 ATGATA
29897 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:32235 original size:33 final size:33
Alignment explanation
Indices: 32193--32258 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
32183 AAATAGATGG
*
32193 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
32226 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
32259 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:34085 original size:18 final size:17
Alignment explanation
Indices: 34042--34088 Score: 76
Period size: 17 Copynumber: 2.7 Consensus size: 17
34032 AAATGTCGAG
34042 TTAATTTTGTATAAGAT
1 TTAATTTTGTATAAGAT
*
34059 TTAATTTTGTATACGAT
1 TTAATTTTGTATAAGAT
34076 TTATATTTTGTAT
1 TTA-ATTTTGTAT
34089 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (17 bp):
TTAATTTTGTATAAGAT
Found at i:35192 original size:197 final size:199
Alignment explanation
Indices: 34207--36151 Score: 3553
Period size: 197 Copynumber: 9.9 Consensus size: 199
34197 CAATATGGCC
* * *
34207 AACAGGGTGCACCCAT-AAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
*
34271 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
*
34336 ATG-ATATGTCTAAATAATGTGTCGAAACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATG
129 A-GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATG
34399 AATGGAA
193 AATGGAA
*
34406 AACAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTG-CGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
34468 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
34532 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
**
34596 TAAA
196 GGAA
34600 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
34665 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
34730 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
34795 GGAA
196 GGAA
34799 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
34864 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
34928 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
34993 GGAA
196 GGAA
34997 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
35062 CAAAAGTATAATGT-A-ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
35125 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
35190 GGAA
196 GGAA
35194 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
35258 CAAAAGTATAA--TAATATGTAATTTTTCAATCTAATCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
35321 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
35386 GGAA
196 GGAA
35390 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
35455 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
35520 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
35585 GGAA
196 GGAA
35589 AACAAGGTGCACCCATAAA--GTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
35651 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
35715 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
35780 GGAA
196 GGAA
35784 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
35848 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
35912 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
35977 GG-A
196 GGAA
35980 AACAAGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
36043 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAA-T-TACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
36106 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
36152 CTAATTTAAA
Statistics
Matches: 1707, Mismatches: 21, Indels: 41
0.96 0.01 0.02
Matches are distributed among these distances:
193 7 0.00
194 231 0.14
195 191 0.11
196 287 0.17
197 387 0.23
198 337 0.20
199 255 0.15
200 12 0.01
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
GGAA
Found at i:35434 original size:393 final size:396
Alignment explanation
Indices: 34207--36151 Score: 3534
Period size: 393 Copynumber: 4.9 Consensus size: 396
34197 CAATATGGCC
* * *
34207 AACAGGGTGCACCCAT-AAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
*
34271 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
* *
34336 ATGATATGTCTAAATAATGTGTCGAAACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGA
129 AGGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGA
*
34400 ATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATA-AAAAGTG-CGATCCCAAAATCATC
194 ATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATC
34463 GAACCC-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
259 GAACCCAAAAGTATAA-GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
34527 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAA
323 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAA
**
34591 TGAATTAAA
388 TGAATGGAA
34600 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
34665 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
34730 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAGAATGAAT
131 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
34795 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCG
34860 AACCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 AACCCAAAAGTATAA-GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
34924 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAAT
324 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAAT
34989 GAATGGAA
389 GAATGGAA
34997 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
35062 CAAAAGTATAATGT-A-ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
35125 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
35190 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGA
196 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGA
*
35255 ACCCAAAAGTATAA-TAATATGTAATTTTTCAATCTAATCGGTACAATTATACCGGTTTTATGAG
261 ACCCAAAAGTATAAGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
*
35319 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAGAATGA
326 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGA
35384 ATGGAA
391 ATGGAA
35390 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
35455 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
35520 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
35585 GGAAAACAAGGTGCACCCATAAA--GTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCG
196 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCG
35647 AACCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 AACCCAAAAGTATAA-GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
35711 AGAGGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAAT
324 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAAT
35776 GAATGGAA
389 GAATGGAA
35784 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
35848 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
35912 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
35977 GG-AAACAAGGTGCACCCATAAAGTGTCGATCCATATA-AAAAGTGTCGATCCCAAAATCATCGA
196 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGA
36040 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAA-T-TACCGGTTTTATGA
261 ACCCAAAAGTATAA-GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
36103 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
325 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
36152 CTAATTTAAA
Statistics
Matches: 1512, Mismatches: 23, Indels: 36
0.96 0.01 0.02
Matches are distributed among these distances:
391 97 0.06
392 240 0.16
393 413 0.27
394 232 0.15
395 300 0.20
396 117 0.08
397 113 0.07
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (396 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAAGTATAAGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGA
ATGGAA
Found at i:35830 original size:787 final size:790
Alignment explanation
Indices: 34207--36151 Score: 3603
Period size: 787 Copynumber: 2.5 Consensus size: 790
34197 CAATATGGCC
* * *
34207 AACAGGGTGCACCCAT-AAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
*
34271 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
* *
34336 ATGATATGTCTAAATAATGTGTCGAAACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGA
129 AGGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
*
34400 ATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTG-CGATCCCAAAATCATCG
194 ATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCG
34464 AACCC-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
259 AACCCAAAAGTATAA-GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
34528 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATG
323 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATG
*
34593 AATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
388 AATGAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
34658 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
453 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
34723 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAG
518 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAG
34788 AATGAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
583 AATGAATGGAAAACAAGGTGCACCCATAAAG-GTCGATCCATATATAAAAAGTGTCGATCCCAAA
34853 ATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGT
647 ATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGT
34918 TTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCC
712 TTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCC
34983 CAGAATGAATGGAA
777 CAGAATGAATGGAA
34997 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
35062 CAAAAGTATAATGT-A-ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
35125 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
35190 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGA
196 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATA-AAAAGTGTCGATCCCAAAATCATCGA
*
35255 ACCCAAAAGTATAA-TAATATGTAATTTTTCAATCTAATCGGTACAATTATACCGGTTTTATGAG
260 ACCCAAAAGTATAAGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
35319 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAGAATGA
325 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTT-CCCAGAATGA
*
35384 ATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
389 ATGAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
35449 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
454 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
*
35514 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGA
519 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAGA
35579 ATGAATGGAAAACAAGGTGCACCCATAAA-GTCGATCCATATATAAAAAGTGTCGATCCC-AAAT
584 ATGAATGGAAAACAAGGTGCACCCATAAAGGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
35642 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTT
649 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTT
*
35707 TATGAGAGGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCA
714 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCA
35772 GAATGAATGGAA
779 GAATGAATGGAA
35784 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
35848 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
35912 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
35977 GG-AAACAAGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAA
196 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAA
36041 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAA-T-TACCGGTTTTATGAG
261 CCCAAAAGTATAA-GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
36104 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
325 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
36152 CTAATTTAAA
Statistics
Matches: 1130, Mismatches: 15, Indels: 25
0.97 0.01 0.02
Matches are distributed among these distances:
785 103 0.09
786 63 0.06
787 396 0.35
788 123 0.11
789 127 0.11
790 291 0.26
791 27 0.02
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (790 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAA
CCCAAAAGTATAAGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATGAAT
GAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAGAAT
GAATGGAAAACAAGGTGCACCCATAAAGGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
TCGAACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTA
TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGA
ATGAATGGAA
Found at i:37619 original size:12 final size:12
Alignment explanation
Indices: 37602--37693 Score: 76
Period size: 12 Copynumber: 7.4 Consensus size: 12
37592 GGTCGCAGAA
*
37602 GATGAAGCTGAC
1 GATGAAGATGAC
37614 GATGAAGATGAC
1 GATGAAGATGAC
37626 GATGATGATGATGAC
1 GATGA--A-GATGAC
* *
37641 GATGAAGCTGGC
1 GATGAAGATGAC
*
37653 GATGAAGATGAT
1 GATGAAGATGAC
* * *
37665 GACGATGATGAT
1 GATGAAGATGAC
* *
37677 GATGATGATGAA
1 GATGAAGATGAC
37689 GATGA
1 GATGA
37694 TGATCCAAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
12 54 0.81
13 1 0.01
14 1 0.01
15 11 0.16
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:37623 original size:6 final size:6
Alignment explanation
Indices: 37599--37693 Score: 55
Period size: 6 Copynumber: 15.3 Consensus size: 6
37589 AGCGGTCGCA
* * * * *
37599 GAAGAT GAAGCT GACGAT GAAGAT GACGATGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GA--A-GAT GAAGAT GAAGAT GAAGAT
** * * * * *
37650 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
37694 TGATCCAAAC
Statistics
Matches: 69, Mismatches: 17, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
6 63 0.91
8 1 0.01
9 5 0.07
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:37638 original size:15 final size:15
Alignment explanation
Indices: 37614--37696 Score: 91
Period size: 15 Copynumber: 5.7 Consensus size: 15
37604 TGAAGCTGAC
*
37614 GATGAAGATGACGAT
1 GATGATGATGACGAT
37629 GATGATGATGACGAT
1 GATGATGATGACGAT
* *
37644 GA--A-GCTGGCGAT
1 GATGATGATGACGAT
*
37656 GAAGATGATGACGAT
1 GATGATGATGACGAT
*
37671 GATGATGATGATGAT
1 GATGATGATGACGAT
*
37686 GAAGATGATGA
1 GATGATGATGA
37697 TCCAAACAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
12 9 0.16
13 1 0.02
14 1 0.02
15 46 0.81
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (15 bp):
GATGATGATGACGAT
Found at i:37640 original size:27 final size:27
Alignment explanation
Indices: 37610--37693 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
37600 AAGATGAAGC
37610 TGACGATGAAGATGACGATGATGATGA
1 TGACGATGAAGATGACGATGATGATGA
* * *
37637 TGACGATGAAGCTGGCGATGAAGATGA
1 TGACGATGAAGATGACGATGATGATGA
* * *
37664 TGACGATGATGATGATGATGATGAAGA
1 TGACGATGAAGATGACGATGATGATGA
37691 TGA
1 TGA
37694 TGATCCAAAC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.23
Consensus pattern (27 bp):
TGACGATGAAGATGACGATGATGATGA
Found at i:39469 original size:183 final size:183
Alignment explanation
Indices: 39154--39495 Score: 569
Period size: 183 Copynumber: 1.9 Consensus size: 183
39144 CTTTCAACAT
* * *
39154 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACTGGTCTTATGCGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
39219 GGTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GGTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAA
*
39284 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 ATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
** * *
39337 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGT-TTATGAGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
39401 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTT-TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
*
39466 AATGTGTCGATACCATTTTAAAAAGTGTCG
130 AATGTGTCGATACCATTTAAAAAAGTGTCG
39496 GTAATTTGAA
Statistics
Matches: 147, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
182 37 0.25
183 110 0.75
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAA
ATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:42094 original size:23 final size:23
Alignment explanation
Indices: 42063--42126 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
42053 ATAGGTAAAC
*
42063 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
42086 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
42109 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
42127 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:42133 original size:23 final size:23
Alignment explanation
Indices: 42063--42135 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
42053 ATAGGTAAAC
* **
42063 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
42086 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
42109 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
42132 ATAT
1 ATAT
42136 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:42520 original size:23 final size:23
Alignment explanation
Indices: 42489--42552 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
42479 ATAGGTAAAC
*
42489 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
42512 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
42535 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
42553 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:42559 original size:23 final size:23
Alignment explanation
Indices: 42489--42561 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
42479 ATAGGTAAAC
* **
42489 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
42512 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
42535 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
42558 ATAT
1 ATAT
42562 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:42757 original size:426 final size:424
Alignment explanation
Indices: 41965--42792 Score: 1545
Period size: 426 Copynumber: 1.9 Consensus size: 424
41955 AATTCGCAGT
*
41965 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAGTATCGATCCTTTTTATAA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAGTATCGATCCTTTTTATAA
42030 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
66 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
*
42095 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCTTTTTTATA
131 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
42160 AAAGTGTCCTACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
196 AAAGTGTCCTACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
* *
42225 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTAA
261 GATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATATTATTAA
42290 ATTAAAAATTCTAAATAATATTTTATAAAATATAAAACAATCAAATAATTTTTTGTGCAAATGAA
326 ATTAAAAATTCTAAATAATATTTTATAAAATATAAAACAATC-AATAATTTTTTGTGCAAATGAA
42355 ATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 ATTATTAAATCAATATTGTAGGTGGAAAACATGAA
42390 ACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTT-AAAAAAGTATCGATCCTTTTTATA
42455 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
65 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
42520 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
130 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
42585 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
195 AAAAGTGTCC-TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
42650 AAGATATTAATTTAGTAATTATAGGCGTATAATGATTTA-TTTTTACGTTACGATATATATTTAT
259 AAGATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATA-TTAT
*
42714 TAAATT-AAAATT-TAAATATTATTTTATAAAATATCAAAACAATCAATAATTTTTTGTGCAAAT
323 TAAATTAAAAATTCTAAATAATATTTTATAAAATAT-AAAACAATCAATAATTTTTTGTGCAAAT
42777 GAAATTATTAAATCAA
387 GAAATTATTAAATCAA
42793 ATAATTCAAA
Statistics
Matches: 394, Mismatches: 5, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
425 95 0.24
426 197 0.50
427 102 0.26
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (424 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAGTATCGATCCTTTTTATAA
AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
AAAGTGTCCTACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
GATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATATTATTAA
ATTAAAAATTCTAAATAATATTTTATAAAATATAAAACAATCAATAATTTTTTGTGCAAATGAAA
TTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:42858 original size:25 final size:25
Alignment explanation
Indices: 42824--42874 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
42814 ACAACAAATC
*
42824 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
42849 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
42874 A
1 A
42875 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:43144 original size:18 final size:18
Alignment explanation
Indices: 43123--43159 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
43113 GTAATTGGAG
43123 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
43141 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
43159 T
1 T
43160 ATATATTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:43481 original size:38 final size:39
Alignment explanation
Indices: 43416--43501 Score: 147
Period size: 38 Copynumber: 2.2 Consensus size: 39
43406 TCCGATGCTC
*
43416 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
43455 ATCAAAATCC-AATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
43493 ATCAAAATC
1 ATCAAAATC
43502 TACAACTTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 35 0.78
39 10 0.22
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:43932 original size:23 final size:23
Alignment explanation
Indices: 43901--43964 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
43891 ATAGGTAAAC
*
43901 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
43924 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
43947 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
43965 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:43971 original size:23 final size:23
Alignment explanation
Indices: 43901--43973 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
43891 ATAGGTAAAC
* **
43901 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
43924 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
43947 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
43970 ATAT
1 ATAT
43974 TGTAAATTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:48514 original size:33 final size:33
Alignment explanation
Indices: 48491--48559 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
48481 GCTATGCCCT
*
48491 TGTGTTATTGGTACTGTGCAGCTGTCACTGCAG
1 TGTGTTATTGGTACTATGCAGCTGTCACTGCAG
* *
48524 TGTGTTATTGGTACTATGCAGCTATTACTGCAG
1 TGTGTTATTGGTACTATGCAGCTGTCACTGCAG
48557 TGT
1 TGT
48560 TCCTTATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.17, C:0.16, G:0.28, T:0.39
Consensus pattern (33 bp):
TGTGTTATTGGTACTATGCAGCTGTCACTGCAG
Found at i:48831 original size:17 final size:17
Alignment explanation
Indices: 48809--48845 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
48799 AGACATGTTG
48809 TTTTTGATGAGTTTAAC
1 TTTTTGATGAGTTTAAC
48826 TTTTTGATGAGTTTAAC
1 TTTTTGATGAGTTTAAC
48843 TTT
1 TTT
48846 CCATTTGCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.16, T:0.57
Consensus pattern (17 bp):
TTTTTGATGAGTTTAAC
Found at i:51266 original size:9 final size:9
Alignment explanation
Indices: 51252--51287 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
51242 TTTCTTGCCA
51252 TTATTTTTT
1 TTATTTTTT
51261 TTATTTTTT
1 TTATTTTTT
*
51270 TTATTTCTAT
1 TTATTT-TTT
51280 TTATTTTT
1 TTATTTTT
51288 ATTTTACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (9 bp):
TTATTTTTT
Found at i:51288 original size:16 final size:15
Alignment explanation
Indices: 51262--51291 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
51252 TTATTTTTTT
51262 TATTTTTTTTATTTC
1 TATTTTTTTTATTTC
51277 TATTTATTTTTATTT
1 TATTT-TTTTTATTT
51292 TACTATCTGT
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:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (15 bp):
TATTTTTTTTATTTC
Found at i:54331 original size:16 final size:16
Alignment explanation
Indices: 54310--54366 Score: 69
Period size: 18 Copynumber: 3.3 Consensus size: 16
54300 AATCAAGAAT
54310 AAAAAAGAAAAGAAGC
1 AAAAAAGAAAAGAAGC
*
54326 AAAAAAGAAAAAACAAGAAC
1 AAAAAAG--AAAAGAAG--C
54346 AAAAAAGAAAAGAAGC
1 AAAAAAGAAAAGAAGC
54362 AAAAA
1 AAAAA
54367 TCAAAAGGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 13 0.37
18 14 0.40
20 8 0.23
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAGAAGC
Found at i:54336 original size:21 final size:21
Alignment explanation
Indices: 54312--54359 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
54302 TCAAGAATAA
54312 AAAAGAA-AAGAAGCAAAAAAG
1 AAAAGAACAAGAA-CAAAAAAG
54333 AAAA-AACAAGAACAAAAAAG
1 AAAAGAACAAGAACAAAAAAG
54353 AAAAGAA
1 AAAAGAA
54360 GCAAAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAGAACAAGAACAAAAAAG
Found at i:55443 original size:18 final size:18
Alignment explanation
Indices: 55420--55455 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
55410 TCAACATCAA
*
55420 ATATTGGGACATTTTTGG
1 ATATTGGGACATCTTTGG
*
55438 ATATTGGGGCATCTTTGG
1 ATATTGGGACATCTTTGG
55456 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGGGACATCTTTGG
Found at i:56005 original size:38 final size:36
Alignment explanation
Indices: 55929--55998 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
55919 GTGCTCACCA
* *
55929 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAATTTCCCTTGAAAAAAACT
55965 TTGTCTCTCTTGAGACAATTTCCCTTGAAAAAAA
1 TTGTCTCTCTTGAGACAATTTCCCTTGAAAAAAA
55999 ACCTTTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAATTTCCCTTGAAAAAAACT
Found at i:57005 original size:106 final size:106
Alignment explanation
Indices: 56853--57274 Score: 659
Period size: 106 Copynumber: 4.0 Consensus size: 106
56843 GCGCCACCCG
* *
56853 AGACAACACAAGTTCAAGTTCACAACGAAGGGAC-GACTGGTTGTCAACAAACAACTTCCCAATT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACAG-CTGGTTGTCAACAAACAATTTCCCAATT
*
56917 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
65 TCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* *
56959 AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAATAAAAAATTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCCAATTT
* ** *
57024 CAGAGCCAATTTCAACTTCACAGCGAAGGGCATTGGACTTA
66 CAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* *
57065 AGACAGCACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCCAATTT
* *
57130 CAGAACCAATTTCAACTTCACAACGAAGGATATTGGACTCG
66 CAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* * *
57171 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTT-TCAACAAACAATTTCCCAGTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCCAATTT
* *
57235 CAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTC
66 CAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTC
57275 GAAACAATAC
Statistics
Matches: 290, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
105 57 0.20
106 232 0.80
107 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (106 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCCAATTT
CAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
Found at i:58728 original size:11 final size:11
Alignment explanation
Indices: 58714--58782 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
58704 TTTACTTATT
*
58714 TTATTTATATG
1 TTATATATATG
58725 TTATATATAT-
1 TTATATATATG
*
58735 ATATATATAT-
1 TTATATATATG
*
58745 ATATATATAT-
1 TTATATATATG
*
58755 TATATATATATA
1 T-TATATATATG
*
58767 TATATATATATA
1 T-TATATATATG
58779 TTAT
1 TTAT
58783 GTTATTTCTT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
10 19 0.36
11 21 0.40
12 13 0.25
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (11 bp):
TTATATATATG
Found at i:58733 original size:2 final size:2
Alignment explanation
Indices: 58726--58779 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
58716 ATTTATATGT
58726 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- 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
58767 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
58780 TATGTTATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:63018 original size:31 final size:30
Alignment explanation
Indices: 62945--63027 Score: 109
Period size: 31 Copynumber: 2.8 Consensus size: 30
62935 TATTTTTAAA
62945 AATTAAGATAAAAATAAAA-ATATA--TTT
1 AATTAAGATAAAAATAAAATATATATTTTT
*
62972 AAGTGAAGATAAAAATAAAATATATATTTTT
1 AA-TTAAGATAAAAATAAAATATATATTTTT
*
63003 ACATTAAAATAAAAATAAAATATAT
1 A-ATTAAGATAAAAATAAAATATAT
63028 TAAATATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 2 0.04
28 16 0.33
29 5 0.10
31 24 0.50
32 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (30 bp):
AATTAAGATAAAAATAAAATATATATTTTT
Found at i:67235 original size:58 final size:57
Alignment explanation
Indices: 67161--67279 Score: 148
Period size: 57 Copynumber: 2.1 Consensus size: 57
67151 ACTTTATGTG
* * *
67161 ATCATTTAAAATTCTCAAAAAAATAAAATGAACGATTTATTTTCCATACAAATTTAGA
1 ATCATTCAAAATTCTCAAAAAAAT-AAATGAACAATTTATTTTCCATACAAAGTTAGA
* ** * * *
67219 ATCATTCAAGATTCTCAAGGAAATGAATTAACAATTTATTTTCCTTACAAAGTTAGA
1 ATCATTCAAAATTCTCAAAAAAATAAATGAACAATTTATTTTCCATACAAAGTTAGA
67276 ATCA
1 ATCA
67280 ACGCAAACTT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
57 32 0.62
58 20 0.38
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (57 bp):
ATCATTCAAAATTCTCAAAAAAATAAATGAACAATTTATTTTCCATACAAAGTTAGA
Found at i:67888 original size:45 final size:45
Alignment explanation
Indices: 67769--67957 Score: 168
Period size: 45 Copynumber: 4.2 Consensus size: 45
67759 ATAACAATTC
* * * *
67769 TTTAATTTTAGCAA-CCAAATAACCAAAAGGAACTAACCCTTTGAT
1 TTTAATTTTGGCAACCCAAA-AATCAAAAGGAACTAATCATTTGAT
* * * * * *
67814 TTTGATTATCGTAATCCAATAATCAAAAGGAACTAAT-ACTTTGAT
1 TTTAATTTTGGCAACCCAAAAATCAAAAGGAACTAATCA-TTTGAT
* * *
67859 TTTAATTTTGGCAACCCAAAAATCCAAAGGAATTCATCATTTGAT
1 TTTAATTTTGGCAACCCAAAAATCAAAAGGAACTAATCATTTGAT
* * * *
67904 TTTAATTTCGGAAACCCAATAATCAAAATGG-ATTAATCATTTGAT
1 TTTAATTTTGGCAACCCAAAAATCAAAA-GGAACTAATCATTTGAT
*
67949 TCTAATTTT
1 TTTAATTTT
67958 TAATAACCTA
Statistics
Matches: 116, Mismatches: 24, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
45 109 0.94
46 7 0.06
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (45 bp):
TTTAATTTTGGCAACCCAAAAATCAAAAGGAACTAATCATTTGAT
Found at i:67923 original size:90 final size:90
Alignment explanation
Indices: 67769--67957 Score: 208
Period size: 90 Copynumber: 2.1 Consensus size: 90
67759 ATAACAATTC
* * * *
67769 TTTAATTTTAGCAACCAAATAACCAAAAGGAACTAACCCTTTGATTTTGATTATCGTAATCCAAT
1 TTTAATTTTAGCAACCAAATAACCAAAAGGAACTAACCATTTGATTTTAATTATCGAAACCCAAT
67834 AATCAAAA-GGAACTAAT-ACTTTGAT
66 AATCAAAATGG-ACTAATCA-TTTGAT
* * * *
67859 TTTAATTTTGGCAACCCAAA-AATCC-AAAGGAATTCATCATTTGATTTTAATT-TCGGAAACCC
1 TTTAATTTTAGCAA-CCAAATAA-CCAAAAGGAACTAACCATTTGATTTTAATTATC-GAAACCC
*
67921 AATAATCAAAATGGATTAATCATTTGAT
63 AATAATCAAAATGGACTAATCATTTGAT
*
67949 TCTAATTTT
1 TTTAATTTT
67958 TAATAACCTA
Statistics
Matches: 84, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
89 2 0.02
90 72 0.86
91 10 0.12
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (90 bp):
TTTAATTTTAGCAACCAAATAACCAAAAGGAACTAACCATTTGATTTTAATTATCGAAACCCAAT
AATCAAAATGGACTAATCATTTGAT
Found at i:71263 original size:15 final size:15
Alignment explanation
Indices: 71243--71276 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
71233 ATTATCGATG
71243 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
71258 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
71273 AATT
1 AATT
71277 AGAATTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:81925 original size:2 final size:2
Alignment explanation
Indices: 81918--81968 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
81908 TTCACCTTCT
81918 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
81960 TA TA TA TA T
1 TA TA TA TA T
81969 TAACAACATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:83754 original size:3 final size:3
Alignment explanation
Indices: 83746--83810 Score: 105
Period size: 3 Copynumber: 21.3 Consensus size: 3
83736 CGGGTCTTTT
83746 TTA TTA TTA TTTA TATA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
83792 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
83811 GTTTATTAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.03
3 51 0.86
4 6 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:87462 original size:31 final size:32
Alignment explanation
Indices: 87426--87487 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
87416 ATTTTACATG
87426 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
87457 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
87488 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:90561 original size:17 final size:16
Alignment explanation
Indices: 90541--90575 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
90531 AGATCATATT
*
90541 AAAGCGAAGAGAAAAGA
1 AAAGCAAAGAG-AAAGA
90558 AAAGCAAAGAGAAAGA
1 AAAGCAAAGAGAAAGA
90574 AA
1 AA
90576 CAAAGTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.69, C:0.06, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGCAAAGAGAAAGA
Found at i:91750 original size:4 final size:4
Alignment explanation
Indices: 91741--91791 Score: 88
Period size: 4 Copynumber: 13.2 Consensus size: 4
91731 TCGAGAAAAG
91741 TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- -ACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
91787 TACA T
1 TACA T
91792 GATACATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
4 43 0.96
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:92212 original size:90 final size:89
Alignment explanation
Indices: 92103--92398 Score: 255
Period size: 90 Copynumber: 3.2 Consensus size: 89
92093 GTAAAATTCA
*
92103 GTCTC-TTGAGACATTTTTCCACAAACTTTGAGATTTTTCTAAAAACAAATTTTGTCTCGCTTGA
1 GTCTCATTGAGACATTTTTCCACAAATTTTGAGATTTTTCTAAAAACAAATTTTGTCTCGCTTGA
*
92167 GACAATTTATTTCAAACAAATTTC
66 GACAATTTATTTCAAACAAATTTT
*
92191 GTCTCATTTGAGACATTTTTCCTTTGAGATCCAAATTTTGA-ATTGTTTC-ACATTAAACAAA-G
1 GTCTCA-TTGAGACATTTTTCC------A--CAAATTTTGAGATT-TTTCTA-A--AAACAAATT
** * *
92253 TTGATCTCATTTGAGATCGTATCTATTTCAAACAAAATTTTT
53 TTG-TCTCGCTTGAGA-C-AATTTATTTCAAAC-AAA-TTTT
* *
92295 GTCTCACTTGAGATATTTTTCCACAAATTTTGAGA-ATTT-T-AAAACAAATTTTTGTCTCGCTT
1 GTCTCA-TTGAGACATTTTTCCACAAATTTTGAGATTTTTCTAAAAACAAA-TTTTGTCTCGCTT
*
92357 GAGACAATTTCTTTCAAAGCAAATTTT
64 GAGACAATTTATTTCAAA-CAAATTTT
92384 GTCTCGATTGAGACA
1 GTCTC-ATTGAGACA
92399 GCTTTCTAAA
Statistics
Matches: 166, Mismatches: 17, Indels: 49
0.72 0.07 0.21
Matches are distributed among these distances:
88 5 0.03
89 16 0.10
90 29 0.17
91 9 0.05
92 10 0.06
93 4 0.02
95 3 0.02
96 11 0.07
97 5 0.03
98 15 0.09
99 3 0.02
100 17 0.10
101 1 0.01
102 12 0.07
103 3 0.02
104 23 0.14
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.41
Consensus pattern (89 bp):
GTCTCATTGAGACATTTTTCCACAAATTTTGAGATTTTTCTAAAAACAAATTTTGTCTCGCTTGA
GACAATTTATTTCAAACAAATTTT
Found at i:92387 original size:36 final size:36
Alignment explanation
Indices: 92335--92452 Score: 150
Period size: 36 Copynumber: 3.3 Consensus size: 36
92325 TGAGAATTTT
* *
92335 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTC
1 AAAACAAA-TTTTGTCTCGATTGAGACAATTTCTTTA
* *
92372 AAAGCAAATTTTGTCTCGATTGAGACAGCTTTC--TA
1 AAAACAAATTTTGTCTCGATTGAGACA-ATTTCTTTA
* *
92407 AAAACAAATTTTGTCTCGTTTGAGACAATTTCTTGA
1 AAAACAAATTTTGTCTCGATTGAGACAATTTCTTTA
92443 AAAACAAATT
1 AAAACAAATT
92453 CCGCCTCACT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
34 4 0.06
35 26 0.37
36 29 0.41
37 11 0.16
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGATTGAGACAATTTCTTTA
Found at i:92468 original size:71 final size:72
Alignment explanation
Indices: 92335--92469 Score: 175
Period size: 71 Copynumber: 1.9 Consensus size: 72
92325 TGAGAATTTT
** * ** * *
92335 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTCAAAGCAAATTTTGTCTCGATTGAGACAG
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGCCTCGATGGAGACAG
92400 CTTTCTA
66 CTTTCTA
*
92407 AAAACAAA-TTTTGTCTCGTTTGAGACAATTTCTTGAAAAACAAATTCCGCCTC-ACTGGAGACA
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGCCTCGA-TGGAGACA
92470 TTTTTCATTG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
70 1 0.02
71 45 0.83
72 8 0.15
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (72 bp):
AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGCCTCGATGGAGACAG
CTTTCTA
Found at i:92621 original size:34 final size:36
Alignment explanation
Indices: 92542--92634 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
92532 ATCGTTTTCT
* *
92542 CAAACTTTGTCTCGCTTGAGACAATTTCTCTAAAAA
1 CAAATTTTGTCTCGCTTGAGACAATATCTCTAAAAA
** * *
92578 CAAATTTTGTCTCATTTGAGACTATATCT-T-AAAG
1 CAAATTTTGTCTCGCTTGAGACAATATCTCTAAAAA
92612 CAAATTTTGTCTCGCTTGAGACA
1 CAAATTTTGTCTCGCTTGAGACA
92635 TCATTTTCTC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
34 23 0.48
35 1 0.02
36 24 0.50
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (36 bp):
CAAATTTTGTCTCGCTTGAGACAATATCTCTAAAAA
Found at i:92946 original size:29 final size:28
Alignment explanation
Indices: 92876--93094 Score: 261
Period size: 27 Copynumber: 7.9 Consensus size: 28
92866 TCTTGAGACA
92876 GTTTCTCTTGAAAAAAATCTTTGAGTTT
1 GTTTCTCTTGAAAAAAATCTTTGAGTTT
*
92904 GTTTCTCTTG-AAAAAATCTTTGAGTTA
1 GTTTCTCTTGAAAAAAATCTTTGAGTTT
*
92931 GTTTCTCTTGAAAAAAAAGCTTTGAGTTT
1 GTTTCTCTTG-AAAAAAATCTTTGAGTTT
*
92960 GTTTCTC-TGGAAAAAATCTTTGAGTTT
1 GTTTCTCTTGAAAAAAATCTTTGAGTTT
*
92987 GTTCCTCTT-AAAAAAATCTTTGAGTTT
1 GTTTCTCTTGAAAAAAATCTTTGAGTTT
* * * *
93014 GCTCCTTTTGAATAAAAATCTTGGAGTTT
1 GTTTCTCTTGAA-AAAAATCTTTGAGTTT
* * *
93043 GTTCCTTTTGAATAAATATCTTTGAG-TT
1 GTTTCTCTTGAA-AAAAATCTTTGAGTTT
*
93071 GTTTCTTTTG--AAAAATCTTTGAGT
1 GTTTCTCTTGAAAAAAATCTTTGAGT
93095 CTATTTATTT
Statistics
Matches: 170, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
25 12 0.07
27 72 0.42
28 26 0.15
29 60 0.35
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (28 bp):
GTTTCTCTTGAAAAAAATCTTTGAGTTT
Found at i:92965 original size:56 final size:55
Alignment explanation
Indices: 92875--93094 Score: 266
Period size: 56 Copynumber: 4.0 Consensus size: 55
92865 CTCTTGAGAC
*
92875 AGTTTCTCTTGAAAAAAATCTTTGAGTTTGTTTCTCTTGAAAAAATCTTTGAGTT
1 AGTTCCTCTTGAAAAAAATCTTTGAGTTTGTTTCTCTTGAAAAAATCTTTGAGTT
* * *
92930 AGTTTCTCTTGAAAAAAAAGCTTTGAGTTTGTTTCTCTGGAAAAAATCTTTGAGTT
1 AGTTCCTCTTG-AAAAAAATCTTTGAGTTTGTTTCTCTTGAAAAAATCTTTGAGTT
* * * * *
92986 TGTTCCTCTT-AAAAAAATCTTTGAGTTTGCTCCTTTTGAATAAAAATCTTGGAGTT
1 AGTTCCTCTTGAAAAAAATCTTTGAGTTTGTTTCTCTTG-A-AAAAATCTTTGAGTT
* * * *
93042 TGTTCCTTTTGAATAAATATCTTTGAG-TTGTTTCTTTTG-AAAAATCTTTGAGT
1 AGTTCCTCTTGAA-AAAAATCTTTGAGTTTGTTTCTCTTGAAAAAATCTTTGAGT
93095 CTATTTATTT
Statistics
Matches: 145, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
54 36 0.25
55 12 0.08
56 73 0.50
57 12 0.08
58 12 0.08
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (55 bp):
AGTTCCTCTTGAAAAAAATCTTTGAGTTTGTTTCTCTTGAAAAAATCTTTGAGTT
Found at i:92989 original size:83 final size:83
Alignment explanation
Indices: 92876--93094 Score: 271
Period size: 83 Copynumber: 2.6 Consensus size: 83
92866 TCTTGAGACA
* * *
92876 GTTTCTCTTGAAAAAAATCTTTGAGTTTGTTTCTCTTGAAAAAATCTTTGAGTTAGTTTCTCTTG
1 GTTTCTC-TGGAAAAAATCTTTGAGTTTGTTTCTCTTGAAAAAATCTTTGAGTTAGCTCCTCTTG
*
92941 AAAAAAAAGCTTTGAGTTT
65 AAAAAAAAGCTTGGAGTTT
* * * *
92960 GTTTCTCTGGAAAAAATCTTTGAGTTTGTTCCTCTTAAAAAAATCTTTGAGTTTGCTCCTTTTGA
1 GTTTCTCTGGAAAAAATCTTTGAGTTTGTTTCTCTTGAAAAAATCTTTGAGTTAGCTCCTCTTGA
* *
93025 ATAAAAATCTTGGAGTTT
66 AAAAAAAGCTTGGAGTTT
* * * *
93043 GTTCCTTTTGAATAAATATCTTTGAG-TTGTTTCTTTTG-AAAAATCTTTGAGT
1 GTTTCTCTGGAA-AAA-ATCTTTGAGTTTGTTTCTCTTGAAAAAATCTTTGAGT
93095 CTATTTATTT
Statistics
Matches: 117, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
83 89 0.76
84 19 0.16
85 9 0.08
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (83 bp):
GTTTCTCTGGAAAAAATCTTTGAGTTTGTTTCTCTTGAAAAAATCTTTGAGTTAGCTCCTCTTGA
AAAAAAAGCTTGGAGTTT
Found at i:93226 original size:28 final size:28
Alignment explanation
Indices: 93195--93263 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
93185 ATTTTGTGAA
*
93195 AAAAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAAAATCTTTGAGATTGTTTCTTTGG
*
93223 AAAAAAATCTTTGAGTTTGTTTCTTTGG
1 AAAAAAATCTTTGAGATTGTTTCTTTGG
93251 AAACAAAAT-TTTG
1 AAA-AAAATCTTTG
93264 TCTCTCTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 33 0.87
29 5 0.13
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.43
Consensus pattern (28 bp):
AAAAAAATCTTTGAGATTGTTTCTTTGG
Found at i:93298 original size:95 final size:92
Alignment explanation
Indices: 93158--93330 Score: 231
Period size: 95 Copynumber: 1.8 Consensus size: 92
93148 CTTTGAGTCT
* *
93158 GAAACAAAGTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAAAATCTTTGAGATTGTTTCTTTTG
1 GAAACAAAGTTTGTCTCTCTTAAGACAATTTTGTGAAAAAAAAATCTTTGAGATTGTTTCTTTGG
93223 AAA-AAAATCTTTGAGTTTGTTTCTTTG
66 AAACAAAAT-TTTGAGTTTGTTTCTTTG
* * * * * *
93250 GAAACAAAATTTTGTCTCTCTTAAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTTTGTTTCTT
1 GAAAC-AAAGTTTGTCTCTCTTAAGACAATTT-TGTGAAAA-AAAAATCTTTGAGATTGTTTCTT
93315 TGGAAACAAAATTTTG
63 TGGAAACAAAATTTTG
93331 TCTATCTTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 5 0.07
93 22 0.32
94 6 0.09
95 31 0.45
96 5 0.07
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.42
Consensus pattern (92 bp):
GAAACAAAGTTTGTCTCTCTTAAGACAATTTTGTGAAAAAAAAATCTTTGAGATTGTTTCTTTGG
AAACAAAATTTTGAGTTTGTTTCTTTG
Found at i:93300 original size:67 final size:65
Alignment explanation
Indices: 93208--93378 Score: 270
Period size: 67 Copynumber: 2.6 Consensus size: 65
93198 AAAATCTTTG
* *
93208 AGATTGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTA
1 AGATAGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTATCTTA
*
93273 AGATAGTTTCTTTTAAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTATCT
1 AGATAGTTTCTTTT-GAA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTATCT
93338 TA
64 TA
* * *
93340 AGATAATTTCTTTTGAAAAAAATCTTTGAATATGTTTCT
1 AGATAGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCT
93379 CTTAAAATGA
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
65 33 0.34
66 4 0.04
67 60 0.62
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (65 bp):
AGATAGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTATCTTA
Found at i:93420 original size:64 final size:64
Alignment explanation
Indices: 93208--93439 Score: 261
Period size: 67 Copynumber: 3.6 Consensus size: 64
93198 AAAATCTTTG
* * *
93208 AGATTGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTA
1 AGATAGTTTCTTTTGAAAAAAATCTTTGAATATGTTTCTTT-GAAACAAAATTTTGTCTCTCTTA
* * * *
93273 AGATAGTTTCTTTTAAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTATCT
1 AGATAGTTTCTTTT-GAA-AAAAATCTTTGAATATGTTTCTTT-GAAACAAAATTTTGTCTCTCT
93338 TA
63 TA
* * *
93340 AGATAATTTCTTTTGAAAAAAATCTTTGAATATGTTTCTCTT-AAA-ATGAATTTTGTATCTCTT
1 AGATAGTTTCTTTTGAAAAAAATCTTTGAATATGTTTCT-TTGAAACA-AAATTTTGTCTCTCTT
*
93403 G
64 A
* * **
93404 AGACAGTTTCTCTTGAAGTAAATCTTTGAATATGTT
1 AGATAGTTTCTTTTGAAAAAAATCTTTGAATATGTT
93440 CATTTTGAAA
Statistics
Matches: 147, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
63 1 0.01
64 47 0.32
65 33 0.22
66 6 0.04
67 60 0.41
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (64 bp):
AGATAGTTTCTTTTGAAAAAAATCTTTGAATATGTTTCTTTGAAACAAAATTTTGTCTCTCTTA
Found at i:93709 original size:63 final size:64
Alignment explanation
Indices: 93600--93723 Score: 171
Period size: 63 Copynumber: 2.0 Consensus size: 64
93590 GATGTGATCC
* *
93600 ATCTTTGAGTATGTTTCTTTTGAAACAAAATTTATCTCTTAAAGACAA-TTCTTTTGAAAAAAA
1 ATCTTTGAGTATGTTTCCTTTGAAAAAAAATTTATCTCTTAAAGACAACTTCTTTTGAAAAAAA
* * **
93663 ATCTTTGAGTTTGTTTCCTTTGAAAAAAAATATTGTCTC-TCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTATGTTTCCTTTGAAAAAAAAT-TTATCTCTTAAAGACAACTTCTTTTGAAAA
93724 TACCCACATT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
63 35 0.66
64 18 0.34
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (64 bp):
ATCTTTGAGTATGTTTCCTTTGAAAAAAAATTTATCTCTTAAAGACAACTTCTTTTGAAAAAAA
Found at i:93768 original size:40 final size:40
Alignment explanation
Indices: 93705--93784 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
93695 TTGTCTCTCG
93705 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
* *
93745 AGACAATTTCTTTT-AAAACTACCCACCTTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAA-TACCCACATTTGAGATCGTTT
93785 CTATTAAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 4 0.11
40 33 0.89
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
Found at i:93883 original size:15 final size:15
Alignment explanation
Indices: 93863--93892 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
93853 CAAACGAATT
*
93863 TTTTCTCTTGAAACA
1 TTTTCTCTTAAAACA
93878 TTTTCTCTTAAAACA
1 TTTTCTCTTAAAACA
93893 AGATCATCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (15 bp):
TTTTCTCTTAAAACA
Found at i:94428 original size:27 final size:28
Alignment explanation
Indices: 94397--94477 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
94387 TGAACACATT
94397 ATCTTTGAG-CTTGTTT-TCTTGAAACAA
1 ATCTTTGAGTC-TGTTTCTCTTGAAACAA
*
94424 ATCTTTGAGTCTGTTTCTTTTGAAACAA
1 ATCTTTGAGTCTGTTTCTCTTGAAACAA
* *
94452 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAGTCT-GTTTCTCTTGAAAC
94478 CATAACTCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 17 0.36
28 30 0.64
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.47
Consensus pattern (28 bp):
ATCTTTGAGTCTGTTTCTCTTGAAACAA
Found at i:94455 original size:28 final size:28
Alignment explanation
Indices: 94383--94457 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
94373 GAGACAGTTG
*
94383 CTTTTGAACACATTATCTTTGAGCTTGTTT
1 CTTTTGAA-ACA-AATCTTTGAGCTTGTTT
*
94413 -TCTTGAAACAAATCTTTGAG-TCTGTTT
1 CTTTTGAAACAAATCTTTGAGCT-TGTTT
94440 CTTTTGAAACAAATCTTT
1 CTTTTGAAACAAATCTTT
94458 AATTTGGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 1 0.03
27 14 0.35
28 19 0.47
29 6 0.15
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGCTTGTTT
Found at i:94606 original size:46 final size:46
Alignment explanation
Indices: 94535--94869 Score: 197
Period size: 46 Copynumber: 7.6 Consensus size: 46
94525 CATCCCCAGA
*
94535 CCAGATCTCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
* * * * *
94581 CCAGAACTCTTCATCACGTATGAGCCGTGTCATC-CC-CT-GA---
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
** * * * **
94621 CCAGATTTCCTCATCACGTAGGAACCG-G--GTCACCCTTAGATAA
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
*
94664 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGACC-TCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
* * * *
94710 CCAGACCTCTTCATCACGTATGAGCCGTGTCATC-CC-CT-GA---
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
** * * ** **
94750 CCAGATTTCCTCATCACGTAGGAACCG-G--GTCACCCCTAGATAA
1 CCAGACCTCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
*
94793 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCCTTCCTAAAGATGG
1 CCAGACC-TCCTCATCACGTAGGAGCCGTGTTATCA-CCTT--T--AGATGG
* * *
94844 CCAGAACTCTTCATCACGTATGAGCC
1 CCAGACCTCCTCATCACGTAGGAGCC
94870 ATGTCGTCGT
Statistics
Matches: 222, Mismatches: 40, Indels: 49
0.71 0.13 0.16
Matches are distributed among these distances:
37 4 0.02
38 4 0.02
39 5 0.02
40 48 0.22
43 52 0.23
44 4 0.02
45 4 0.02
46 71 0.32
47 4 0.02
49 1 0.00
51 24 0.11
52 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (46 bp):
CCAGACCTCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGG
Found at i:94675 original size:43 final size:43
Alignment explanation
Indices: 94628--94819 Score: 187
Period size: 43 Copynumber: 4.5 Consensus size: 43
94618 TGACCAGATT
*
94628 TCCTCATCACGTAGGAACCGGGTCACCCTTAGATAACCAGCCG
1 TCCTCATCACGTAGGAACCGGGTCACCCCTAGATAACCAGCCG
* ** **
94671 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGACC-
1 TCCTCATCACGTAGGAACCG-G--GTCACCCCTAGATAACCAG-CCG
* * * * ***
94717 TCTTCATCACGTATGAGCCGTGTCATCCCCT-G---ACCAGATT
1 TCCTCATCACGTAGGAACCGGGTCA-CCCCTAGATAACCAGCCG
94757 TCCTCATCACGTAGGAACCGGGTCACCCCTAGATAACCAGCCG
1 TCCTCATCACGTAGGAACCGGGTCACCCCTAGATAACCAGCCG
94800 TCCTCATCACGTAGGAACCG
1 TCCTCATCACGTAGGAACCG
94820 TGTTATCACC
Statistics
Matches: 118, Mismatches: 21, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
39 5 0.04
40 26 0.22
43 49 0.42
44 4 0.03
46 32 0.27
47 2 0.02
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (43 bp):
TCCTCATCACGTAGGAACCGGGTCACCCCTAGATAACCAGCCG
Found at i:94764 original size:129 final size:129
Alignment explanation
Indices: 94542--94874 Score: 585
Period size: 129 Copynumber: 2.5 Consensus size: 129
94532 AGACCAGATC
*
94542 TCCTCATCACGTAGGAGCCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCC
1 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCC
*
94607 GTGTCATCCCCTGACCAGATTTCCTCATCACGTAGGAACCGGGTCACCCTTAGATAACCAGCCG
66 GTGTCATCCCCTGACCAGATTTCCTCATCACGTAGGAACCGGGTCACCCCTAGATAACCAGCCG
*
94671 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGACCTCTTCATCACGTATGAGCC
1 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCC
94736 GTGTCATCCCCTGACCAGATTTCCTCATCACGTAGGAACCGGGTCACCCCTAGATAACCAGCCG
66 GTGTCATCCCCTGACCAGATTTCCTCATCACGTAGGAACCGGGTCACCCCTAGATAACCAGCCG
94800 TCCTCATCACGTAGGAACCGTGTTATCACCCTTCCTAAAGATGGCCAGAACTCTTCATCACGTAT
1 TCCTCATCACGTAGGAACCGTGTTATCA-CCTT--T--AGATGGCCAGAACTCTTCATCACGTAT
*
94865 GAGCCATGTC
61 GAGCCGTGTC
94875 GTCGTCCTCA
Statistics
Matches: 194, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
129 154 0.79
130 4 0.02
132 1 0.01
134 35 0.18
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (129 bp):
TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCC
GTGTCATCCCCTGACCAGATTTCCTCATCACGTAGGAACCGGGTCACCCCTAGATAACCAGCCG
Found at i:94821 original size:83 final size:86
Alignment explanation
Indices: 94671--94831 Score: 195
Period size: 83 Copynumber: 1.9 Consensus size: 86
94661 TAACCAGCCG
** ** * * *
94671 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGACCTCTTCATCACGTATGAGCC
1 TCCTCATCACGTAGGAACCGTG-TATCACCCCTAGATAACCAGACCTCCTCATCACGTAGGAACC
94736 GTGTCATC-CCCTGACCAGATT
65 GTGTCATCACCCTGACCAGATT
*
94757 TCCTCATCACGTAGGAACCG-G-GTCACCCCTAGATAACCAG-CCGTCCTCATCACGTAGGAACC
1 TCCTCATCACGTAGGAACCGTGTATCACCCCTAGATAACCAGACC-TCCTCATCACGTAGGAACC
*
94819 GTGTTATCACCCT
65 GTGTCATCACCCT
94832 TCCTAAAGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
82 2 0.03
83 37 0.58
84 4 0.06
85 1 0.02
86 20 0.31
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.25
Consensus pattern (86 bp):
TCCTCATCACGTAGGAACCGTGTATCACCCCTAGATAACCAGACCTCCTCATCACGTAGGAACCG
TGTCATCACCCTGACCAGATT
Found at i:94953 original size:78 final size:79
Alignment explanation
Indices: 94798--94955 Score: 221
Period size: 78 Copynumber: 2.0 Consensus size: 79
94788 GATAACCAGC
* ** * *
94798 CGTCCTCATCACGTAGGAACCGTGTTATCACCCTTCCTAAAGATGGCCAGAACTCTTCATCACGT
1 CGTCCTCATCACGTAGGAACCGAGTTATCACCCACCCTAAAGACGACCAGAACTCTTCATCACGT
94863 ATGAGCCATGTCGT
66 ATGAGCCATGTCGT
* * *
94877 CGTCCTCATCACGTAGGAACCGAGTTATCATCCACCCT-TAGACGACCAGACCTCTTCATCACGT
1 CGTCCTCATCACGTAGGAACCGAGTTATCACCCACCCTAAAGACGACCAGAACTCTTCATCACGT
94941 ATGAG-CAGTGTCGT
66 ATGAGCCA-TGTCGT
94955 C
1 C
94956 CCCACAACCA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
77 2 0.03
78 34 0.49
79 34 0.49
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (79 bp):
CGTCCTCATCACGTAGGAACCGAGTTATCACCCACCCTAAAGACGACCAGAACTCTTCATCACGT
ATGAGCCATGTCGT
Found at i:95110 original size:3 final size:3
Alignment explanation
Indices: 95102--95156 Score: 51
Period size: 3 Copynumber: 17.3 Consensus size: 3
95092 CGGGTCTTTT
95102 TTA TTA TTA TT- TATA TATA TT- TATA TATA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA T-TA TTA T-TA T-TA -TTA TTA TTA TTA TTA
95147 TTA TTA TTA T
1 TTA TTA TTA T
95157 GTTTATTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
2 2 0.04
3 33 0.70
4 11 0.23
5 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:95142 original size:10 final size:10
Alignment explanation
Indices: 95101--95156 Score: 66
Period size: 10 Copynumber: 5.8 Consensus size: 10
95091 CCGGGTCTTT
95101 TTTATTATTA
1 TTTATTATTA
95111 TTTA-TATATA
1 TTTATTAT-TA
95121 TTTA-TATATA
1 TTTATTAT-TA
95131 TTTATTATTA
1 TTTATTATTA
95141 -TTATTATTA
1 TTTATTATTA
95150 -TTATTAT
1 TTTATTAT
95157 GTTTATTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
9 19 0.43
10 22 0.50
11 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTATTATTA
Found at i:101952 original size:2 final size:2
Alignment explanation
Indices: 101945--101970 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
101935 AGGACTGATA
101945 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
101971 CTAAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109891 original size:19 final size:19
Alignment explanation
Indices: 109867--109906 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
109857 TTAAAAAAAT
109867 ATATTTA-TAATATTATAAA
1 ATATTTATTAAT-TTATAAA
*
109886 ATATTTATTAATTTTTAAA
1 ATATTTATTAATTTATAAA
109905 AT
1 AT
109907 CCAATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTTATTAATTTATAAA
Found at i:110136 original size:23 final size:21
Alignment explanation
Indices: 110109--110171 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 21
110099 ATTTTTAAAT
110109 ATTTTCATAATATTATAAATAA
1 ATTTT-ATAATATTATAAATAA
*
110131 ACTTTTAAGAATAATT-TAATATAA
1 A-TTTT-ATAAT-ATTATAA-ATAA
110155 ATTTTATAATA-TATAAA
1 ATTTTATAATATTATAAA
110172 ATAATTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
20 2 0.06
21 4 0.12
22 5 0.15
23 15 0.44
24 8 0.24
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTTTATAATATTATAAATAA
Found at i:127002 original size:16 final size:17
Alignment explanation
Indices: 126973--127022 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
126963 AAAATATTTT
126973 ATATATAATTAATATAAA
1 ATATATAA-TAATATAAA
* *
126991 ATATATAA-AATATTAT
1 ATATATAATAATATAAA
127007 ATATAT-ATATATATAA
1 ATATATAATA-ATATAA
127023 TCGCGGTGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 1 0.04
16 13 0.48
17 5 0.19
18 8 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATATAATAATATAAA
Found at i:130365 original size:65 final size:65
Alignment explanation
Indices: 130232--130391 Score: 245
Period size: 65 Copynumber: 2.5 Consensus size: 65
130222 TGCACTAAGA
*
130232 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCTC
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGCTC
*
130296 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATACCCTGAGTGCATCGATGCATGGCT
*
130359 AT
65 -C
*
130361 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
130392 CAATTTATTC
Statistics
Matches: 89, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
64 29 0.33
65 57 0.64
66 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGCTC
Found at i:130430 original size:65 final size:62
Alignment explanation
Indices: 130232--130439 Score: 224
Period size: 65 Copynumber: 3.2 Consensus size: 62
130222 TGCACTAAGA
* * *
130232 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTC
1 GTGCATCGATGCATAAAATGCATTCGATGTTTC-AATTAACCTGAGTGCATCGATGCATGG-TT
* *
130296 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAACCCTGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAT-TAA-CCTGAGTGCATCGATGCATGGT-
130360 T
62 T
* *
130361 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-TTA-ACC-TGAGTGCATCGATGCATGG-T
130424 T
62 T
*
130425 GGTGCATCGGTGCAT
1 -GTGCATCGATGCAT
130440 CACTTTAAAA
Statistics
Matches: 125, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
63 4 0.03
64 51 0.41
65 70 0.56
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (62 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATTAACCTGAGTGCATCGATGCATGGTT
Found at i:133212 original size:20 final size:20
Alignment explanation
Indices: 133171--133212 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
133161 TGCATGATTA
*
133171 TATGTGTTGATATGTTTTTG
1 TATGTGTTGATATGTTTATG
133191 TATGTGTT-ATATGATTTATG
1 TATGTGTTGATATG-TTTATG
133211 TA
1 TA
133213 AAAAGACTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (20 bp):
TATGTGTTGATATGTTTATG
Found at i:136867 original size:15 final size:16
Alignment explanation
Indices: 136849--136916 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 16
136839 AATTATAATT
136849 TAAAA-AGAAAAATAA
1 TAAAATAGAAAAATAA
*
136864 TAAAATAAATAATAATAAA
1 TAAAATAGA-AA-AAT-AA
*
136883 TAAAA-AGGGAAAATAA
1 TAAAATA-GAAAAATAA
*
136899 TAAAATA-ATAAATAA
1 TAAAATAGAAAAATAA
136914 TAA
1 TAA
136917 CAGTAAAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
15 14 0.33
16 9 0.21
17 6 0.14
18 6 0.14
19 7 0.17
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
TAAAATAGAAAAATAA
Found at i:136868 original size:35 final size:35
Alignment explanation
Indices: 136827--136916 Score: 121
Period size: 35 Copynumber: 2.6 Consensus size: 35
136817 GATATAATAA
* *
136827 AATAAAATAAATAATTATAATTTAAAAA-GAAAAAT
1 AATAAAATAAATAATAATAA-ATAAAAAGGAAAAAT
*
136862 AATAAAATAAATAATAATAAATAAAAAGGGAAAAT
1 AATAAAATAAATAATAATAAATAAAAAGGAAAAAT
136897 AATAAAAT-AATAAATAATAA
1 AATAAAATAAAT-AATAATAA
136917 CAGTAAAGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
34 9 0.18
35 41 0.82
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (35 bp):
AATAAAATAAATAATAATAAATAAAAAGGAAAAAT
Found at i:136872 original size:20 final size:20
Alignment explanation
Indices: 136820--136910 Score: 60
Period size: 20 Copynumber: 4.4 Consensus size: 20
136810 TTGAAAAGAT
*
136820 ATAATAAAATAAAATAAATA
1 ATAATAAAATAAAATAAAAA
* **
136840 ATTATAATTTAAAA-AGAAAA
1 ATAATAAAATAAAATA-AAAA
*
136860 ATAATAAAATAAATAATAATAA
1 ATAATAAAAT-AA-AATAAAAA
**
136882 ATAA-AAAGGGAAAATAATAAA
1 ATAATAAA-ATAAAATAA-AAA
136903 ATAATAAA
1 ATAATAAA
136911 TAATAACAGT
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
19 1 0.02
20 26 0.49
21 13 0.25
22 12 0.23
23 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (20 bp):
ATAATAAAATAAAATAAAAA
Found at i:137647 original size:71 final size:75
Alignment explanation
Indices: 137560--137758 Score: 228
Period size: 76 Copynumber: 2.7 Consensus size: 75
137550 AAAATAAGCT
* * * * *
137560 ATAACATCTTAAATCCTAATTAAAACACTTAAAA-CAATTTAAACTAAAATATCT-AA-AAA-AT
1 ATAATATCCTAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAACAAAGAT
* *
137621 AATAT-TTAAA
65 AAAATATAAAA
* * *
137631 ATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTGAAACACCTAAAACAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCT-AAACAAAGAT
137696 AAAATATAAAA
65 AAAATATAAAA
* * *
137707 ATAATATCCTAAAACTTAATTAAATTACTAAAACCTATTTAAACTAAAATAC
1 ATAATATCCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAC
137759 AAAGATAAAA
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
70 5 0.05
71 40 0.38
73 2 0.02
74 3 0.03
75 6 0.06
76 50 0.47
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (75 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAACAAAGATA
AAATATAAAA
Found at i:137782 original size:76 final size:76
Alignment explanation
Indices: 137560--137794 Score: 218
Period size: 76 Copynumber: 3.2 Consensus size: 76
137550 AAAATAAGCT
* * * * * * *
137560 ATAACATCTTAAATCCTAATTAAAACACTTAAAA-CAATTTAAACTAAAATATCT---A-AAAA-
1 ATAATATCCTAAAACCTAATTAAAATAC-TAAAACCTATTTAAACTAAAACACCTAAAATAAAAT
137619 ATAATATTTAAA
65 ATAATATTTAAA
* * * *
137631 ATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTGAAACACCTAAAACAAAGAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAACACCTAAAATAAA-AT
* *
137696 AAAATA-TAAAA
65 ATAATATTTAAA
* * *
137707 ATAATATCCTAAAACTTAATTAAATTACTAAAACCTATTTAAACTAAAATA-C-AAAGATAAAAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAACACCTAAA-ATAAAAT
*
137770 ATAATGTTTAAA
65 ATAATATTTAAA
*
137782 ATATTATCCTAAA
1 ATAATATCCTAAA
137795 CTTTGGTTTA
Statistics
Matches: 134, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
70 5 0.04
71 40 0.30
74 10 0.07
75 24 0.18
76 50 0.37
77 5 0.04
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAACACCTAAAATAAAATA
TAATATTTAAA
Found at i:139456 original size:4 final size:5
Alignment explanation
Indices: 139423--139524 Score: 80
Period size: 5 Copynumber: 19.8 Consensus size: 5
139413 TGTTCAGAGA
* * * ****
139423 AAAAT AAAAT AAAAT TAATT AAAAT AAAAT -AAAT GAAAAT AAAGT TTGCT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT
* *
139473 AAAAAT AAAAT AAAAAT AAAACG AAAAT AAAAT GAAAT AAAAT AAAAT
1 -AAAAT AAAAT -AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT
139521 AAAA
1 AAAA
139525 AATAGAACGA
Statistics
Matches: 75, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
4 4 0.05
5 57 0.76
6 14 0.19
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:139488 original size:11 final size:10
Alignment explanation
Indices: 139474--139524 Score: 66
Period size: 11 Copynumber: 4.9 Consensus size: 10
139464 AAGTTTGCTA
139474 AAAATAAAAT
1 AAAATAAAAT
*
139484 AAAAATAAAACG
1 -AAAATAAAA-T
139496 AAAATAAAAT
1 AAAATAAAAT
*
139506 GAAATAAAAT
1 AAAATAAAAT
139516 AAAATAAAA
1 AAAATAAAA
139525 AATAGAACGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:139526 original size:27 final size:27
Alignment explanation
Indices: 139474--139537 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
139464 AAGTTTGCTA
* **
139474 AAAATAAAATAAAAATAAAACGAAAAT
1 AAAATGAAATAAAAATAAAAAAAAAAT
139501 AAAATGAAAT-AAAATAAAATAAAAAAT
1 AAAATGAAATAAAAATAAAA-AAAAAAT
* *
139528 AGAACGAAAT
1 AAAATGAAAT
139538 GGGTTGCCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (27 bp):
AAAATGAAATAAAAATAAAAAAAAAAT
Found at i:143107 original size:14 final size:14
Alignment explanation
Indices: 143088--143114 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
143078 TAACCAATAA
143088 TTTAATTAAATCGT
1 TTTAATTAAATCGT
143102 TTTAATTAAATCG
1 TTTAATTAAATCG
143115 ATTGAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
TTTAATTAAATCGT
Found at i:143366 original size:15 final size:15
Alignment explanation
Indices: 143346--143388 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
143336 GAATATAATA
* *
143346 TAATATTTTTATATT
1 TAATATTATAATATT
*
143361 TAATATTATAATTTT
1 TAATATTATAATATT
143376 TAATATTATAATA
1 TAATATTATAATA
143389 ATACTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATATTATAATATT
Found at i:143372 original size:23 final size:23
Alignment explanation
Indices: 143339--143388 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 23
143329 ATTTTCAGAA
*
143339 TATAATATAAT-ATTTTT-ATAT
1 TATAATATTATAATTTTTAATAT
143360 T-TAATATTATAATTTTTAATAT
1 TATAATATTATAATTTTTAATAT
143382 TATAATA
1 TATAATA
143389 ATACTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 8 0.32
21 7 0.28
22 5 0.20
23 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATAATATTATAATTTTTAATAT
Found at i:148217 original size:16 final size:16
Alignment explanation
Indices: 148196--148247 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
148186 TTTTGTTGGC
148196 ATAGCTTCTATTACGA
1 ATAGCTTCTATTACGA
* *
148212 ATAGCTACTATTACTA
1 ATAGCTTCTATTACGA
148228 ATAGCTAT-TATTACGA
1 ATAGCT-TCTATTACGA
148244 ATAG
1 ATAG
148248 TTACCACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (16 bp):
ATAGCTTCTATTACGA
Found at i:161200 original size:15 final size:16
Alignment explanation
Indices: 161170--161209 Score: 64
Period size: 15 Copynumber: 2.5 Consensus size: 16
161160 GTTGAACAAG
161170 TTCTTCTCATTATGAAC
1 TTCTTCTCA-TATGAAC
161187 TTCTTCTC-TATGAAC
1 TTCTTCTCATATGAAC
161202 TTCTTCTC
1 TTCTTCTC
161210 CCTCGTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 15 0.65
17 8 0.35
ACGTcount: A:0.17, C:0.28, G:0.05, T:0.50
Consensus pattern (16 bp):
TTCTTCTCATATGAAC
Found at i:161446 original size:139 final size:139
Alignment explanation
Indices: 161187--161951 Score: 1336
Period size: 139 Copynumber: 5.5 Consensus size: 139
161177 CATTATGAAC
* * *
161187 TTCTTCTC--TATGAACTTCTTCTCCCTCGTTGGACGAGTTCTTCTCATTATGAACTTCTTCACT
1 TTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAAC-TCTCCACT
* * *
161250 GGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGCGATAAATCGAGATAAG
65 GGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAG
161315 GTTGAACAAG
130 GTTGAACAAG
*
161325 TTCTTCTCATTATGAACTTCTTCTCCTTCGTCGGATGAGTTCTTCTCATTATGAACTCTCCACTG
1 TTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACTCTCCACTG
*
161390 GAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGCGATGAATCGAGCTAAGG
66 GAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGG
161455 TTGAACAAG
131 TTGAACAAG
* *
161464 TTCTTCTCATTATGAACTTCTTCTCCCTCGTCAGATTAGTTCTTCTCATTATGAACTCTCCACTG
1 TTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACTCTCCACTG
*
161529 GAAATGTTGATCCATCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGG
66 GAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGG
161594 TTGAACAAG
131 TTGAACAAG
* *
161603 TTCTTCTCATTATGAACTTCTTCTCCCTCTTCGGATGAGCTCTTCTCATTATGAACTCTCCACTG
1 TTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACTCTCCACTG
* *
161668 GAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGTGATGAATCAAGCTAAGG
66 GAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGG
161733 TTGAACAAG
131 TTGAACAAG
*
161742 TTCTTCTCATTATGAGCTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACTCTCCACTG
1 TTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACTCTCCACTG
* *
161807 TAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATATGATGAATCGAGCTAAGG
66 GAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGG
161872 TTGAACAAG
131 TTGAACAAG
*
161881 TTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTG
1 TTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACTCTCCACTG
161946 GAAATG
66 GAAATG
161952 ATGAACCAAG
Statistics
Matches: 597, Mismatches: 28, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
138 8 0.01
139 546 0.91
140 43 0.07
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (139 bp):
TTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACTCTCCACTG
GAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATGAATCGAGCTAAGG
TTGAACAAG
Found at i:161975 original size:91 final size:91
Alignment explanation
Indices: 161868--162042 Score: 323
Period size: 91 Copynumber: 1.9 Consensus size: 91
161858 GAATCGAGCT
* *
161868 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
*
161933 GAACTCTCCACTGGAAATGATGAACC
66 GAAATCTCCACTGGAAATGATGAACC
161959 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
162024 GAAATCTCCACTGGAAATG
66 GAAATCTCCACTGGAAATG
162043 TTGATCCCTC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 81 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (91 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
GAAATCTCCACTGGAAATGATGAACC
Found at i:161994 original size:230 final size:230
Alignment explanation
Indices: 161729--162181 Score: 807
Period size: 230 Copynumber: 2.0 Consensus size: 230
161719 GAATCAAGCT
* *
161729 AAGGTTGAACAAGTTCTTCTCATTATGAGCTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
* *
161794 GAACTCTCCACTGTAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATATGATG
66 GAAATCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATATGATG
* *
161859 AATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCT
131 AATCGAGCTAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCT
161924 TCTCATTATGAACTCTCCACTGGAAATGATGAACC
196 TCTCATTATGAACTCTCCACTGGAAATGATGAACC
161959 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
* *
162024 GAAATCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGTGATG
66 GAAATCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATATGATG
* *
162089 AATCGAGCTAAGGTTGAACAAGTTATTCTCATTATGATCTTTTTCTCCCTCGTCGGATGAGTTCT
131 AATCGAGCTAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCT
*
162154 TCTCATTATGAACTCTCTACTGGAAATG
196 TCTCATTATGAACTCTCCACTGGAAATG
162182 TTGATCGGTT
Statistics
Matches: 212, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
230 212 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (230 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
GAAATCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATATGATG
AATCGAGCTAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCT
TCTCATTATGAACTCTCCACTGGAAATGATGAACC
Found at i:162858 original size:20 final size:20
Alignment explanation
Indices: 162835--162908 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
162825 GCCCGAAGGT
162835 CTTATGGATGGCTCGAAAGA
1 CTTATGGATGGCTCGAAAGA
* * *
162855 CTTATAGATGGCCCGAAGGA
1 CTTATGGATGGCTCGAAAGA
* * *
162875 CTTACGCATCATGCTCGAAAGA
1 CTTATGGAT--GGCTCGAAAGA
*
162897 CTTATTGATGGC
1 CTTATGGATGGC
162909 CTGAAGGACT
Statistics
Matches: 39, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
20 25 0.64
22 14 0.36
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (20 bp):
CTTATGGATGGCTCGAAAGA
Found at i:163235 original size:90 final size:90
Alignment explanation
Indices: 163082--163546 Score: 734
Period size: 90 Copynumber: 5.2 Consensus size: 90
163072 AAAACATCCT
*
163082 GCCCGAAGGACTTACAAATCAAGAAACCTCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACA
1 GCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACA
*
163147 TCCTGCACTGAAGGTCTTATGGATG
66 TCATGCACTGAAGGTCTTATGGATG
* *
163172 GCCCGGCA-GACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAAC
1 GCCC-GAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAAC
*
163236 ATCATGCACTAAAGGTCTTATGGATG
65 ATCATGCACTGAAGGTCTTATGGATG
* * *
163262 GCCTGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCCCATTTGAAAACA
1 GCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACA
* * ** *
163327 TCTTGCACTGAAGGTCCTATAAATA
66 TCATGCACTGAAGGTCTTATGGATG
* *
163352 GCCCAAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATATGAAAACA
1 GCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACA
163417 TCATGCACTGAAGGTCTTATGGATG
66 TCATGCACTGAAGGTCTTATGGATG
* * *
163442 GCTCGAAGTACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACA
1 GCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACA
* *
163507 TCATGCATTGAAGGTCTTATAGATG
66 TCATGCACTGAAGGTCTTATGGATG
163532 GCCCGAAGGACTTAC
1 GCCCGAAGGACTTAC
163547 GCATCATGCT
Statistics
Matches: 338, Mismatches: 35, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
89 2 0.01
90 334 0.99
91 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (90 bp):
GCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACA
TCATGCACTGAAGGTCTTATGGATG
Found at i:180886 original size:69 final size:70
Alignment explanation
Indices: 180775--180913 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 70
180765 CAATGAATGG
180775 TGAACGTGCAATTGTCCCTCCAATTTGAGAATGAATTGAGGAA-ATAGTAAGAGCGATTAGAGAA
1 TGAACGTGCAATTGTCCCTCCAATTTGAGAATGAATTGAGGAACATAGTAAGAGCGATTAGAGAA
180839 TCGCT
66 TCGCT
180844 TGAACGTGCAATTGTCCCTCCAATTTGAGAATGAATTGAGGAACATAGTAAGAGCGATTAGAGAA
1 TGAACGTGCAATTGTCCCTCCAATTTGAGAATGAATTGAGGAACATAGTAAGAGCGATTAGAGAA
180909 TCGCT
66 TCGCT
180914 ACCCAGAAAT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 43 0.62
70 26 0.38
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (70 bp):
TGAACGTGCAATTGTCCCTCCAATTTGAGAATGAATTGAGGAACATAGTAAGAGCGATTAGAGAA
TCGCT
Found at i:183919 original size:17 final size:17
Alignment explanation
Indices: 183897--183936 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
183887 TCTCTTTAGA
183897 TTATTTATTTAAT-TCTT
1 TTATTTA-TTAATATCTT
*
183914 TTATTTATTATTATCTT
1 TTATTTATTAATATCTT
183931 TTATTT
1 TTATTT
183937 TAAAAACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTATTAATATCTT
Found at i:189259 original size:19 final size:19
Alignment explanation
Indices: 189235--189276 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
189225 CTTCTTCAAT
189235 GATCGTCTCAAGGTTGTTA
1 GATCGTCTCAAGGTTGTTA
189254 GATCGTCTCAAGGTTGTTA
1 GATCGTCTCAAGGTTGTTA
189273 GATC
1 GATC
189277 TTCTAATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (19 bp):
GATCGTCTCAAGGTTGTTA
Found at i:189888 original size:21 final size:23
Alignment explanation
Indices: 189864--189907 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
189854 AAGAATAGGG
189864 AGTATCAATACT-CCTT-TAATA
1 AGTATCAATACTACCTTGTAATA
*
189885 AGTATCGATACTACCTTGTAATA
1 AGTATCAATACTACCTTGTAATA
189908 TTTAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 4 0.20
23 5 0.25
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
AGTATCAATACTACCTTGTAATA
Found at i:192387 original size:5 final size:5
Alignment explanation
Indices: 192377--192429 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
192367 AACGGTCAAC
* *
192377 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCAAC GGTCG GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTC--G GGTCG GGTCG
192426 GGTC
1 GGTC
192430 AGACCGGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 32 0.80
7 8 0.20
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:192402 original size:17 final size:17
Alignment explanation
Indices: 192382--192430 Score: 98
Period size: 17 Copynumber: 2.9 Consensus size: 17
192372 TCAACGGTCG
192382 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
192399 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
192416 GGTCGGGTCGGGTCA
1 GGTCGGGTCGGGTCA
192431 GACCGGTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.10, C:0.22, G:0.49, T:0.18
Consensus pattern (17 bp):
GGTCGGGTCGGGTCAAC
Found at i:192425 original size:22 final size:22
Alignment explanation
Indices: 192370--192412 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
192360 AACGGTCAAC
192370 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
192392 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
192413 AACGGTCGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:192444 original size:9 final size:9
Alignment explanation
Indices: 192426--192499 Score: 76
Period size: 9 Copynumber: 7.9 Consensus size: 9
192416 GGTCGGGTCG
*
192426 GGTCAGACC
1 GGTCAAACC
192435 GGTCAAACC
1 GGTCAAACC
*
192444 GGTTCGAACC
1 GG-TCAAACC
*
192454 GGTTGAAACC
1 GG-TCAAACC
192464 GGTCAAACC
1 GGTCAAACC
192473 GGTCAGAACC
1 GGTCA-AACC
*
192483 GGTTAAACC
1 GGTCAAACC
*
192492 GGTTAAAC
1 GGTCAAAC
192500 AGGTTTCCAG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
9 33 0.58
10 24 0.42
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:192454 original size:19 final size:19
Alignment explanation
Indices: 192432--192504 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 19
192422 GTCGGGTCAG
*
192432 ACCGGTCAAACCGGTTCGA
1 ACCGGTCAAACCGGTTCAA
*
192451 ACCGGTTGAAACCGG-TCAA
1 ACCGG-TCAAACCGGTTCAA
192470 ACCGGTCAGAACCGGTT-AA
1 ACCGGTCA-AACCGGTTCAA
* *
192489 ACCGGTTAAACAGGTT
1 ACCGGTCAAACCGGTT
192505 TCCAGCAGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 9 0.20
19 28 0.61
20 9 0.20
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:192466 original size:29 final size:29
Alignment explanation
Indices: 192432--192504 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
192422 GTCGGGTCAG
192432 ACCGGTCAAACCGGTTC-GAACCGGTTGAA
1 ACCGGTCAAACCGGTTCAGAACCGGTT-AA
192461 ACCGGTCAAACCGG-TCAGAACCGGTTAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTAA
* *
192489 ACCGGTTAAACAGGTT
1 ACCGGTCAAACCGGTT
192505 TCCAGCAGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 16 0.40
29 24 0.60
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (29 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTAA
Found at i:199674 original size:5 final size:5
Alignment explanation
Indices: 199664--199709 Score: 65
Period size: 5 Copynumber: 8.8 Consensus size: 5
199654 AACGGTCAAC
*
199664 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTC
199710 AAACCGGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 33 0.89
7 4 0.11
ACGTcount: A:0.04, C:0.22, G:0.54, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:199739 original size:29 final size:31
Alignment explanation
Indices: 199706--199777 Score: 114
Period size: 29 Copynumber: 2.4 Consensus size: 31
199696 GGTCGGGTCG
199706 GGTCAAACCGGTTC-GAACCGGTTG-AAACC
1 GGTCAAACCGGTTCAGAACCGGTTGAAAACC
199735 GGTCAAACCGG-TCAGAACCGGTTGAAAACC
1 GGTCAAACCGGTTCAGAACCGGTTGAAAACC
*
199765 GGTTAAACCGGTT
1 GGTCAAACCGGTT
199778 TCCAGCAGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 2 0.05
29 21 0.54
30 15 0.38
31 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.28, T:0.18
Consensus pattern (31 bp):
GGTCAAACCGGTTCAGAACCGGTTGAAAACC
Found at i:199744 original size:9 final size:9
Alignment explanation
Indices: 199706--199776 Score: 61
Period size: 10 Copynumber: 7.3 Consensus size: 9
199696 GGTCGGGTCG
199706 GGTCAAACC
1 GGTCAAACC
*
199715 GGTTCGAACC
1 GG-TCAAACC
*
199725 GGTTGAAACC
1 GG-TCAAACC
199735 GGTCAAACC
1 GGTCAAACC
199744 GGTCAGAACC
1 GGTCA-AACC
*
199754 GGTTGAAAACC
1 GG-T-CAAACC
*
199765 GGTTAAACC
1 GGTCAAACC
199774 GGT
1 GGT
199777 TTCCAGCAGC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
9 21 0.40
10 23 0.44
11 7 0.13
12 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:199777 original size:9 final size:10
Alignment explanation
Indices: 199710--199777 Score: 63
Period size: 9 Copynumber: 6.9 Consensus size: 10
199700 GGGTCGGGTC
199710 AAACCGGTTCG
1 AAACCGGTT-G
199721 -AACCGGTTG
1 AAACCGGTTG
*
199730 AAACCGG-TC
1 AAACCGGTTG
*
199739 AAACCGG-TC
1 AAACCGGTTG
199748 AGAACCGGTTG
1 A-AACCGGTTG
199759 AAAACCGGTT-
1 -AAACCGGTTG
199769 AAACCGGTT
1 AAACCGGTT
199778 TCCAGCAGCC
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
9 21 0.41
10 20 0.39
11 9 0.18
12 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.18
Consensus pattern (10 bp):
AAACCGGTTG
Found at i:200925 original size:2 final size:2
Alignment explanation
Indices: 200918--200946 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
200908 TAATTTACCC
200918 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
200947 TATTTTGTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:203914 original size:12 final size:12
Alignment explanation
Indices: 203897--203933 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
203887 TTAGATATTA
203897 AGTCATTGTCAC
1 AGTCATTGTCAC
203909 AGTCATTGTCAC
1 AGTCATTGTCAC
203921 AGTCATTGTCAC
1 AGTCATTGTCAC
203933 A
1 A
203934 TTATCTCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (12 bp):
AGTCATTGTCAC
Found at i:207064 original size:21 final size:21
Alignment explanation
Indices: 207016--207065 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
207006 ATGACTATCA
*
207016 CAATGCGATTTTCTAATTTCG
1 CAATGCGATTTTCCAATTTCG
**
207037 CGTTGCGATTTTCCCAA-TTCG
1 CAATGCGATTTT-CCAATTTCG
207058 CAATGCGA
1 CAATGCGA
207066 ATAAGTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (21 bp):
CAATGCGATTTTCCAATTTCG
Found at i:207080 original size:20 final size:21
Alignment explanation
Indices: 207055--207106 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
207045 TTTTCCCAAT
*
207055 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
207075 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
207096 TCGCAATGCGA
1 TCGCAATGCGA
207107 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:207085 original size:41 final size:41
Alignment explanation
Indices: 207040--207210 Score: 132
Period size: 41 Copynumber: 4.2 Consensus size: 41
207030 AATTTCGCGT
*
207040 TGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
* *** * * *
207081 TGCGAATTTGGAAAATCGCAATGCG-AT-ACTGACTATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGT-A-AATCGCAA
* * * * * **
207122 TGCAATTTTCCTAATTCGCATTGCGATTTACGT-ATTCGCGT
1 TGCGATTTTCCTAATTCGCAATGCGA-ATAAGTAAATCGCAA
* *
207163 TGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
*
207204 CGCGATT
1 TGCGATT
207211 AGGAAAATCA
Statistics
Matches: 95, Mismatches: 29, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
39 2 0.02
40 8 0.08
41 83 0.87
43 1 0.01
44 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (41 bp):
TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
Found at i:207150 original size:21 final size:21
Alignment explanation
Indices: 207116--207188 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
207106 ATACTGACTA
* *
207116 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
207137 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
207157 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
207178 TCGCAATGCGA
1 TCGCAATGCGA
207189 ATACGTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Done.