Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_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: 8285662
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 35
Found at i:764692 original size:12 final size:12
Alignment explanation
Indices: 764673--764714 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
764663 GGGCCGCTAA
*
764673 AAATAAATTAAT
1 AAATAAATCAAT
*
764685 ACATAAATCAAT
1 AAATAAATCAAT
764697 AAATAAA-CAAAT
1 AAATAAATC-AAT
764709 AAATAA
1 AAATAA
764715 TGCCAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 1 0.04
12 25 0.96
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAAATCAAT
Found at i:764791 original size:21 final size:21
Alignment explanation
Indices: 764765--764812 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
764755 ACAAACTTAC
*
764765 CTCATTGCGTATAGTATGAAA
1 CTCATTGCGTATAGTAGGAAA
*
764786 CTCATTGCGTATAGTAGGAAC
1 CTCATTGCGTATAGTAGGAAA
764807 CTCATT
1 CTCATT
764813 CTACAACGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
CTCATTGCGTATAGTAGGAAA
Found at i:766987 original size:16 final size:16
Alignment explanation
Indices: 766951--767001 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
766941 TTTAAATATG
766951 AAAAATCTAATAATAATA
1 AAAAAT-TAA-AATAATA
766969 AAAAATTCAAAATAA-A
1 AAAAATT-AAAATAATA
*
766985 AAAAATTAAAAAAATA
1 AAAAATTAAAATAATA
767001 A
1 A
767002 CCCTCGGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.20
16 10 0.33
17 6 0.20
18 8 0.27
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATTAAAATAATA
Found at i:767231 original size:19 final size:20
Alignment explanation
Indices: 767209--767246 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
767199 AATATTGTGT
767209 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
767228 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
767247 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:767347 original size:20 final size:20
Alignment explanation
Indices: 767300--767370 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
767290 ATTTATAGAT
*
767300 TCGCGTTGCGAATTTGGA-A
1 TCGCGTTGCGAAATTGGAGA
* * *
767319 ACTGAGTTGCGAAATTGGAGT
1 TC-GCGTTGCGAAATTGGAGA
*
767340 TCGCGTTGC-AAATTTGAGA
1 TCGCGTTGCGAAATTGGAGA
767359 TCGCGTTGCGAA
1 TCGCGTTGCGAA
767371 TTTGTTGGTC
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
19 18 0.44
20 22 0.54
21 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.30
Consensus pattern (20 bp):
TCGCGTTGCGAAATTGGAGA
Found at i:767362 original size:19 final size:19
Alignment explanation
Indices: 767324--767374 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
767314 TGGAAACTGA
* *
767324 GTTGCGAAATTGGAGTTCGC
1 GTTGC-AAATTTGAGATCGC
767344 GTTGCAAATTTGAGATCGC
1 GTTGCAAATTTGAGATCGC
*
767363 GTTGCGAATTTG
1 GTTGCAAATTTG
767375 TTGGTCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (19 bp):
GTTGCAAATTTGAGATCGC
Found at i:768804 original size:116 final size:117
Alignment explanation
Indices: 768597--768832 Score: 420
Period size: 116 Copynumber: 2.0 Consensus size: 117
768587 ATTGGCCTTT
* *
768597 GACACGTGTATCTGATAATTTTTTGGTGTTGTTGGGGGGGGGGAATTTAACCATTCATCTCTTAG
1 GACACGTGTATCTGATAACTTTTTGGTGTTGTT--GGGGGGGGAATTTAACCATTCATCTCATAG
*
768662 TAGGAAAAAAGGACATGGACATGTGGTGGATGGCACCTATCCATGTTCTGGTTG
64 TAGGAAAAAAGGACATGGACATGTGGTGGATGGCACATATCCATGTTCTGGTTG
768716 GACACGTGTATCTGATAACTTTTTGGTGTTGTT-GGGGGGGAATTTAACCATTCATCTCATAGTA
1 GACACGTGTATCTGATAACTTTTTGGTGTTGTTGGGGGGGGAATTTAACCATTCATCTCATAGTA
768780 GGAAAAAAGGACATGGACATGTGGTGGATGGCACATATCCATGTTCTGGTTG
66 GGAAAAAAGGACATGGACATGTGGTGGATGGCACATATCCATGTTCTGGTTG
768832 G
1 G
768833 TTTTGCAAGT
Statistics
Matches: 114, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
116 82 0.72
119 32 0.28
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.32
Consensus pattern (117 bp):
GACACGTGTATCTGATAACTTTTTGGTGTTGTTGGGGGGGGAATTTAACCATTCATCTCATAGTA
GGAAAAAAGGACATGGACATGTGGTGGATGGCACATATCCATGTTCTGGTTG
Found at i:775882 original size:130 final size:130
Alignment explanation
Indices: 775736--775983 Score: 417
Period size: 130 Copynumber: 1.9 Consensus size: 130
775726 TATTTATATA
**
775736 ATCAATTTGGTCCTAAATTAAATAGAA-TTTAATAAATTAATCATTTAATTAGGATCTGACATGT
1 ATCAATTTGGTCCTAAATTAAATA-AACTTTAATAAATTAATCATTTAACCAGGATCTGACATGT
* *
775800 GTTAGCACATGATCATGACATGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGC
65 GTTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGC
775865 T
130 T
775866 ATCAATTTGGTCCTAAATTAAATAAACTTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAACTTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
775931 TTAACGCATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTA
775984 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
129 2 0.02
130 108 0.98
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAACTTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:776014 original size:130 final size:129
Alignment explanation
Indices: 775750--776014 Score: 302
Period size: 130 Copynumber: 2.0 Consensus size: 129
775740 ATTTGGTCCT
** *
775750 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAGAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
775815 TGACATGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACATATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
*
775880 AAATTAAATA-AACTTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACGCATGATC
1 AAATTAAATAGAA-TTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATC
* * *
775944 ATGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAG
65 ATGACATATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAG
776008 T-A
127 TCA
776010 AAATT
1 AAATT
776015 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
129 2 0.02
130 98 0.87
132 8 0.07
133 5 0.04
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (129 bp):
AAATTAAATAGAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACATATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:776342 original size:28 final size:27
Alignment explanation
Indices: 776311--776373 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
776301 AGTTGATACA
*
776311 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
776339 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
776367 ATATTTT
1 ATATTTT
776374 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:776466 original size:16 final size:18
Alignment explanation
Indices: 776445--776478 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
776435 ATTTCTTATT
776445 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
776461 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
776479 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:785439 original size:229 final size:227
Alignment explanation
Indices: 785034--785482 Score: 808
Period size: 229 Copynumber: 2.0 Consensus size: 227
785024 GTAAATTATC
* * *
785034 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
785099 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
785164 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
785229 AAACATAAATTACATAACTTTTAAAAAAGTATA
196 AAACATAAATTACATAAC-TTTAAAAAAGTATA
*
785262 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
785327 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
*
785392 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
785457 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
785483 GCAGTTTTAA
Statistics
Matches: 212, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
228 43 0.20
229 169 0.80
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:785569 original size:20 final size:19
Alignment explanation
Indices: 785546--785591 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
785536 CGATATACCA
785546 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
785566 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
785586 GGTAAA
1 GGTAAA
785592 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:785736 original size:20 final size:19
Alignment explanation
Indices: 785713--785759 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
785703 CGATATAACA
785713 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
785733 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
785753 GGTAAAA
1 GGTAAAA
785760 TGATATCGGA
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:785761 original size:17 final size:19
Alignment explanation
Indices: 785722--785764 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
785712 AGGTAAAAAT
785722 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
785742 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
785759 ATGATA
1 ATGATA
785765 TCGGATATAT
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:788045 original size:21 final size:21
Alignment explanation
Indices: 787998--788062 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
787988 AAGACAATCA
* *
787998 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
788020 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
788040 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
788061 AG
1 AG
788063 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:788140 original size:33 final size:33
Alignment explanation
Indices: 788096--788161 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
788086 AAATAGATGG
* *
788096 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTAAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
788129 AGTGGTAAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTAAAAGAAGTAGAGGTGTTAAGGGGTGA
788162 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:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTAAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:789978 original size:19 final size:19
Alignment explanation
Indices: 789954--790002 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
789944 AATGTAGGGT
789954 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
789973 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
789992 TATTTTTGTAT
1 TAATTTTGTAT
790003 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:790455 original size:199 final size:198
Alignment explanation
Indices: 790115--791663 Score: 2764
Period size: 198 Copynumber: 7.9 Consensus size: 198
790105 AATTTACAAT
*
790115 ATGGCCAACAGGGTGCACCCATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
1 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
790180 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
66 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
*
790245 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGA
131 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGA
790310 ATGA
195 ATGA
790314 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
1 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
790379 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
66 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
*
790444 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGA
131 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGA
790509 ATGA
195 ATGA
* * *
790513 ATGGCCAACATGGTGCACCCATAAAGTGTCGATCC------CAAAA---TC-AT--C--GA--A-
1 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
*
790561 C---CCAAAA-GTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
66 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
790622 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
131 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
790687 TGA
196 TGA
*
790690 ATGGCCAACAGGGTGCACCCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAATCAT
1 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
790755 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
66 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
790820 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
131 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
790885 TGA
196 TGA
** *
790888 ATGGAAAACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
1 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
790953 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
66 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
* **
791018 TCATTTGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGA
131 TGA-GAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGA
791083 ATGA
195 ATGA
**
791087 ATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
1 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
791152 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
66 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
791217 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
131 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
791282 TGA
196 TGA
791285 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
1 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
*
791350 CGAACCCGAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
66 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
791415 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
131 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
791480 TGA
196 TGA
791483 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCAT
1 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
791547 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
66 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
791612 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
791664 CGAATTTAAA
Statistics
Matches: 1302, Mismatches: 26, Indels: 46
0.95 0.02 0.03
Matches are distributed among these distances:
177 49 0.04
178 105 0.08
179 5 0.00
182 1 0.00
183 5 0.00
185 1 0.00
186 2 0.00
187 3 0.00
189 3 0.00
190 2 0.00
191 1 0.00
193 5 0.00
194 1 0.00
197 144 0.11
198 549 0.42
199 426 0.33
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (198 bp):
ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
TGA
Found at i:791090 original size:397 final size:396
Alignment explanation
Indices: 790115--791663 Score: 2791
Period size: 397 Copynumber: 4.0 Consensus size: 396
790105 AATTTACAAT
*
790115 ATGGCCAACAGGGTGCACCCATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
1 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
790180 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
66 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
*
790245 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGA
131 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGA
790310 ATGAATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
195 ATGAATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
790375 TCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGT
260 TCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGT
*
790440 TTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTC
325 TTTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTC
790505 CAGAATGA
389 CAGAATGA
*
790513 ATGGCCAACA---TG----------GTG-C-A-CC---CAT--AAAGTGTCGATCCCAAAATCAT
1 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
790557 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
66 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
790622 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
131 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
*
790687 TGAATGGCCAACAGGGTGCACCCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAT
196 TGAATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
790752 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
261 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
790817 TTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCA
326 TTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCA
790882 GAATGA
391 GAATGA
** *
790888 ATGGAAAACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
1 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
790953 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
66 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
* **
791018 TCATTTGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGA
131 TGA-GAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGA
**
791083 ATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
195 ATGAATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
791148 TCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGT
260 TCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGT
791213 TTTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCC
325 TTTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCC
791278 AGAATGA
390 AGAATGA
791285 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
1 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
*
791350 CGAACCCGAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
66 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
791415 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
131 TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
791480 TGAATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAT
196 TGAATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
791544 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
261 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
791609 TTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
326 TTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
791664 CGAATTTAAA
Statistics
Matches: 1106, Mismatches: 23, Indels: 47
0.94 0.02 0.04
Matches are distributed among these distances:
375 24 0.02
376 196 0.18
377 138 0.12
378 2 0.00
379 2 0.00
382 2 0.00
383 1 0.00
384 1 0.00
385 2 0.00
388 3 0.00
389 1 0.00
390 1 0.00
391 2 0.00
394 2 0.00
395 142 0.13
396 191 0.17
397 386 0.35
398 10 0.01
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (396 bp):
ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
TGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAA
TGAATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
CATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
TTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCA
GAATGA
Found at i:793144 original size:12 final size:12
Alignment explanation
Indices: 793127--793179 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
793117 GGTCGCAGAA
*
793127 GATGAAGCTGAC
1 GATGAAGATGAC
793139 GATGAAGATGAC
1 GATGAAGATGAC
*
793151 GATGATGATGAC
1 GATGAAGATGAC
* *
793163 GATGATGATGAT
1 GATGAAGATGAC
793175 GATGA
1 GATGA
793180 TGAAGATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.23
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:793159 original size:3 final size:3
Alignment explanation
Indices: 793139--793192 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
793129 TGAAGCTGAC
* * * *
793139 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
793187 GAT GAT
1 GAT GAT
793193 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:793160 original size:18 final size:18
Alignment explanation
Indices: 793124--793192 Score: 72
Period size: 18 Copynumber: 4.0 Consensus size: 18
793114 AGCGGTCGCA
* *
793124 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
793142 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
*
793160 GACGAT---GATGATGAT
1 GAAGATGAAGATGATGAT
*
793175 GATGATGAAGATGATGAT
1 GAAGATGAAGATGATGAT
793193 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 14 0.33
18 29 0.67
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:793180 original size:12 final size:12
Alignment explanation
Indices: 793135--793192 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
793125 AAGATGAAGC
*
793135 TGACGATGAAGA
1 TGACGATGATGA
793147 TGACGATGATGA
1 TGACGATGATGA
793159 TGACGATGATGA
1 TGACGATGATGA
*
793171 TGATGATGATGA
1 TGACGATGATGA
* *
793183 AGATGATGAT
1 TGACGATGAT
793193 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:794924 original size:183 final size:183
Alignment explanation
Indices: 794616--795507 Score: 1667
Period size: 183 Copynumber: 4.9 Consensus size: 183
794606 CTTTCAACAT
** * * *
794616 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
794681 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTTGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
794746 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
794799 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
794864 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
794929 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
794982 ATTATAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
795047 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
795112 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
795165 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
795230 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
795295 AATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
795348 TTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
* *
795413 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
795478 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACGATTTAAAAAAGTGTCG
795508 GTAATTTTAA
Statistics
Matches: 694, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 694 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:798009 original size:25 final size:25
Alignment explanation
Indices: 797975--798039 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
797965 TTATCATTAA
797975 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
798000 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
798025 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
798040 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:798417 original size:23 final size:23
Alignment explanation
Indices: 798386--798449 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
798376 ATAGGTAAAC
*
798386 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
798409 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
798432 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
798450 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:798456 original size:23 final size:23
Alignment explanation
Indices: 798386--798458 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
798376 ATAGGTAAAC
* **
798386 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
798409 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
798432 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
798455 ATAT
1 ATAT
798459 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:798758 original size:25 final size:25
Alignment explanation
Indices: 798724--798774 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
798714 ACAACAAATC
*
798724 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
798749 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
798774 A
1 A
798775 TTTGGAAAAA
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:799174 original size:18 final size:18
Alignment explanation
Indices: 799153--799189 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
799143 GTAATTGGAG
799153 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
799171 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
799189 T
1 T
799190 ATATATTTCG
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:799197 original size:24 final size:24
Alignment explanation
Indices: 799145--799191 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
799135 TTTCATATGT
* *
799145 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
799169 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
799192 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:799491 original size:39 final size:39
Alignment explanation
Indices: 799448--799534 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
799438 TCCGATGCTC
*
799448 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
799487 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
799526 ATCAAAATC
1 ATCAAAATC
799535 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:799966 original size:23 final size:23
Alignment explanation
Indices: 799935--800007 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
799925 ATAGGTAAAC
*
799935 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
799958 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
799981 ATATAATGTAATTGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
800004 ATAT
1 ATAT
800008 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:802425 original size:2 final size:2
Alignment explanation
Indices: 802420--802454 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
802410 GAATCAAAAT
802420 TA TA TA 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 TA TA TA T
802455 CACAATCGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:803800 original size:14 final size:14
Alignment explanation
Indices: 803781--803822 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
803771 TATGTTTAAA
*
803781 TTTGTGTTTATTTG
1 TTTGTGTTCATTTG
* *
803795 TTTGTGTTCGTTTA
1 TTTGTGTTCATTTG
803809 TTTGTGTTCATTTG
1 TTTGTGTTCATTTG
803823 CGTTTGTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.07, C:0.05, G:0.21, T:0.67
Consensus pattern (14 bp):
TTTGTGTTCATTTG
Found at i:807101 original size:181 final size:182
Alignment explanation
Indices: 806717--807189 Score: 702
Period size: 181 Copynumber: 2.6 Consensus size: 182
806707 GATCTAAATT
* * * ** **
806717 AAAAATATATCGATCCACAACGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATA
* * *
806782 AAACCGGTAAAGCGGTACCGAATATATTTAAAGTGTC-AGTACTTTAATATAAGGATCGACACTT
66 AAACCGGTAAAACGATACCGAATATATTAAAAGTGTCGA-TACTTTAATATAAGGATCGACACTT
* *
806846 CGTTAATTTAAAAGAGAAGTAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
* *
806899 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCCAAATGATG
1 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATA
* * * *
806964 AAACCGGTAAAACGCTACCGAATATATTGAAAGTGTCGAAACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGAATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
807028 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTT-A
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
*
807079 AAAAATGTATCGATCAAACAACGATATAACAGGTAAAAATATGATAAAA-TCGGTATCAAAATGA
1 AAAAATATATCGATC-AACAACGATATAACAGGTAAAAATATGATAAAACT-GGTATCAAAATGA
* *
807143 TAAAACCGGTAAAATGATACCGGATATATTAAAAGTGTCGATACTTT
64 TAAAACCGGTAAAACGATACCGAATATATTAAAAGTGTCGATACTTT
807190 CGTAAGTACG
Statistics
Matches: 265, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
180 16 0.06
181 152 0.57
182 96 0.36
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATA
AAACCGGTAAAACGATACCGAATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
Found at i:807133 original size:20 final size:19
Alignment explanation
Indices: 807110--807156 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
807100 CGATATAACA
*
807110 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
*
807130 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
807150 GGTAAAA
1 GGTAAAA
807157 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:808651 original size:19 final size:20
Alignment explanation
Indices: 808627--808675 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
808617 AATGTAGGGT
808627 TAATTTTGTATTA-GATTTA
1 TAATTTTGTATTACGATTTA
808646 TAATTTTGTA-TACGATTTA
1 TAATTTTGTATTACGATTTA
808665 TAATTTTGTAT
1 TAATTTTGTAT
808676 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.07
19 26 0.93
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (20 bp):
TAATTTTGTATTACGATTTA
Found at i:809792 original size:23 final size:22
Alignment explanation
Indices: 809761--809834 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
809751 CACCACAGCT
*
809761 CATATAATTGCACCTAAGTGCCA
1 CATAAAATTGCACCT-AGTGCCA
* * * *
809784 CGTAAAATTGTACCGGAGTGCCG
1 CATAAAATTGCACC-TAGTGCCA
*
809807 CATAGAATTGCACCGTAGTGCCA
1 CATAAAATTGCACC-TAGTGCCA
*
809830 TATAA
1 CATAA
809835 TAATGTCCAT
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (22 bp):
CATAAAATTGCACCTAGTGCCA
Found at i:809971 original size:103 final size:103
Alignment explanation
Indices: 809845--810165 Score: 597
Period size: 103 Copynumber: 3.1 Consensus size: 103
809835 TAATGTCCAT
*
809845 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTATCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
809910 GACTTCACACATGTTCCAAAGAATACATATATATTCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
*
809948 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
* *
810013 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
810051 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
810116 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
810154 AAGGACCACATA
1 AAGGACCACATA
810166 GACCCTCTAC
Statistics
Matches: 210, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 210 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:810683 original size:19 final size:20
Alignment explanation
Indices: 810646--810683 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
810636 TTTTTTATTA
*
810646 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
810666 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
810684 TCTAGCGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:810735 original size:21 final size:21
Alignment explanation
Indices: 810711--810753 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
810701 TCATATTCGT
*
810711 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
* *
810732 TTGAATGGGTATTGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
810753 T
1 T
810754 AGCCCATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.28, T:0.35
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:816840 original size:23 final size:23
Alignment explanation
Indices: 816814--816858 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
816804 CTAAGTTCCA
816814 CGTAAAATTGCACCGGAGTGCCG
1 CGTAAAATTGCACCGGAGTGCCG
* *
816837 CGTAGAATTGCACCGTAGTGCC
1 CGTAAAATTGCACCGGAGTGCC
816859 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (23 bp):
CGTAAAATTGCACCGGAGTGCCG
Found at i:817054 original size:103 final size:103
Alignment explanation
Indices: 816875--817194 Score: 579
Period size: 103 Copynumber: 3.1 Consensus size: 103
816865 TAATGTCCAT
*
816875 AAGGACCACATATCATTCCTTAATAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
816940 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
816978 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAAGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
* *
817043 GACCTCACACATGTTCCAAAGAATACATATATGTCCCA
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
817081 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
817146 GACTTCACA-ATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
817183 AAGGACCACATA
1 AAGGACCACATA
817195 GACCCTCTAC
Statistics
Matches: 207, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
102 39 0.19
103 168 0.81
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:821343 original size:23 final size:22
Alignment explanation
Indices: 821297--821343 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
821287 ATTACATAAC
*
821297 TTTTAAAAAAAGTATGGATCCT
1 TTTTAAAAAAAGTATGGAACCT
821319 TTTTATAAAAAAGTAT-GAACACT
1 TTTTA-AAAAAAGTATGGAAC-CT
821342 TT
1 TT
821344 CAACATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (22 bp):
TTTTAAAAAAAGTATGGAACCT
Found at i:822006 original size:182 final size:182
Alignment explanation
Indices: 821370--822391 Score: 1741
Period size: 182 Copynumber: 5.6 Consensus size: 182
821360 TTTTACCTTT
* * *
821370 TTTAAAAGAGAAGAAGTTATATCATCAAAAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
821435 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
821500 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
821552 TTTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
821616 AACAATATAACATGTAAAAATATGACAAAACTGGTCTCGAAATAACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
821681 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* * * * *
821731 -TTAATAAAAGAAGAAGTTATAGCGCCAATAACGTGTCGATAATTTATAAAAATGTATCGATCTA
1 TTTAA-AAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
821795 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
821860 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
821913 TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATTCAT
1 TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
821978 AACAATATAACAGGTAATAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
822043 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
822095 TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
822160 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
822225 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* * *
822277 -TTAATAAGAAAAGAAGTTATAGCG-CTAATAAAGTGTCGTTACTTTATAAAAATGTATCGATCA
1 TTTAA-AAGAGAAGAAGTTATAGCGTC-AATAAAGTGTCGATACTTTATAAAAATGTATCGATCC
* * * * * **
822340 ATAATAATATAATATGTAAAAATATGATAAAATCGGTCTATAAATGACAAAA
64 ATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
822392 GGTGAACGCA
Statistics
Matches: 798, Mismatches: 35, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
178 4 0.01
179 17 0.02
180 150 0.19
181 153 0.19
182 470 0.59
183 4 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:822638 original size:23 final size:23
Alignment explanation
Indices: 822587--822638 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
822577 ATACTTATTT
* *
822587 TATTATATAAGCGCTATCTATTA
1 TATTATATAAGCGCTACCTAATA
**
822610 TATTATATAAGCTTTACCTAATA
1 TATTATATAAGCGCTACCTAATA
*
822633 TGTTAT
1 TATTAT
822639 TGTACTTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (23 bp):
TATTATATAAGCGCTACCTAATA
Found at i:822876 original size:15 final size:16
Alignment explanation
Indices: 822856--822888 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
822846 CCTAACTTTC
*
822856 TTAAA-TTTAATTTAT
1 TTAAATTTTAATTAAT
822871 TTAAATTTTAATTAAT
1 TTAAATTTTAATTAAT
822887 TT
1 TT
822889 TTTGTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAAATTTTAATTAAT
Found at i:823038 original size:17 final size:18
Alignment explanation
Indices: 823003--823038 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
822993 TTAAAAAGTA
823003 TAATAATTTATTGAAAAT
1 TAATAATTTATTGAAAAT
*
823021 TAATCATTTATT-AAAAT
1 TAATAATTTATTGAAAAT
823038 T
1 T
823039 TTAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATAATTTATTGAAAAT
Found at i:823875 original size:19 final size:18
Alignment explanation
Indices: 823825--823875 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
823815 TAAAATTAAA
* **
823825 ATTAAATTTTAATAAATG
1 ATTAATTTTTAATAAACC
*
823843 ATTAATTTTCAATAAACC
1 ATTAATTTTTAATAAACC
823861 ATTATATTTTTAATA
1 ATTA-ATTTTTAATA
823876 GTTACACAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTAATTTTTAATAAACC
Found at i:826298 original size:35 final size:35
Alignment explanation
Indices: 826255--826354 Score: 157
Period size: 35 Copynumber: 2.9 Consensus size: 35
826245 CGTCAAGTCC
*
826255 AGTAAGGCCCTGAGCACACATCCGAGGAGTAGGTA
1 AGTAAGGCCCTGAGCACACATCCGAGGAGCAGGTA
* *
826290 AGTAAGGCCCTGAGCACACAACCGAGGAGCCGGTA
1 AGTAAGGCCCTGAGCACACATCCGAGGAGCAGGTA
826325 AGTAAGGCCCTGAGCACACAGT-CGAGGAGC
1 AGTAAGGCCCTGAGCACACA-TCCGAGGAGC
826355 CTCCAGGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 60 1.00
ACGTcount: A:0.31, C:0.26, G:0.32, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACATCCGAGGAGCAGGTA
Found at i:826453 original size:24 final size:24
Alignment explanation
Indices: 826426--826559 Score: 76
Period size: 24 Copynumber: 5.5 Consensus size: 24
826416 TATATCAAAA
* *
826426 ATCAAATCATAATTCACGTCAAGT
1 ATCAAATCAAAATTCAAGTCAAGT
* * * *
826450 ATCATATCAAAATCCAGGTTAAGT
1 ATCAAATCAAAATTCAAGTCAAGT
*
826474 AT-AAGATCAAAATTAAAGTCAAGT
1 ATCAA-ATCAAAATTCAAGTCAAGT
* * *
826498 ATCAGATCAGAATCCATA-TC-AGAT
1 ATCAAATCAAAATTCA-AGTCAAG-T
* * * *
826522 ATCATATCAGAATCCATGTCAAGT
1 ATCAAATCAAAATTCAAGTCAAGT
*
826546 ATCATATCAGAAAT
1 ATCAAATCA-AAAT
826560 CAAATAAAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
23 3 0.03
24 76 0.88
25 7 0.08
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (24 bp):
ATCAAATCAAAATTCAAGTCAAGT
Found at i:826520 original size:12 final size:11
Alignment explanation
Indices: 826498--826557 Score: 57
Period size: 12 Copynumber: 5.1 Consensus size: 11
826488 AAAGTCAAGT
*
826498 ATCAGATCAGA
1 ATCATATCAGA
826509 ATCCATATCAGA
1 AT-CATATCAGA
826521 TATCATATCAGA
1 -ATCATATCAGA
* *
826533 ATCCATGTCAAGT
1 AT-CATATC-AGA
826546 ATCATATCAGA
1 ATCATATCAGA
826557 A
1 A
826558 ATCAAATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
11 7 0.17
12 27 0.68
13 6 0.15
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.27
Consensus pattern (11 bp):
ATCATATCAGA
Found at i:829135 original size:30 final size:30
Alignment explanation
Indices: 829042--829135 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
829032 TTCAACCATT
* *
829042 TTACACAAATATCACCCTAACAGAAATTAA
1 TTACACAAATAGCACCCAAACAGAAATTAA
* *
829072 TTACA-AAATTAGC-CACTAACACCTG-AATT--
1 TTACACAAA-TAGCAC-CCAA-A-CAGAAATTAA
829101 TTACACAAATAGCACCCAAACAGAAATTAA
1 TTACACAAATAGCACCCAAACAGAAATTAA
829131 TTACA
1 TTACA
829136 ACAAGACGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
27 2 0.04
28 5 0.10
29 16 0.33
30 19 0.39
31 5 0.10
32 2 0.04
ACGTcount: A:0.48, C:0.23, G:0.05, T:0.23
Consensus pattern (30 bp):
TTACACAAATAGCACCCAAACAGAAATTAA
Found at i:831173 original size:24 final size:23
Alignment explanation
Indices: 831142--831186 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
831132 TTTTAATAAT
*
831142 TTTGTTTTTATGATATGCTTTTTC
1 TTTGTTTTCATGATATG-TTTTTC
*
831166 TTTGTTTTCATGGTATGTTTT
1 TTTGTTTTCATGATATGTTTT
831187 CTTCTATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.11, C:0.07, G:0.16, T:0.67
Consensus pattern (23 bp):
TTTGTTTTCATGATATGTTTTTC
Found at i:834354 original size:14 final size:15
Alignment explanation
Indices: 834325--834366 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
834315 GAATCGATCT
834325 AATTTATCGAATCAA
1 AATTTATCGAATCAA
834340 AATTTATCG-ATCAA
1 AATTTATCGAATCAA
*
834354 AATTTATCAAATC
1 AATTTATCGAATC
834367 TAAGTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (15 bp):
AATTTATCGAATCAA
Found at i:838998 original size:12 final size:12
Alignment explanation
Indices: 838979--839015 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
838969 TAAAATACTA
838979 AATAATATTATT
1 AATAATATTATT
*
838991 AATCATATTATT
1 AATAATATTATT
*
839003 AATAATAATATT
1 AATAATATTATT
839015 A
1 A
839016 TTATAATCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (12 bp):
AATAATATTATT
Found at i:839008 original size:15 final size:15
Alignment explanation
Indices: 838984--839024 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
838974 TACTAAATAA
*
838984 TATTATTAATCATAT
1 TATTAATAATCATAT
*
838999 TATTAATAATAATAT
1 TATTAATAATCATAT
839014 TATT-ATAATCA
1 TATTAATAATCA
839025 CATAGATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTAATAATCATAT
Found at i:840726 original size:38 final size:38
Alignment explanation
Indices: 840675--840811 Score: 113
Period size: 38 Copynumber: 3.4 Consensus size: 38
840665 AAATTCGTTC
840675 CACTACTCTTCCGTGGAGAGCGAATTTTTCTTCTGCTT
1 CACTACTCTTCCGTGGAGAGCGAATTTTTCTTCTGCTT
840713 CACTACTCTTCCGT-GA-AG-G--TTTTATACTTTGCTGAAAAATCCGTT
1 CACTACTCTTCCGTGGAGAGCGAATTTT-T-C-TT-CTG-------C-TT
*
840758 CCACTACTCTTCCGTGGAGAGCGAATTTTGCTTCTGCTT
1 -CACTACTCTTCCGTGGAGAGCGAATTTTTCTTCTGCTT
840797 CACTACTCTTCCGTG
1 CACTACTCTTCCGTG
840812 AAGGTTTCAT
Statistics
Matches: 80, Mismatches: 1, Indels: 36
0.68 0.01 0.31
Matches are distributed among these distances:
33 4 0.05
34 1 0.01
35 2 0.03
36 4 0.05
37 5 0.06
38 29 0.36
39 2 0.03
40 1 0.01
44 1 0.01
45 2 0.03
46 14 0.17
47 5 0.06
48 4 0.05
49 2 0.03
51 4 0.05
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (38 bp):
CACTACTCTTCCGTGGAGAGCGAATTTTTCTTCTGCTT
Found at i:840728 original size:84 final size:84
Alignment explanation
Indices: 840627--840981 Score: 548
Period size: 84 Copynumber: 4.2 Consensus size: 84
840617 ATTGGATTGA
* * *
840627 TTCACTACTCTTTCGTGAAGATTTCATACTTTGCTGAAAAATTCGTTCCACTACTCTTCCGTGGA
1 TTCACTACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGA
*
840692 GAGCGAATTTTTCTTCTGC
66 GAGCGAATTTTGCTTCTGC
*
840711 TTCACTACTCTTCCGTGAAGGTTTTATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGA
1 TTCACTACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGA
840776 GAGCGAATTTTGCTTCTGC
66 GAGCGAATTTTGCTTCTGC
840795 TTCACTACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGA
1 TTCACTACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGA
** * *
840860 GATTGGATTTTGCTTTTGC
66 GAGCGAATTTTGCTTCTGC
* * * ** *
840879 TTTAATACTCTTCCGTGAAGGTTTCATACTTTGCTAAAAAATATGTTCCACTACTCTTACGTGGA
1 TTCACTACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGA
**
840944 GAATGAATTTTGCTTCTGC
66 GAGCGAATTTTGCTTCTGC
*
840963 TTCACTACTCTTCTGTGAA
1 TTCACTACTCTTCCGTGAA
840982 TACTGAAAAT
Statistics
Matches: 249, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 249 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (84 bp):
TTCACTACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGA
GAGCGAATTTTGCTTCTGC
Found at i:841199 original size:60 final size:60
Alignment explanation
Indices: 841125--841265 Score: 178
Period size: 60 Copynumber: 2.4 Consensus size: 60
841115 CTGACAGATG
** * * *
841125 ACCCAAAGGATTTACAAATTACTTGTAGGCTTTACAAATGA-CCTAGAGGTTTTACAAATT
1 ACCCAAAGGATTTACAAATTACCCGAAGGCTTTACAAATGATCC-AAAGGCTTTACAAATT
* * *
841185 ACCCAAAGGTTTTACAAATTACCCGAAGGCTTTCCAAATTATCCAAAGGCTTTACAAATT
1 ACCCAAAGGATTTACAAATTACCCGAAGGCTTTACAAATGATCCAAAGGCTTTACAAATT
841245 ACCCGAAA-GATTTACAAATTA
1 ACCC-AAAGGATTTACAAATTA
841266 TGGGAAATAA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
60 65 0.93
61 5 0.07
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (60 bp):
ACCCAAAGGATTTACAAATTACCCGAAGGCTTTACAAATGATCCAAAGGCTTTACAAATT
Found at i:841258 original size:20 final size:20
Alignment explanation
Indices: 841125--841265 Score: 140
Period size: 20 Copynumber: 7.0 Consensus size: 20
841115 CTGACAGATG
*
841125 ACCCAAAGGATTTACAAATT
1 ACCCAAAGGCTTTACAAATT
**** *
841145 ACTTGTAGGCTTTACAAATG
1 ACCCAAAGGCTTTACAAATT
* * *
841165 ACCTAGAGGTTTTACAAATT
1 ACCCAAAGGCTTTACAAATT
*
841185 ACCCAAAGGTTTTACAAATT
1 ACCCAAAGGCTTTACAAATT
* *
841205 ACCCGAAGGCTTTCCAAATT
1 ACCCAAAGGCTTTACAAATT
*
841225 ATCCAAAGGCTTTACAAATT
1 ACCCAAAGGCTTTACAAATT
*
841245 ACCCGAAA-GATTTACAAATT
1 ACCC-AAAGGCTTTACAAATT
841265 A
1 A
841266 TGGGAAATAA
Statistics
Matches: 99, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
20 96 0.97
21 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (20 bp):
ACCCAAAGGCTTTACAAATT
Found at i:843588 original size:21 final size:21
Alignment explanation
Indices: 843564--843607 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
843554 GTGTGCACAA
843564 GTGTGAAGTAGACTATAACAT
1 GTGTGAAGTAGACTATAACAT
843585 GTGTGAAGTAGACTATAACAT
1 GTGTGAAGTAGACTATAACAT
843606 GT
1 GT
843608 ATTATTTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (21 bp):
GTGTGAAGTAGACTATAACAT
Found at i:845687 original size:22 final size:22
Alignment explanation
Indices: 845656--845710 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
845646 AATATTTTTT
*
845656 ATGAATAGTGATGAACAATACC
1 ATGAACAGTGATGAACAATACC
* * *
845678 GTGAACAGTGATGAATAGTACC
1 ATGAACAGTGATGAACAATACC
845700 ATGAACAGTGA
1 ATGAACAGTGA
845711 ACAATGTACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.22
Consensus pattern (22 bp):
ATGAACAGTGATGAACAATACC
Found at i:846475 original size:40 final size:40
Alignment explanation
Indices: 846351--846460 Score: 184
Period size: 40 Copynumber: 2.8 Consensus size: 40
846341 ATCGTAGTGC
*
846351 TACACATAAGGTCGTGCCCACCGTATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
846391 TACACATAAGGCCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
846431 TACACTTAAGGTCGTGCCCACCATGTACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
846461 TTAGTGTCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:852972 original size:22 final size:22
Alignment explanation
Indices: 852922--852973 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
852912 ATTTTTTATG
* *
852922 AATAGTGATGAACAGTACCGTT
1 AATAGTGATGAACAGTACCATC
* *
852944 AACAGTGATGAATAGTACCATC
1 AATAGTGATGAACAGTACCATC
852966 AATAGTGA
1 AATAGTGA
852974 ATAATGTACC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (22 bp):
AATAGTGATGAACAGTACCATC
Found at i:855151 original size:30 final size:30
Alignment explanation
Indices: 855117--855205 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
855107 TATTTGTAAT
* * *
855117 TTTTCCAAAATTACATTTTGGTCCCTAAAC
1 TTTTCCAAATTTATAATTTGGTCCCTAAAC
*
855147 TTTT-CAAAGTTTATACTTTGGTCACC-AAAC
1 TTTTCCAAA-TTTATAATTTGGTC-CCTAAAC
* *
855177 TTTACCAAATTTATAATTTGGTCACTAAA
1 TTTTCCAAATTTATAATTTGGTCCCTAAA
855206 TAAATCCATT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
29 5 0.10
30 38 0.78
31 6 0.12
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (30 bp):
TTTTCCAAATTTATAATTTGGTCCCTAAAC
Found at i:858165 original size:9 final size:9
Alignment explanation
Indices: 858147--858188 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
858137 AAATACTAAA
*
858147 TAATATTAT
1 TAATAATAT
*
858156 TAATCATAT
1 TAATAATAT
*
858165 TAATAATAA
1 TAATAATAT
858174 TAATAATAT
1 TAATAATAT
858183 T-ATAAT
1 TAATAAT
858189 CACATAGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
8 5 0.18
9 23 0.82
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (9 bp):
TAATAATAT
Found at i:860113 original size:58 final size:60
Alignment explanation
Indices: 860043--860156 Score: 169
Period size: 58 Copynumber: 1.9 Consensus size: 60
860033 ATGGTCCCCT
* *
860043 GTGTTGCTTTATTGAGTCAC-CAACTATTAAAAGTGA-TAAATGATCATTTGACTATAAG
1 GTGTTACTTTATTGAGTCACTCAACTATTAAAAGTGACAAAATGATCATTTGACTATAAG
** *
860101 GTGTTACTTTATTGAGTCACTTGACTATTAAAAGTTACAAAATGATCATTTGACTA
1 GTGTTACTTTATTGAGTCACTCAACTATTAAAAGTGACAAAATGATCATTTGACTA
860157 ATCATATGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
58 19 0.39
59 13 0.27
60 17 0.35
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (60 bp):
GTGTTACTTTATTGAGTCACTCAACTATTAAAAGTGACAAAATGATCATTTGACTATAAG
Found at i:861706 original size:20 final size:21
Alignment explanation
Indices: 861681--861719 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
861671 GACCTATAAG
861681 TTTTAAAAT-TACTTTTTTTA
1 TTTTAAAATATACTTTTTTTA
*
861701 TTTTAAAATATTCTTTTTT
1 TTTTAAAATATACTTTTTT
861720 AAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTAAAATATACTTTTTTTA
Found at i:863424 original size:13 final size:14
Alignment explanation
Indices: 863408--863438 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
863398 TCTTTGGATA
863408 TATTTTTAA-AATT
1 TATTTTTAATAATT
863421 TATTTTTAATAATT
1 TATTTTTAATAATT
863435 TATT
1 TATT
863439 ATTGAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTTTAATAATT
Found at i:863582 original size:20 final size:20
Alignment explanation
Indices: 863523--863601 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
863513 AAATGACCAA
**
863523 CAAATTCGCAACGCGAACTC
1 CAAATTCGCAACGCGATTTC
* *
863543 CAATTTCGCAACAC-AGTTTC
1 CAAATTCGCAACGCGA-TTTC
863563 CAAATTCGCAACGCGATTTC
1 CAAATTCGCAACGCGATTTC
** *
863583 TGAATTCGCAACTCGATTT
1 CAAATTCGCAACGCGATTT
863602 TCGAATTTGC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (20 bp):
CAAATTCGCAACGCGATTTC
Found at i:863633 original size:20 final size:19
Alignment explanation
Indices: 863544--863654 Score: 68
Period size: 20 Copynumber: 5.7 Consensus size: 19
863534 CGCGAACTCC
*
863544 AATTTCGCAACAC-AGTTTCC
1 AATTTCGCAACACGA-TTT-T
* *
863564 AAATTCGCAACGCGATTTCT
1 AATTTCGCAACACGATTT-T
*
863584 GAA-TTCGCAACTCGATTTT
1 -AATTTCGCAACACGATTTT
863603 CGAATTT-GCAACACGAATTTT
1 --AATTTCGCAACACG-ATTTT
* *
863624 AATTTCGCAATA-GGTTTT
1 AATTTCGCAACACGATTTT
*
863642 ATTTTCGCAACAC
1 AATTTCGCAACAC
863655 AAATGTTTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
18 14 0.19
19 7 0.09
20 44 0.59
21 10 0.13
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (19 bp):
AATTTCGCAACACGATTTT
Found at i:863810 original size:14 final size:15
Alignment explanation
Indices: 863791--863828 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
863781 TCCCCATCTC
863791 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
863805 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
863821 TAATTTTT
1 TAATTTTT
863829 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:864620 original size:24 final size:24
Alignment explanation
Indices: 864555--864622 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
864545 GTGAGTACTA
* *
864555 GTCAGTATTCGAAATTTGATCTTG
1 GTCAGTACTCGGAATTTGATCTTG
* * * *
864579 GTCAATACCCAGACTTTGATCTTG
1 GTCAGTACTCGGAATTTGATCTTG
*
864603 GTCAGTACTCGGATTTTGAT
1 GTCAGTACTCGGAATTTGAT
864623 GATGTTTCAG
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (24 bp):
GTCAGTACTCGGAATTTGATCTTG
Found at i:867216 original size:20 final size:20
Alignment explanation
Indices: 867193--867236 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
867183 CGAAAGTAAA
867193 TTTCACAACGCGAATTTGAC
1 TTTCACAACGCGAATTTGAC
****
867213 TTTCATGTTGCGAATTTGAC
1 TTTCACAACGCGAATTTGAC
867233 TTTC
1 TTTC
867237 GTATTATGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (20 bp):
TTTCACAACGCGAATTTGAC
Found at i:867283 original size:20 final size:20
Alignment explanation
Indices: 867202--867286 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
867192 ATTTCACAAC
***
867202 GCGAATTTGACTTTCATGTT
1 GCGAATTTGACTTTCGCATT
*
867222 GCGAATTTGACTTTCGTATT
1 GCGAATTTGACTTTCGCATT
** * *
867242 ATGAATTTGACTTTCACGTT
1 GCGAATTTGACTTTCGCATT
*
867262 GCGAATTTGATTTTCGCATT
1 GCGAATTTGACTTTCGCATT
867282 GCGAA
1 GCGAA
867287 AGTGTACCTT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.42
Consensus pattern (20 bp):
GCGAATTTGACTTTCGCATT
Found at i:868772 original size:21 final size:20
Alignment explanation
Indices: 868746--868863 Score: 103
Period size: 21 Copynumber: 5.7 Consensus size: 20
868736 GTGAATCGGG
*
868746 CTCTTGAACGGTGGGAGGGAC
1 CTCTTGAACGATGGGAGGG-C
** **
868767 CTCTTGAATAATGACAGGGGC
1 CTCTTGAACGATGGGA-GGGC
868788 CTCTTGAAC-AGTGGGAGGGTC
1 CTCTTGAACGA-TGGGAGGG-C
*
868809 CTCTTGAACGATGAGAAGGGC
1 CTCTTGAACGATG-GGAGGGC
* *
868830 CTCTTGAACGATAGGAAAGGC
1 CTCTTGAACGAT-GGGAGGGC
868851 CTCTTGAACGATG
1 CTCTTGAACGATG
868864 ACAGGTGAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
20 5 0.06
21 66 0.81
22 10 0.12
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (20 bp):
CTCTTGAACGATGGGAGGGC
Found at i:868805 original size:42 final size:42
Alignment explanation
Indices: 868746--868838 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
868736 GTGAATCGGG
* * *
868746 CTCTTGAACGGTGGGAGGGACCTCTTGAATAATGACAGGGGC
1 CTCTTGAACAGTGGGAGGGACCTCTTGAACAATGACAAGGGC
* * *
868788 CTCTTGAACAGTGGGAGGGTCCTCTTGAACGATGAGAAGGGC
1 CTCTTGAACAGTGGGAGGGACCTCTTGAACAATGACAAGGGC
868830 CTCTTGAAC
1 CTCTTGAAC
868839 GATAGGAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (42 bp):
CTCTTGAACAGTGGGAGGGACCTCTTGAACAATGACAAGGGC
Found at i:869027 original size:12 final size:12
Alignment explanation
Indices: 869008--869049 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
868998 GGGACGCTAA
869008 AAATAAATTAAT
1 AAATAAATTAAT
* *
869020 ACATAAATTAGT
1 AAATAAATTAAT
*
869032 AAATAAATAAAT
1 AAATAAATTAAT
869044 AAATAA
1 AAATAA
869050 TGTCGAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (12 bp):
AAATAAATTAAT
Found at i:869511 original size:42 final size:42
Alignment explanation
Indices: 869438--869534 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
869428 GATGGAATAG
* * * * *
869438 GTGATGGCTCTCGTTGTGGAGGTGTATAATCGGCTCGATCAA
1 GTGATGGCTCTCGGTGTCGAGCTGTAGAATCGACTCGATCAA
* *
869480 GTGATGGCTCTGGGTGTCGAGCTGTAGAATCGACTTGATCAA
1 GTGATGGCTCTCGGTGTCGAGCTGTAGAATCGACTCGATCAA
869522 GTGATGGCTCTCG
1 GTGATGGCTCTCG
869535 AAGTGGGGGG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.30
Consensus pattern (42 bp):
GTGATGGCTCTCGGTGTCGAGCTGTAGAATCGACTCGATCAA
Found at i:870887 original size:19 final size:20
Alignment explanation
Indices: 870849--870890 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
870839 ACTTAAATTT
870849 GCAACGCGAAAATGAAAATC
1 GCAACGCGAAAATGAAAATC
*
870869 GCAACGCGAAACT-AAAATC
1 GCAACGCGAAAATGAAAATC
870888 GCA
1 GCA
870891 TTGCGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.48, C:0.24, G:0.19, T:0.10
Consensus pattern (20 bp):
GCAACGCGAAAATGAAAATC
Found at i:870921 original size:20 final size:20
Alignment explanation
Indices: 870896--870934 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
870886 TCGCATTGCG
870896 ATTTTCGTGTTGCGAATTTC
1 ATTTTCGTGTTGCGAATTTC
870916 ATTTTCGTGTTGCGAATTT
1 ATTTTCGTGTTGCGAATTT
870935 AAGTTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.13, G:0.21, T:0.51
Consensus pattern (20 bp):
ATTTTCGTGTTGCGAATTTC
Found at i:870941 original size:20 final size:20
Alignment explanation
Indices: 870898--870941 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
870888 GCATTGCGAT
* *
870898 TTTCGTGTTGCGAATTTCAT
1 TTTCGTGTTGCGAATTTAAG
870918 TTTCGTGTTGCGAATTTAAG
1 TTTCGTGTTGCGAATTTAAG
870938 TTTC
1 TTTC
870942 AAAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTAAG
Found at i:871716 original size:17 final size:16
Alignment explanation
Indices: 871686--871769 Score: 51
Period size: 17 Copynumber: 4.8 Consensus size: 16
871676 TATTTACACT
*
871686 TTTTGATATTTTTAAA
1 TTTTAATATTTTTAAA
*
871702 TTTTAATATTGTTTAAT
1 TTTTAATATT-TTTAAA
* *
871719 TTTTAGTAATTTTCAATA
1 TTTTAAT-ATTTTTAA-A
* *
871737 TTTAAACTTTTTTTTTAATA
1 TTTTAA---TATTTTTAA-A
871757 TTTTAATATTTTT
1 TTTTAATATTTTT
871770 TTATATTTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
16 9 0.18
17 21 0.41
18 7 0.14
20 13 0.25
21 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (16 bp):
TTTTAATATTTTTAAA
Found at i:871756 original size:20 final size:19
Alignment explanation
Indices: 871728--871777 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
871718 TTTTTAGTAA
* *
871728 TTTTCAATATTTAAACTTTT
1 TTTTTAATATTTAAA-TATT
*
871748 TTTTTAATATTTTAATATT
1 TTTTTAATATTTAAATATT
871767 TTTTT-ATATTT
1 TTTTTAATATTT
871778 TTATATTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 6 0.22
19 8 0.30
20 13 0.48
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTAATATTTAAATATT
Found at i:871806 original size:55 final size:54
Alignment explanation
Indices: 871694--871796 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 54
871684 CTTTTTGATA
* *
871694 TTTTTAAATTTTAATATTGTTTAATTTTTAGTAATTTTCAATATTTAAACTTTT
1 TTTTTAAATTTTAATATTGTTTAATTTTTAGTAATTGTAAATATTTAAACTTTT
*
871748 TTTTTAATATTTTAATATTTTTTTATATTTTTA-T-ATTGTAAAT-TTTAAA
1 TTTTTAA-ATTTTAATA-TTGTTTA-ATTTTTAGTAATTGTAAATATTTAAA
871797 TATATTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
54 13 0.30
55 16 0.37
56 7 0.16
57 7 0.16
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (54 bp):
TTTTTAAATTTTAATATTGTTTAATTTTTAGTAATTGTAAATATTTAAACTTTT
Found at i:873562 original size:13 final size:13
Alignment explanation
Indices: 873544--873569 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
873534 AATTAAAAAC
873544 TATTAACAATTGA
1 TATTAACAATTGA
873557 TATTAACAATTGA
1 TATTAACAATTGA
873570 ATAAAGAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TATTAACAATTGA
Found at i:873856 original size:22 final size:20
Alignment explanation
Indices: 873828--873893 Score: 87
Period size: 20 Copynumber: 3.1 Consensus size: 20
873818 TATCATTTTT
873828 TTATTTTTTAATAATAAAATA
1 TTATTTTTTAA-AATAAAATA
* *
873849 TTACTTTTTAAATTAAAATA
1 TTATTTTTTAAAATAAAATA
873869 TTATTTTTCTAAAATAAAAATA
1 TTATTTTT-TAAAAT-AAAATA
873891 TTA
1 TTA
873894 AAAAATAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
20 15 0.38
21 15 0.38
22 9 0.23
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATTTTTTAAAATAAAATA
Found at i:874861 original size:26 final size:26
Alignment explanation
Indices: 874832--874895 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
874822 CACATCGAAA
874832 TACACCACTAATGTGACACACCGATG
1 TACACCACTAATGTGACACACCGATG
*
874858 TACACCACTAATGTGATACACCGATG
1 TACACCACTAATGTGACACACCGATG
874884 TACACCACTAAT
1 TACACCACTAAT
874896 TAAAATGTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (26 bp):
TACACCACTAATGTGACACACCGATG
Found at i:874871 original size:13 final size:13
Alignment explanation
Indices: 874832--874895 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
874822 CACATCGAAA
874832 TACACCACTAATG
1 TACACCACTAATG
**
874845 TGACA-CACCGATG
1 T-ACACCACTAATG
874858 TACACCACTAATG
1 TACACCACTAATG
* **
874871 TGATA-CACCGATG
1 T-ACACCACTAATG
874884 TACACCACTAAT
1 TACACCACTAAT
874896 TAAAATGTCC
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
12 5 0.14
13 27 0.73
14 5 0.14
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (13 bp):
TACACCACTAATG
Found at i:877045 original size:2 final size:2
Alignment explanation
Indices: 877038--877074 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
877028 CATAAAAACA
877038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
877075 TACAAAACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:883135 original size:35 final size:35
Alignment explanation
Indices: 883089--883200 Score: 170
Period size: 35 Copynumber: 3.2 Consensus size: 35
883079 AAAACATTCC
*
883089 TCAATTTCATTCTAAACCCCAAATTCTAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCTAAAATAAT
* *
883124 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCTAAAATAAT
* * *
883159 TCAATTACATTCTAAAACCCAAATTCTAAAATATT
1 TCAATTTCATTCTAAACCCCAAATTCTAAAATAAT
883194 TCAATTT
1 TCAATTT
883201 AAGGAGGAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCTAAAATAAT
Found at i:884307 original size:35 final size:35
Alignment explanation
Indices: 884258--884370 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 35
884248 AAAAAAGACA
*
884258 GAAATTGAAGTATTTTAGAATTTGGGGTTTAGAAT
1 GAAATTGAATTATTTTAGAATTTGGGGTTTAGAAT
* * *
884293 GTAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
1 GAAATTGAATTATTTTAGAATTTGGGGTTTAGAAT
* * *
884328 GAAATTGAATTACTTTAGAATTTGTGTTTTAGAAT
1 GAAATTGAATTATTTTAGAATTTGGGGTTTAGAAT
884363 GAAATTGA
1 GAAATTGA
884371 GGATTGTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.42
Consensus pattern (35 bp):
GAAATTGAATTATTTTAGAATTTGGGGTTTAGAAT
Found at i:890828 original size:3 final size:3
Alignment explanation
Indices: 890820--890866 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
890810 AATTTTTTCA
* * *
890820 TAT TAT TAT TTT TAT TAT TAT TAT TAT TAA AAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
890867 AATATGTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:892115 original size:17 final size:17
Alignment explanation
Indices: 892089--892122 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
892079 TTCAGTCACT
892089 ATTTATTTA-TATTTTA
1 ATTTATTTATTATTTTA
892105 ATTTAATTTATTATTTTA
1 ATTT-ATTTATTATTTTA
892123 TATGTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 5 0.31
18 7 0.44
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTATTTATTATTTTA
Found at i:892733 original size:30 final size:32
Alignment explanation
Indices: 892699--892760 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
892689 TAATTCTTTC
892699 TTTTC-GAA-ATTTATATATA-TATATTTATTA
1 TTTTCAGAATATTTATATATATTAT-TTTATTA
*
892729 TTTTCATAATATTTATATATATTATTTTATTA
1 TTTTCAGAATATTTATATATATTATTTTATTA
892761 ATGTTTCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 5 0.18
31 2 0.07
32 18 0.64
33 3 0.11
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (32 bp):
TTTTCAGAATATTTATATATATTATTTTATTA
Found at i:892745 original size:32 final size:34
Alignment explanation
Indices: 892707--892769 Score: 96
Period size: 32 Copynumber: 1.9 Consensus size: 34
892697 TCTTTTCGAA
892707 ATTTATATATA-TATATTTATT-AT-TTTCATAAT
1 ATTTATATATATTAT-TTTATTAATGTTTCATAAT
892739 ATTTATATATATTATTTTATTAATGTTTCAT
1 ATTTATATATATTATTTTATTAATGTTTCAT
892770 TTTATTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 17 0.61
33 5 0.18
34 6 0.21
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (34 bp):
ATTTATATATATTATTTTATTAATGTTTCATAAT
Found at i:895254 original size:22 final size:22
Alignment explanation
Indices: 895243--895291 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
895233 TTCATTTTTG
895243 CATTTGGATATTTGCATAATTA
1 CATTTGGATATTTGCATAATTA
895265 CATTTGGATATTTGCATAATTA
1 CATTTGGATATTTGCATAATTA
895287 CATTT
1 CATTT
895292 TATTTCAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (22 bp):
CATTTGGATATTTGCATAATTA
Found at i:902107 original size:22 final size:22
Alignment explanation
Indices: 902077--902153 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
902067 ACATCTACAT
902077 TTTTCAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
*
902099 TCTTCAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
* *
902121 TTTTTAAAAATGATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
902143 TTTTCAAAGAT
1 TTTTCAAAGAT
902154 TAAAGCTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42
Consensus pattern (22 bp):
TTTTCAAAGATGATAGATTCTC
Found at i:902914 original size:46 final size:46
Alignment explanation
Indices: 902857--903686 Score: 1352
Period size: 46 Copynumber: 18.2 Consensus size: 46
902847 AGGAGCTTTT
*
902857 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
902903 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
902948 TGATGTTTTC-AAAACCTTCGAGTCATCTGTAATTCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
902993 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903039 TGATGTTATC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903084 TGATGTTATC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
903129 TGATGTTATC-AAAACCTTTGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* * * *
903174 TGATGTTATC-AAAACCTTTGGATCATCTGTAAGTCTTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903219 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903265 TGATGTTTTCAAAAACCTTCGGGTCATCTGTACGTCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903311 TGATGTTTTCAAAAACCTTCGGCTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903357 TGATGTTATC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903402 TGATGTTATC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
903447 TGATGTTTTCAAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
903493 TGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903539 TGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTC-AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
903586 TGATGTTTTCAAAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* * *
903632 TGATGTTTTCAAAACCCTTCGGGTCACCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
903678 TGATGTTTT
1 TGATGTTTT
903687 AAACATTTCC
Statistics
Matches: 750, Mismatches: 30, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
45 351 0.47
46 354 0.47
47 45 0.06
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (46 bp):
TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
Found at i:902926 original size:45 final size:45
Alignment explanation
Indices: 902857--903686 Score: 1336
Period size: 45 Copynumber: 18.2 Consensus size: 45
902847 AGGAGCTTTT
*
902857 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
902903 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
902948 TGATGTTTTCAAAACCTTCGAGTCATCTGTAATTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
902993 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903039 TGATGTTATCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903084 TGATGTTATCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
903129 TGATGTTATCAAAACCTTTGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* * * *
903174 TGATGTTATCAAAACCTTTGGATCATCTGTAAGTCTTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903219 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903265 TGATGTTTTCAAAAACCTTCGGGTCATCTGTACGTCCTTCAGTGCA
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903311 TGATGTTTTCAAAAACCTTCGGCTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903357 TGATGTTATCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903402 TGATGTTATCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
903447 TGATGTTTTCAAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903493 TGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAA-CCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
*
903539 TGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTC--AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
903586 TGATGTTTTCAAAAACCTTCGAGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
* *
903632 TGATGTTTTCAAAACCCTTCGGGTCACCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAA-CCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
903678 TGATGTTTT
1 TGATGTTTT
903687 AAACATTTCC
Statistics
Matches: 750, Mismatches: 27, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
45 359 0.48
46 346 0.46
47 41 0.05
48 4 0.01
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
Found at i:903101 original size:136 final size:137
Alignment explanation
Indices: 902857--903686 Score: 1364
Period size: 136 Copynumber: 6.1 Consensus size: 137
902847 AGGAGCTTTT
*
902857 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTT
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTT
* **
902921 CGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCATCTGTAATTCCTT
66 CGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTT
902986 CAGTGCA
131 CAGTGCA
*
902993 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATC-AAAACCTT
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTT
* * *
903057 CGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTGTAAGTCCTT
66 CGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTT
903122 CAGTGCA
131 CAGTGCA
* * *
903129 TGATGTTATC-AAAACCTTTGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATC-AAAACCTT
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTT
* * * *
903192 TGGATCATCTGTAAGTCTTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCT
66 CGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGCCCT
903257 TCAGTGCA
130 TCAGTGCA
*
903265 TGATGTTTTCAAAAACCTTCGGGTCATCTGTACGTCCTTCAGTGCATGATGTTTTCAAAAACCTT
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTT
* * * *
903330 CGGCTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAACCTTCGGGTCATCTGTAAGTCCTT
66 CGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTT
903395 CAGTGCA
131 CAGTGCA
*
903402 TGATGTTATC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTT
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTT
*
903466 CGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCCTTCGGGTCATCTGTAAGCCCT
66 CGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA-CCTTCGGGTCATCTGTAAGCCCT
903531 TCAGTGCA
130 TCAGTGCA
*
903539 TGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCT
1 TGATGTTTTC-AAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCT
* *
903604 TCGAGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCCTTCGGGTCACCTGTAAGCCC
65 TCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA-CCTTCGGGTCATCTGTAAGCCC
903669 TTCAGTGCA
129 TTCAGTGCA
903678 TGATGTTTT
1 TGATGTTTT
903687 AAACATTTCC
Statistics
Matches: 654, Mismatches: 34, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
135 85 0.13
136 272 0.42
137 124 0.19
138 41 0.06
139 132 0.20
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (137 bp):
TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTT
CGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTT
CAGTGCA
Found at i:905251 original size:17 final size:17
Alignment explanation
Indices: 905225--905268 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
905215 TTCAGTCACT
905225 ATTTATTTA-TATTTTA
1 ATTTATTTATTATTTTA
905241 ATTTAATTTATTATTTT-
1 ATTT-ATTTATTATTTTA
*
905258 ATATATTTATT
1 ATTTATTTATT
905269 TGTAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 11 0.44
17 8 0.32
18 6 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTATTTATTATTTTA
Found at i:905274 original size:27 final size:25
Alignment explanation
Indices: 905230--905279 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
905220 TCACTATTTA
*
905230 TTTATATTTTAATTTAATTTATTAT
1 TTTATATTTTAATTTAATATATTAT
*
905255 TTTATATATTTATTTGTAATATATT
1 TTTATAT-TTTAATT-TAATATATT
905280 TAATTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 6 0.29
27 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (25 bp):
TTTATATTTTAATTTAATATATTAT
Found at i:906347 original size:30 final size:30
Alignment explanation
Indices: 906313--906370 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
906303 TTAATTTCGG
* *
906313 GGACTAAATTGAAACTTTAACTAAATTCTA
1 GGACTAAAGTAAAACTTTAACTAAATTCTA
* *
906343 GGACTAAAGTAAAATTTTAATTAAATTC
1 GGACTAAAGTAAAACTTTAACTAAATTC
906371 AGATCCAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (30 bp):
GGACTAAAGTAAAACTTTAACTAAATTCTA
Found at i:908172 original size:2 final size:2
Alignment explanation
Indices: 908165--908212 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
908155 TTTTTCCGCG
*
908165 AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
908207 AT AT AT
1 AT AT AT
908213 GTTATCGTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:913391 original size:24 final size:24
Alignment explanation
Indices: 913374--913504 Score: 194
Period size: 24 Copynumber: 5.5 Consensus size: 24
913364 ATCAAAACAT
*
913374 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAG
*
913398 AATCTC-GGTCAAGTATCAGATCAA
1 AATC-CAGGTCAAGTATCAGATCAG
913422 AATCCAGGTCAAGTATTC-GATCAG
1 AATCCAGGTCAAGTA-TCAGATCAG
*
913446 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAG
*
913470 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAG
913494 AATCCAGGTCA
1 AATCCAGGTCA
913505 GGTTTTATAA
Statistics
Matches: 102, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
23 3 0.03
24 96 0.94
25 3 0.03
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAG
Found at i:918488 original size:24 final size:24
Alignment explanation
Indices: 918461--918511 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
918451 ATTAAAGAAC
*
918461 AAAAATAAACTT-AAATATACCATT
1 AAAAATAAACTTCAAACA-ACCATT
*
918485 AAAAATAAAGTTCAAACAACCATT
1 AAAAATAAACTTCAAACAACCATT
918509 AAA
1 AAA
918512 TCAACCACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAATAAACTTCAAACAACCATT
Found at i:925874 original size:23 final size:23
Alignment explanation
Indices: 925848--925925 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
925838 CACCACAGCT
*
925848 CATATAATTGTACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* * *
925871 CATATAATTGCACTGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
925894 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
925917 TATAATAAT
1 CAT-ATAAT
925926 GTCCATAAGG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 40 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:926111 original size:103 final size:103
Alignment explanation
Indices: 925932--926149 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
925922 TAATGTCCAT
* *
925932 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTATCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCACCA
* *
925997 GACTTCACACATGTTCCTAAGAATACATATATGTTCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
926035 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCACCA
926100 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
926138 AAGGACCACATA
1 AAGGACCACATA
926150 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:927508 original size:22 final size:22
Alignment explanation
Indices: 927491--927541 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
927481 AGGGGTATCA
*
927491 ATTCCCCATTGAATGGGTGCCG
1 ATTCCCCATTGAATGGGTACCG
*
927513 ATTCCCCCTTGAATGGGTACCG
1 ATTCCCCATTGAATGGGTACCG
927535 ATTCCCC
1 ATTCCCC
927542 TTGCCCAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.18, C:0.33, G:0.22, T:0.27
Consensus pattern (22 bp):
ATTCCCCATTGAATGGGTACCG
Found at i:929584 original size:15 final size:15
Alignment explanation
Indices: 929564--929597 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
929554 AGCTATGGCT
929564 TTGAAGTAAGGCGCC
1 TTGAAGTAAGGCGCC
929579 TTGAAGTAAGGCGCC
1 TTGAAGTAAGGCGCC
929594 TTGA
1 TTGA
929598 CTATGAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (15 bp):
TTGAAGTAAGGCGCC
Found at i:929606 original size:21 final size:21
Alignment explanation
Indices: 929580--929639 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
929570 TAAGGCGCCT
*
929580 TGAAGTAAGGCGCCTTGACTA
1 TGAAGTAAGGCACCTTGACTA
929601 TGAAGTAAGGCACCTTGACTA
1 TGAAGTAAGGCACCTTGACTA
* *
929622 TGAAGTAACGCTCCTTGA
1 TGAAGTAAGGCACCTTGA
929640 TTCTTAATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (21 bp):
TGAAGTAAGGCACCTTGACTA
Found at i:932977 original size:24 final size:24
Alignment explanation
Indices: 932960--933096 Score: 186
Period size: 24 Copynumber: 5.7 Consensus size: 24
932950 ATCAAAACAT
*
932960 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAG
*
932984 AATCTAGGTCAAGTATCAGATCAG
1 AATCCAGGTCAAGTATCAGATCAG
*
933008 AATCCAGGTCAAGTATTC-GATCAAA
1 AATCCAGGTCAAGTA-TCAGATC-AG
* *
933033 AATCCAGATCAAGTATCTGATCAG
1 AATCCAGGTCAAGTATCAGATCAG
**
933057 AATCCAGGTCAAGTATGTGATCAG
1 AATCCAGGTCAAGTATCAGATCAG
933081 AATCCAGGTCAAGTAT
1 AATCCAGGTCAAGTAT
933097 TATAATAGAA
Statistics
Matches: 102, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
24 81 0.79
25 21 0.21
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAG
Found at i:933055 original size:49 final size:48
Alignment explanation
Indices: 932960--933096 Score: 197
Period size: 49 Copynumber: 2.8 Consensus size: 48
932950 ATCAAAACAT
*
932960 AATCCAGGTCAAGTA-TCAGATCAAAATCTAGGTCAAGTATCAGATCAG
1 AATCCAGGTCAAGTATTC-GATCAAAATCCAGGTCAAGTATCAGATCAG
* *
933008 AATCCAGGTCAAGTATTCGATCAAAAATCCAGATCAAGTATCTGATCAG
1 AATCCAGGTCAAGTATTCGATC-AAAATCCAGGTCAAGTATCAGATCAG
*
933057 AATCCAGGTCAAGTATGT-GATCAGAATCCAGGTCAAGTAT
1 AATCCAGGTCAAGTAT-TCGATCAAAATCCAGGTCAAGTAT
933097 TATAATAGAA
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
48 35 0.43
49 45 0.56
50 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (48 bp):
AATCCAGGTCAAGTATTCGATCAAAATCCAGGTCAAGTATCAGATCAG
Found at i:933079 original size:73 final size:73
Alignment explanation
Indices: 932960--933097 Score: 222
Period size: 73 Copynumber: 1.9 Consensus size: 73
932950 ATCAAAACAT
* *
932960 AATCCAGGTCAAGTATCAGATCAAAATCTAGGTCAAGTATCAGATCAGAATCCAGGTCAAGTATT
1 AATCCAGATCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAGGTCAAGTATT
933025 CGATCAAA
66 CGATCAAA
* * **
933033 AATCCAGATCAAGTATCTGATCAGAATCCAGGTCAAGTATGTGATCAGAATCCAGGTCAAGTATT
1 AATCCAGATCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAGGTCAAGTATT
933098 ATAATAGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 59 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (73 bp):
AATCCAGATCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAGGTCAAGTATT
CGATCAAA
Found at i:935229 original size:13 final size:13
Alignment explanation
Indices: 935211--935253 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
935201 TGTGATCAAC
935211 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
935224 GGTCAACGGGTTG
1 GGTCAACGGGTCG
* *
935237 GGTAAACGGGCCG
1 GGTCAACGGGTCG
935250 GGTC
1 GGTC
935254 GGGTTATGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.16, C:0.21, G:0.47, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:939971 original size:2 final size:2
Alignment explanation
Indices: 939959--939992 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
939949 AATTTGTTCG
*
939959 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
939993 GTTATCGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:948886 original size:20 final size:21
Alignment explanation
Indices: 948863--948902 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
948853 CACTTCTAAA
948863 AAAATTA-TATTATTTATTTT
1 AAAATTATTATTATTTATTTT
*
948883 AAAATTATTATTTTTTATTT
1 AAAATTATTATTATTTATTT
948903 CATCCACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AAAATTATTATTATTTATTTT
Done.