Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 51
Found at i:575884 original size:20 final size:20
Alignment explanation
Indices: 575859--575896 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
575849 CAAAATAATA
575859 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
575879 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
575897 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:577151 original size:18 final size:19
Alignment explanation
Indices: 577128--577163 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
577118 AAAAATTGGA
577128 TTATTTTAAT-AAAATATT
1 TTATTTTAATCAAAATATT
*
577146 TTATTTTTATCAAAATAT
1 TTATTTTAATCAAAATAT
577164 CAAGTTTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATTTTAATCAAAATATT
Found at i:579813 original size:3 final size:3
Alignment explanation
Indices: 579805--579835 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
579795 TTTGGATTTG
579805 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
579836 GTAAGGTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:581529 original size:25 final size:25
Alignment explanation
Indices: 581501--581559 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
581491 CCTCATTTTA
581501 TTTTTATTTTCCTTTT-CTTCTCATT
1 TTTTTATTTTCCTTTTCCTTCTC-TT
** *
581526 TTTTCCTTTTCCTTTTCCTTTTCTT
1 TTTTTATTTTCCTTTTCCTTCTCTT
581551 TCTTTTATT
1 T-TTTTATT
581560 ATTTTTTCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTTATTTTCCTTTTCCTTCTCTT
Found at i:583987 original size:10 final size:10
Alignment explanation
Indices: 583972--583999 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
583962 TTGGAAGATT
583972 TTGAATTTCC
1 TTGAATTTCC
583982 TTGAATTTCC
1 TTGAATTTCC
583992 TTGAATTT
1 TTGAATTT
584000 GTTTGGATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.14, G:0.11, T:0.54
Consensus pattern (10 bp):
TTGAATTTCC
Found at i:585071 original size:14 final size:14
Alignment explanation
Indices: 585052--585078 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
585042 TGAATGTAAA
585052 GAATAAAGAATATG
1 GAATAAAGAATATG
585066 GAATAAAGAATAT
1 GAATAAAGAATAT
585079 TGTGCAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (14 bp):
GAATAAAGAATATG
Found at i:588238 original size:21 final size:21
Alignment explanation
Indices: 588185--588238 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
588175 GCCCTGGATG
* *
588185 AGAAATTAGGGATTAGGGGTC
1 AGAAATTAGGGATTACGAGTC
*
588206 AAAAATTAGGGATTACGAGTC
1 AGAAATTAGGGATTACGAGTC
588227 AGGAAATT-GGGA
1 A-GAAATTAGGGA
588239 ATTTAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (21 bp):
AGAAATTAGGGATTACGAGTC
Found at i:593608 original size:30 final size:30
Alignment explanation
Indices: 593574--593636 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
593564 GGGTCAAAAA
*
593574 TTAGGGATTACGAGTTAGGAAATTAGGAAT
1 TTAGGGATTACGAGTCAGGAAATTAGGAAT
** *
593604 TTAGGGATTGTGAGTCAGGAAATTGGGAAT
1 TTAGGGATTACGAGTCAGGAAATTAGGAAT
593634 TTA
1 TTA
593637 AAAAAAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.03, G:0.32, T:0.32
Consensus pattern (30 bp):
TTAGGGATTACGAGTCAGGAAATTAGGAAT
Found at i:595188 original size:25 final size:25
Alignment explanation
Indices: 595160--595222 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
595150 ATGTAACATG
* *
595160 AATAACATATAATGCCACATGAATT
1 AATAACATACAATGCCACATGAACT
* *
595185 AATAACATGCAATGCTACATGAACT
1 AATAACATACAATGCCACATGAACT
*
595210 AATAACATGCAAT
1 AATAACATACAAT
595223 TATTATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (25 bp):
AATAACATACAATGCCACATGAACT
Found at i:597181 original size:3 final size:3
Alignment explanation
Indices: 597173--597218 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
597163 TTTGGATTTG
597173 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
597219 GTAAGGTAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:599058 original size:19 final size:19
Alignment explanation
Indices: 599034--599074 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
599024 GTTCCTCATC
* *
599034 TTATTGGATCAACTTATTA
1 TTATTGGACCAACTGATTA
599053 TTATTGGACCAACTGATTA
1 TTATTGGACCAACTGATTA
599072 TTA
1 TTA
599075 GTAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTGGACCAACTGATTA
Found at i:600732 original size:23 final size:23
Alignment explanation
Indices: 600696--600754 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
600686 TATCAAGTAC
* *
600696 AATAACATATTAGGTAGCGCTTA
1 AATAATATAATAGGTAGCGCTTA
600719 AATAATATAATAGGTAGCGCTTA
1 AATAATATAATAGGTAGCGCTTA
* *
600742 TATAATAAAATAG
1 AATAATATAATAG
600755 ACATTTAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (23 bp):
AATAATATAATAGGTAGCGCTTA
Found at i:600810 original size:23 final size:23
Alignment explanation
Indices: 600784--600842 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
600774 ATAAAGTACA
*
600784 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
600807 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
600830 ATAATGTAATAGG
1 ATAACATAATAGG
600843 CATTTAACCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:600817 original size:87 final size:87
Alignment explanation
Indices: 600669--600915 Score: 386
Period size: 87 Copynumber: 2.8 Consensus size: 87
600659 TATGTTATAT
* * * *
600669 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTAAATAATATAATAGGT
1 CATTTAACCGGAAATATTATAAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
600734 AGCGCTTATATAATAAAATAGA
66 AGCGCTTATATAATAAAATAGA
*
600756 CATTTAACCGGAAATATAATAAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATAAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
** *
600821 AGCGCTTATATAATGTAATAGG
66 AGCGCTTATATAATAAAATAGA
* * * *
600843 CATTTAACCGGAAAGATTATAAAGTACAATTACATATTAGGTAGCTCTTATATAATGTAATAAGT
1 CATTTAACCGGAAATATTATAAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
600908 AGCGCTTA
66 AGCGCTTA
600916 GATTAACCTA
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 147 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATAAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGA
Found at i:601361 original size:199 final size:198
Alignment explanation
Indices: 600921--601636 Score: 962
Period size: 200 Copynumber: 3.6 Consensus size: 198
600911 GCTTAGATTA
* * *
600921 ACCTATTTTCTAAGT-AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTA
1 ACCTATTTTCTCA-TAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTA
* * *
600985 TAATTATCGGTTTCGATGTTTTTTGGATCGATACAATTT--TAAATGTATCGACACTTTATGCTT
65 TAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGT
* * * * * *
601048 GCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATT
129 GCACCTCGTTTGGCATTCATTATGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACTTT
601113 ATTTAG
194 ATTT-G
* * *
601119 ACCTATTTTCTCATAAAACCGGTATATTTATACCGGATACATTGTAAATTTACCTATCACATTGT
1 ACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTAT
* *
601184 AATTTTC-GTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTCTATGCGTGC
66 AATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGC
* *
601248 ACCCCGTTTGACATTCATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTTA
131 ACCTCGTTTGGCATTCATTATGGACAAAA-GTATCGACACAAATTTAACAAGTGTCGATACTTTA
*
601313 TACTG
195 T-TTG
** *
601318 ACCTATTTTCTCATAAAATTGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTAT
1 ACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTAT
601383 AATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGC
66 AATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGC
**
601448 ACCTCGTTTGGGCATTCATTATGGACAATAAGTATCGACACAAATTCCACAAGTGTCGATA-TAT
131 ACCTCGTTT-GGCATTCATTATGGACAA-AAGTATCGACACAAATTTAACAAGTGTCGATACT-T
601512 TATGTTG
193 TAT-TTG
* * * * * *
601519 ATCTGTTTTCTAAT-TAACCGGTATATTTATACCGGTTACATTTTTAATTTACCTATTACATTAT
1 ACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTAT
* * * *
601583 AATTATTGGTTTTGATGTTTTTTGGG-TCGATACTTGTAGA-AAATGTATTGACAC
66 AATTATCGGTTTCGATG-TTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
601637 ATATTTAGGT
Statistics
Matches: 460, Mismatches: 47, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
196 3 0.01
197 25 0.05
198 111 0.24
199 99 0.22
200 149 0.32
201 71 0.15
202 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (198 bp):
ACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTAT
AATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGC
ACCTCGTTTGGCATTCATTATGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACTTTAT
TTG
Found at i:605704 original size:15 final size:15
Alignment explanation
Indices: 605684--605723 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
605674 GAGAATTGCC
605684 TTTAGGGTTTATCAA
1 TTTAGGGTTTATCAA
605699 TTTAGGGTTTATCAA
1 TTTAGGGTTTATCAA
605714 TTTAGGGTTT
1 TTTAGGGTTT
605724 GCTATATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.50
Consensus pattern (15 bp):
TTTAGGGTTTATCAA
Found at i:606126 original size:201 final size:200
Alignment explanation
Indices: 605777--606932 Score: 1332
Period size: 201 Copynumber: 5.8 Consensus size: 200
605767 TGCGTTATTT
*
605777 AAAAGTATCGACACTAAATT--AAAAGTGTCGATACATGTTGTAGACCTATTCTCTTATAAAACC
1 AAAAGTATCGACAC-AAATTCCAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * * *
605840 GGCATATTTATATCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATATTT
65 GGTATAATTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
* *
605905 TTGGGATCAACACTTTTTGA-AAATGTATCGACACTTTATGAGTTCACCCTTTTTGGCATTCATT
130 TTGGGATCGACAC-TTTTGATAAATGTATCGACACTTTATGGGTTCACCCTTTTTGGCATTCATT
605969 CTGGACA
194 CTGGACA
*
605976 TAAAAGTATCGACACAAAATT-AAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
1 -AAAAGTATCGACAC-AAATTCCAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
* * *
606040 CGGTATAAATATACCAGTTATATTACAAAATTACCTATTAGATTATAATTATGGGTTTCGATGTT
64 CGGTATAATTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* * * *
606105 TTTGGGATCGACACATTTTGA-AAATGTATCGACACTTTATGCGTTCAACCTTTTTGGACTTTGA
129 TTTGGGATCGACAC-TTTTGATAAATGTATCGACACTTTATGGGTTCACCCTTTTTGG-CATTCA
*
606169 TTCTGGACC
192 TTCTGGACA
* * *
606178 AAAAGTATCGACACAAATTCCACAAGTATCGATACATGTTGTAAACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAATTCCAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * * *
606243 GTAT-ATTTTCATCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTAGATGTT
66 GTATAATTAT-ACCGGTTATATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* * * * ** *
606306 TTTGTGATCGATACTTTTTATAAATGTATTGACACTTTATGGGTGT-ACCCTTTGGGGCATTCCT
129 TTTGGGATCGACACTTTTGATAAATGTATCGACACTTTATGGGT-TCACCCTTTTTGGCATTCAT
606370 TCTGGGA-A
193 TCT-GGACA
* *
606378 AAAAGTATCGACACAAATTCCATAAGTGTCGATACAT-TATGTAGACATATTCTCTCATAAAACC
1 AAAAGTATCGACACAAATTCCAAAAGTGTCGATACATGT-TGTAGACCTATTCTCTCATAAAACC
** * *** * * * *
606442 AATATAGTTATATTTGTTATATTATAAAATTATCTATTATATTATAATTATGGATTTCGATGTTT
65 GGTATAATTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
** * * * * *
606507 TTGGGATCGACGTTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGACTTTGATT
130 TTGGGATCGACACTTTTGATAAATGTATCGACACTTTATGGGTTCACCCTTTTTGG-CATTCATT
* * *
606572 ATAGACC
194 CTGGACA
* *
606579 AAAAGTATCGACACAAATTCCACAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAATTCCAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * * * * *
606644 ATAT-ATTTTCACCTGTTACATTGA-AAAATTACCTATTACATTATAATTATAGGTTTCGATATT
66 GTATAATTAT-ACCGGTTATATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* * * *
606707 TCTGGGATCGATACTTTT-ATAAATG--T----A--TTATGGGTGCA-CCTTTTTGGGCATTTAT
129 TTTGGGATCGACACTTTTGATAAATGTATCGACACTTTATGGGTTCACCCTTTTT-GGCATTCAT
606762 TCTGGACA
193 TCTGGACA
* * * *
606770 AAAAGTATCGACATAATATT-AAAAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAATC
1 AAAAGTATCGACACAA-ATTCCAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * *
606834 GGTATATTTATACCGGTTATATTACAAAATTACCTATTAAATTATAATTATTGGTTTCGATGTTT
65 GGTATAATTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
* * * *
606899 TTAGGTTCGATACTTTTTATAAATGTATCGACAC
130 TTGGGATCGACACTTTTGATAAATGTATCGACAC
606933 ATATACTTAC
Statistics
Matches: 817, Mismatches: 110, Indels: 59
0.83 0.11 0.06
Matches are distributed among these distances:
190 1 0.00
191 136 0.17
192 26 0.03
194 2 0.00
198 2 0.00
199 2 0.00
200 202 0.25
201 430 0.53
202 16 0.02
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (200 bp):
AAAAGTATCGACACAAATTCCAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
GTATAATTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
TGGGATCGACACTTTTGATAAATGTATCGACACTTTATGGGTTCACCCTTTTTGGCATTCATTCT
GGACA
Found at i:606532 original size:401 final size:399
Alignment explanation
Indices: 605777--606932 Score: 1556
Period size: 401 Copynumber: 2.9 Consensus size: 399
605767 TGCGTTATTT
* * *
605777 AAAAGTATCGACACTAAATT--AAAAGTGTCGATACATGTTGTAGACCTATTCTCTTATAAAACC
1 AAAAGTATCGACAC-AAATTCCACAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* *
605840 GGCATATTTAT-ATCGGTTATATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATAT
65 GGTATATTT-TCATCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATAT
* * * * *
605903 TTTTGGGATCAACACTTTTTGA-AAATGTATCGACACTTTATGAGT-TCACCCTTTTTGGCATTC
128 TTTTGGGATCGATACTTTTT-ATAAATGTATTGACACTTTATGGGTGT-ACCCTTTTGGGCATTC
605966 ATTCTGGACATAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGT-TGTAGACCTATTCT
191 ATTCTGGACA-AAAAGTATCGACAC-AAATTAAAAAGTGTCGATACAT-TATGTAGACCTATTCT
* *
606030 CTCATAAAACCGGTATAAATATACCAGTTATATTACAAAATTACCTATTAGATTATAATTATGGG
253 CTCATAAAACCGGTATAATTATACCAGTTATATTACAAAATTACCTATTAAATTATAATTAT-GG
* * *
606095 TTTCGATGTTTTTGGGATCGACACATTTTGAAAATGTATCGACACTTTATGCGTTCAACCTTTTT
317 TTTCGATGTTTTTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCTTTTT
* *
606160 GGACTTTGATTCTGGACC
382 GGACTTTGATTATAGACC
*
606178 AAAAGTATCGACACAAATTCCACAAGTATCGATACATGTTGTAAACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAATTCCACAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* *
606243 GTATATTTTCATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTAGATGTTTT
66 GTATATTTTCATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTT
* * *
606308 TGTGATCGATACTTTTTATAAATGTATTGACACTTTATGGGTGTACCCTTTGGGGCATTCCTTCT
131 TGGGATCGATACTTTTTATAAATGTATTGACACTTTATGGGTGTACCCTTTTGGGCATTCATTCT
* * *
606373 GGGA-AAAAAGTATCGACACAAATTCCATAAGTGTCGATACATTATGTAGACATATTCTCTCATA
196 -GGACAAAAAGTATCGACACAAATT-AAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATA
** * *** * * *
606437 AAACCAATATAGTTATATTTGTTATATTATAAAATTATCTATTATATTATAATTATGGATTTCGA
259 AAACCGGTATAATTATACCAGTTATATTACAAAATTACCTATTAAATTATAATTATGG-TTTCGA
** * *
606502 TGTTTTTGGGATCGACGTTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGACTT
323 TGTTTTTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCTTTTTGGACTT
606567 TGATTATAGACC
388 TGATTATAGACC
606579 AAAAGTATCGACACAAATTCCACAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAATTCCACAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
* * * * *
606644 ATATATTTTCACCTGTTACATTGAAAAATTACCTATTACATTATAATTATAGGTTTCGATATTTC
66 GTATATTTTCATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTT
* * *
606709 TGGGATCGATAC-TTTTATAAATG---T---A--TTATGGGTGCACCTTTTTGGGCATTTATTCT
131 TGGGATCGATACTTTTTATAAATGTATTGACACTTTATGGGTGTACCCTTTTGGGCATTCATTCT
*
606765 GGACAAAAAGTATCGACATAATATTAAAAAGTGTCGATACA-TATTGTAGACCTATTCTCTCATA
196 GGACAAAAAGTATCGACACAA-ATTAAAAAGTGTCGATACATTA-TGTAGACCTATTCTCTCATA
* * *
606829 AAATCGGTATATTTATACCGGTTATATTACAAAATTACCTATTAAATTATAATTATTGGTTTCGA
259 AAACCGGTATAATTATACCAGTTATATTACAAAATTACCTATTAAATTATAATTA-TGGTTTCGA
* * * *
606894 TGTTTTTAGGTTCGATACTTTTTATAAATGTATCGACAC
323 TGTTTTTGGGATCGACACTTTTTAAAAATGTATCGACAC
606933 ATATACTTAC
Statistics
Matches: 669, Mismatches: 72, Indels: 37
0.86 0.09 0.05
Matches are distributed among these distances:
391 5 0.01
392 159 0.24
393 6 0.01
394 1 0.00
397 1 0.00
400 24 0.04
401 317 0.47
402 151 0.23
403 5 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (399 bp):
AAAAGTATCGACACAAATTCCACAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACCG
GTATATTTTCATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTT
TGGGATCGATACTTTTTATAAATGTATTGACACTTTATGGGTGTACCCTTTTGGGCATTCATTCT
GGACAAAAAGTATCGACACAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAA
ACCGGTATAATTATACCAGTTATATTACAAAATTACCTATTAAATTATAATTATGGTTTCGATGT
TTTTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCTTTTTGGACTTTGA
TTATAGACC
Found at i:608899 original size:18 final size:18
Alignment explanation
Indices: 608876--608914 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
608866 TCCTCCTCAT
608876 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
608894 TTCCTCCCTCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
608912 TTC
1 TTC
608915 ATATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.03, C:0.41, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:609201 original size:21 final size:21
Alignment explanation
Indices: 609176--609240 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
609166 CCCCTTATGC
*
609176 CTCTCAAGTGTCTCTTAGACT
1 CTCTCAAGTTTCTCTTAGACT
*
609197 CTCTCAAATTTCTCTTAGACT
1 CTCTCAAGTTTCTCTTAGACT
*
609218 CTTTCAAGTTTCTCTTAGACT
1 CTCTCAAGTTTCTCTTAGACT
609239 CT
1 CT
609241 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.20, C:0.28, G:0.09, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTAGACT
Found at i:609343 original size:15 final size:15
Alignment explanation
Indices: 609323--609353 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
609313 ACTCTGTTTT
609323 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
609338 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
609353 C
1 C
609354 TCAATACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.61, G:0.06, T:0.19
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:609354 original size:13 final size:13
Alignment explanation
Indices: 609322--609356 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
609312 TACTCTGTTT
609322 TCCCTCACCGTCA
1 TCCCTCACCGTCA
609335 TCCCCCTCACCGTCA
1 T--CCCTCACCGTCA
609350 TCCCTCA
1 TCCCTCA
609357 ATACAACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.35
15 13 0.65
ACGTcount: A:0.14, C:0.57, G:0.06, T:0.23
Consensus pattern (13 bp):
TCCCTCACCGTCA
Found at i:611523 original size:20 final size:19
Alignment explanation
Indices: 611478--611535 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
611468 CTGGTAGCAC
611478 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
* *
611497 TGATACCGGTTTTGTCATATT
1 T-TTACCGGTTTTATCAT-TT
* *
611518 TTTACCTGTTCTATCATT
1 TTTACCGGTTTTATCATT
611536 GTGGATCGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.53
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:611705 original size:20 final size:19
Alignment explanation
Indices: 611660--611705 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
611650 CCAGTAGCTC
611660 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
* *
611679 TGATACCGGTTTTGTCATATT
1 T-TTACCGGTTTTATCAT-TT
611700 TTTACC
1 TTTACC
611706 TTTTATATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.52
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:611747 original size:182 final size:182
Alignment explanation
Indices: 611440--611917 Score: 735
Period size: 182 Copynumber: 2.6 Consensus size: 182
611430 TACGTGTACT
*
611440 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCACTTTACCGGTTTTATCATTTTGATACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTATCATTTTGATACCG
* * * * * *
611505 GTTTTGTCATATTTTTACCTGTTCTATCATTGTGGATCGGTAAATTTTTTTAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTTTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACT
611570 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * *
611622 TATTAAAGTATCGACACTTTCATTATATCCAGTAGCTCTTTACCGGTTTTATCATTTTGATACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTATCATTTTGATACCG
611687 GTTTTGTCATATTTTTACCTTTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTTTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACT
*
611752 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * *
611804 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTATCGGTTTTGTC-TTTTCG-TGAT
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTATCATTTT-GAT-AC
* * * * * *
611867 TGGTTTTCTCATATTTTTACCTTTTATATTGATATAGATCGATACATTTTT
64 CGGTTTTGTCATATTTTTACCTTTTATATCGTTGTGGATCGATACATTTTT
611918 TATTTGGATC
Statistics
Matches: 271, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
181 5 0.02
182 266 0.98
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTATCATTTTGATACCG
GTTTTGTCATATTTTTACCTTTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:612751 original size:19 final size:18
Alignment explanation
Indices: 612711--612760 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
612701 TAATTTAGAA
*
612711 AATTATTTTTGTAAAATG
1 AATTATTTTTGAAAAATG
612729 AATTATATTTGTGAAAAAT-
1 AATTAT-TTT-TGAAAAATG
612748 AATT-TTTTTGAAA
1 AATTATTTTTGAAA
612761 TCATTTTACG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 5 0.17
17 3 0.10
18 7 0.24
19 7 0.24
20 7 0.24
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (18 bp):
AATTATTTTTGAAAAATG
Found at i:612841 original size:16 final size:16
Alignment explanation
Indices: 612817--612859 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
612807 GTAATTTTTT
* *
612817 TAAAAATTATTTATTA
1 TAAATATTATTTATAA
*
612833 TAAATATTATATATAA
1 TAAATATTATTTATAA
*
612849 TAAATAATATT
1 TAAATATTATT
612860 AGTTATTAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAATATTATTTATAA
Found at i:612893 original size:20 final size:21
Alignment explanation
Indices: 612850--612898 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
612840 TATATATAAT
*
612850 AAATAATATTAGTTATTAGAA
1 AAATATTATTAGTTATTAGAA
**
612871 AAATATTATTAG-TATTATTA
1 AAATATTATTAGTTATTAGAA
612891 AAATATTA
1 AAATATTA
612899 GAATATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (21 bp):
AAATATTATTAGTTATTAGAA
Found at i:612964 original size:14 final size:14
Alignment explanation
Indices: 612911--612977 Score: 64
Period size: 14 Copynumber: 4.7 Consensus size: 14
612901 ATATTTTATT
* *
612911 TAATATTATTTATG
1 TAATATTATTTTTA
*
612925 TGAATATTATTATTA
1 T-AATATTATTTTTA
*
612940 AAATATTATTTTTA
1 TAATATTATTTTTA
*
612954 TAATATAATTTGTTA
1 TAATATTATTT-TTA
612969 T-ATATTATT
1 TAATATTATT
612978 AACATAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
14 29 0.67
15 14 0.33
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (14 bp):
TAATATTATTTTTA
Found at i:618588 original size:18 final size:18
Alignment explanation
Indices: 618565--618671 Score: 124
Period size: 18 Copynumber: 5.9 Consensus size: 18
618555 ACTTAGAATT
* *
618565 TGTCCTGAATGACCACTA
1 TGTCCCGAAGGACCACTA
* *
618583 TGTCCTGAAAGACCACTA
1 TGTCCCGAAGGACCACTA
** * *
618601 TACCCCGAAGGACTACAA
1 TGTCCCGAAGGACCACTA
*
618619 TGTCCCGAAGGACCACGA
1 TGTCCCGAAGGACCACTA
618637 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
618655 TGCCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
618672 CCTTAAGAAC
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 76 1.00
ACGTcount: A:0.30, C:0.33, G:0.21, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:618633 original size:54 final size:54
Alignment explanation
Indices: 618565--618667 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
618555 ACTTAGAATT
* * * *
618565 TGTCCTGAATGACCACTATGTCCTGAAAGACCACTATACCCCGAAGGACTACAA
1 TGTCCCGAAGGACCACGATGTCCCGAAAGACCACTATACCCCGAAGGACTACAA
* *
618619 TGTCCCGAAGGACCACGATGTCCCGAAGGACCACTATGCCCCGAAGGAC
1 TGTCCCGAAGGACCACGATGTCCCGAAAGACCACTATACCCCGAAGGAC
618668 CACTCCTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (54 bp):
TGTCCCGAAGGACCACGATGTCCCGAAAGACCACTATACCCCGAAGGACTACAA
Found at i:621247 original size:12 final size:11
Alignment explanation
Indices: 621225--621258 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
621215 AAGTTAGTAA
621225 AATAGAAATAAT
1 AATA-AAATAAT
621237 AATCAAAATAAT
1 AAT-AAAATAAT
621249 AATAAAATAA
1 AATAAAATAA
621259 AAATTCCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.33
12 13 0.62
13 1 0.05
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:622304 original size:54 final size:54
Alignment explanation
Indices: 622239--622659 Score: 475
Period size: 54 Copynumber: 7.8 Consensus size: 54
622229 CCATACGACC
* * * ** * * * *
622239 ATTCATAAACATATTATGAATTTTTTGGGTTGAAAACATAGTGTCGAAATAGTT
1 ATTCATCAACATATGATGAATTTTGTGAATTGCACACTTAGTGTCGAAATGGTT
** * ** *
622293 ATTCATCAACATATGATGAATTTCATAAATTGCACACTTAGTACCGAAACGGTT
1 ATTCATCAACATATGATGAATTTTGTGAATTGCACACTTAGTGTCGAAATGGTT
* * *
622347 ATTCATCAACATATAATGAATTCTGTGATTTGCACACTTAGTGTCGAAATGGTT
1 ATTCATCAACATATGATGAATTTTGTGAATTGCACACTTAGTGTCGAAATGGTT
** * *
622401 ATTCATCAACATATGATGAATTCCGTGAATTACACACTTAGTGTCAAAATGGTT
1 ATTCATCAACATATGATGAATTTTGTGAATTGCACACTTAGTGTCGAAATGGTT
* * *
622455 ATTCATCAACATATGATGAATTTTGTGATTTGGACACTTAGTGTCGAAATGATT
1 ATTCATCAACATATGATGAATTTTGTGAATTGCACACTTAGTGTCGAAATGGTT
* * * * *
622509 TTTCATCAACATATGATGAATTCTGTTAATTGCACACTTAGT-ACTGAAACGGTT
1 ATTCATCAACATATGATGAATTTTGTGAATTGCACACTTAGTGTC-GAAATGGTT
* * * **
622563 ATTCATCAAAATATGATGAATTTTGTGATTTGCACACTTAGTGTTGAAACAGTT
1 ATTCATCAACATATGATGAATTTTGTGAATTGCACACTTAGTGTCGAAATGGTT
** * *
622617 ATTCATCAACATATGATGAATTCCGTGAATTACACACATAGTG
1 ATTCATCAACATATGATGAATTTTGTGAATTGCACACTTAGTG
622660 CCTTTTGATA
Statistics
Matches: 308, Mismatches: 57, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
53 1 0.00
54 307 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (54 bp):
ATTCATCAACATATGATGAATTTTGTGAATTGCACACTTAGTGTCGAAATGGTT
Found at i:622366 original size:108 final size:108
Alignment explanation
Indices: 622239--622658 Score: 538
Period size: 108 Copynumber: 3.9 Consensus size: 108
622229 CCATACGACC
* * * ** * * *
622239 ATTCATAAACATATTATGAATTTTTTGGGTTGAAAACATAGTGTCGAAATAGTTATTCATCAACA
1 ATTCATCAACATATGATGAATTTTGTGATTTGCACACTTAGTGTCGAAATAGTTATTCATCAACA
*
622304 TATGATGAATTTCATAAATTGCACACTTAGTACCGAAACGGTT
66 TATGATGAATTTCGTAAATTGCACACTTAGTACCGAAACGGTT
* * *
622347 ATTCATCAACATATAATGAATTCTGTGATTTGCACACTTAGTGTCGAAATGGTTATTCATCAACA
1 ATTCATCAACATATGATGAATTTTGTGATTTGCACACTTAGTGTCGAAATAGTTATTCATCAACA
* * * ** * *
622412 TATGATGAATTCCGTGAATTACACACTTAGTGTCAAAATGGTT
66 TATGATGAATTTCGTAAATTGCACACTTAGTACCGAAACGGTT
* *
622455 ATTCATCAACATATGATGAATTTTGTGATTTGGACACTTAGTGTCGAAAT-GATTTTTCATCAAC
1 ATTCATCAACATATGATGAATTTTGTGATTTGCACACTTAGTGTCGAAATAG-TTATTCATCAAC
* *
622519 ATATGATGAA-TTCTGTTAATTGCACACTTAGTACTGAAACGGTT
65 ATATGATGAATTTC-GTAAATTGCACACTTAGTACCGAAACGGTT
* * *
622563 ATTCATCAAAATATGATGAATTTTGTGATTTGCACACTTAGTGTTGAAACAGTTATTCATCAACA
1 ATTCATCAACATATGATGAATTTTGTGATTTGCACACTTAGTGTCGAAATAGTTATTCATCAACA
* * * *
622628 TATGATGAATTCCGTGAATTACACACATAGT
66 TATGATGAATTTCGTAAATTGCACACTTAGT
622659 GCCTTTTGAT
Statistics
Matches: 269, Mismatches: 39, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
107 3 0.01
108 263 0.98
109 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (108 bp):
ATTCATCAACATATGATGAATTTTGTGATTTGCACACTTAGTGTCGAAATAGTTATTCATCAACA
TATGATGAATTTCGTAAATTGCACACTTAGTACCGAAACGGTT
Found at i:623023 original size:22 final size:22
Alignment explanation
Indices: 622992--623077 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
622982 TCGATACCCC
622992 TACCATGGTATCAATACTACTA
1 TACCATGGTATCAATACTACTA
** * *
623014 TATTATGGTATCGATA-TCCT-
1 TACCATGGTATCAATACTACTA
*
623034 TACCATGGTATCGATACTACTA
1 TACCATGGTATCAATACTACTA
*
623056 TACCATAGTATCAATACT-CTA
1 TACCATGGTATCAATACTACTA
623077 T
1 T
623078 TACGGTACCA
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
20 14 0.26
21 10 0.19
22 29 0.55
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (22 bp):
TACCATGGTATCAATACTACTA
Found at i:623043 original size:20 final size:20
Alignment explanation
Indices: 622979--623049 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
622969 TGGCTCAATA
* *
622979 GTATCGATACCCCTACCATG
1 GTATCGATATCCTTACCATG
* * **
622999 GTATCAATACTACTATATTATG
1 GTATCGATA-TCCT-TACCATG
623021 GTATCGATATCCTTACCATG
1 GTATCGATATCCTTACCATG
623041 GTATCGATA
1 GTATCGATA
623050 CTACTATACC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
20 22 0.56
21 4 0.10
22 13 0.33
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (20 bp):
GTATCGATATCCTTACCATG
Found at i:623067 original size:42 final size:42
Alignment explanation
Indices: 622976--623072 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
622966 TTCTGGCTCA
**
622976 ATAGTATCGATACCCCTACCATGGTATCAATACTACTATATT
1 ATAGTATCGATACCCCTACCATGGTATCAATACTACTATACC
* * * *
623018 ATGGTATCGATATCCTTACCATGGTATCGATACTACTATACC
1 ATAGTATCGATACCCCTACCATGGTATCAATACTACTATACC
*
623060 ATAGTATCAATAC
1 ATAGTATCGATAC
623073 TCTATTACGG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (42 bp):
ATAGTATCGATACCCCTACCATGGTATCAATACTACTATACC
Found at i:623979 original size:65 final size:65
Alignment explanation
Indices: 623897--624050 Score: 211
Period size: 65 Copynumber: 2.4 Consensus size: 65
623887 ACCCATTTCA
* * * *
623897 AATGCATTTTGTGTACCGATGCATAAGCCATGCATCGATGCACTCTTGAATATTTTGAAACATCG
1 AATGCATTTTATGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATATTTTGAAACATCG
** *
623962 AATGCATTTTATGTACCGATGCACAAACCATGCATCGATGCACTCCTGGCTCTTTTGAAACATCG
1 AATGCATTTTATGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATATTTTGAAACATCG
* *
624027 AATGTA-ATTAGTGTACCGATGCAC
1 AATGCATTTTA-TGTACCGATGCAC
624051 CCCTAGTATA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 3 0.04
65 76 0.96
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (65 bp):
AATGCATTTTATGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATATTTTGAAACATCG
Found at i:629868 original size:43 final size:44
Alignment explanation
Indices: 629820--629938 Score: 170
Period size: 44 Copynumber: 2.8 Consensus size: 44
629810 TTGTGCAAAG
629820 TGCATCGATACACTA-GAAAGTGTACCGATACATTCCTTGAATA
1 TGCATCGATACACTATGAAAGTGTACCGATACATTCCTTGAATA
* * * * *
629863 TGCATCGATACACTATGAAGGTGCACCGATGCATTCTTTGAATG
1 TGCATCGATACACTATGAAAGTGTACCGATACATTCCTTGAATA
*
629907 TGCATCGATACACTATG-CAGTGTACCGATACA
1 TGCATCGATACACTATGAAAGTGTACCGATACA
629939 CCCGTCGGGT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
43 26 0.39
44 40 0.61
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGTACCGATACATTCCTTGAATA
Found at i:629909 original size:23 final size:23
Alignment explanation
Indices: 629843--629918 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 23
629833 TAGAAAGTGT
* *
629843 ACCGATACATTCCTTGAATATGC
1 ACCGATACATTCTTTGAATGTGC
* * *
629866 ATCGATACA--CTATGAAGGTGC
1 ACCGATACATTCTTTGAATGTGC
*
629887 ACCGATGCATTCTTTGAATGTGC
1 ACCGATACATTCTTTGAATGTGC
*
629910 ATCGATACA
1 ACCGATACA
629919 CTATGCAGTG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 15 0.38
23 25 0.62
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (23 bp):
ACCGATACATTCTTTGAATGTGC
Found at i:631896 original size:8 final size:8
Alignment explanation
Indices: 631880--631983 Score: 55
Period size: 8 Copynumber: 11.9 Consensus size: 8
631870 ATTGATATAT
*
631880 TTTGGATG
1 TTTGAATG
631888 TTTGAATG
1 TTTGAATG
631896 TTTGAATTTG
1 TTTGAA--TG
* *
631906 ATATGGATG
1 -TTTGAATG
631915 TTTGAATG
1 TTTGAATG
631923 TTTGAATTTG
1 TTTGAA--TG
* *
631933 ATATGGATG
1 -TTTGAATG
*
631942 TTTAAATG
1 TTTGAATG
631950 TTTGAATTTG
1 TTTGAA--TG
* *
631960 ATATGGATG
1 -TTTGAATG
631969 TTTGAATG
1 TTTGAATG
631977 TTTGAAT
1 TTTGAAT
631984 TTGATATGGA
Statistics
Matches: 72, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
8 48 0.67
9 6 0.08
10 6 0.08
11 12 0.17
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (8 bp):
TTTGAATG
Found at i:631915 original size:27 final size:27
Alignment explanation
Indices: 631882--632009 Score: 238
Period size: 27 Copynumber: 4.7 Consensus size: 27
631872 TGATATATTT
631882 TGGATGTTTGAATGTTTGAATTTGATA
1 TGGATGTTTGAATGTTTGAATTTGATA
631909 TGGATGTTTGAATGTTTGAATTTGATA
1 TGGATGTTTGAATGTTTGAATTTGATA
*
631936 TGGATGTTTAAATGTTTGAATTTGATA
1 TGGATGTTTGAATGTTTGAATTTGATA
631963 TGGATGTTTGAATGTTTGAATTTGATA
1 TGGATGTTTGAATGTTTGAATTTGATA
*
631990 TGGATGTTTGGATGTTTGAA
1 TGGATGTTTGAATGTTTGAA
632010 CATAAATGCT
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.48
Consensus pattern (27 bp):
TGGATGTTTGAATGTTTGAATTTGATA
Found at i:632735 original size:64 final size:65
Alignment explanation
Indices: 632662--632800 Score: 156
Period size: 65 Copynumber: 2.2 Consensus size: 65
632652 GCACTATTGA
* * * **
632662 ATGCATCGATACACACCTA-ATTTAATT-TAACATCAAATGCATTATGTGTACCGATGTACAGAC
1 ATGCATCGATACAC-CCCAGATTTAATTGAAACATCAAATGCATTATATGTACCGATACACAGAC
632725 C
65 C
* * * * * *
632726 ATGCATCGATAGACCCCAGGTTTTATTGAAACATCGAATGCATTTTATGTACTGATACACAGACC
1 ATGCATCGATACACCCCAGATTTAATTGAAACATCAAATGCATTATATGTACCGATACACAGACC
632791 ATGCATCGAT
1 ATGCATCGAT
632801 TCACTCCTGG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
63 3 0.05
64 19 0.31
65 40 0.65
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (65 bp):
ATGCATCGATACACCCCAGATTTAATTGAAACATCAAATGCATTATATGTACCGATACACAGACC
Found at i:632759 original size:65 final size:65
Alignment explanation
Indices: 632690--632850 Score: 182
Period size: 65 Copynumber: 2.5 Consensus size: 65
632680 AATTTAATTT
* *
632690 AACATCAAATGCATTATGTGTACCGATGTACAGACCATGCATCGATAGACCCCAGG-TTTTATTG
1 AACATCAAATGCATTATGTGTACCGATGTACAGACCATGCATCGATACACCCCAGGCTCTT-TTG
632754 A
65 A
* * * * ** * * *
632755 AACATCGAATGCATTTTATGTACTGATACACAGACCATGCATCGATTCACTCCTGGCTCTTTTGA
1 AACATCAAATGCATTATGTGTACCGATGTACAGACCATGCATCGATACACCCCAGGCTCTTTTGA
*
632820 AACATCAAATGCAATTA-GTGTACCAATGTAC
1 AACATCAAATGC-ATTATGTGTACCGATGTAC
632851 CCCACGTGTA
Statistics
Matches: 76, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
65 70 0.92
66 6 0.08
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (65 bp):
AACATCAAATGCATTATGTGTACCGATGTACAGACCATGCATCGATACACCCCAGGCTCTTTTGA
Found at i:633693 original size:54 final size:54
Alignment explanation
Indices: 633635--634081 Score: 527
Period size: 54 Copynumber: 8.3 Consensus size: 54
633625 TTCATTGCAA
* * * * * * * * **
633635 TGCACACGTAGTACCCATACGGTCATTCATAAACATATTATGAATTTCTTGGGT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGAAT
* * *
633689 TGCACACATAGTGCCGAAAAGGTTATTCATCAGCATATGATGAATTTCATGAAT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGAAT
* * * *
633743 TTCACACTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTGATT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGAAT
** * *
633797 TGCACACTTAGTGTTGAAACGGTTATTCATCAACATATGATGAATTCCGTGAAT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGAAT
* * *
633851 TGCACACTTAGTGCCGAAATGGTTATTCATCAACATATGATGAATTCCATGATT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGAAT
* * *
633905 TGTACACTTAGTGTCGAAACGGTTATTCATCAACATATGATGAA-TTCTGTGAAT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTC-ATGAAT
* * * * * ***
633959 TACATACTTAGTGCCGAAATGGTTATTCATCAATATATAATGAATTTCATTTTT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGAAT
* * *
634013 TACACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAAT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGAAT
*
634067 TGCACACATAGTGCC
1 TGCACACTTAGTGCC
634082 TTTTGGTAAT
Statistics
Matches: 335, Mismatches: 56, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
53 2 0.01
54 330 0.99
55 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (54 bp):
TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGAAT
Found at i:633800 original size:108 final size:108
Alignment explanation
Indices: 633635--634081 Score: 588
Period size: 108 Copynumber: 4.1 Consensus size: 108
633625 TTCATTGCAA
* * * * * * * * ** *
633635 TGCACACGTAGTACCCATACGGTCATTCATAAACATATTATGAATTTCTTGGGTTGCACACATAG
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGATTTGCACACTTAG
* * * *
633700 TGCCGAAAAGGTTATTCATCAGCATATGATGAATTTCATGAAT
66 TGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAAT
* * *
633743 TTCACACTTAGTGTCGAAACGGTTATTCATCAACATATGATGAATTTCGTGATTTGCACACTTAG
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGATTTGCACACTTAG
**
633808 TGTTGAAACGGTTATTCATCAACATATGATGAATTCCGTGAAT
66 TGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAAT
* * *
633851 TGCACACTTAGTGCCGAAATGGTTATTCATCAACATATGATGAATTCCATGATTTGTACACTTAG
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGATTTGCACACTTAG
* *
633916 TGTCGAAACGGTTATTCATCAACATATGATGAATTCTGTGAAT
66 TGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAAT
* * * * * ** *
633959 TACATACTTAGTGCCGAAATGGTTATTCATCAATATATAATGAATTTCATTTTTTACACACTTAG
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGATTTGCACACTTAG
634024 TGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAAT
66 TGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAAT
*
634067 TGCACACATAGTGCC
1 TGCACACTTAGTGCC
634082 TTTTGGTAAT
Statistics
Matches: 298, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 298 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (108 bp):
TGCACACTTAGTGCCGAAACGGTTATTCATCAACATATGATGAATTTCATGATTTGCACACTTAG
TGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAAT
Found at i:634479 original size:20 final size:20
Alignment explanation
Indices: 634409--634480 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
634399 TGGCTCAATA
* *
634409 GTATCGATACCCCTACCATG
1 GTATCGATACCCTTACTATG
* * *
634429 GTATCGAAACTACTATATTATG
1 GTATCGATAC-CCT-TACTATG
* *
634451 GTGTTGATACCCTTACTATG
1 GTATCGATACCCTTACTATG
634471 GTATCGATAC
1 GTATCGATAC
634481 TATTATACCA
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
20 23 0.61
21 3 0.08
22 12 0.32
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (20 bp):
GTATCGATACCCTTACTATG
Found at i:634502 original size:42 final size:42
Alignment explanation
Indices: 634406--634502 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
634396 TTCTGGCTCA
**
634406 ATAGTATCGATACCCCTACCATGGTATCGAAACTACTATATT
1 ATAGTATCGATACCCCTACCATGGTATCGAAACTACTATACC
* * * * * * *
634448 ATGGTGTTGATACCCTTACTATGGTATCGATACTATTATACC
1 ATAGTATCGATACCCCTACCATGGTATCGAAACTACTATACC
634490 ATAGTATCGATAC
1 ATAGTATCGATAC
634503 TCTATTACAG
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (42 bp):
ATAGTATCGATACCCCTACCATGGTATCGAAACTACTATACC
Found at i:636041 original size:11 final size:10
Alignment explanation
Indices: 636011--636044 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
636001 AAAATTGACT
*
636011 AAATTGAAAA
1 AAATTTAAAA
*
636021 GAATTTAAAA
1 AAATTTAAAA
636031 AAATTTAAAA
1 AAATTTAAAA
636041 AAAT
1 AAAT
636045 CAAGGGTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:637427 original size:29 final size:29
Alignment explanation
Indices: 637393--637463 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
637383 TATTAATAAT
*
637393 AATATATAATA-ATATGTGTATATTAT-AAA
1 AATATATAATATATATAT-TATATT-TCAAA
* *
637422 ACTATATTATATATATATTATATTTCAAA
1 AATATATAATATATATATTATATTTCAAA
637451 AATAATATAATAT
1 AAT-ATATAATAT
637464 GGTCTCAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 20 0.59
30 13 0.38
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AATATATAATATATATATTATATTTCAAA
Found at i:637545 original size:16 final size:15
Alignment explanation
Indices: 637520--637553 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
637510 TTAAAACTAT
637520 AAATATATGTTTTCA
1 AAATATATGTTTTCA
637535 AAATAATATGTTTTCA
1 AAAT-ATATGTTTTCA
637551 AAA
1 AAA
637554 ACTGTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (15 bp):
AAATATATGTTTTCA
Found at i:637618 original size:15 final size:15
Alignment explanation
Indices: 637570--637621 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
637560 TTTTAAAAAC
*
637570 TATATATTATATATT
1 TATATATTATATATA
* *
637585 TTTGAAATTATATATA
1 TAT-ATATTATATATA
637601 TATATATTAT-TATCA
1 TATATATTATATAT-A
637616 TATATA
1 TATATA
637622 CTAAATAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 3 0.10
15 15 0.50
16 12 0.40
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
TATATATTATATATA
Found at i:639331 original size:15 final size:15
Alignment explanation
Indices: 639311--639343 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
639301 GAGCCCATAC
639311 GGCGTATAGGGGGAG
1 GGCGTATAGGGGGAG
639326 GGCGTATAGGGGGAG
1 GGCGTATAGGGGGAG
639341 GGC
1 GGC
639344 TCGACAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.61, T:0.12
Consensus pattern (15 bp):
GGCGTATAGGGGGAG
Found at i:643974 original size:24 final size:24
Alignment explanation
Indices: 643947--643994 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
643937 TTCTTCCCCC
643947 AATTCTTACTC-TTGTTCTCGCCCT
1 AATTCTTACTCGTT-TTCTCGCCCT
*
643971 AATTCTTCCTCGTTTTCTCGCCCT
1 AATTCTTACTCGTTTTCTCGCCCT
643995 TCTTCTCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.10, C:0.35, G:0.08, T:0.46
Consensus pattern (24 bp):
AATTCTTACTCGTTTTCTCGCCCT
Found at i:649099 original size:24 final size:24
Alignment explanation
Indices: 649028--649099 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
649018 TCTTCCCCCA
* *
649028 ATTCTTCCTC-TTGTTCTCGCTCTA
1 ATTCTTCCTCGTT-TTCTCGCCCTT
649052 ATTCTTCCTCGTTTTCTCGCCCTT
1 ATTCTTCCTCGTTTTCTCGCCCTT
649076 ATTCTTCCTCGTTTTCTCGCCCTT
1 ATTCTTCCTCGTTTTCTCGCCCTT
649100 CTCCTCCCAC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 43 0.96
25 2 0.04
ACGTcount: A:0.06, C:0.36, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTCTTCCTCGTTTTCTCGCCCTT
Found at i:651044 original size:25 final size:25
Alignment explanation
Indices: 650981--651044 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
650971 ATGTAACATG
* *
650981 AATAACATGCAATGCAACATGAATT
1 AATAACATGCAATTCAACATGAACT
*
651006 AATAACATGCAATTCTACATGAACT
1 AATAACATGCAATTCAACATGAACT
*
651031 AATATCATGCAATT
1 AATAACATGCAATT
651045 ATTATTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.28
Consensus pattern (25 bp):
AATAACATGCAATTCAACATGAACT
Found at i:653064 original size:3 final size:3
Alignment explanation
Indices: 653047--653099 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
653037 AATATTTTAA
*
653047 AAT AAC AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
653094 AAT AAT
1 AAT AAT
653100 GATGATGATG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:654028 original size:18 final size:18
Alignment explanation
Indices: 654007--654041 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
653997 AGTTTATGGT
654007 GTTCCATTTGTTTTAGGC
1 GTTCCATTTGTTTTAGGC
*
654025 GTTCCTTTTGTTTTAGG
1 GTTCCATTTGTTTTAGG
654042 TGTTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.14, G:0.23, T:0.54
Consensus pattern (18 bp):
GTTCCATTTGTTTTAGGC
Found at i:654051 original size:18 final size:18
Alignment explanation
Indices: 654013--654052 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
654003 TGGTGTTCCA
*
654013 TTTGTTTTAGGCGTTCCT
1 TTTGTTTTAGGCGTTACT
* *
654031 TTTGTTTTAGGTGTTATT
1 TTTGTTTTAGGCGTTACT
654049 TTTG
1 TTTG
654053 CTTGGAGTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.07, G:0.23, T:0.62
Consensus pattern (18 bp):
TTTGTTTTAGGCGTTACT
Found at i:656896 original size:20 final size:20
Alignment explanation
Indices: 656859--656896 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
656849 TTATTAGAAA
* *
656859 AAAATATTATTATTATTTTT
1 AAAATATTATAATAATTTTT
656879 AAAATATTATAATAATTT
1 AAAATATTATAATAATTT
656897 ATTTAATATT
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAAATATTATAATAATTTTT
Found at i:659174 original size:24 final size:24
Alignment explanation
Indices: 659147--659194 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
659137 TTCTTCCCCC
659147 AATTCTTACTC-TTGTTCTCGCCCT
1 AATTCTTACTCGTT-TTCTCGCCCT
*
659171 AATTCTTCCTCGTTTTCTCGCCCT
1 AATTCTTACTCGTTTTCTCGCCCT
659195 TCTTCTCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.10, C:0.35, G:0.08, T:0.46
Consensus pattern (24 bp):
AATTCTTACTCGTTTTCTCGCCCT
Found at i:664370 original size:24 final size:24
Alignment explanation
Indices: 664299--664370 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
664289 TCTTCCCCCA
*
664299 ATTCTTCCTC-TTGTTCTCGCCCTA
1 ATTCTTCCTCGTT-TTCTCGCCCTT
664323 ATTCTTCCTCGTTTTCTCGCCCTT
1 ATTCTTCCTCGTTTTCTCGCCCTT
664347 ATTCTTCCTCGTTTTCTCGCCCTT
1 ATTCTTCCTCGTTTTCTCGCCCTT
664371 CTCCTCCCAC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
24 44 0.96
25 2 0.04
ACGTcount: A:0.06, C:0.38, G:0.08, T:0.49
Consensus pattern (24 bp):
ATTCTTCCTCGTTTTCTCGCCCTT
Found at i:666305 original size:25 final size:25
Alignment explanation
Indices: 666242--666305 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
666232 ATGTAACATG
* *
666242 AATAACATGCAATGCAACATGAATT
1 AATAACATGCAATTCAACATGAACT
*
666267 AATAACATGCAATTCTACATGAACT
1 AATAACATGCAATTCAACATGAACT
*
666292 AATATCATGCAATT
1 AATAACATGCAATT
666306 ATTATTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.28
Consensus pattern (25 bp):
AATAACATGCAATTCAACATGAACT
Found at i:668314 original size:3 final size:3
Alignment explanation
Indices: 668297--668343 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
668287 AATATTTTAA
*
668297 AAT AAC AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
668344 GATGATGATG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:672434 original size:85 final size:85
Alignment explanation
Indices: 672291--672461 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
672281 ATCCTTCTTA
672291 CACCCCTAGAATTTATTTAATTTCACTTCAACTTACTGATATTGAAAATTACAATATCTGGAGTC
1 CACCCCTAGAATTTATTTAATTTCACTTCAACTTACTGATATTGAAAATTACAATATCTGGAGTC
672356 GTTCTTTACGAATCGTATTT
66 GTTCTTTACGAATCGTATTT
672376 CACCCCTAGAATTTATTTAATTTCACTTCAACTTACTGATATTGAAAATTACAATATCTGGAGTC
1 CACCCCTAGAATTTATTTAATTTCACTTCAACTTACTGATATTGAAAATTACAATATCTGGAGTC
672441 GTTCTTTACGAATCGTATTT
66 GTTCTTTACGAATCGTATTT
672461 C
1 C
672462 TCGCCAAAAA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (85 bp):
CACCCCTAGAATTTATTTAATTTCACTTCAACTTACTGATATTGAAAATTACAATATCTGGAGTC
GTTCTTTACGAATCGTATTT
Found at i:673200 original size:24 final size:24
Alignment explanation
Indices: 673094--673193 Score: 91
Period size: 24 Copynumber: 4.2 Consensus size: 24
673084 GTAGTTAAAT
673094 AAATAATAATAATTAGATAATCAA
1 AAATAATAATAATTAGATAATCAA
*
673118 TAATAATAATAATTAGA-AAT--A
1 AAATAATAATAATTAGATAATCAA
* * * * *
673139 AAAT-GTAACATTTAGTATGATTTTAA
1 AAATAATAATAATTAG-AT-A-ATCAA
673165 AAATAATAATAATTAGATAATCAA
1 AAATAATAATAATTAGATAATCAA
673189 AAATA
1 AAATA
673194 TAAATAAAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
20 8 0.14
21 5 0.09
23 4 0.07
24 25 0.43
25 1 0.02
26 7 0.12
27 8 0.14
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAATAATAATTAGATAATCAA
Found at i:677072 original size:15 final size:15
Alignment explanation
Indices: 677052--677082 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
677042 TTGGTCAAGA
677052 TATCAACCAATCGAT
1 TATCAACCAATCGAT
*
677067 TATCAACCAATTGAT
1 TATCAACCAATCGAT
677082 T
1 T
677083 TGCTGATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (15 bp):
TATCAACCAATCGAT
Found at i:678655 original size:26 final size:26
Alignment explanation
Indices: 678619--678672 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
678609 ACTTAGTGCA
* * *
678619 TATGGTGGGCACTACGTTGTGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
678645 TATGGTGGGCACGACCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
678671 TA
1 TA
678673 GCAATTCAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.13, G:0.31, T:0.37
Consensus pattern (26 bp):
TATGGTGGGCACGACCTTATGTGTAT
Found at i:685385 original size:25 final size:26
Alignment explanation
Indices: 685318--685396 Score: 124
Period size: 26 Copynumber: 3.1 Consensus size: 26
685308 ACTTAGGGAA
**
685318 TATGGTGGGCACAACCTTATGTGTAT
1 TATGGTGGGCATGACCTTATGTGTAT
*
685344 TATGGTGGGCATGACCTTACGTGTAT
1 TATGGTGGGCATGACCTTATGTGTAT
685370 TATGGT-GGCATGACCTTATGTGTAT
1 TATGGTGGGCATGACCTTATGTGTAT
685395 TA
1 TA
685397 GCACTTCAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 20 0.41
26 29 0.59
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.37
Consensus pattern (26 bp):
TATGGTGGGCATGACCTTATGTGTAT
Found at i:687344 original size:39 final size:39
Alignment explanation
Indices: 687283--687427 Score: 195
Period size: 39 Copynumber: 3.7 Consensus size: 39
687273 AACAAAAGAC
* * * *
687283 TCTCCAACTTCCAAGA-ACTCTTATACTCACAATAAAACA
1 TCTCTAACTCCCAAGAGACTCTTAAATTCACAATAAAA-A
*
687322 -CTTTAACTCCCAAGAGACTCTTAAATTCACAATAAAAA
1 TCTCTAACTCCCAAGAGACTCTTAAATTCACAATAAAAA
*
687360 TCTCTAACTCCCAAGAGACTATTAAATTCACAATAAAAA
1 TCTCTAACTCCCAAGAGACTCTTAAATTCACAATAAAAA
* *
687399 TCTCTAACTCTCAAGAGACTCTTCAATTC
1 TCTCTAACTCCCAAGAGACTCTTAAATTC
687428 CCACTTAAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 13 0.14
39 81 0.86
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.28
Consensus pattern (39 bp):
TCTCTAACTCCCAAGAGACTCTTAAATTCACAATAAAAA
Found at i:698796 original size:13 final size:13
Alignment explanation
Indices: 698778--698815 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
698768 TAAACTGTTA
698778 AGCATTCTGTTTT
1 AGCATTCTGTTTT
698791 AGCATTCTGTTTT
1 AGCATTCTGTTTT
698804 AGCATTCTGTTT
1 AGCATTCTGTTT
698816 CATTAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (13 bp):
AGCATTCTGTTTT
Found at i:705576 original size:202 final size:203
Alignment explanation
Indices: 705230--705637 Score: 809
Period size: 202 Copynumber: 2.0 Consensus size: 203
705220 TCACAAAAAA
705230 TGGAATAGATGAATGAAAGAATAAAACTTTAAAAGAAATGGTGAACACTCTTTTTCTTAGCTCCG
1 TGGAATAGATGAATGAAAGAATAAAACTTTAAAAGAAATGGTGAACACTCTTTTTCTTAGCTCCG
705295 GTCTATCTTATAATATGTGGGGAGAGATCATACTTTTTGCTAATCATATACTTAATAAAGTGTCT
66 GTCTATCTTATAATATGTGGGGAGAGATCATACTTTTTGCTAATCATATACTTAATAAAGTGTCT
705360 CATAAAATGTTAGATTGTA-CTGAAATGAATTGTGGAAACTTCATGCTCCTAATTTAGATTATCT
131 CATAAAATGTTAGATTGTACCTGAAATGAATTGTGGAAACTTCATGCTCCTAATTTAGATTATCT
705424 AAAAGTGT
196 AAAAGTGT
705432 TGGAATAGATGAATGAAAGAATAAAACTTTAAAAGAAATGGTGAACACTCTTTTTCTTAGCTCCG
1 TGGAATAGATGAATGAAAGAATAAAACTTTAAAAGAAATGGTGAACACTCTTTTTCTTAGCTCCG
705497 GTCTATCTTATAATATGTGGGGAGAGATCATACTTTTTGCTAATCATATACTTAATAAAGTGTCT
66 GTCTATCTTATAATATGTGGGGAGAGATCATACTTTTTGCTAATCATATACTTAATAAAGTGTCT
705562 CATAAAATGTTAGATTGTACCTGAAATGAATTGTGGAAACTTCATGCTCCTAATTTAGATTATCT
131 CATAAAATGTTAGATTGTACCTGAAATGAATTGTGGAAACTTCATGCTCCTAATTTAGATTATCT
705627 AAAAGTGT
196 AAAAGTGT
705635 TGG
1 TGG
705638 GGTGCCTAAC
Statistics
Matches: 205, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
202 149 0.73
203 56 0.27
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (203 bp):
TGGAATAGATGAATGAAAGAATAAAACTTTAAAAGAAATGGTGAACACTCTTTTTCTTAGCTCCG
GTCTATCTTATAATATGTGGGGAGAGATCATACTTTTTGCTAATCATATACTTAATAAAGTGTCT
CATAAAATGTTAGATTGTACCTGAAATGAATTGTGGAAACTTCATGCTCCTAATTTAGATTATCT
AAAAGTGT
Found at i:719363 original size:18 final size:19
Alignment explanation
Indices: 719342--719388 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
719332 ATTTTTTTGA
*
719342 TTTATTCCTTTGTTTTA-T
1 TTTATTCCTTTATTTTACT
719360 TTTATGTCC-TTATTTTACT
1 TTTAT-TCCTTTATTTTACT
719379 TTTA-TCCTTT
1 TTTATTCCTTT
719389 CATTGTCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 3 0.12
18 14 0.56
19 8 0.32
ACGTcount: A:0.13, C:0.15, G:0.04, T:0.68
Consensus pattern (19 bp):
TTTATTCCTTTATTTTACT
Found at i:723786 original size:3 final size:3
Alignment explanation
Indices: 723778--723828 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
723768 TAATTAGTCG
723778 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
723826 TAA
1 TAA
723829 ATAAACAGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:729548 original size:20 final size:19
Alignment explanation
Indices: 729485--729552 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 19
729475 TTTTCTTTTT
*
729485 ATTTTCTTCTCCTTTTT-TC
1 ATTTTCTTCT-TTTTTTCTC
*
729504 ATTTTCCTT-TTTATTTTCTTT
1 ATTTT-CTTCTTT-TTTTC-TC
729525 ATTTTCTTCTTTTTTTCGTC
1 ATTTTCTTCTTTTTTTC-TC
729545 ATTTTCTT
1 ATTTTCTT
729553 AAGCGTAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.03
19 10 0.25
20 20 0.50
21 9 0.22
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.72
Consensus pattern (19 bp):
ATTTTCTTCTTTTTTTCTC
Found at i:741993 original size:42 final size:42
Alignment explanation
Indices: 741855--742006 Score: 123
Period size: 42 Copynumber: 3.5 Consensus size: 42
741845 GTGTATATTA
*
741855 AAAAACTATATAATATATATTATATTTCAAAAACAATAAAATATGTTCTC
1 AAAAACTATAT-ATATATA-TATATTTC---AA-AAT--AATATGTTTTC
* * * * *
741905 AAAGATTATATATAT-TATATACGTTTTCAAAA-ACTGT-TTTTT
1 AAAAACTATATATATATATATA---TTTCAAAATAATATGTTTTC
741947 AAAAACTATATATATATATATATTTCAAAATAATATGTTTTC
1 AAAAACTATATATATATATATATTTCAAAATAATATGTTTTC
741989 AAAAACTATAT-TATATAT
1 AAAAACTATATATATATAT
742007 CTTCAAAAAC
Statistics
Matches: 85, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
40 8 0.09
41 10 0.12
42 31 0.36
43 9 0.11
46 2 0.02
47 6 0.07
48 2 0.02
49 4 0.05
50 13 0.15
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (42 bp):
AAAAACTATATATATATATATATTTCAAAATAATATGTTTTC
Found at i:742609 original size:40 final size:40
Alignment explanation
Indices: 742563--742683 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 40
742553 TCCTTCGCCA
*
742563 TGAAGTTGAGTCAATCTATTGGGCACGATATTCTTTGTCG
1 TGAAGTTGAGTCAATCTATTGGGCACGATATTCTTCGTCG
**
742603 TGAAGTTGA---AATCCTA--GGTTAC----TTCTTCGTTC-
1 TGAAGTTGAGTCAAT-CTATTGGGCACGATATTCTTCG-TCG
742635 TGAAGTTGAGTCAATCTATTGGGCACGATA-TCATTCGTCG
1 TGAAGTTGAGTCAATCTATTGGGCACGATATTC-TTCGTCG
742675 TGAAGTTGA
1 TGAAGTTGA
742684 AATAGTTGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 26
0.67 0.05 0.28
Matches are distributed among these distances:
32 15 0.24
33 2 0.03
34 3 0.05
35 3 0.05
36 8 0.13
37 3 0.05
38 3 0.05
39 4 0.06
40 22 0.35
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (40 bp):
TGAAGTTGAGTCAATCTATTGGGCACGATATTCTTCGTCG
Found at i:742703 original size:72 final size:72
Alignment explanation
Indices: 742549--742718 Score: 227
Period size: 72 Copynumber: 2.4 Consensus size: 72
742539 ATGTAGTAGA
* *
742549 TGACTCCTTCGCCATGAAGTTGAGTCAATCTATTGGGCACGATATTCTTTGTCGTGAAGTTGAAA
1 TGACTCCTTCGTCATGAAGTTGAGTCAATCTATTGGGCACGATATTCTTCGTCGTGAAGTTGAAA
*
742614 TCCTAGG
66 TACTAGG
* *
742621 TTACTTCTTCGTTC-TGAAGTTGAGTCAATCTATTGGGCACGATA-TCATTCGTCGTGAAGTTGA
1 TGACTCCTTCG-TCATGAAGTTGAGTCAATCTATTGGGCACGATATTC-TTCGTCGTGAAGTTGA
* *
742684 AATAGTTGG
64 AATACTAGG
* *
742693 TGACTCCTTCGTCGTGAAGTTAAGTC
1 TGACTCCTTCGTCATGAAGTTGAGTC
742719 TAAATTGAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
71 4 0.05
72 80 0.94
73 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (72 bp):
TGACTCCTTCGTCATGAAGTTGAGTCAATCTATTGGGCACGATATTCTTCGTCGTGAAGTTGAAA
TACTAGG
Found at i:759866 original size:24 final size:24
Alignment explanation
Indices: 759852--759897 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
759842 GTGTTTTTGT
759852 AGCAGACGAAGCTTGTGCTTTTCC
1 AGCAGACGAAGCTTGTGCTTTTCC
* *
759876 AGCAGATGAAGCTTGTACTTTT
1 AGCAGACGAAGCTTGTGCTTTT
759898 GCATCAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (24 bp):
AGCAGACGAAGCTTGTGCTTTTCC
Found at i:759908 original size:24 final size:24
Alignment explanation
Indices: 759859--759908 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
759849 TGTAGCAGAC
* *
759859 GAAGCTTGTGCTTTTCCAGCAGAT
1 GAAGCTTGTACTTTTCCAGCAAAT
* *
759883 GAAGCTTGTACTTTTGCATCAAAT
1 GAAGCTTGTACTTTTCCAGCAAAT
759907 GA
1 GA
759909 GTACGCTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (24 bp):
GAAGCTTGTACTTTTCCAGCAAAT
Found at i:763641 original size:15 final size:13
Alignment explanation
Indices: 763623--763660 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
763613 TGAAATAAAG
763623 TAAATAAATAAACAT
1 TAAATAAA-AAA-AT
763638 TAAATAAAAAAAT
1 TAAATAAAAAAAT
763651 TAAA-AAAAAA
1 TAAATAAAAAA
763661 TAAAAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.26
13 6 0.26
14 3 0.13
15 8 0.35
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAATAAAAAAAT
Found at i:765134 original size:37 final size:40
Alignment explanation
Indices: 765087--765187 Score: 120
Period size: 37 Copynumber: 2.6 Consensus size: 40
765077 AAAGGTTATA
* *
765087 TATATTATATATGTTTTCAAAAACCGTT-TTTT-AAAAAC
1 TATATAATATATGTTTTCAAAAACAGTTGTTTTCAAAAAC
* *
765125 TATA-AATATATGTTTTCAAAATA-ATTTGTTTTCAAAACC
1 TATATAATATATGTTTTCAAAA-ACAGTTGTTTTCAAAAAC
*
765164 TATATATTATATGTTTTCAAAAAC
1 TATATAATATATGTTTTCAAAAAC
765188 TATATTATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
37 18 0.34
38 9 0.17
39 10 0.19
40 16 0.30
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.45
Consensus pattern (40 bp):
TATATAATATATGTTTTCAAAAACAGTTGTTTTCAAAAAC
Found at i:765175 original size:40 final size:38
Alignment explanation
Indices: 765085--765187 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 38
765075 TCAAAGGTTA
*
765085 TATATATTATATATGTTTTCAAAAACCGTTTTTTAAAAAC
1 TATATA-T-TATATGTTTTCAAAAACAGTTTTTTAAAAAC
* * *
765125 TATA-AATATATGTTTTCAAAATA-ATTTGTTTTCAAAACC
1 TATATATTATATGTTTTCAAAA-ACAGTT-TTTT-AAAAAC
765164 TATATATTATATGTTTTCAAAAAC
1 TATATATTATATGTTTTCAAAAAC
765188 TATATTATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
37 17 0.32
38 5 0.09
39 11 0.21
40 20 0.38
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.45
Consensus pattern (38 bp):
TATATATTATATGTTTTCAAAAACAGTTTTTTAAAAAC
Found at i:765205 original size:25 final size:24
Alignment explanation
Indices: 765151--765212 Score: 90
Period size: 24 Copynumber: 2.5 Consensus size: 24
765141 CAAAATAATT
*
765151 TGTTTTCAAAACCTATATATTATA
1 TGTTTTCAAAAACTATATATTATA
765175 TGTTTTCAAAAACTATAT-TATATA
1 TGTTTTCAAAAACTATATAT-TATA
765199 TGTTTTTCAAAAAC
1 TG-TTTTCAAAAAC
765213 CATTTTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 1 0.03
24 23 0.66
25 11 0.31
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (24 bp):
TGTTTTCAAAAACTATATATTATA
Found at i:765237 original size:101 final size:98
Alignment explanation
Indices: 765087--765281 Score: 277
Period size: 99 Copynumber: 1.9 Consensus size: 98
765077 AAAGGTTATA
* *
765087 TATATTATATATGTTTTCAAAAACCGTTTTTTAAAAACTATAAATATATGTTTTCAAAATAATT-
1 TATATTATATATGTTTTCAAAAACCG-ATTTTAAAAACTATAAATATATGCTTTC-AAA-AATTG
*
765151 TGTTTTCAAAACCTATATATTATATGTTTTCAAAAAC
63 T-TTTTCAAAAACTATATATTATATGTTTTCAAAAAC
*
765188 TATATTATATATGTTTTTCAAAAACC-ATTTTAAAAACTATATATTATATGCTTTCAAAAATTGT
1 TATATTATATATG-TTTTCAAAAACCGATTTTAAAAACTATA-AATATATGCTTTCAAAAATTGT
*
765252 TTTTTAAAAACTATATATTATATGTTTTCA
64 TTTTCAAAAACTATATATTATATGTTTTCA
765282 GAAATATGTT
Statistics
Matches: 86, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
99 32 0.37
100 18 0.21
101 24 0.28
102 12 0.14
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (98 bp):
TATATTATATATGTTTTCAAAAACCGATTTTAAAAACTATAAATATATGCTTTCAAAAATTGTTT
TTCAAAAACTATATATTATATGTTTTCAAAAAC
Found at i:765266 original size:38 final size:38
Alignment explanation
Indices: 765172--765312 Score: 148
Period size: 38 Copynumber: 3.7 Consensus size: 38
765162 CCTATATATT
* *
765172 ATATGTTTTCAAAAACTATAT-TATATATGTTTTTCAAAA
1 ATATGTTTTTAAAAACTATATAT-TATATG-CTTTCAAAA
*
765211 ACCA---TTTTAAAAACTATATATTATATGCTTTCAAAA
1 A-TATGTTTTTAAAAACTATATATTATATGCTTTCAAAA
* *
765247 AT-TGTTTTTTAAAAACTATATATTATATGTTTTCAGAA
1 ATATG-TTTTTAAAAACTATATATTATATGCTTTCAAAA
* *
765285 ATATGTTTTCAAAAACTATATTTTATAT
1 ATATGTTTTTAAAAACTATATATTATAT
765313 ATTCAAAGAC
Statistics
Matches: 87, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
36 9 0.10
37 20 0.23
38 54 0.62
39 3 0.03
40 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (38 bp):
ATATGTTTTTAAAAACTATATATTATATGCTTTCAAAA
Found at i:765351 original size:23 final size:24
Alignment explanation
Indices: 765324--765372 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
765314 TTCAAAGACC
765324 ATTTTAAAAACTATATAT-TATAT
1 ATTTTAAAAACTATATATATATAT
* *
765347 ATTTTTAAAATTATATATATATAT
1 ATTTTAAAAACTATATATATATAT
765371 AT
1 AT
765373 ATATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTTTAAAAACTATATATATATAT
Found at i:765363 original size:2 final size:2
Alignment explanation
Indices: 765358--765393 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
765348 TTTTTAAAAT
765358 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TCA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
765394 CTAAATAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.91
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:767981 original size:24 final size:24
Alignment explanation
Indices: 767954--768000 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
767944 AATTTCTCAT
**
767954 CAAGGGTCCATATATTTTTGTGTC
1 CAAGGGTCCATATAAATTTGTGTC
767978 CAAGGGTCCATATAAATTTGTGT
1 CAAGGGTCCATATAAATTTGTGT
768001 TTGTTTCAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
CAAGGGTCCATATAAATTTGTGTC
Found at i:768493 original size:25 final size:25
Alignment explanation
Indices: 768459--768517 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
768449 ATGTAACATG
*
768459 AATAACATGCAATGCAACATGAATT
1 AATAACATGCAATGCAACATGAACT
* *
768484 AATAACATGCAATGCTACATTAACT
1 AATAACATGCAATGCAACATGAACT
*
768509 AATAGCATG
1 AATAACATG
768518 TAATTATTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (25 bp):
AATAACATGCAATGCAACATGAACT
Found at i:768873 original size:35 final size:35
Alignment explanation
Indices: 768827--768896 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
768817 GTCAATGATT
768827 AACAATTTGGGGATTCGAACAATCGACTCGAGTAA
1 AACAATTTGGGGATTCGAACAATCGACTCGAGTAA
768862 AACAATTTGGGGATTCGAACAATCGACTCGAGTAA
1 AACAATTTGGGGATTCGAACAATCGACTCGAGTAA
768897 GCGAGCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (35 bp):
AACAATTTGGGGATTCGAACAATCGACTCGAGTAA
Found at i:770180 original size:3 final size:3
Alignment explanation
Indices: 770166--770249 Score: 134
Period size: 3 Copynumber: 28.3 Consensus size: 3
770156 TTTGGATTTG
* * *
770166 TAA TAG TAA TAA TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
770214 T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
770250 GTAAGGTAAG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
2 2 0.03
3 72 0.97
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:772404 original size:12 final size:12
Alignment explanation
Indices: 772387--772411 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
772377 GTGAAATAAG
772387 CTTTTAAACAGA
1 CTTTTAAACAGA
772399 CTTTTAAACAGA
1 CTTTTAAACAGA
772411 C
1 C
772412 CAGACTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (12 bp):
CTTTTAAACAGA
Found at i:775010 original size:24 final size:25
Alignment explanation
Indices: 774981--775048 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
774971 AAAAACTGGT
774981 TCGGAT-TATAACCGGTTTGGAGAG
1 TCGGATATATAACCGGTTTGGAGAG
* *
775005 TCGGATGATGTAACCGGTTTGGAGGG
1 TCGGAT-ATATAACCGGTTTGGAGAG
*
775031 TCGGATGATGTAACCGGT
1 TCGGAT-ATATAACCGGT
775049 GTAACCGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
24 6 0.15
26 34 0.85
ACGTcount: A:0.22, C:0.13, G:0.37, T:0.28
Consensus pattern (25 bp):
TCGGATATATAACCGGTTTGGAGAG
Found at i:775020 original size:26 final size:26
Alignment explanation
Indices: 774989--775048 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
774979 GTTCGGATTA
774989 TAACCGGTTTGGAGAGTCGGATGATG
1 TAACCGGTTTGGAGAGTCGGATGATG
*
775015 TAACCGGTTTGGAGGGTCGGATGATG
1 TAACCGGTTTGGAGAGTCGGATGATG
775041 TAACCGGT
1 TAACCGGT
775049 GTAACCGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.22, C:0.13, G:0.38, T:0.27
Consensus pattern (26 bp):
TAACCGGTTTGGAGAGTCGGATGATG
Found at i:775600 original size:16 final size:16
Alignment explanation
Indices: 775576--775609 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
775566 TTGAATACAA
775576 TAAATAATATTAGTTAT
1 TAAATAATATTA-TTAT
775593 TAAA-AATATTATTAT
1 TAAATAATATTATTAT
775608 TA
1 TA
775610 TTATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 7 0.41
17 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TAAATAATATTATTAT
Found at i:775612 original size:18 final size:19
Alignment explanation
Indices: 775577--775612 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
775567 TGAATACAAT
775577 AAATAATATTAGTTATTAA
1 AAATAATATTAGTTATTAA
*
775596 AAATATTATTA-TTATTA
1 AAATAATATTAGTTATTA
775613 TTTTTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AAATAATATTAGTTATTAA
Found at i:776967 original size:20 final size:21
Alignment explanation
Indices: 776928--776969 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
776918 GATACTGAGT
**
776928 AAGGAGTATAGTATTGATACC
1 AAGGAGTATAGTATCAATACC
776949 AAGG-GTATAGTATCAATACC
1 AAGGAGTATAGTATCAATACC
776969 A
1 A
776970 TTTCCAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.26
Consensus pattern (21 bp):
AAGGAGTATAGTATCAATACC
Found at i:778550 original size:23 final size:23
Alignment explanation
Indices: 778523--778567 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
778513 GGACATATAT
*
778523 GTGGTCCTTCGAGACATTTTTAC
1 GTGGTCCTTCGAGACAATTTTAC
*
778546 GTGGTCCTTCGGGACAATTTTA
1 GTGGTCCTTCGAGACAATTTTA
778568 TATGCCACTC
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:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (23 bp):
GTGGTCCTTCGAGACAATTTTAC
Found at i:783524 original size:12 final size:12
Alignment explanation
Indices: 783501--783530 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
783491 AAATAATGCT
783501 AATAATAATAAG
1 AATAATAATAAG
783513 AATAATAATAAG
1 AATAATAATAAG
*
783525 GATAAT
1 AATAAT
783531 GAGATGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (12 bp):
AATAATAATAAG
Found at i:784226 original size:23 final size:22
Alignment explanation
Indices: 784169--784232 Score: 85
Period size: 21 Copynumber: 2.9 Consensus size: 22
784159 GAGTCGAGGG
784169 TTCTACGTGGTCCTTCGGGACA
1 TTCTACGTGGTCCTTCGGGACA
* *
784191 -TATATGTGGTCCTTCGGGACA
1 TTCTACGTGGTCCTTCGGGACA
*
784212 TTTCTACGTGGTCCTTGGGGA
1 -TTCTACGTGGTCCTTCGGGA
784233 TTATTTTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 19 0.54
23 16 0.46
ACGTcount: A:0.14, C:0.22, G:0.30, T:0.34
Consensus pattern (22 bp):
TTCTACGTGGTCCTTCGGGACA
Found at i:793111 original size:2 final size:2
Alignment explanation
Indices: 793104--793169 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
793094 TGAAAAATGC
793104 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
793146 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
793170 CATGGGTCTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:793229 original size:14 final size:14
Alignment explanation
Indices: 793210--793239 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
793200 AAAGCGCAAT
793210 AATTAAAAAACTAA
1 AATTAAAAAACTAA
*
793224 AATTAAAGAACTAA
1 AATTAAAAAACTAA
793238 AA
1 AA
793240 AATGAAGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (14 bp):
AATTAAAAAACTAA
Found at i:795268 original size:105 final size:104
Alignment explanation
Indices: 795113--795454 Score: 459
Period size: 105 Copynumber: 3.2 Consensus size: 104
795103 AGGTTGAACA
* * * * *
795113 AGTTCTTCTCATTATGAATTTCTTATAGAAATGTTGGTCTACCTTATTCTGTGATGGATTTGAAA
1 AGTTCTTCTCATTATGAA-CTCTTCTAGAAATGTTGGTCCACCTTCTTCTGCGATGGATTTGAAA
* *
795178 GGAACTTATTCTTCTCATTACGAACTTTTTCCTTTGGGGTG
65 GGAAC-TATTCTTCTCATTATGAACTTTCTCCTTTGGGGTG
*
795219 AGTTCTTCTCATTATGAACTCTTCTAGAAATGTTGGTCCACCTCCTTCTGCGATGGATTTGAAAG
1 AGTTCTTCTCATTATGAACTCTTCTAGAAATGTTGGTCCACCTTCTTCTGCGATGGATTTGAAAG
** *
795284 GAACCCGTTCTTCTTATTATGAACTTTCTCCTTTGGGGTG
66 GAA-CTATTCTTCTCATTATGAACTTTCTCCTTTGGGGTG
* * * * * * *
795324 AGTTGTTCTCATTATCAACGCTTCTGGAAATATTGGTACACTTTCTTCTGCGATGGATTTGAAAG
1 AGTTCTTCTCATTATGAACTCTTCTAGAAATGTTGGTCCACCTTCTTCTGCGATGGATTTGAAAG
* *
795389 GAACTAGTTATTCTCATTATGAACATTCTCCTTTGGGGTG
66 GAACTA-TTCTTCTCATTATGAACTTTCTCCTTTGGGGTG
*
795429 AGTTCTTCTCATTATTAACTCTTCTA
1 AGTTCTTCTCATTATGAACTCTTCTA
795455 TTGGTAATAC
Statistics
Matches: 206, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
104 1 0.00
105 186 0.90
106 19 0.09
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (104 bp):
AGTTCTTCTCATTATGAACTCTTCTAGAAATGTTGGTCCACCTTCTTCTGCGATGGATTTGAAAG
GAACTATTCTTCTCATTATGAACTTTCTCCTTTGGGGTG
Found at i:796361 original size:66 final size:66
Alignment explanation
Indices: 796149--796361 Score: 179
Period size: 66 Copynumber: 3.3 Consensus size: 66
796139 ATTTTGAGAA
* * * * * * *
796149 AAACAATCTCAAGTAAGAT-CAATTTTGTTTCGAGTGAAACAATTTCAAAATTTGTGCTTCAAAG
1 AAACTATCTCAAGTGAGATAAAAATTTGATTCAAGTGAAACAATTTCAAAATTTGTGTTTC-AAG
796213 GG
65 GG
* * * * * * * *
796215 -CACTTATCTCAAGTGAGACAAAAATTCT-A---AA-TGAAATAACTTGACAATTCGTATTTCAA
1 AAAC-TATCTCAAGTGAGATAAAAATT-TGATTCAAGTGAAACAATTTCAAAATTTGTGTTTCAA
*
796274 GAG
64 GGG
*
796277 AAAATATCTCAAGTGAGATAAAAATTTGATTCAAGTGAAACAATTTCAAAATTTGTGTTTCAAGG
1 AAACTATCTCAAGTGAGATAAAAATTTGATTCAAGTGAAACAATTTCAAAATTTGTGTTTCAAGG
796342 G
66 G
* *
796343 AAACTGTCTCAAGCGAGAT
1 AAACTATCTCAAGTGAGAT
796362 GAAATTTATT
Statistics
Matches: 109, Mismatches: 29, Indels: 18
0.70 0.19 0.12
Matches are distributed among these distances:
61 1 0.01
62 26 0.24
63 20 0.18
64 1 0.01
65 4 0.04
66 52 0.48
67 4 0.04
68 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (66 bp):
AAACTATCTCAAGTGAGATAAAAATTTGATTCAAGTGAAACAATTTCAAAATTTGTGTTTCAAGG
G
Found at i:798412 original size:16 final size:16
Alignment explanation
Indices: 798393--798440 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
798383 TTCAAAATTT
798393 TTCTTTTTATTTCTTC
1 TTCTTTTTATTTCTTC
* *
798409 TTCTTTTCATTAT-TTT
1 TTCTTTTTATT-TCTTC
798425 TTCATTTTTATTTCTT
1 TTC-TTTTTATTTCTT
798441 TTTCCTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (16 bp):
TTCTTTTTATTTCTTC
Found at i:798438 original size:11 final size:9
Alignment explanation
Indices: 798390--798484 Score: 52
Period size: 11 Copynumber: 9.8 Consensus size: 9
798380 TTCTTCAAAA
798390 TTTTTCTTT
1 TTTTTCTTT
798399 TTATTTCTTCT
1 TT-TTTCTT-T
798410 TCTTTTCATTAT
1 T-TTTTC-TT-T
798422 TTTTTCATTT
1 TTTTTC-TTT
798432 TTATTTC--T
1 TT-TTTCTTT
*
798440 TTTTCCTTT
1 TTTTTCTTT
798449 TCTCTTTC-TT
1 T-T-TTTCTTT
*
798459 TTTTGCTTT
1 TTTTTCTTT
*
798468 TTTGCTCTTT
1 TTT-TTCTTT
798478 TTTTTCT
1 TTTTTCT
798485 CTCATTTCTT
Statistics
Matches: 68, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
7 3 0.04
8 6 0.09
9 13 0.19
10 20 0.29
11 21 0.31
12 5 0.07
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:804858 original size:24 final size:23
Alignment explanation
Indices: 804796--804858 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
804786 GAGGAGCCAA
* *
804796 AATTTAAATTGAAATTGAAACTC
1 AATTAAAATTGAAATTCAAACTC
* *
804819 ATATTGAAATTTAAATTCAAACTCC
1 A-ATTAAAATTGAAATTCAAACT-C
*
804844 AATTAAAAATGAAAT
1 AATTAAAATTGAAAT
804859 GAACTCGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 1 0.03
24 29 0.91
25 2 0.06
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (23 bp):
AATTAAAATTGAAATTCAAACTC
Found at i:808855 original size:200 final size:200
Alignment explanation
Indices: 807967--808911 Score: 1362
Period size: 198 Copynumber: 4.7 Consensus size: 200
807957 ATGTGTAATT
* * * * *
807967 AAAAAATGTATCGATACTA-TTTAAAAAATAGT-GATACATTTTGTTTACCTATTCTCTCGTTAA
1 AAAAAAAGTATCGATACAACTTTAAAAAGTA-TCGATACTTTTTGCTTACCTATTCTCTCGTTAA
* *
808030 ATCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTATGTTATAATAATC-AGTTTTGAT
65 ACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATCGA-TTTTGAT
* * *
808094 GTTTTAAGGATCTATATTTCTCATACATGTATCGATACTTTATGTGTGCATCTCGTTTGGGATT-
129 GTTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGGATTC
808158 ATAGTGG
194 ATAGTGG
* * *
808165 ACAAAAAGTATCGATACAAC-TTCAAAAGTATCGATACTTTTTGCTTACATATTCTCTCGTTAAA
1 AAAAAAAGTATCGATACAACTTTAAAAAGTATCGATACTTTTTGCTTACCTATTCTCTCGTTAAA
* * * *
808229 TCGGTATATTTTTACCAGTTACATTGTAAATTTACCTATTACATTATAATAATTGATTTTGATGT
66 CCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATCGATTTTGATGT
* *
808294 TTTAAGGATCGATACTTCTCATACATGTATCGATGCTTTATG-GTACATCTCGTTTGGGATTCAT
131 TTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGGATTCAT
808358 AGTGG
196 AGTGG
* *
808363 ACAAAAAGTATCGATACAACTTAAAAAAGTATCGATACTTTTTGCTTACCTATTCTCTCGTTAAA
1 AAAAAAAGTATCGATACAACTTTAAAAAGTATCGATACTTTTTGCTTACCTATTCTCTCGTTAAA
*
808428 CCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATTGATTTTGATGT
66 CCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATCGATTTTGATGT
* *
808493 TTTAAGGATCGATACTTTTTCATACATGTATCAATACTTTATGCGTGCATCTCGTTTGGGATTCA
131 TTTAAGGATCGATAC-TTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGGATTCA
*
808558 TAATGG
195 TAGTGG
* * * *
808564 ACAAAAAAGTATCGATACAAATTAAAAAAGTATCGATACTTTTTGCTTATCTATTCTCTCTTTAA
1 A-AAAAAAGTATCGATACAACTTTAAAAAGTATCGATACTTTTTGCTTACCTATTCTCTCGTTAA
* * * * *
808629 ACTGGTATATTTTTACCGGTTACATTGTATATTTACTTATTACGTTATAACAATCGATTTCGATG
65 ACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATCGATTTTGATG
* * *
808694 CTTTAAGGATTGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGAGATTCA
130 TTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGGATTCA
*
808759 TACTGG
195 TAGTGG
* * * * * *
808765 AAAAAAAGTATCGATACAACTTTAAAAAGTATCGATAATTATTGATGACCTATTTTCTCATTAAA
1 AAAAAAAGTATCGATACAACTTTAAAAAGTATCGATACTTTTTGCTTACCTATTCTCTCGTTAAA
* * ** **
808830 CCGGTATATTTTTACCGATTACATTGTAAATTTACCTTTTACGTTATAATAATCGGGTACGATGT
66 CCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATCGATTTTGATGT
808895 TTTAAGGATCGATACTT
131 TTTAAGGATCGATACTT
808912 TATGTATACA
Statistics
Matches: 676, Mismatches: 63, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
197 19 0.03
198 178 0.26
199 119 0.18
200 150 0.22
201 78 0.12
202 132 0.20
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (200 bp):
AAAAAAAGTATCGATACAACTTTAAAAAGTATCGATACTTTTTGCTTACCTATTCTCTCGTTAAA
CCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATCGATTTTGATGT
TTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTTGGGATTCAT
AGTGG
Found at i:808863 original size:402 final size:397
Alignment explanation
Indices: 807967--808912 Score: 1373
Period size: 402 Copynumber: 2.4 Consensus size: 397
807957 ATGTGTAATT
* * * *
807967 AAAAAATGTATCGATACTA-TTTAAAAAATAGT-GATACATTTTGTTTACCTATTCTCTCGTTAA
1 AAAAAAAGTATCGATACAACTTTAAAAAGTA-TCGATA-ATTTTGATTACCTATTCTCTCGTTAA
* * *
808030 ATCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTATGTTATAATAA-TCAGTTTTGAT
64 ACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATTGA-TTTTGAT
* * *
808094 GTTTTAAGGATCTATA-TTTCTCATACATGTATCGATACTTTATGTGTGCATCTCGTTTGGGATT
128 GTTTTAAGGATCGATACTTTCTCATACATGTATCAATACTTTATGCGTGCATCTCGTTTGGGATT
* * *
808158 ATAGTGGACAAAAAGTATCGATACAACTTCAAAAGTATCGATACTTTTTGCTTACATATTCTCTC
193 ATAATGGACAAAAAGTATCGATACAAATTAAAAAGTATCGATACTTTTTGCTTACATATTCTCTC
* *
808223 GTTAAATCGGTATATTTTTACCAGTTACATTGTAAATTTACCTATTACATTATAATAATTGATTT
258 GTTAAATCGGTATATTTTTACCAGTTACATTGTAAATTTACCTATTACATTATAACAATCGATTT
* * * *
808288 TGATGTTTTAAGGATCGATACTTCTCATACATGTATCGATGCTTTATGGTACATCTCGTTTGGGA
323 CGATGCTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGGTACATCTCGTTTGAGA
*
808353 TTCATAGTGG
388 TTCATACTGG
* * * *
808363 ACAAAAAGTATCGATACAACTTAAAAAAGTATCGATACTTTTTGCTTACCTATTCTCTCGTTAAA
1 AAAAAAAGTATCGATACAACTTTAAAAAGTATCGATA-ATTTTGATTACCTATTCTCTCGTTAAA
808428 CCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATTGATTTTGATGT
65 CCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATTGATTTTGATGT
*
808493 TTTAAGGATCGATACTTTTTCATACATGTATCAATACTTTATGCGTGCATCTCGTTTGGGATTCA
130 TTTAAGGATCGATACTTTCTCATACATGTATCAATACTTTATGCGTGCATCTCGTTTGGGATT-A
808558 TAATGGACAAAAAAGTATCGATACAAATTAAAAAAGTATCGATACTTTTTGCTTATC-TATTCTC
194 TAATGGAC-AAAAAGTATCGATACAAATT-AAAAAGTATCGATACTTTTTGCTTA-CATATTCTC
* * * * *
808622 TCTTTAAA-CTGGTATATTTTTACCGGTTACATTGTATATTTACTTATTACGTTATAACAATCGA
256 TCGTTAAATC-GGTATATTTTTACCAGTTACATTGTAAATTTACCTATTACATTATAACAATCGA
* *
808686 TTTCGATGCTTTAAGGATTGATACTTCTCATACATGTATCGATACTTTATGCGTGCATCTCGTTT
320 TTTCGATGCTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATG-GTACATCTCGTTT
808751 GAGATTCATACTGG
384 GAGATTCATACTGG
* * *
808765 AAAAAAAGTATCGATACAACTTTAAAAAGTATCGATAATTATTGATGACCTATTTTCTCATTAAA
1 AAAAAAAGTATCGATACAACTTTAAAAAGTATCGATAATT-TTGATTACCTATTCTCTCGTTAAA
* * * ** **
808830 CCGGTATATTTTTACCGATTACATTGTAAATTTACCTTTTACGTTATAATAATCGGGTACGATGT
65 CCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATTGATTTTGATGT
808895 TTTAAGGATCGATACTTT
130 TTTAAGGATCGATACTTT
808913 ATGTATACAT
Statistics
Matches: 494, Mismatches: 45, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
396 17 0.03
397 111 0.22
398 47 0.10
399 8 0.02
400 20 0.04
401 135 0.27
402 156 0.32
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (397 bp):
AAAAAAAGTATCGATACAACTTTAAAAAGTATCGATAATTTTGATTACCTATTCTCTCGTTAAAC
CGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACGTTATAATAATTGATTTTGATGTT
TTAAGGATCGATACTTTCTCATACATGTATCAATACTTTATGCGTGCATCTCGTTTGGGATTATA
ATGGACAAAAAGTATCGATACAAATTAAAAAGTATCGATACTTTTTGCTTACATATTCTCTCGTT
AAATCGGTATATTTTTACCAGTTACATTGTAAATTTACCTATTACATTATAACAATCGATTTCGA
TGCTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGGTACATCTCGTTTGAGATTC
ATACTGG
Found at i:813928 original size:20 final size:20
Alignment explanation
Indices: 813886--813928 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
813876 GTACAACCTG
* *
813886 TATTTATAATTATATTTATC
1 TATTTATAATAATAATTATC
813906 TATTTAT-ATAATAATTATAC
1 TATTTATAATAATAATTAT-C
813926 TAT
1 TAT
813929 CATTTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTATAATAATAATTATC
Found at i:813935 original size:24 final size:25
Alignment explanation
Indices: 813891--813940 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
813881 ACCTGTATTT
* *
813891 ATAATTATATTTATCTATTTATATA
1 ATAATTATATCTATCTATTTAAATA
813916 ATAATTATA-CTATC-ATTTTAAATA
1 ATAATTATATCTATCTA-TTTAAATA
813940 A
1 A
813941 AAAAAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 1 0.05
24 12 0.55
25 9 0.41
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (25 bp):
ATAATTATATCTATCTATTTAAATA
Found at i:816089 original size:163 final size:163
Alignment explanation
Indices: 815912--816284 Score: 575
Period size: 163 Copynumber: 2.3 Consensus size: 163
815902 TTGAAGTATT
*
815912 GATACCTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATATTTTTACCTGTTATATTGTTA
1 GATACCTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATATTTTTACATGTTATATTGTTA
* * **
815977 TGTATCAATACATGTTTATAAAGTATCGATACTTTATAGGCGCTATTATTGGTTTTCTTTTAAAT
66 CGTATCAATACATGTTTATAAAGTATCGATACTTTATAGGCGCTATTACTACTTTTCTTTTAAAT
*
816042 TCCAAAAGTATCGATACTTATTTGAATGGAATC
131 TCCAAAAGTATCAATACTTATTTGAATGGAATC
** *
816075 GATACCTTCAACATATCTAGTAGCGCTTTACCGGTTTTTTCATATTTTTACATGTTATATTGTTA
1 GATACCTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATATTTTTACATGTTATATTGTTA
* *
816140 CGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCTCTATTACTACTTTTCTTTTAAAT
66 CGTATCAATACATGTTTATAAAGTATCGATACTTTATAGGCGCTATTACTACTTTTCTTTTAAAT
* * *
816205 TCCAAAAGTATTAATACTTATTTGAATGGTATT
131 TCCAAAAGTATCAATACTTATTTGAATGGAATC
* ** * *
816238 GATACCTTAAACATATCCGGTAGATCTTCACCAGTTTTGTCATATTT
1 GATACCTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATATTT
816285 AATCCGGTTT
Statistics
Matches: 188, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
163 188 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (163 bp):
GATACCTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATATTTTTACATGTTATATTGTTA
CGTATCAATACATGTTTATAAAGTATCGATACTTTATAGGCGCTATTACTACTTTTCTTTTAAAT
TCCAAAAGTATCAATACTTATTTGAATGGAATC
Found at i:816427 original size:183 final size:181
Alignment explanation
Indices: 816104--816518 Score: 564
Period size: 183 Copynumber: 2.3 Consensus size: 181
816094 GTAGCGCTTT
* * * *
816104 ACCGGTTTTTTCATATTTTTACATGTTATATTGTTACGTATCGATACATGTTTATAAAGTATCGA
1 ACCGGTTTTATCATATTTTTACCTGATATATTGTTATGTATCGATACATGTTTATAAAGTATCGA
* * *
816169 TACTTTATAGGCTCTATTACTACTTTTCTTTTAAATTCCAAAAGTATTAATACTTATTTGAATGG
66 TACTTTATAGCCTCTATTACTACTTTTCTTTTAAATTCCAAAAGTATCAATACTTATTTGAATAG
* * *
816234 TATTGATACCTTAAACATATCCGGTA-GATCTTCACCAGTTTTGTCATATTTA
131 AATAGATACCTTAAACATATCCGGTAGGAT-TT-ACCAGTTTTGTCATATTGA
* * *
816286 ATCCGGTTTTGTCATATTTTTACCTGATAAATTGTTATGTATCGATACATGTTTATAAAGTATCT
1 A-CCGGTTTTATCATATTTTTACCTGATATATTGTTATGTATCGATACATGTTTATAAAGTATCG
* * * *
816351 ATACTTTATAGCCGT-TATTATTGCTTTTCTTTTAAATTCCAAAAGTATCGATACTTATTTTAAT
65 ATACTTTATAGCC-TCTATTACTACTTTTCTTTTAAATTCCAAAAGTATCAATACTTATTTGAAT
* * ***
816415 AGAATAGATACCTTCAACATATCTGGTAGTGATTTATGGGTTTTGTCATATTGA
129 AGAATAGATACCTTAAACATATCCGGTAG-GATTTACCAGTTTTGTCATATTGA
816469 ACCTGGTTTTATCATATTTTTACCTGATATATTGTTATGTATCGATACAT
1 ACC-GGTTTTATCATATTTTTACCTGATATATTGTTATGTATCGATACAT
816519 ATTTGAATGG
Statistics
Matches: 205, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
182 3 0.01
183 196 0.96
184 3 0.01
185 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (181 bp):
ACCGGTTTTATCATATTTTTACCTGATATATTGTTATGTATCGATACATGTTTATAAAGTATCGA
TACTTTATAGCCTCTATTACTACTTTTCTTTTAAATTCCAAAAGTATCAATACTTATTTGAATAG
AATAGATACCTTAAACATATCCGGTAGGATTTACCAGTTTTGTCATATTGA
Found at i:822657 original size:105 final size:106
Alignment explanation
Indices: 822440--822716 Score: 376
Period size: 105 Copynumber: 2.6 Consensus size: 106
822430 CATTGGATTA
* *
822440 AACAAGTTATTCTCATTATGAACTTCTTCTCTCTTGTTGGATGAGTTCTTCTCATTATGAACTCT
1 AACAAGTTCTTCTCATTATGAAC-T-TTCTC-CTT-TAGGATGAGTTCTTCTCATTATGAACTCT
** *
822505 TCATTGGAAACATTGATCCACCTCATTCTGAGATGGACTTGAAAGG
62 TCA-TGGAAACATTGATCCACCTCATTCTGAGATAAACTTCAAAGG
* *
822551 AACAAGTTCTTCTCATTATGAGCTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC-T
1 AACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCAT
* * * * * *
822615 GGAAATATTGGTTCACCTCATTCTGTGGTAAATTTCAAAGG
66 GGAAACATTGATCCACCTCATTCTGAGATAAACTTCAAAGG
*
822656 AACAAGTTCTTCTCATTATGAACTTTCTTCTTTAGGATGAGTTCTTCTCATTATGAACTCT
1 AACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCT
822717 CCATTAGAAA
Statistics
Matches: 150, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
105 91 0.61
107 29 0.19
108 3 0.02
109 5 0.03
110 1 0.01
111 21 0.14
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (106 bp):
AACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCAT
GGAAACATTGATCCACCTCATTCTGAGATAAACTTCAAAGG
Found at i:822899 original size:136 final size:135
Alignment explanation
Indices: 822655--823272 Score: 868
Period size: 136 Copynumber: 4.6 Consensus size: 135
822645 AATTTCAAAG
*
822655 GAACAAGTTCTTCTCATTATGAAC-T-TTCT---TCTTTAGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGATCTTCTCATTATGAACTTCTTCTCCCTCTTT-GGATGAGTTCTTCTCATTATGAACT
* * * * * *
822715 CTCCATTAGAAATATCAATCCCGCAAGCGAGGCGTCACTGATTTGAAATGCCATGAATCGAGTGA
65 CTCAATTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCATGAATCGAGTGA
822780 TAGGTC
130 TAGGTC
822786 GAACAAGATCTTCTCATTATGAACTTCTTCTCCCTCTGTTGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGATCTTCTCATTATGAACTTCTTCTCCCTCT-TTGGATGAGTTCTTCTCATTATGAACT
** *
822851 CTCAATTGGAAATGTCAATCCCTCAAGTAAGGCGTCACTGATTCGAAATGTCGTGAATCGAGTGA
65 CTCAATTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCATGAATCGAGTGA
822916 TAGGTC
130 TAGGTC
* * * * *
822922 GAACAAGCTCTTCTCATTATGAACTTGTTCTCCCTCAATCGGATGAGTTCTTCTCATCATGAACT
1 GAACAAGATCTTCTCATTATGAACTTCTTCTCCCTC-TTTGGATGAGTTCTTCTCATTATGAACT
* *
822987 CTCAATTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTTGAAATGTCGTGAATCGAGTGA
65 CTCAATTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCATGAATCGAGTGA
*
823052 TAGGTT
130 TAGGTC
* * ** * *
823058 AAACAAGATCTTCTTATTATGATTTTCTTCTCCCTCTGTCGAATGAGTTCTTCTCATTATGAACT
1 GAACAAGATCTTCTCATTATGAACTTCTTCTCCCTCT-TTGGATGAGTTCTTCTCATTATGAACT
* * * *
823123 CTTAATTAGAAATATCAATCCCTTAAGCGAGGCGTCACTGATTCGAAATGTCATGAATCGAGTGA
65 CTCAATTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCATGAATCGAGTGA
823188 TAGGTC
130 TAGGTC
* * * *
823194 GAACAAGCTCTTTTTATTATGAACTTCTTCTTCCTCTTTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGATCTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACTC
*
823259 TCCATTGGAAATGT
66 TCAATTGGAAATGT
823273 TGAAAACATT
Statistics
Matches: 432, Mismatches: 47, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
131 23 0.05
132 1 0.00
133 4 0.01
135 36 0.08
136 366 0.85
137 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (135 bp):
GAACAAGATCTTCTCATTATGAACTTCTTCTCCCTCTTTGGATGAGTTCTTCTCATTATGAACTC
TCAATTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCATGAATCGAGTGAT
AGGTC
Found at i:823354 original size:42 final size:42
Alignment explanation
Indices: 823300--823382 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
823290 AAGGTCTTAT
* *
823300 CATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
*
823342 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAA
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAA
823383 AAATCAACCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
Found at i:823422 original size:22 final size:22
Alignment explanation
Indices: 823327--823424 Score: 60
Period size: 22 Copynumber: 4.6 Consensus size: 22
823317 TTACAGATGA
* *
823327 CCCGAAGGATTTAAGCATCATG
1 CCCGAAAGACTTAAGCATCATG
* *
823349 CTCGAAAGACTT-A-C-TGATG
1 CCCGAAAGACTTAAGCATCATG
* * ** *
823368 ACCCGAAGGATTTAAAAATCA-A
1 -CCCGAAAGACTTAAGCATCATG
*
823390 CCCGAAGGACTTAAGCATCATG
1 CCCGAAAGACTTAAGCATCATG
*
823412 CTCGAAAGACTTA
1 CCCGAAAGACTTA
823425 CTGATGACTC
Statistics
Matches: 55, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
19 4 0.07
20 10 0.18
21 19 0.35
22 20 0.36
23 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (22 bp):
CCCGAAAGACTTAAGCATCATG
Found at i:823425 original size:63 final size:63
Alignment explanation
Indices: 823326--823452 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
823316 CTTACAGATG
*
823326 ACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAAAATCA
1 ACCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAAAATCA
* *
823389 ACCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACTGATGACTCGGAGGATTTAAAAATCA
1 ACCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAAAATCA
823452 A
1 A
823453 GAAACCCCTG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (63 bp):
ACCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAAAATCA
Found at i:824961 original size:51 final size:50
Alignment explanation
Indices: 824876--825061 Score: 230
Period size: 51 Copynumber: 3.7 Consensus size: 50
824866 TTTAAAATTG
* * * * * *
824876 TTTCTTGCTGATATGAGCCTTCAAAATGCTCCACATAGATCATTTTTGTC
1 TTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATAGATAACTTTTGTC
*
824926 TATTCATGCTGATGTGAGCCTTCAAGATGCCCCACATAGATTACTTTTGTC
1 T-TTCATGCTGATGTGAGCCTTCAAGATGCCCCACATAGATAACTTTTGTC
* * * *
824977 TTTTCATGCTGATGTGAGCCTTCAAGAT-ACCCACATGGATAACTTCTATC
1 -TTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATAGATAACTTTTGTC
825027 TTTACATGCTGATGTGAGCCTTCAAGATGGCCCCA
1 TTT-CATGCTGATGTGAGCCTTCAAGAT-GCCCCA
825062 TGGATAATAT
Statistics
Matches: 119, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
49 3 0.03
50 42 0.35
51 69 0.58
52 5 0.04
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (50 bp):
TTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATAGATAACTTTTGTC
Done.