Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_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: 3983240
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 18
Found at i:662925 original size:20 final size:19
Alignment explanation
Indices: 662766--662928 Score: 132
Period size: 19 Copynumber: 9.1 Consensus size: 19
662756 AAAATCGCAA
662766 CGCG-TGCGATTTTCATTT
1 CGCGTTGCGATTTTCATTT
662784 CGCGTTGCGA--TTC---T
1 CGCGTTGCGATTTTCATTT
* *
662798 CTCGTTGTGATTTTCATTT
1 CGCGTTGCGATTTTCATTT
* *
662817 CGCGTTGCAATTTTTATTT
1 CGCGTTGCGATTTTCATTT
662836 CGCGTTGCGA--TTC---T
1 CGCGTTGCGATTTTCATTT
* **
662850 CTCGTTGCGATAGTCATTT
1 CGCGTTGCGATTTTCATTT
**
662869 CGCGTTGCGATAGTCATTT
1 CGCGTTGCGATTTTCATTT
*
662888 CCGCGTTGCGATTCTCATTAT
1 -CGCGTTGCGATTTTCATT-T
*
662909 CTCGTTGCGATTTTCATTT
1 CGCGTTGCGATTTTCATTT
662928 C
1 C
662929 AACCAAAAGA
Statistics
Matches: 117, Mismatches: 15, Indels: 25
0.75 0.10 0.16
Matches are distributed among these distances:
14 19 0.16
16 5 0.04
17 5 0.04
18 4 0.03
19 51 0.44
20 32 0.27
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGCGTTGCGATTTTCATTT
Found at i:665092 original size:21 final size:21
Alignment explanation
Indices: 665068--665137 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
665058 TCATTCCTCG
665068 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
665089 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
665110 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
665131 AGAGTCC
1 AGAGTCC
665138 GATTCACATG
Statistics
Matches: 34, Mismatches: 13, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.91
22 1 0.03
ACGTcount: A:0.23, C:0.37, G:0.20, T:0.20
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:666505 original size:14 final size:14
Alignment explanation
Indices: 666486--666521 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
666476 ATTGTTTAAT
666486 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
* *
666500 TGATTTTTAAAAGT
1 TGATTTGTAAAAGG
666514 TGATTTGT
1 TGATTTGT
666522 TTAATTGATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:666696 original size:19 final size:19
Alignment explanation
Indices: 666628--666689 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
666618 AAAAAGTACT
*
666628 ATCGCAATGCGAAA-TGAAA
1 ATCGCAACGCGAAACT-AAA
666647 ATCGCAACGCGAAACTAAA
1 ATCGCAACGCGAAACTAAA
666666 ATCGCAACGCGAAACTAAA
1 ATCGCAACGCGAAACTAAA
*
666685 TTCGC
1 ATCGC
666690 GTTGCGATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 39 0.98
20 1 0.03
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAACTAAA
Found at i:666707 original size:19 final size:19
Alignment explanation
Indices: 666685--666815 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
666675 CGAAACTAAA
*
666685 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
666704 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
666720 TT--CATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
666737 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
*
666751 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
666770 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
666786 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
666803 TTCGTATTGCGAT
1 TTCGCATTGCGAT
666816 AGTAATTTCC
Statistics
Matches: 88, Mismatches: 9, Indels: 30
0.69 0.07 0.24
Matches are distributed among these distances:
14 26 0.30
16 12 0.14
17 12 0.14
19 38 0.43
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:666733 original size:33 final size:32
Alignment explanation
Indices: 666689--666815 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
666679 ACTAAATTCG
666689 CGTTGCGATTTTCATTTCGCATTGCGATTCCTT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CTT
* *
666722 CATTGCGATTTTCATTTCGCATTGCGAAATTC-G
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCTT
666755 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCT-T
*
666788 CGTTGCGATTTTCATTTCGTATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
666816 AGTAATTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
31 4 0.05
33 77 0.91
34 1 0.01
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTT
Found at i:666778 original size:66 final size:66
Alignment explanation
Indices: 666682--666814 Score: 232
Period size: 66 Copynumber: 2.0 Consensus size: 66
666672 ACGCGAAACT
666682 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTC-CTTCATTGCGATTTTCATTTCGCATTG
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTC-TCATTGCGATTTTCATTTCGCATTG
666746 CG
65 CG
* *
666748 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGTATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGC
666813 G
66 G
666814 A
1 A
666815 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 63 0.98
67 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.43
Consensus pattern (66 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGC
G
Found at i:669120 original size:12 final size:12
Alignment explanation
Indices: 669103--669127 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
669093 TCTTCGGGGA
669103 CTTTTTCTTCTT
1 CTTTTTCTTCTT
669115 CTTTTTCTTCTT
1 CTTTTTCTTCTT
669127 C
1 C
669128 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:669336 original size:24 final size:24
Alignment explanation
Indices: 669302--669355 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
669292 CTGAAACATC
*
669302 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
669326 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
669350 ATCAAA
1 ATCAAA
669356 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:670163 original size:20 final size:21
Alignment explanation
Indices: 670138--670187 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
670128 TTTCCTAATT
*
670138 GCAATGCGAA-TAAGTAAATC
1 GCAATGCGAATTAAGAAAATC
**
670158 GCAATGCGAATTTGGAAAATC
1 GCAATGCGAATTAAGAAAATC
670179 GCAATGCGA
1 GCAATGCGA
670188 TACTGACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (21 bp):
GCAATGCGAATTAAGAAAATC
Found at i:670261 original size:20 final size:20
Alignment explanation
Indices: 670172--670263 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
670162 TGCGAATTTG
* *
670172 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
670192 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
670212 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
670233 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
670253 GAAAATCGCAA
1 GAAAATCGCAA
670264 TCATCTTCAA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:670526 original size:19 final size:19
Alignment explanation
Indices: 670473--670527 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
670463 CGCAACGGGG
*
670473 AAATCGCAACGCGAAAATGG
1 AAATCGCAACGCG-AAATGA
** **
670493 CTATCGCAATTCGAAATGA
1 AAATCGCAACGCGAAATGA
670512 AAATCGCAACGCGAAA
1 AAATCGCAACGCGAAA
670528 ATGGCTATCG
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.15
Consensus pattern (19 bp):
AAATCGCAACGCGAAATGA
Found at i:670549 original size:20 final size:20
Alignment explanation
Indices: 670475--670541 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
670465 CAACGGGGAA
670475 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
670495 ATCGCAATTCG-AAATGAAA
1 ATCGCAACGCGAAAATGGCT
670514 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
670534 ATCGCAAC
1 ATCGCAAC
670542 TAGAAAATCG
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
19 14 0.39
20 22 0.61
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:670602 original size:19 final size:19
Alignment explanation
Indices: 670580--670654 Score: 98
Period size: 19 Copynumber: 3.9 Consensus size: 19
670570 GCATTGCGAT
*
670580 TTTCTCGTTGCGATTTTCA
1 TTTCTCATTGCGATTTTCA
*
670599 TTTCACATTGCGATTTTCA
1 TTTCTCATTGCGATTTTCA
*
670618 TTTCGT-ATTGAGATTTTCA
1 TTTC-TCATTGCGATTTTCA
*
670637 TTTCGCATTGCGATTTTC
1 TTTCTCATTGCGATTTTC
670655 TTGTTGCGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.16, C:0.19, G:0.15, T:0.51
Consensus pattern (19 bp):
TTTCTCATTGCGATTTTCA
Found at i:670679 original size:20 final size:20
Alignment explanation
Indices: 670651--670688 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
670641 GCATTGCGAT
*
670651 TTTCTTGTTGCGATAGTCAG
1 TTTCGTGTTGCGATAGTCAG
670671 TTTCGTGTTGCGATAGTC
1 TTTCGTGTTGCGATAGTC
670689 TATTTTGCCT
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:0.13, C:0.16, G:0.26, T:0.45
Consensus pattern (20 bp):
TTTCGTGTTGCGATAGTCAG
Found at i:672270 original size:41 final size:42
Alignment explanation
Indices: 672216--672296 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 42
672206 CCTCTTCAAC
* *
672216 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
672257 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGA
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGA
672297 ACGATTGGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 20 0.57
42 15 0.43
ACGTcount: A:0.20, C:0.16, G:0.41, T:0.23
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:672287 original size:21 final size:21
Alignment explanation
Indices: 672228--672317 Score: 103
Period size: 21 Copynumber: 4.3 Consensus size: 21
672218 TGACAGTGGC
* *
672228 CTCTTGAACG-GTGGGGGGGA
1 CTCTTGAACGATTGGAGGGGA
** * *
672248 CTCTTGAGGGA-TGATAGGGGC
1 CTCTTGAACGATTG-GAGGGGA
672269 CTCTTGAACGATTGGAGGGGA
1 CTCTTGAACGATTGGAGGGGA
672290 CTCTTGAACGATTGGAGGGGA
1 CTCTTGAACGATTGGAGGGGA
672311 CTCTTGA
1 CTCTTGA
672318 GGAATAACAG
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
20 10 0.17
21 46 0.79
22 2 0.03
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGATTGGAGGGGA
Found at i:672309 original size:42 final size:41
Alignment explanation
Indices: 672202--672317 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 41
672192 AATGGTGGGA
* * * *
672202 GGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGGTGGGG
1 GGGA-CTCTTGAACGATGAGAGGGGCCTCTTGAACGGTGGAG
** * *
672244 GGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATTGGAG
1 GGGACTCTTGAACGATGAGAGGGGCCTCTTGAACG-GTGGAG
*
672286 GGGACTCTTGAACGATTG-GAGGGGACTCTTGA
1 GGGACTCTTGAACGA-TGAGAGGGGCCTCTTGA
672318 GGAATAACAG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
41 26 0.43
42 33 0.54
43 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.23
Consensus pattern (41 bp):
GGGACTCTTGAACGATGAGAGGGGCCTCTTGAACGGTGGAG
Found at i:672689 original size:20 final size:20
Alignment explanation
Indices: 672664--672736 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
672654 GAAGAATAGT
*
672664 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
672684 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* * * *
672704 TGACTATCGCAACGCGGAAA
1 TTACTTTCGCAACACGAAAA
* *
672724 TGACTATCGCAAC
1 TTACTTTCGCAAC
672737 GCGGAAATGG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:672714 original size:40 final size:40
Alignment explanation
Indices: 672670--672781 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
672660 TAGTTTACTT
* *
672670 TCGCAACAC-GAAACTTACTTTCGCAACGCGAAAATGACTA
1 TCGCAACACGGAAA-TGACTATCGCAACGCGAAAATGACTA
* * *
672710 TCGCAACGCGGAAATGACTATCGCAACGCGGAAATGGCTA
1 TCGCAACACGGAAATGACTATCGCAACGCGAAAATGACTA
** **
672750 TCGCAATGC-GAAATGAAAATCGCAACGCGAAA
1 TCGCAACACGGAAATGACTATCGCAACGCGAAA
672782 CACAAATCGC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 20 0.32
40 38 0.61
41 4 0.06
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (40 bp):
TCGCAACACGGAAATGACTATCGCAACGCGAAAATGACTA
Found at i:672737 original size:20 final size:20
Alignment explanation
Indices: 672690--672778 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
672680 AAACTTACTT
*
672690 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
672710 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
672730 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
672750 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
672769 TCGCAACGCG
1 TCGCAACGCG
672779 AAACACAAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.25
20 46 0.75
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:672810 original size:19 final size:19
Alignment explanation
Indices: 672788--672904 Score: 92
Period size: 19 Copynumber: 6.6 Consensus size: 19
672778 GAAACACAAA
672788 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
672807 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
672823 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
*
672840 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
672856 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
***
672873 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
672892 TCCGCATTGCGAT
1 T-CGCATTGCGAT
672905 AGTCATTTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 21
0.73 0.07 0.19
Matches are distributed among these distances:
14 12 0.15
15 6 0.08
16 8 0.10
17 8 0.10
18 6 0.08
19 28 0.35
20 11 0.14
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:672829 original size:14 final size:14
Alignment explanation
Indices: 672810--672868 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
672800 TTTCATTTCG
672810 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
672824 CGTTGCGATTTTTATTT
1 CGTTGCGA--TTT-TGT
672841 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
672857 CGTTGCGATTTT
1 CGTTGCGATTTT
672869 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
16 7 0.18
17 7 0.18
19 6 0.16
ACGTcount: A:0.10, C:0.15, G:0.24, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:672835 original size:33 final size:33
Alignment explanation
Indices: 672793--672884 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
672783 ACAAATCGCA
*
672793 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
672826 TTGCGATTTTTATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
672859 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
672885 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:672923 original size:20 final size:20
Alignment explanation
Indices: 672869--672912 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
672859 TTGCGATTTT
672869 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
*
672888 CATTTCCGCATTGCGATAGT
1 CATTTCCGCATTGCGATAGC
672908 CATTT
1 CATTT
672913 TCGTGTTGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:673486 original size:18 final size:18
Alignment explanation
Indices: 673463--673510 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
673453 CGGGTCAATC
673463 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
* *
673481 AGGTGATAGTTCTGGGTG
1 AGGTGATGGCTCTGGGTG
673499 AGGTGATGGCTC
1 AGGTGATGGCTC
673511 CCGAAGTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.15, C:0.10, G:0.46, T:0.29
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:674850 original size:20 final size:20
Alignment explanation
Indices: 674825--674867 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
674815 AATAGTTTCT
674825 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
674845 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
674865 GAA
1 GAA
674868 TTTGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:675410 original size:20 final size:20
Alignment explanation
Indices: 675382--675448 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
675372 GTATTATCTC
* *
675382 GTTGTGAAAGTCAGTATTGA
1 GTTGCGAAAGTCAGTATCGA
* *
675402 GTTGCGAAATTAAGTATCGA
1 GTTGCGAAAGTCAGTATCGA
*
675422 GTTGCGAAAGTCAGTATCGC
1 GTTGCGAAAGTCAGTATCGA
675442 GTTGCGA
1 GTTGCGA
675449 TTTTGTATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGA
Found at i:675475 original size:41 final size:41
Alignment explanation
Indices: 675356--675493 Score: 136
Period size: 41 Copynumber: 3.4 Consensus size: 41
675346 CGCTTTGAAA
* * * * *
675356 ATCGCATTGCGATTATGTATTATCTCGTTGTGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCATTGCGAAAGTCAGT
* * ** * *
675397 ATTGAGTTGCGAAATT-AAGTATCG-AGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCA-TTGCGAAAGTCAGT
*
675437 ATCGCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCATTGCGAAAGTCAGT
*
675478 ACCGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
675494 CCAAATTCGC
Statistics
Matches: 75, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
40 30 0.40
41 44 0.59
42 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTGTATTATCGCATTGCGAAAGTCAGT
Found at i:675489 original size:20 final size:20
Alignment explanation
Indices: 675376--675490 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
675366 GATTATGTAT
* * *
675376 TATCTCGTTGTGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * * * *
675396 TATTGAGTTGCGAAATTAAG
1 TATCGCGTTGCGATAGTCAG
* *
675416 TATCGAGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
675436 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
675457 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
675477 TACCGCGTTGCGAT
1 TATCGCGTTGCGAT
675491 TTTCCAAATT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
19 3 0.04
20 56 0.76
21 13 0.18
22 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:675504 original size:41 final size:41
Alignment explanation
Indices: 675423--675511 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
675413 AAGTATCGAG
* * ** *
675423 TTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGCA
1 TTGCGATAGTCAGTACCGCGTTGCGATTTTCAAATATCGCA
675464 TTGCGATAGTCAGTACCGCGTTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGTCAGTACCGCGTTGCGATTTT-CAAATATCGCA
675505 TTGCGAT
1 TTGCGAT
675512 TTTCCAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 40 0.95
42 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTCAGTACCGCGTTGCGATTTTCAAATATCGCA
Found at i:675510 original size:21 final size:21
Alignment explanation
Indices: 675484--675551 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
675474 CAGTACCGCG
675484 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTTCCAAATTCGCA
675505 TTGCGATTTTCCAAATTCGCA
1 TTGCGATTTTCCAAATTCGCA
* **
675526 TTGCGA-TTTACTTATTCGCA
1 TTGCGATTTTCCAAATTCGCA
675546 TTGCGA
1 TTGCGA
675552 ATTGGGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (21 bp):
TTGCGATTTTCCAAATTCGCA
Found at i:675593 original size:21 final size:22
Alignment explanation
Indices: 675541--675593 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
675531 ATTTACTTAT
675541 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
675562 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
675583 TCGCATTGCGA
1 TCGCATTGCGA
675594 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:677174 original size:6 final size:6
Alignment explanation
Indices: 677163--678686 Score: 2404
Period size: 6 Copynumber: 262.5 Consensus size: 6
677153 TGTGCATTAA
* * *
677163 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ATACAT
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
677211 ACATAC ACAT-- ACATAC ACATACAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACAT--AC ACATAC ACATAC ACATAC ACATAC
*
677259 ACATAC ACATAC ACATAC ACATAC ACATAC AC-GAC ACAT-- ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
677304 ACATAC ACATAC ACATAC ACATAC ACATAC A-ATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
*
677351 A-ATCC ACATAC ACATAC ACATAC ACATAC ACATAC AC-TAC ACAT--
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
677395 ACATAC ACATAC ACAT-- ACATAC -CATAC AC--AC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
*
677438 ACATAC ACATAC ACACAAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACA-TAC ACATAC ACATAC ACATAC ACATAC ACATAC
677487 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
677535 ACATAC ACATACC ACATAC ACAT-- ACATAC ACATAC ACATAC AC--AC
1 ACATAC ACATA-C ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
677580 ACATAC ACATAC ACATAC ACATAC ACAGTAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACA-TAC ACATAC ACATAC ACATAC
677629 ACATAC A-ATAC ACATAC AC-TAC ACATAC A-ATAC ACATAC ACAT--
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
*
677672 ACATAC ACATAA ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
677720 ACATAC -CATACAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACAT--AC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
677769 ACATAC ACATACAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACAT--AC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
677819 ACATAC ACATACAC ACATAC ACAT-- ACATAC ACATAC ACATA- A-ATAC
1 ACATAC ACAT--AC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
677865 ACA-AC AACATAC ACATAC ACATACAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC -ACATAC ACATAC ACAT--AC ACATAC ACATAC ACATAC ACATAC
677915 ACATAC ACAT-- ACATAC ACATAC ACA-AC ACATAC ACA-A- ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
677958 ACATAC ACATAC ACATAC ACATAC ACATAC AC--AC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678004 ACATAC ACATA- ACA-AC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678050 ACATAC ACATAC ACA-AC ACATAC ACATAC ACATAC ACATA- ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678096 ACATAC ACATAC -CATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678143 ACATAC AC-TAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678190 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACAT-- ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678236 ACATAC AC-T-- ACATAC ACATA- ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678280 ACATAC ACATAC ACATAC ACATAC -CA-AC ACA-AC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678325 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACAT--
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678371 ACATAC ACATAC ACATAC -CATAC ACATAC ACATAC -CATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678417 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678465 AC-TAC ACAT-- ACATAC ACATAC ACATAC ACAT-- ACATAC -CATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678507 ACATAC AC-TAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678554 ACATAC ACATAC AC-TAC ACATAC ACATAC ACATAC ACA-AC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678600 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
678648 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACA
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACA
678687 CACATAGGGG
Statistics
Matches: 1426, Mismatches: 14, Indels: 156
0.89 0.01 0.10
Matches are distributed among these distances:
3 2 0.00
4 70 0.05
5 128 0.09
6 1178 0.83
7 21 0.01
8 27 0.02
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.16
Consensus pattern (6 bp):
ACATAC
Found at i:678854 original size:9 final size:9
Alignment explanation
Indices: 678840--678873 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
678830 CGAATTCGTT
678840 AATTAACCG
1 AATTAACCG
*
678849 AATTAACTG
1 AATTAACCG
678858 AATTAACCG
1 AATTAACCG
678867 AAATTAA
1 -AATTAA
678874 ATTTTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:679402 original size:15 final size:15
Alignment explanation
Indices: 679382--679410 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
679372 AAAAAAAGTT
679382 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
679397 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
679411 CGGTCGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:679464 original size:6 final size:6
Alignment explanation
Indices: 679455--679486 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
679445 TACATATACA
*
679455 TACACG TACACG TACACA TACACG TACACG TA
1 TACACG TACACG TACACG TACACG TACACG TA
679487 TATATATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.38, C:0.31, G:0.12, T:0.19
Consensus pattern (6 bp):
TACACG
Found at i:679473 original size:18 final size:18
Alignment explanation
Indices: 679452--679486 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
679442 CCATACATAT
679452 ACATACACGTACACGTAC
1 ACATACACGTACACGTAC
679470 ACATACACGTACACGTA
1 ACATACACGTACACGTA
679487 TATATATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.31, G:0.11, T:0.17
Consensus pattern (18 bp):
ACATACACGTACACGTAC
Found at i:679815 original size:22 final size:22
Alignment explanation
Indices: 679759--679823 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
679749 ATATGAAATT
*
679759 TGTCCCGAAGGACCTCATATATA
1 TGTCCCGAAGGACCT-ATGTATA
* *
679782 TGT-CCTACAGGACCTGTGTATA
1 TGTCCCGA-AGGACCTATGTATA
679804 TGTCCCGAAGGACCTATGTA
1 TGTCCCGAAGGACCTATGTA
679824 ACCCTCGACT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 22 0.63
23 13 0.37
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGTATA
Found at i:698884 original size:92 final size:93
Alignment explanation
Indices: 698719--698902 Score: 246
Period size: 92 Copynumber: 2.0 Consensus size: 93
698709 GAATACAATC
* *
698719 AATCACTACATGGTTTAAAGTTAAAAGCAATAAGAGCATTGAAACTTAAAAGGCGCGAAAATCTA
1 AATCACTACACGGTTTAAAGTTAAAAGCAATAAGAGCATTGAAACTTAAAAGGCACGAAAATCTA
** ** *
698784 CATGAACAGGTTTTTGAAGATGTATGAT
66 CACCAACAGACTTTGGAAGATGTATGAT
* **
698812 AATCATTACACGGTTTAAAGTT-AAAGCAATAAGAGCA-TGAAAACTTACGAGGCACGAAAATCT
1 AATCACTACACGGTTTAAAGTTAAAAGCAATAAGAGCATTG-AAACTTAAAAGGCACGAAAATCT
*
698875 ACGCCAACAGACTTTGGAAGATGTATGA
65 ACACCAACAGACTTTGGAAGATGTATGA
698903 AACTGCGAGA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
91 2 0.03
92 57 0.72
93 20 0.25
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (93 bp):
AATCACTACACGGTTTAAAGTTAAAAGCAATAAGAGCATTGAAACTTAAAAGGCACGAAAATCTA
CACCAACAGACTTTGGAAGATGTATGAT
Found at i:702348 original size:20 final size:20
Alignment explanation
Indices: 702323--702362 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
702313 GTGTATTTGG
702323 TTTGTATATGTATACAAACA
1 TTTGTATATGTATACAAACA
702343 TTTGTATATGTATACAAACA
1 TTTGTATATGTATACAAACA
702363 AAATCATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTGTATATGTATACAAACA
Found at i:702383 original size:12 final size:12
Alignment explanation
Indices: 702366--702408 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
702356 ACAAACAAAA
702366 TCATTTACTAAC
1 TCATTTACTAAC
*
702378 TCATTTA-TAAGT
1 TCATTTACTAA-C
702390 TCATTTACTAAC
1 TCATTTACTAAC
*
702402 TCTTTTA
1 TCATTTA
702409 TAAGCATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 3 0.12
12 20 0.77
13 3 0.12
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (12 bp):
TCATTTACTAAC
Found at i:702394 original size:24 final size:24
Alignment explanation
Indices: 702366--702412 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
702356 ACAAACAAAA
702366 TCATTTACTAACTCATTTATAAGT
1 TCATTTACTAACTCATTTATAAGT
*
702390 TCATTTACTAACTCTTTTATAAG
1 TCATTTACTAACTCATTTATAAG
702413 CATGTTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (24 bp):
TCATTTACTAACTCATTTATAAGT
Found at i:702675 original size:4 final size:4
Alignment explanation
Indices: 702666--702690 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
702656 ATACTTTTAA
702666 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
702691 CGTACACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:705038 original size:20 final size:20
Alignment explanation
Indices: 705013--705053 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
705003 TCTCGTGGAC
705013 GAGCGGATCGGGAGGAACCG
1 GAGCGGATCGGGAGGAACCG
705033 GAGCGGATCGGGAGGAACCG
1 GAGCGGATCGGGAGGAACCG
705053 G
1 G
705054 GTCGAGCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.51, T:0.05
Consensus pattern (20 bp):
GAGCGGATCGGGAGGAACCG
Found at i:710554 original size:33 final size:33
Alignment explanation
Indices: 710517--710599 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
710507 TGTATATCTG
710517 TATTATAATAAATATAACTTAAT-CCTAAAC-AT
1 TATTATAATAAATATAAC-TAATCCCTAAACAAT
*
710549 ATATTATAATAAATATAACTAATCCCTAAATAAT
1 -TATTATAATAAATATAACTAATCCCTAAACAAT
710583 TATTATAATTAAATATA
1 TATTATAA-TAAATATA
710600 TAACAATAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
32 4 0.09
33 32 0.70
34 10 0.22
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (33 bp):
TATTATAATAAATATAACTAATCCCTAAACAAT
Found at i:712316 original size:15 final size:15
Alignment explanation
Indices: 712298--712352 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 15
712288 TTTTCATCTC
*
712298 TTTTTATTTTTTTTA
1 TTTTTCTTTTTTTTA
712313 TTTTAATCTTTTTTTTA
1 TTTT--TCTTTTTTTTA
*
712330 TATTTCTTTTTCTTCTA
1 TTTTTCTTTTT-TT-TA
712347 TTTTTC
1 TTTTTC
712353 AAGTGTAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 11 0.33
16 2 0.06
17 20 0.61
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTCTTTTTTTTA
Found at i:712339 original size:23 final size:23
Alignment explanation
Indices: 712296--712339 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
712286 TATTTTCATC
*
712296 TCTTTTTATTTTTTTTATTTTAA
1 TCTTTTTATTTTATTTATTTTAA
*
712319 TCTTTTT-TTTATATTTCTTTT
1 TCTTTTTATTT-TATTTATTTT
712340 TCTTCTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.80
Consensus pattern (23 bp):
TCTTTTTATTTTATTTATTTTAA
Found at i:721968 original size:5 final size:5
Alignment explanation
Indices: 721958--721984 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
721948 AAAGGAAAAC
721958 AACAA AACAA AACAA AACAA AACAA AA
1 AACAA AACAA AACAA AACAA AACAA AA
721985 ATCAGTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:722166 original size:20 final size:20
Alignment explanation
Indices: 722137--722175 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
722127 AAAGTTCATA
*
722137 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
722157 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
722176 GTGGTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:726754 original size:18 final size:18
Alignment explanation
Indices: 726719--726755 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
726709 TAAAAGAGAA
726719 AATTTTTTTTTAATTTTT
1 AATTTTTTTTTAATTTTT
*
726737 AATTTCTTTTTTGATTTTT
1 AATTT-TTTTTTAATTTTT
726756 TTGCATGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (18 bp):
AATTTTTTTTTAATTTTT
Found at i:727615 original size:33 final size:33
Alignment explanation
Indices: 727578--727662 Score: 129
Period size: 33 Copynumber: 2.5 Consensus size: 33
727568 GATGTATATC
727578 TATATTATAATAAATATAACTTAAT-CCTAAACA
1 TATATTATAATAAATATAAC-TAATCCCTAAACA
727611 TATATTATAATAAATATAACTAATCCCTAAACA
1 TATATTATAATAAATATAACTAATCCCTAAACA
727644 -ATTATTATAATTAAATATA
1 TA-TATTATAA-TAAATATA
727663 TAACAATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
32 5 0.10
33 36 0.73
34 8 0.16
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (33 bp):
TATATTATAATAAATATAACTAATCCCTAAACA
Found at i:728883 original size:20 final size:20
Alignment explanation
Indices: 728858--728985 Score: 141
Period size: 20 Copynumber: 6.3 Consensus size: 20
728848 AATTGGGAAA
*
728858 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
**
728878 ATCGCATTGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
728898 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
728919 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
728939 TTCACAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
728959 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
728979 TTCGCAA
1 ATCGCAA
728986 TGAGATAATA
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 75 0.80
21 15 0.16
22 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:728906 original size:61 final size:61
Alignment explanation
Indices: 728855--728971 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 61
728845 GCGAATTGGG
* * **
728855 AAAATCGCAATGCGATACTGACTATCGCATTGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCACAACGCGATACTGACTATCGCAACGCGATAATAC
* *
728916 AAAATCGCAACGCGATACTGACTTTCACAACGCGATACTGACTTTCGCAACGCGAT
1 AAAATCGCAACGCGATACTGACTATCACAACGCGATACTGACTATCGCAACGCGAT
728972 TCTGACTTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (61 bp):
AAAATCGCAACGCGATACTGACTATCACAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:729013 original size:41 final size:40
Alignment explanation
Indices: 728886--729012 Score: 139
Period size: 41 Copynumber: 3.1 Consensus size: 40
728876 CTATCGCATT
*
728886 GCGATACTGACTATCGCAACGCGATAATACAAAATCGCAAC
1 GCGATACTGACTTTCGCAACGCGATAATAC-AAATCGCAAC
* * **
728927 GCGATACTGACTTTCACAACGCGATACTGAC-TTTCGCAAC
1 GCGATACTGACTTTCGCAACGCGATAAT-ACAAATCGCAAC
* * * *
728967 GCGATTCTGACTTTCGCAATGAGATAATACAGAATCGCAAT
1 GCGATACTGACTTTCGCAACGCGATAATACA-AATCGCAAC
729008 GCGAT
1 GCGAT
729013 TTTCAAAGTT
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
39 2 0.03
40 30 0.43
41 36 0.51
42 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (40 bp):
GCGATACTGACTTTCGCAACGCGATAATACAAATCGCAAC
Found at i:729762 original size:24 final size:24
Alignment explanation
Indices: 729735--729788 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
729725 GTATTCGAAA
*
729735 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
729759 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
729783 TTTGAT
1 TTTGAT
729789 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:729980 original size:12 final size:12
Alignment explanation
Indices: 729963--729987 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
729953 ATATAATCCT
729963 GAAGAAGAAAAA
1 GAAGAAGAAAAA
729975 GAAGAAGAAAAA
1 GAAGAAGAAAAA
729987 G
1 G
729988 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:732284 original size:20 final size:20
Alignment explanation
Indices: 732254--732310 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
732244 CAATCATCTT
*
732254 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGCGGA
* *
732274 AATTACTATCGCAATGC-GA
1 AATGACTATCGCAACGCGGA
**
732293 AATGAAAATCGCAACGCG
1 AATGACTATCGCAACGCG
732311 AATTTCGCGT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (20 bp):
AATGACTATCGCAACGCGGA
Found at i:733887 original size:21 final size:21
Alignment explanation
Indices: 733821--733887 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
733811 GTGAATCGGG
*
733821 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
733841 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
733863 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
733884 CTCT
1 CTCT
733888 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:733906 original size:42 final size:41
Alignment explanation
Indices: 733821--733943 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
733811 GTGAATCGGG
* * * *
733821 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
733863 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
733905 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
733944 CGAGTCAGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:734336 original size:91 final size:90
Alignment explanation
Indices: 734161--734345 Score: 282
Period size: 91 Copynumber: 2.0 Consensus size: 90
734151 ATTTCAAACT
*
734161 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
*
734226 AGAATTGGCATCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
*
734254 TTCAACCAAAAGACAAAACAAAAAGATAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
734318 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
734345 T
1 T
734346 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
91 41 0.48
93 19 0.22
95 26 0.30
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:736062 original size:20 final size:19
Alignment explanation
Indices: 736031--736152 Score: 75
Period size: 20 Copynumber: 6.8 Consensus size: 19
736021 TCTTTTGTTT
736031 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
736050 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
736071 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
736090 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
736104 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
736123 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
736137 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
736153 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
14 19 0.24
16 4 0.05
17 4 0.05
19 20 0.26
20 29 0.37
21 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:736113 original size:33 final size:33
Alignment explanation
Indices: 736056--736152 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
736046 ACGAGATAAT
736056 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
736090 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
736123 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
736153 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:736169 original size:19 final size:17
Alignment explanation
Indices: 736153--736233 Score: 117
Period size: 18 Copynumber: 4.5 Consensus size: 17
736143 AAAATCGCAA
736153 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT--TTTCGCGT
736172 TGCGATTTTTTTCGCGT
1 TGCGATTTTTTTCGCGT
736189 TGCGATTTTATTTCGCGT
1 TGCGATTTT-TTTCGCGT
*
736207 TGCGATTTATTTCCGCGT
1 TGCGATTT-TTTTCGCGT
736225 TGCGATTTT
1 TGCGATTTT
736234 CATTCTCGAA
Statistics
Matches: 59, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
17 18 0.31
18 31 0.53
19 10 0.17
ACGTcount: A:0.09, C:0.17, G:0.25, T:0.49
Consensus pattern (17 bp):
TGCGATTTTTTTCGCGT
Found at i:736204 original size:18 final size:18
Alignment explanation
Indices: 736153--736233 Score: 121
Period size: 17 Copynumber: 4.5 Consensus size: 18
736143 AAAATCGCAA
*
736153 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-ATTTCGCGT
736172 TGCGATTTT-TTTCGCGT
1 TGCGATTTTATTTCGCGT
736189 TGCGATTTTATTTCGCGT
1 TGCGATTTTATTTCGCGT
736207 TGCGA-TTTATTTCCGCGT
1 TGCGATTTTATTT-CGCGT
736225 TGCGATTTT
1 TGCGATTTT
736234 CATTCTCGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
17 24 0.41
18 23 0.39
19 12 0.20
ACGTcount: A:0.09, C:0.17, G:0.25, T:0.49
Consensus pattern (18 bp):
TGCGATTTTATTTCGCGT
Found at i:736821 original size:20 final size:20
Alignment explanation
Indices: 736796--736849 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
736786 GCTTTTGTAT
736796 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
736816 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
736836 TATCGCATTGCGAT
1 TATCGCATTGCGAT
736850 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:751148 original size:17 final size:17
Alignment explanation
Indices: 751126--751169 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
751116 TAATAAACCA
751126 AATTTTAATTAAAAATC
1 AATTTTAATTAAAAATC
751143 AATTTTAATTAAAAATC
1 AATTTTAATTAAAAATC
751160 AATTTTAATT
1 AATTTTAATT
751170 TTGTAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTTTAATTAAAAATC
Found at i:753085 original size:31 final size:31
Alignment explanation
Indices: 753050--753108 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
753040 AATTCGGTGA
753050 ATTCAATATGTCCTTCTCACTAGGAACCCCC
1 ATTCAATATGTCCTTCTCACTAGGAACCCCC
*
753081 ATTCAATATGTCCTTCTCATTAGGAACC
1 ATTCAATATGTCCTTCTCACTAGGAACC
753109 TCTTGGGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (31 bp):
ATTCAATATGTCCTTCTCACTAGGAACCCCC
Found at i:760040 original size:22 final size:22
Alignment explanation
Indices: 760015--760057 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
760005 ATAGATTAAT
760015 ATATATAATTTA-TAAAAATAAG
1 ATAT-TAATTTATTAAAAATAAG
*
760037 ATATTTATTTATTTAAAAATA
1 ATATTAATTTA-TTAAAAATA
760058 TCAGAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 4 0.22
23 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATATTAATTTATTAAAAATAAG
Found at i:760056 original size:136 final size:134
Alignment explanation
Indices: 759866--760118 Score: 321
Period size: 136 Copynumber: 1.9 Consensus size: 134
759856 TAACTTTAAG
* * * * * * *
759866 AAAATATATTAATTTTTATATTTTATAAATAAGATATTTATTTATTTTTTAAAATATCATAATA-
1 AAAATAGATTAATATATATATTTTAAAAATAAGATATTTATTTA-TTTTAAAAATATCAGAAAAT
* * * * *
759930 GACATCTAGTTGCTTTAAGGCTGTCATTTTCTTAATATTAAAAATAAATAAATATTAAAACATTT
65 GACATCCAATTACGTTAAGACTGTC-TTTTCTTAATATT-AAAATAAATAAATATTAAAACATTT
759995 TTCTAAA
128 TTCTAAA
760002 AAAATAGATTAATATATATAATTTATAAAAATAAGATATTTATTTA-TTTAAAAATATCAGAAAA
1 AAAATAGATTAATATATAT-ATTT-TAAAAATAAGATATTTATTTATTTTAAAAATATCAGAAAA
* *
760066 TGACATCCAATTACGTTAAGACTGTCTTTTCTTAATATTGAAATAAGTAAATA
64 TGACATCCAATTACGTTAAGACTGTCTTTTCTTAATATTAAAATAAATAAATA
760119 CTATTATTAA
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
135 12 0.12
136 44 0.44
137 24 0.24
138 20 0.20
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (134 bp):
AAAATAGATTAATATATATATTTTAAAAATAAGATATTTATTTATTTTAAAAATATCAGAAAATG
ACATCCAATTACGTTAAGACTGTCTTTTCTTAATATTAAAATAAATAAATATTAAAACATTTTTC
TAAA
Found at i:761613 original size:3 final size:3
Alignment explanation
Indices: 761605--761641 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
761595 GCTTTGTAAT
761605 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 T
761642 TAAAATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:761990 original size:116 final size:116
Alignment explanation
Indices: 761786--762025 Score: 417
Period size: 116 Copynumber: 2.1 Consensus size: 116
761776 TTCTACCCAG
* *
761786 AGGTCTTATGAATGGCTCTGAGGTCTTATAATCTTGCACTGTAGGTTTTACAGATGACCCGGAGG
1 AGGTCTTATGAATGGCCCTGAGGTCTTATAATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG
*
761851 CTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGT
66 CTTTAAATATCAAAAAACTCCCGAAGGCTTTTTGAAAACATCCTGCACTGT
* * * *
761902 AGGTCTTATGAATGGCCCTGAGGTCTTATCATCTTGTATTGTAGGTCTTCCAGATGACCCGGAGG
1 AGGTCTTATGAATGGCCCTGAGGTCTTATAATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG
761967 CTTTAAATATCAAAAAACTCCCGAAGGCTTTTTGAAAACATCCTGCACTGT
66 CTTTAAATATCAAAAAACTCCCGAAGGCTTTTTGAAAACATCCTGCACTGT
762018 AGGTCTTA
1 AGGTCTTA
762026 CAGATGTGGG
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (116 bp):
AGGTCTTATGAATGGCCCTGAGGTCTTATAATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG
CTTTAAATATCAAAAAACTCCCGAAGGCTTTTTGAAAACATCCTGCACTGT
Found at i:768645 original size:22 final size:21
Alignment explanation
Indices: 768591--768652 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
768581 ATTTTGGTGT
768591 AGAGGGAATCGA-TCCCCCCA
1 AGAGGGAATCGATTCCCCCCA
* *
768611 TGAGGGAACCGATTCCCCACCA
1 AGAGGGAATCGATTCCCC-CCA
*
768633 CAG-GGGAATCGATACCCCCC
1 -AGAGGGAATCGATTCCCCCC
768653 TGGGGTTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 10 0.29
21 7 0.21
22 16 0.47
23 1 0.03
ACGTcount: A:0.27, C:0.37, G:0.24, T:0.11
Consensus pattern (21 bp):
AGAGGGAATCGATTCCCCCCA
Found at i:769318 original size:9 final size:9
Alignment explanation
Indices: 769304--769330 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
769294 TAGGTCTTCA
769304 TCTAGTCGT
1 TCTAGTCGT
769313 TCTAGTCGT
1 TCTAGTCGT
769322 TCTAGTCGT
1 TCTAGTCGT
769331 CAACCAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (9 bp):
TCTAGTCGT
Found at i:774236 original size:3 final size:3
Alignment explanation
Indices: 774214--774265 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
774204 TTGTAATATT
* * *
774214 TAA TAA TAT TAA TAA CAA TAA TAA TAA TAAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
774260 TAA TAA
1 TAA TAA
774266 ATATATAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:774275 original size:8 final size:7
Alignment explanation
Indices: 774230--774277 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 7
774220 TATTAATAAC
774230 AATAAT-
1 AATAATA
774236 AATAATA
1 AATAATA
774243 AATAATGA
1 AATAAT-A
774251 TAATAAT-
1 -AATAATA
774258 AATAATA
1 AATAATA
774265 AATATATA
1 AATA-ATA
774273 AATAA
1 AATAA
774278 AAAGGGTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 12 0.32
7 11 0.30
8 8 0.22
9 6 0.16
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (7 bp):
AATAATA
Found at i:774858 original size:187 final size:188
Alignment explanation
Indices: 774537--774876 Score: 486
Period size: 187 Copynumber: 1.8 Consensus size: 188
774527 TGAATCATGC
* *
774537 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCCTCAGATGAGTTCTTCTTAT
1 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCCTCAAATGAGTTCTTCTCAT
* ** * * * *
774602 TATGAACTCGCCCTGGCATTGTTGGTCCATCGAATGATAAATTCAAGCGAAAAGTTGAACAAGTT
66 TATGAACTCGCCCTGGAAAAGCTGATCCATCAAATGATAAATTCAAGCGAAAAGTTGAACAAATT
774667 CTTCTCATTATGAACTTCTTCTTGGTAATGATGATCCATCGAATGATGAATTCAAGCG
131 CTTCTCATTATGAACTTCTTCTTGGTAATGATGATCCATCGAATGATGAATTCAAGCG
*
774725 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCAT
1 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCCTCAAATGAGTTCTTCTCAT
**** ** **
774789 TATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGC-AAAAGGTTGAACAAAT
66 TATGAACTCGCCCTGGAAAAGCTGATCCATCAAATGATAAATTCAAGCGAAAA-GTTGAACAAAT
*
774853 TCTTCTCATTATGAATTTCTTCTT
130 TCTTCTCATTATGAACTTCTTCTT
774877 CCTTCTTCAG
Statistics
Matches: 132, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
186 4 0.03
187 123 0.93
188 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (188 bp):
AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCCTCAAATGAGTTCTTCTCAT
TATGAACTCGCCCTGGAAAAGCTGATCCATCAAATGATAAATTCAAGCGAAAAGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTGGTAATGATGATCCATCGAATGATGAATTCAAGCG
Found at i:774862 original size:113 final size:113
Alignment explanation
Indices: 774663--775626 Score: 1611
Period size: 113 Copynumber: 8.5 Consensus size: 113
774653 AAGTTGAACA
* * * * * **
774663 AGTTCTTCTCATTATGAACTTCTTCTTGGTAATGATGATCCATC-GAATGATGAATTCAAGCGAA
1 AGTTCTTCTCATTATGAACTTTTTC-TGGAAAAGCTGATCCATCAG-ATGATGGATTTGAGC-AA
* * *
774727 AA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATG
63 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
*
774777 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAG
774842 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
774890 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAG
*
774955 GTTGAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATG
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
*
775003 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGTTGATCCATCAGATGATGGATTTGAGC--AAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAG
775066 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC-TCAGATG
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
775113 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAG
775178 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT-
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
*
775225 -GTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCTATCAGATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAG
775289 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCCTTCTTCAGATG
66 GTTGAACAAATTCTTCTCATTATGAA-----T-TT-CTTCTTCCTTCTTCAGATG
* *
775344 AGTTCTTCTCATTATGAACTTTTTCTGGAAAATCTGATCTATCAGATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAG
*
775409 GTTGAACAAATTCTTCTCATTATGAATTTCTTATTCCTTCTTCAGATG
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
*
775457 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCTATCAGATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAG
*
775522 GTTGAACAAATTCTTCTCATTATTAATTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
775570 AGTTCTTCTCATTATGAAC-TTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
775627 ATCTTTGCTA
Statistics
Matches: 813, Mismatches: 23, Indels: 30
0.94 0.03 0.03
Matches are distributed among these distances:
110 66 0.08
111 131 0.16
112 84 0.10
113 395 0.49
114 26 0.03
115 1 0.00
116 1 0.00
117 2 0.00
118 18 0.02
120 89 0.11
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAG
GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
Found at i:776055 original size:22 final size:22
Alignment explanation
Indices: 776030--776104 Score: 123
Period size: 22 Copynumber: 3.4 Consensus size: 22
776020 TAAAGCTTTT
*
776030 ATCTTTGAAAAGAGAATCTGTC
1 ATCTTTGAAAAGAGAATCTATC
* *
776052 ATCTTTAAAAAGGGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
776074 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
776096 ATCTTTGAA
1 ATCTTTGAA
776105 GAGTGTAGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:780951 original size:9 final size:9
Alignment explanation
Indices: 780939--781028 Score: 84
Period size: 8 Copynumber: 10.4 Consensus size: 9
780929 TTTCTTTTTC
780939 TTTTTTC-T
1 TTTTTTCTT
780947 TTTTTTCTT
1 TTTTTTCTT
780956 TTTCTTTCTAT
1 TTT-TTTCT-T
* *
780967 TTCTTTCAT
1 TTTTTTCTT
780976 TTTTTTC--
1 TTTTTTCTT
780983 TTTTTT-TT
1 TTTTTTCTT
780991 TTTTTT-TT
1 TTTTTTCTT
780999 TTTTTTC-T
1 TTTTTTCTT
* *
781007 TTTTTCCTC
1 TTTTTTCTT
781016 TTTTTTCTT
1 TTTTTTCTT
781025 TTTT
1 TTTT
781029 CTTTTCTTTG
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
7 6 0.09
8 28 0.41
9 22 0.32
10 9 0.13
11 3 0.04
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:780963 original size:10 final size:10
Alignment explanation
Indices: 780925--781037 Score: 80
Period size: 10 Copynumber: 11.8 Consensus size: 10
780915 CTTGATTCAA
780925 TTTT-TTTCT
1 TTTTCTTTCT
*
780934 TTTTCTTTTT
1 TTTTCTTTCT
*
780944 TCTTTTTTTCT
1 T-TTTCTTTCT
780955 TTTTCTTTCT
1 TTTTCTTTCT
* *
780965 ATTTCTTTCA
1 TTTTCTTTCT
780975 TTTT-TTTCT
1 TTTTCTTTCT
780984 TTTT-TTT-T
1 TTTTCTTTCT
*
780992 TTTT-TTTTT
1 TTTTCTTTCT
781001 TTTTCTTT-T
1 TTTTCTTTCT
*
781010 TTCCTCTTT-T
1 TT-TTCTTTCT
*
781020 TTCTTTTTTC-
1 TT-TTCTTTCT
781030 TTTTCTTT
1 TTTTCTTT
781038 GCTGGATTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
8 8 0.09
9 28 0.33
10 42 0.49
11 8 0.09
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:781028 original size:1 final size:1
Alignment explanation
Indices: 780925--781011 Score: 66
Period size: 1 Copynumber: 87.0 Consensus size: 1
780915 CTTGATTCAA
* * * * * * * * ** *
780925 TTTTTTTCTTTTTCTTTTTTCTTTTTTTCTTTTTCTTTCTATTTCTTTCATTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
780990 TTTTTTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
781012 CCTCTTTTTT
Statistics
Matches: 63, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:781047 original size:27 final size:26
Alignment explanation
Indices: 781017--781070 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 26
781007 TTTTTCCTCT
781017 TTTTTCTTTTTTCTTTTCTTTGCTGGA
1 TTTTTCTTTTTTC-TTTCTTTGCTGGA
781044 TTTTTCTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTCTTTCTTTGCTGGA
781070 T
1 T
781071 GAGTATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.04, C:0.15, G:0.11, T:0.70
Consensus pattern (26 bp):
TTTTTCTTTTTTCTTTCTTTGCTGGA
Found at i:781059 original size:7 final size:7
Alignment explanation
Indices: 780926--781033 Score: 86
Period size: 7 Copynumber: 15.6 Consensus size: 7
780916 TTGATTCAAT
780926 TTTTTTC
1 TTTTTTC
780933 -TTTTTC
1 TTTTTTC
780939 TTTTTTC
1 TTTTTTC
780946 TTTTTT-
1 TTTTTTC
780952 TCTTTTTC
1 T-TTTTTC
*
780960 TTTCTAT-
1 TTT-TTTC
*
780967 TTCTTTC
1 TTTTTTC
780974 ATTTTTTTC
1 --TTTTTTC
780983 TTTTTT-
1 TTTTTTC
780989 TTTTTT-
1 TTTTTTC
780995 TTTTTT-
1 TTTTTTC
781001 TTTTCTT-
1 TTTT-TTC
*
781008 TTTTCCTC
1 TTTT-TTC
781016 TTTTTTC
1 TTTTTTC
781023 TTTTTTC
1 TTTTTTC
781030 TTTT
1 TTTT
781034 CTTTGCTGGA
Statistics
Matches: 86, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
6 25 0.29
7 48 0.56
8 7 0.08
9 6 0.07
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:787996 original size:10 final size:10
Alignment explanation
Indices: 787981--788045 Score: 68
Period size: 10 Copynumber: 7.0 Consensus size: 10
787971 TTGGGCTTTG
*
787981 TAATATTTAA
1 TAATATATAA
787991 TAATATATAA
1 TAATATATAA
788001 TAATA-ATAA
1 TAATATATAA
*
788010 TAATAAATAA
1 TAATATATAA
*
788020 TGATA-ATAA
1 TAATATATAA
788029 TAATA-AT-A
1 TAATATATAA
788037 -AATATATAA
1 TAATATATAA
788046 ATAAAAAGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
7 4 0.08
8 3 0.06
9 20 0.41
10 22 0.45
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (10 bp):
TAATATATAA
Found at i:788003 original size:3 final size:3
Alignment explanation
Indices: 787988--788037 Score: 73
Period size: 3 Copynumber: 16.0 Consensus size: 3
787978 TTGTAATATT
*
787988 TAA TAA TATA TAA TAA TAA TAA TAA TAAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
788035 TAA
1 TAA
788038 ATATATAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 37 0.86
4 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:788012 original size:19 final size:18
Alignment explanation
Indices: 787988--788037 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
787978 TTGTAATATT
787988 TAATAATATATAATAATAA
1 TAATAATA-ATAATAATAA
*
788007 TAATAATAAATAATGATAA
1 TAATAAT-AATAATAATAA
788026 TAATAATAATAA
1 TAATAATAATAA
788038 ATATATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 5 0.17
19 23 0.79
20 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
TAATAATAATAATAATAA
Found at i:788047 original size:8 final size:7
Alignment explanation
Indices: 787989--788049 Score: 65
Period size: 6 Copynumber: 8.7 Consensus size: 7
787979 TGTAATATTT
787989 AATAATA
1 AATAATA
*
787996 TATAAT-
1 AATAATA
788002 AATAAT-
1 AATAATA
788008 AATAATA
1 AATAATA
788015 AATAATGA
1 AATAAT-A
788023 TAATAAT-
1 -AATAATA
788030 AATAATA
1 AATAATA
788037 AATATATA
1 AATA-ATA
788045 AATAA
1 AATAA
788050 AAAGGGTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
6 17 0.36
7 16 0.34
8 8 0.17
9 6 0.13
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (7 bp):
AATAATA
Found at i:788222 original size:9 final size:9
Alignment explanation
Indices: 788202--788253 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
788192 TTGGGCTTTG
788202 TAATATTTAA
1 TAATA-TTAA
788212 TAATATTAA
1 TAATATTAA
*
788221 TAATAATAA
1 TAATATTAA
*
788230 TAATAATAAA
1 TAAT-ATTAA
788240 TAATGA-TAA
1 TAAT-ATTAA
788249 TAATA
1 TAATA
788254 AATAAATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 1 0.03
9 22 0.61
10 13 0.36
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
TAATATTAA
Found at i:788224 original size:3 final size:3
Alignment explanation
Indices: 788209--788254 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
788199 TTGTAATATT
* *
788209 TAA TAA TAT TAA TAA TAA TAA TAA TAA TAAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
788255 ATAAATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:788266 original size:12 final size:11
Alignment explanation
Indices: 788209--788271 Score: 55
Period size: 9 Copynumber: 6.0 Consensus size: 11
788199 TTGTAATATT
*
788209 TAATAATATTAA
1 TAATAA-ATAAA
788221 TAAT-AAT-AA
1 TAATAAATAAA
788230 TAAT-AATAAA
1 TAATAAATAAA
*
788240 TAAT-GAT-AA
1 TAATAAATAAA
788249 TAATAAATAAA
1 TAATAAATAAA
788260 TATATAAATAAA
1 TA-ATAAATAAA
788272 ATGGGTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
9 15 0.33
10 12 0.27
11 5 0.11
12 13 0.29
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:788270 original size:19 final size:19
Alignment explanation
Indices: 788209--788261 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
788199 TTGTAATATT
* *
788209 TAATAAT-ATTAATAATAA
1 TAATAATAATAAATAATGA
788227 TAATAATAATAAATAATGA
1 TAATAATAATAAATAATGA
788246 TAATAATAAATAAATA
1 TAATAAT-AATAAATA
788262 TATAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.23
19 16 0.52
20 8 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
TAATAATAATAAATAATGA
Found at i:788356 original size:223 final size:220
Alignment explanation
Indices: 787970--788413 Score: 795
Period size: 223 Copynumber: 2.0 Consensus size: 220
787960 GAGTTTAGTA
787970 ATTGGGCTTTGTAATATTTAATAATATATAATAATAATAATAATAAATAATGATAATAATAATAA
1 ATTGGGCTTTGTAATATTTAATAATATATAATAATAATAATAATAAATAATGATAATAATAATAA
788035 TAAATATATAAATAAAAAGGGTAAAAATTAGTATCTTCACCATTCACCCCCCTCTTAGCCAAATC
66 TAAATATATAAATAAAAAGGGTAAAAATTAGTATCTTCACCATTCACCCCCCTCTTAGCCAAATC
788100 CGTCAATTGATTAGCTCAACACAACTTATGCTATATTTCTGAAGAACCATTTGATCAACTTG-TC
131 CGTCAATTGATTAGCTCAACACAACTTATGCTATATTTCTGAAGAACCATTTGATCAACTTGATC
788164 TTTATGTCTTCTTTGTTTCATGAAAAT
196 TTTA--TCTTCTTTGTTTCATGAAAAT
788191 ATTGGGCTTTGTAATATTTAATAATATTAATAATAATAATAATAATAAATAATGATAATAAT-A-
1 ATTGGGCTTTGTAATATTTAATAATA-T-ATAATAATAATAATAATAAATAATGATAATAATAAT
*
788254 AATAAATATATAAATAAAATGGGTAAAAAATTAGTATCTTCACCAATTCACCCCCCTCTTAGCCA
64 AATAAATATATAAATAAAAAGGGT-AAAAATTAGTATCTTCACC-ATTCACCCCCCTCTTAGCCA
788319 AATCCGTCAATTGATTAGCTCAACACAACTTATGCTATATTTCTGAAGAACCATTTGATCAACTT
127 AATCCGTCAATTGATTAGCTCAACACAACTTATGCTATATTTCTGAAGAACCATTTGATCAACTT
788384 GTATCTTTATCTTCTTTGTTTCATGAAAAT
192 G-ATCTTTATCTTCTTTGTTTCATGAAAAT
788414 CTCGGAAGAA
Statistics
Matches: 216, Mismatches: 1, Indels: 10
0.95 0.00 0.04
Matches are distributed among these distances:
221 49 0.23
222 21 0.10
223 140 0.65
225 6 0.03
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (220 bp):
ATTGGGCTTTGTAATATTTAATAATATATAATAATAATAATAATAAATAATGATAATAATAATAA
TAAATATATAAATAAAAAGGGTAAAAATTAGTATCTTCACCATTCACCCCCCTCTTAGCCAAATC
CGTCAATTGATTAGCTCAACACAACTTATGCTATATTTCTGAAGAACCATTTGATCAACTTGATC
TTTATCTTCTTTGTTTCATGAAAAT
Found at i:788565 original size:22 final size:22
Alignment explanation
Indices: 788540--788619 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
788530 AATAAAGCTT
* * *
788540 TCATCTTTGAAAAGAGAAACTA
1 TCATCTTTGAAGAGATAATCTA
788562 TCATCTTTGAAGAGATAATCTA
1 TCATCTTTGAAGAGATAATCTA
788584 TCATCTTTGAAGAGATAATCTA
1 TCATCTTTGAAGAGATAATCTA
788606 TCATCTTTGAAGAG
1 TCATCTTTGAAGAG
788620 TGTAGATGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAGAGATAATCTA
Found at i:790208 original size:35 final size:35
Alignment explanation
Indices: 790146--790212 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
790136 TCTTATTGAG
790146 ATGAGCCTCCAAGAATGCCCAAATATTCATATTACT
1 ATGAGCCTCCAAGAATGCCCAAATATTC-TATTACT
* * *
790182 ATGAGCCTTCAA-AATGCCCCACTATTCTATT
1 ATGAGCCTCCAAGAATGCCCAAATATTCTATT
790213 TCTGGTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 4 0.14
35 13 0.46
36 11 0.39
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (35 bp):
ATGAGCCTCCAAGAATGCCCAAATATTCTATTACT
Found at i:793305 original size:69 final size:68
Alignment explanation
Indices: 793123--793311 Score: 276
Period size: 71 Copynumber: 2.7 Consensus size: 68
793113 TATAATATGT
*
793123 TAGCTGAATATCC-TAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGACAACTTAAGCATACA
1 TAGCTGAATATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGACAAATTAAGCATACA
793187 AAC
66 AAC
*
793190 TAGCTGAATATTATCCATAAAGTCGGGGCTATTAACCAATTACTTTAGGGGGACAAATTCAAGCA
1 TAGCTG-A-A-TATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGACAAATT-AAGCA
793255 TAACAAAC
62 T-ACAAAC
*
793263 TAGCT-AAGTATCCATAAAG-CGAGGCTATTAACCAATTGCTTTAGGGGGA
1 TAGCTGAA-TATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGA
793312 TAACTCAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
67 6 0.05
68 1 0.01
69 29 0.26
70 17 0.15
71 41 0.37
72 6 0.05
73 11 0.10
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (68 bp):
TAGCTGAATATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGACAAATTAAGCATACA
AAC
Found at i:795952 original size:16 final size:16
Alignment explanation
Indices: 795931--795962 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
795921 AAATGTAATG
*
795931 TAAATGCGAAAATGCA
1 TAAATGCAAAAATGCA
795947 TAAATGCAAAAATGCA
1 TAAATGCAAAAATGCA
795963 AACTGTGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (16 bp):
TAAATGCAAAAATGCA
Found at i:798946 original size:133 final size:132
Alignment explanation
Indices: 798713--798961 Score: 306
Period size: 133 Copynumber: 1.9 Consensus size: 132
798703 TAACTTTAAG
* * * * * * *
798713 AAAATATATTAATTTTTATATTTTATAAATAAGATATTTATTTATTTTTTAAATACCATAATAGA
1 AAAATATATTAATATATATAATTTATAAAAAAGATATTTATTTA-TTTTAAAATACCAGAAAAGA
* * * *
798778 CATCTAGTTGCTTTAAGACTGTCATTTTCTTAATATTAAAAATAAATAAATATTAAAACATTTTT
65 CATCCAGTTACGTTAAGACTGCCATTTTCTTAATATT-AAAATAAATAAATATTAAAACATTTTT
798843 CTAA
129 CTAA
*
798847 AAAATATA-TAATATATATAATTTATAAAAATAGAATATTTATTTA-TTTAAAATATCAGAAAAT
1 AAAATATATTAATATATATAATTTATAAAAA-AG-ATATTTATTTATTTTAAAATACCAGAAAA-
* *
798910 GACATCCAGTTACGTTAAGACTGCCA-TTTCTTAATATTGAAATAAGTAAATA
63 GACATCCAGTTACGTTAAGACTGCCATTTTCTTAATATTAAAATAAATAAATA
798962 CTATTATTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
132 12 0.12
133 43 0.44
134 32 0.33
135 11 0.11
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (132 bp):
AAAATATATTAATATATATAATTTATAAAAAAGATATTTATTTATTTTAAAATACCAGAAAAGAC
ATCCAGTTACGTTAAGACTGCCATTTTCTTAATATTAAAATAAATAAATATTAAAACATTTTTCT
AA
Found at i:800528 original size:3 final size:3
Alignment explanation
Indices: 800520--800558 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
800510 TGTAATTAAA
800520 AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AA
800559 AAAAATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:800573 original size:14 final size:14
Alignment explanation
Indices: 800554--800580 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
800544 AATATATAAT
800554 AATAAAAAAATTAA
1 AATAAAAAAATTAA
800568 AATAAAAAAATTA
1 AATAAAAAAATTA
800581 GTGTCTACAT
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAAAAAAATTAA
Found at i:806120 original size:16 final size:17
Alignment explanation
Indices: 806041--806120 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 17
806031 CTAAAATATT
*
806041 AATAAAATTA-AATAAA
1 AATAAATTTATAATAAA
* *
806057 AATCAATTTTATAATTGAA
1 AAT-AAATTTATAA-TAAA
*
806076 AATACATATTTTTAA-AAA
1 AATA-A-ATTTATAATAAA
806094 AATTAAA-TTATAAT-AA
1 AA-TAAATTTATAATAAA
806110 AATAAATTTAT
1 AATAAATTTAT
806121 TCATGAAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
15 4 0.08
16 16 0.33
17 6 0.12
18 8 0.16
19 9 0.18
20 6 0.12
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.38
Consensus pattern (17 bp):
AATAAATTTATAATAAA
Found at i:809614 original size:57 final size:57
Alignment explanation
Indices: 809521--809636 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
809511 TCCGTGTAGG
809521 AATGTGATTATGAGGAAGGGTATTAATGTTGCTTGGATTATCAATATCTTTTCTTTT
1 AATGTGATTATGAGGAAGGGTATTAATGTTGCTTGGATTATCAATATCTTTTCTTTT
* *
809578 AATGTGATTATGAGGAAGGGTATTAATGTTGTTTGGATTCTCAATATCTTTTCTTTT
1 AATGTGATTATGAGGAAGGGTATTAATGTTGCTTGGATTATCAATATCTTTTCTTTT
809635 AA
1 AA
809637 GTGCATTGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.27, C:0.07, G:0.21, T:0.46
Consensus pattern (57 bp):
AATGTGATTATGAGGAAGGGTATTAATGTTGCTTGGATTATCAATATCTTTTCTTTT
Found at i:819287 original size:20 final size:21
Alignment explanation
Indices: 819259--819297 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
819249 ATTTTATCCA
819259 TTTACTTTTAAAAT-TTTAAG
1 TTTACTTTTAAAATGTTTAAG
*
819279 TTTATTTTTAAAATGTTTA
1 TTTACTTTTAAAATGTTTA
819298 TTATTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTACTTTTAAAATGTTTAAG
Found at i:819583 original size:14 final size:13
Alignment explanation
Indices: 819566--819610 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
819556 GTTCGATTAC
819566 GTTCGTTAGGTTAT
1 GTTCGTT-GGTTAT
819580 GTTCG-T--TTAT
1 GTTCGTTGGTTAT
819590 GTTCGTTCGGTTAT
1 GTTCGTT-GGTTAT
819604 GTTCGTT
1 GTTCGTT
819611 TATGTTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 9 0.33
11 1 0.04
13 1 0.04
14 16 0.59
ACGTcount: A:0.09, C:0.11, G:0.27, T:0.53
Consensus pattern (13 bp):
GTTCGTTGGTTAT
Found at i:819583 original size:24 final size:24
Alignment explanation
Indices: 819556--819617 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
819546 GTTCGTGAAC
* *
819556 GTTCGATTACGTTCGTTAGGTTAT
1 GTTCGTTTATGTTCGTTAGGTTAT
*
819580 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTAGGTTAT
819604 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
819618 ATTCATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.11, C:0.13, G:0.24, T:0.52
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTAGGTTAT
Found at i:819627 original size:24 final size:24
Alignment explanation
Indices: 819575--819630 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
819565 CGTTCGTTAG
* *
819575 GTTATGTTCGTTTATGTTCGTTCG
1 GTTATGTTCGTTTATGTTCATTCA
819599 GTTATGTTCGTTTATGTTCATTCA
1 GTTATGTTCGTTTATGTTCATTCA
*
819623 TTTATGTT
1 GTTATGTT
819631 TAACCCAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.12, C:0.11, G:0.20, T:0.57
Consensus pattern (24 bp):
GTTATGTTCGTTTATGTTCATTCA
Found at i:820009 original size:16 final size:16
Alignment explanation
Indices: 819990--820022 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
819980 CCAATGTTTA
*
819990 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
820006 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
820022 T
1 T
820023 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:821032 original size:20 final size:20
Alignment explanation
Indices: 821007--821081 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 20
820997 GCGAAATAAA
821007 AATCGCAACGCGATCT-CCAG
1 AATCGCAACGCGAT-TACCAG
**
821027 AATCGCAAATC-AGTTACCAG
1 AATCGCAACGCGA-TTACCAG
**
821047 AATCGCAACGCGATTATGAAG
1 AATCGCAACGCGATTA-CCAG
*
821068 AATCGCAATGCGAT
1 AATCGCAACGCGAT
821082 AGTACAAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.05
20 26 0.59
21 16 0.36
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGATTACCAG
Found at i:821135 original size:20 final size:20
Alignment explanation
Indices: 821110--821364 Score: 214
Period size: 20 Copynumber: 12.7 Consensus size: 20
821100 GATTTTCCAT
* *
821110 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
821130 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
*
821150 AATCGCAACGCG-ATTC-TGA
1 AATCGCAACGCGAATACGT-A
* * * *
821169 CTATCGCAACGAGTATCCGTA
1 -AATCGCAACGCGAATACGTA
821190 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* * *
821211 AATCGCAACACGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
821231 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
*
821251 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
*
821271 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* * *
821291 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
821311 AATCGCAACGAC-AATACATAA
1 AATCGCAACG-CGAATACGT-A
* *
821332 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
821352 AATCGCAACGCGA
1 AATCGCAACGCGA
821365 TTTTTAAAGC
Statistics
Matches: 187, Mismatches: 36, Indels: 24
0.76 0.15 0.10
Matches are distributed among these distances:
18 1 0.01
19 3 0.02
20 146 0.78
21 36 0.19
22 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:821157 original size:40 final size:40
Alignment explanation
Indices: 821110--821364 Score: 284
Period size: 40 Copynumber: 6.3 Consensus size: 40
821100 GATTTTCCAT
* * **
821110 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACATATA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTATC-CGTA
* ** *
821150 AATCGCAACGCG-ATTCTGACTATCGCAACGAGTATCCGTA
1 AATCGCAACGCGAATAC-GAAAATCGCAACGCGTATCCGTA
*
821190 AATCGCAACGAC-AATACGTAAAATCGCAACACGTATCCGTA
1 AATCGCAACG-CGAATACG-AAAATCGCAACGCGTATCCGTA
* * *
821231 AATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTATCCGTA
* * *
821271 AATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTATCCGTA
*
821311 AATCGCAACGAC-AATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACG-CGAATAC-GAAAATCGCAACGCGTATCCGTA
821352 AATCGCAACGCGA
1 AATCGCAACGCGA
821365 TTTTTAAAGC
Statistics
Matches: 183, Mismatches: 23, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
39 2 0.01
40 110 0.60
41 71 0.39
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (40 bp):
AATCGCAACGCGAATACGAAAATCGCAACGCGTATCCGTA
Found at i:821273 original size:121 final size:121
Alignment explanation
Indices: 821110--821361 Score: 348
Period size: 121 Copynumber: 2.1 Consensus size: 121
821100 GATTTTCCAT
* * * * *
821110 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATAAATCGCAACGCG-ATTC-TGACTAT
1 AATCGCAACGAGAATACGAAAATCGCAACGCGAACATATAAATCGCAACGAGAATACGT-A-AAT
*
821173 CGCAACGAGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACACGTATCCGTA
64 CGCAACGAGTATCCGTAAATCGCAACGACAATACATAAAATCGCAACACGTATCCGTA
* * *
821231 AATCGCAACGAGAATACGTAAATCGCAACGCGTATC-TGTAAATCGCAACGAGAATACGTAAATC
1 AATCGCAACGAGAATACGAAAATCGCAACGCG-AACATATAAATCGCAACGAGAATACGTAAATC
* * *
821295 GCAATGCGTATCCGTAAATCGCAACGACAATACATAAAATCGCAACGCGTATCCGTA
65 GCAACGAGTATCCGTAAATCGCAACGACAATACATAAAATCGCAACACGTATCCGTA
821352 AATCGCAACG
1 AATCGCAACG
821362 CGATTTTTAA
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
121 109 0.94
122 6 0.05
123 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (121 bp):
AATCGCAACGAGAATACGAAAATCGCAACGCGAACATATAAATCGCAACGAGAATACGTAAATCG
CAACGAGTATCCGTAAATCGCAACGACAATACATAAAATCGCAACACGTATCCGTA
Found at i:821946 original size:20 final size:20
Alignment explanation
Indices: 821921--822011 Score: 114
Period size: 20 Copynumber: 4.5 Consensus size: 20
821911 TTCTAAACTT
*
821921 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
821941 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
821961 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
*
821982 AAAATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
822001 AAAATCGCAAC
1 AAAATCGCAAC
822012 GAGATAATCG
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
19 16 0.26
20 30 0.48
21 16 0.26
ACGTcount: A:0.51, C:0.20, G:0.18, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:822000 original size:40 final size:40
Alignment explanation
Indices: 821921--822015 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
821911 TTCTAAACTT
821921 AAAATCGCAAC-ATGAAAATGAAAATCGCAACACGAAAATG
1 AAAATCGCAACGA-GAAAATGAAAATCGCAACACGAAAATG
** *
821961 ACTATCGCAACGAGAGAAATGAAAATCGCAACGCG-AAATG
1 AAAATCGCAACGAGA-AAATGAAAATCGCAACACGAAAATG
822001 AAAATCGCAACGAGA
1 AAAATCGCAACGAGA
822016 TAATCGCAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 29 0.60
41 19 0.40
ACGTcount: A:0.51, C:0.19, G:0.19, T:0.12
Consensus pattern (40 bp):
AAAATCGCAACGAGAAAATGAAAATCGCAACACGAAAATG
Found at i:822137 original size:19 final size:20
Alignment explanation
Indices: 822115--822159 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
822105 GTTGTGATTT
822115 TCATTT-CGCGTTGCGATAG
1 TCATTTCCGCGTTGCGATAG
822134 TCATTTCCGCGTTGCGATAG
1 TCATTTCCGCGTTGCGATAG
822154 TCATTT
1 TCATTT
822160 TCTCGTTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATAG
Found at i:822166 original size:20 final size:20
Alignment explanation
Indices: 822118--822167 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
822108 GTGATTTTCA
822118 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
*
822138 TTCCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
*
822158 TTTCTCGTTG
1 TTTCGCGTTG
822168 GAATTTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.22, G:0.24, T:0.42
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:824090 original size:21 final size:21
Alignment explanation
Indices: 824066--824132 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
824056 TCATTCCTCG
824066 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
824087 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
824108 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
824129 AGAG
1 AGAG
824133 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:824090 original size:42 final size:41
Alignment explanation
Indices: 824019--824132 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 41
824009 GCCTGTTATC
* * * * * *
824019 CCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATT
1 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCA-T
*
824061 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCAT
1 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCAT
* * *
824102 CGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 CCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
824133 CCCGATTCAC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.07
42 54 0.90
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (41 bp):
CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCAT
Found at i:825339 original size:19 final size:20
Alignment explanation
Indices: 825315--825399 Score: 104
Period size: 19 Copynumber: 4.4 Consensus size: 20
825305 ATTCAATAAT
825315 TTGCGATTTTCA-TTTCGCA
1 TTGCGATTTTCAGTTTCGCA
** * *
825334 TTGCGATAGTCATTTTCGCG
1 TTGCGATTTTCAGTTTCGCA
*
825354 TTGCGATTTT-AGTTTCGCG
1 TTGCGATTTTCAGTTTCGCA
825373 TTGCGATTTTCA-TTTCGCA
1 TTGCGATTTTCAGTTTCGCA
825392 TTGCGATT
1 TTGCGATT
825400 CTCTCGTTGC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
19 42 0.74
20 15 0.26
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (20 bp):
TTGCGATTTTCAGTTTCGCA
Found at i:825370 original size:39 final size:38
Alignment explanation
Indices: 825315--825399 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 38
825305 ATTCAATAAT
*
825315 TTGCGATTTTCATTTCGCATTGCGATAGTCATTTTCGCG
1 TTGCGATTTTCATTTCGCATTGCGATAGTCA-TTTCGCA
* **
825354 TTGCGATTTT-AGTTTCGCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCA-TTTCGCATTGCGATAGTCATTTCGCA
825392 TTGCGATT
1 TTGCGATT
825400 CTCTCGTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
38 15 0.37
39 26 0.63
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (38 bp):
TTGCGATTTTCATTTCGCATTGCGATAGTCATTTCGCA
Found at i:827976 original size:24 final size:24
Alignment explanation
Indices: 827949--828002 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
827939 TTGAAAAATC
827949 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
827973 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
827997 ATCAAA
1 ATCAAA
828003 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Done.