Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008097.1 Hibiscus syriacus cultivar Beakdansim tig00110621_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: 3094402
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 3 of 12
Found at i:564163 original size:64 final size:65
Alignment explanation
Indices: 563936--564148 Score: 236
Period size: 65 Copynumber: 3.3 Consensus size: 65
563926 TATTCAAAGG
* * * *
563936 CATGCACCGATGCATCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAAACATCGAATGC
1 CATGCATCGATGCA-CACTCCATGCATCGATGCACTC-A-GAATAT-TTTCAAAACATCGAATGC
*
563998 ATTC
62 ATTT
* ** *
564002 CATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTT
* ** **
564067 GATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTC-AAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTT
564131 CATGCATCGATGCACACT
1 CATGCATCGATGCACACT
564149 TGGTGCACCG
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
64 38 0.30
65 71 0.57
66 16 0.13
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (65 bp):
CATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:566852 original size:36 final size:37
Alignment explanation
Indices: 566781--566865 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 37
566771 ATCCCATTAT
* *
566781 CATTTTTC-AACAAATATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
* *
566817 TATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
566853 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
566866 TTGGTTACCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 13 0.31
37 29 0.69
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.34
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
Found at i:567160 original size:15 final size:17
Alignment explanation
Indices: 567140--567171 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
567130 GATTTTTTTA
567140 TAAATT-CAAG-TAGAT
1 TAAATTACAAGATAGAT
567155 TAAATTACAAGATAGAT
1 TAAATTACAAGATAGAT
567172 AAAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (17 bp):
TAAATTACAAGATAGAT
Found at i:567696 original size:14 final size:14
Alignment explanation
Indices: 567679--567710 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
567669 TTTTTTAAAT
567679 GTATAAATTTAAGA
1 GTATAAATTTAAGA
567693 GTATAAATTTAAGA
1 GTATAAATTTAAGA
567707 GTAT
1 GTAT
567711 TGTATTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (14 bp):
GTATAAATTTAAGA
Found at i:568838 original size:4 final size:4
Alignment explanation
Indices: 568831--568861 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
568821 GATCTTCTTT
568831 CTTC CTTC CTTC CTTC CTT- CTTC CTTC CTTC
1 CTTC CTTC CTTC CTTC CTTC CTTC CTTC CTTC
568862 TTTTTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (4 bp):
CTTC
Found at i:568853 original size:11 final size:11
Alignment explanation
Indices: 568824--568863 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
568814 TTCATTTGAT
*
568824 CTTCTTTCTTC
1 CTTCTTCCTTC
568835 CTTCCTTCCTTC
1 CTT-CTTCCTTC
568847 CTTCTTCCTTC
1 CTTCTTCCTTC
568858 CTTCTT
1 CTTCTT
568864 TTTCTCTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.57
Consensus pattern (11 bp):
CTTCTTCCTTC
Found at i:568871 original size:19 final size:19
Alignment explanation
Indices: 568824--568861 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
568814 TTCATTTGAT
*
568824 CTTCTTTCTTCCTTCCTTC
1 CTTCCTTCTTCCTTCCTTC
568843 CTTCCTTCTTCCTTCCTTC
1 CTTCCTTCTTCCTTCCTTC
568862 TTTTTCTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (19 bp):
CTTCCTTCTTCCTTCCTTC
Found at i:572041 original size:31 final size:31
Alignment explanation
Indices: 572003--572069 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
571993 TATATATCCA
572003 TGAATCATAAGCTTGTCTGTCGATAAAGCAT
1 TGAATCATAAGCTTGTCTGTCGATAAAGCAT
572034 TGAATCATAAGCTTGTCTGTCGATAAAGCAT
1 TGAATCATAAGCTTGTCTGTCGATAAAGCAT
572065 TGAAT
1 TGAAT
572070 ACAAAGTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (31 bp):
TGAATCATAAGCTTGTCTGTCGATAAAGCAT
Found at i:572155 original size:31 final size:31
Alignment explanation
Indices: 572117--572178 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
572107 TATATATGCA
572117 TGAATCATAAGCTTGTCTGTCGATAAAGCAT
1 TGAATCATAAGCTTGTCTGTCGATAAAGCAT
572148 TGAATCATAAGCTTGTCTGTCGATAAAGCAT
1 TGAATCATAAGCTTGTCTGTCGATAAAGCAT
572179 GGATTTTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (31 bp):
TGAATCATAAGCTTGTCTGTCGATAAAGCAT
Found at i:572156 original size:114 final size:109
Alignment explanation
Indices: 571961--572178 Score: 382
Period size: 114 Copynumber: 2.0 Consensus size: 109
571951 GTCATCCGGA
571961 ACAAAGTTTGGAGTAGATTTGTAGATGTTGGGTATATATCCATGAATCATAAGCTTGTCTGTCGA
1 ACAAAGTTTGGAGTAGATTTGTAGATGTTGGGTATATATCCATGAATCATAAGCTTGTCTGTCGA
572026 TAAAGCATTGAATCATAAGCTTGTCTGTCGATAAAGCATTGAAT
66 TAAAGCATTGAATCATAAGCTTGTCTGTCGATAAAGCATTGAAT
*
572070 ACAAAGTTTGGAGTAGATTTGTAGATGTTGGAGAGGGTATATATGCATGAATCATAAGCTTGTCT
1 ACAAAGTTTGGAGTAGATTTGTAGATGTT-----GGGTATATATCCATGAATCATAAGCTTGTCT
572135 GTCGATAAAGCATTGAATCATAAGCTTGTCTGTCGATAAAGCAT
61 GTCGATAAAGCATTGAATCATAAGCTTGTCTGTCGATAAAGCAT
572179 GGATTTTGGG
Statistics
Matches: 103, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
109 29 0.28
114 74 0.72
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (109 bp):
ACAAAGTTTGGAGTAGATTTGTAGATGTTGGGTATATATCCATGAATCATAAGCTTGTCTGTCGA
TAAAGCATTGAATCATAAGCTTGTCTGTCGATAAAGCATTGAAT
Found at i:574520 original size:24 final size:24
Alignment explanation
Indices: 574489--574545 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
574479 ATTTAATGTT
* *
574489 TAATATAATAATTATATTTTTA-A
1 TAATATAATAATCATATTTTGATA
574512 TAGATATAATAATCATATTTTGATA
1 TA-ATATAATAATCATATTTTGATA
574537 TAATATAAT
1 TAATATAAT
574546 GTGTAATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 25 0.83
25 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
TAATATAATAATCATATTTTGATA
Found at i:579504 original size:19 final size:19
Alignment explanation
Indices: 579480--579518 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
579470 GTTTAGAGAT
*
579480 TAAAAATATTATTTTATAA
1 TAAAAAAATTATTTTATAA
579499 TAAAAAAATTATTTTATAA
1 TAAAAAAATTATTTTATAA
579518 T
1 T
579519 TTTTAATAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAAAAAATTATTTTATAA
Found at i:593813 original size:14 final size:14
Alignment explanation
Indices: 593790--593830 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
593780 CAATTAATCG
593790 TTAATAAATTATAT
1 TTAATAAATTATAT
*
593804 TTAATTAATTATAT
1 TTAATAAATTATAT
*
593818 TTCA-AAATTATAT
1 TTAATAAATTATAT
593831 CTCGAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
TTAATAAATTATAT
Found at i:594041 original size:21 final size:20
Alignment explanation
Indices: 594007--594046 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
593997 GTAATTAATC
* *
594007 AATTTTTAATAATTAGATTAT
1 AATTTATAAAAATTA-ATTAT
594028 AATTTATAAAAATTAATTA
1 AATTTATAAAAATTAATTA
594047 CCATCAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AATTTATAAAAATTAATTAT
Found at i:601929 original size:3 final size:3
Alignment explanation
Indices: 601910--601988 Score: 69
Period size: 3 Copynumber: 27.0 Consensus size: 3
601900 TGTGGAGCCT
* *
601910 ATA AAA ATA ATA A-A ATA ATA ATAA ATA A-A ATA ATA ATA ATC ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
*
601954 ATA ATC ATA ATAA ATA A-A TATA AT- ATA ATA A-A ATA
1 ATA ATA ATA AT-A ATA ATA -ATA ATA ATA ATA ATA ATA
601989 TTTTTGTAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 9 0.15
3 46 0.74
4 7 0.11
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:601938 original size:15 final size:15
Alignment explanation
Indices: 601918--601988 Score: 83
Period size: 15 Copynumber: 4.6 Consensus size: 15
601908 CTATAAAAAT
601918 AATAAAATAATAATA
1 AATAAAATAATAATA
601933 AATAAAATAATAATA
1 AATAAAATAATAATA
*
601948 ATCATAATAATCATAATA
1 A--ATAA-AATAATAATA
601966 AAT-AAAT-ATAATA
1 AATAAAATAATAATA
601979 TAATAAAATA
1 -AATAAAATA
601989 TTTTTGTAGA
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
13 6 0.12
14 6 0.12
15 21 0.43
16 2 0.04
17 4 0.08
18 10 0.20
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
AATAAAATAATAATA
Found at i:601985 original size:18 final size:18
Alignment explanation
Indices: 601910--601984 Score: 77
Period size: 18 Copynumber: 4.2 Consensus size: 18
601900 TGTGGAGCCT
*
601910 ATAA-AAATAATAAAATA
1 ATAATAAATAATAATATA
601927 ATAATAAATAA-AATAATA
1 ATAATAAATAATAAT-ATA
*
601945 ATAAT-CATAATAATCATA
1 ATAATAAATAATAAT-ATA
601963 ATAAATAAAT-ATAATATA
1 AT-AATAAATAATAATATA
601981 ATAA
1 ATAA
601985 AATATTTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
17 12 0.24
18 27 0.55
19 8 0.16
20 2 0.04
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAATAAATAATAATATA
Found at i:605467 original size:45 final size:43
Alignment explanation
Indices: 605405--605493 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 43
605395 AAAGAAATTC
*
605405 CAACAGACTATGTAAGTAATAGGATAAATTACACATTTAGTCA
1 CAACAGACTATGTAAGTAATAGGATAAATTACACATTTAATCA
605448 CAACAGACTTTATGTAAGTAATAGGATAAATTACACATTTAATCA
1 CAACAGAC--TATGTAAGTAATAGGATAAATTACACATTTAATCA
605493 C
1 C
605494 TCATCTATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 8 0.19
45 35 0.81
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (43 bp):
CAACAGACTATGTAAGTAATAGGATAAATTACACATTTAATCA
Found at i:605751 original size:24 final size:24
Alignment explanation
Indices: 605724--605796 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
605714 CGTTCATTTA
605724 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * * *
605748 CGTTTGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * * *
605772 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
605796 C
1 C
605797 ATTCATTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 40 0.95
25 2 0.05
ACGTcount: A:0.11, C:0.14, G:0.25, T:0.51
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:605756 original size:14 final size:14
Alignment explanation
Indices: 605734--605790 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
605724 CGTTCGTGAA
*
605734 CGTTCGGTTATGTT
1 CGTTTGGTTATGTT
605748 CGTTTGGTTATGTT
1 CGTTTGGTTATGTT
605762 CG--T--TTATGTT
1 CGTTTGGTTATGTT
* *
605772 CGTTCGATTATGTT
1 CGTTTGGTTATGTT
605786 CGTTT
1 CGTTT
605791 ATGTTCATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 9 0.25
12 1 0.03
14 26 0.72
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.54
Consensus pattern (14 bp):
CGTTTGGTTATGTT
Found at i:605806 original size:24 final size:24
Alignment explanation
Indices: 605735--605809 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
605725 GTTCGTGAAC
* * * *
605735 GTTCGGTTATGTTCGTTTGGTTAT
1 GTTCGTTTATGTTCATTCGATTAT
*
605759 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCATTCGATTAT
605783 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCATTCGA-TTAT
605807 GTT
1 GTT
605810 TAACACAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCGATTAT
Found at i:606549 original size:10 final size:10
Alignment explanation
Indices: 606534--606608 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
606524 GGGTCTCCAA
606534 CGTTTATGTT
1 CGTTTATGTT
606544 CGTTTATGTT
1 CGTTTATGTT
606554 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
606565 ATGTTCGTGTT
1 -CGTTTATGTT
606576 CGTTTATGTT
1 CGTTTATGTT
606586 CG----TGTT
1 CGTTTATGTT
606592 CGTTTATGTT
1 CGTTTATGTT
606602 CGTTTAT
1 CGTTTAT
606609 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:606565 original size:16 final size:16
Alignment explanation
Indices: 606540--606604 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
606530 CCAACGTTTA
606540 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
606556 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
606572 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
606588 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
606604 T
1 T
606605 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:606695 original size:16 final size:16
Alignment explanation
Indices: 606674--606706 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
606664 AAAAAAAATT
606674 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
606690 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
606706 T
1 T
606707 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:611471 original size:20 final size:20
Alignment explanation
Indices: 611433--611473 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
611423 CTTATTAAAT
*
611433 ATTATTTAAAATCATAATAA
1 ATTATTTAAAATCAAAATAA
611453 ATTATTT-AAATACAAAATAA
1 ATTATTTAAAAT-CAAAATAA
611473 A
1 A
611474 AAATTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTATTTAAAATCAAAATAA
Found at i:611483 original size:13 final size:13
Alignment explanation
Indices: 611467--611491 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
611457 TTTAAATACA
611467 AAATAAAAAATTC
1 AAATAAAAAATTC
611480 AAATAAAAAATT
1 AAATAAAAAATT
611492 AGAAAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAAAATTC
Found at i:611665 original size:21 final size:21
Alignment explanation
Indices: 611641--611680 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
611631 ATAAAGAATT
*
611641 ATTATTTTTATATAAATTTAC
1 ATTATTTATATATAAATTTAC
*
611662 ATTATTTATATATTAATTT
1 ATTATTTATATATAAATTT
611681 TTAAGTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATTTATATATAAATTTAC
Found at i:613477 original size:33 final size:32
Alignment explanation
Indices: 613435--613501 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
613425 GAGTTTTTTA
613435 TTATTGCCACGTCAGTTTTTACT-GTAAAAATCG
1 TTATTGCCACGTCAGTTTTTA-TAGT-AAAATCG
613468 TTATTGCCACGTCAGTTTTTATAGTAAAATCG
1 TTATTGCCACGTCAGTTTTTATAGTAAAATCG
613500 TT
1 TT
613502 GAAACAACTG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 10 0.30
33 23 0.70
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (32 bp):
TTATTGCCACGTCAGTTTTTATAGTAAAATCG
Found at i:631373 original size:41 final size:41
Alignment explanation
Indices: 631297--631403 Score: 119
Period size: 41 Copynumber: 2.6 Consensus size: 41
631287 AATAATTTAC
* * *
631297 TTTAGTGTCGTTTTTATACAAACGCCGTGAAAGACT-GTAA
1 TTTAGTGGCGTTTTTATACAAACGCAGTGAAAGACTCATAA
* * *
631337 TTTAGTGGCGTTTTTAGAACAAACGCAGCTG-TAGACTCATGA
1 TTTAGTGGCGTTTTTA-TACAAACGCAG-TGAAAGACTCATAA
*
631379 TTTAGTGGCATTTTTATACAAACGC
1 TTTAGTGGCGTTTTTATACAAACGC
631404 CGCTATAGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
40 15 0.27
41 22 0.39
42 19 0.34
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTATACAAACGCAGTGAAAGACTCATAA
Found at i:631558 original size:42 final size:42
Alignment explanation
Indices: 631450--631588 Score: 147
Period size: 42 Copynumber: 3.4 Consensus size: 42
631440 AAACGTCGCT
* * * * ** * *
631450 AAATACTCGTACTATAGTGGCGTTTTTA-TATAAATGCCTCA
1 AAATACTCGTACTTTAGTGGCGTTTTAAGCACAAACACCACC
* * *
631491 AAATAAT-GTACTTTAGTGGCGTTTTAAGCACAAACGCCGCC
1 AAATACTCGTACTTTAGTGGCGTTTTAAGCACAAACACCACC
* *
631532 AGATACTCGTACTTTAGTGGCGTTTTAAGCACAAACACCACT
1 AAATACTCGTACTTTAGTGGCGTTTTAAGCACAAACACCACC
631574 AAATACTCGTACTTT
1 AAATACTCGTACTTT
631589 TTAATCCGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 18 0.22
41 19 0.23
42 45 0.55
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (42 bp):
AAATACTCGTACTTTAGTGGCGTTTTAAGCACAAACACCACC
Found at i:634502 original size:21 final size:21
Alignment explanation
Indices: 634478--634536 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
634468 TGATTTATTA
**
634478 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
634499 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
634520 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
634537 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:634743 original size:43 final size:43
Alignment explanation
Indices: 634689--634828 Score: 217
Period size: 43 Copynumber: 3.3 Consensus size: 43
634679 ACCAGATCTT
*
634689 TTGCGGTGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
* *
634732 TTACGGCGTTTGTGGGAAAAACGCTGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
* * *
634775 TTGCAGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
*
634818 TTGCGGTGTTT
1 TTGCGGCGTTT
634829 ATCCAACAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (43 bp):
TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
Found at i:637324 original size:30 final size:30
Alignment explanation
Indices: 637254--637310 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
637244 AGGTGCCAAC
* * *
637254 TTAAAATTTTAAAAAATTTAGAGGATTAAA
1 TTAAGATTTTTAAAAATTTAAAGGATTAAA
637284 TTAAGATTTTTAAAAATTTAAAGGATT
1 TTAAGATTTTTAAAAATTTAAAGGATT
637311 TAGTTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (30 bp):
TTAAGATTTTTAAAAATTTAAAGGATTAAA
Found at i:652859 original size:37 final size:36
Alignment explanation
Indices: 652809--652917 Score: 157
Period size: 35 Copynumber: 3.0 Consensus size: 36
652799 ATATATCAAC
* *
652809 AAACATCTACCAAACTTTGAAAAACCATTTTTCAAGG
1 AAACATTTACCAAACTTTG-AAAACCATTTTTCAAAG
* *
652846 AAACATTTACCAAACTTTGAAAATCA-TTTTCAAAT
1 AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
652881 AAACATTTACCAAACTTTGAAAACCATTTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTTCAAAG
652918 TTGGTTGCCA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
35 32 0.50
36 6 0.09
37 26 0.41
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (36 bp):
AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
Found at i:652873 original size:21 final size:20
Alignment explanation
Indices: 652846--652909 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
652836 TTTTTCAAGG
652846 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
*
652866 AAATCATTT-TCAAA---T--
1 AAA-CATTTACCAAACTTTGA
652881 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
652901 AAACCATTT
1 AAA-CATTT
652910 TTTCAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
17 1 0.03
18 1 0.03
20 10 0.29
21 10 0.29
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (20 bp):
AAACATTTACCAAACTTTGA
Found at i:657461 original size:36 final size:37
Alignment explanation
Indices: 657414--657530 Score: 141
Period size: 35 Copynumber: 3.2 Consensus size: 37
657404 TTATCCCATT
* *
657414 ACAATATTTC-AACAAACATCTACCAAACTTTGAAAA
1 ACAATTTTTCAAACAAACATTTACCAAACTTTGAAAA
* *
657450 ACAATTTTTCAAAGAAACATTTATCAAACTTTG-AAA
1 ACAATTTTTCAAACAAACATTTACCAAACTTTGAAAA
* *
657486 ACCA-TTTTCAAATAAACATTTACCAAACTTTGAAAA
1 ACAATTTTTCAAACAAACATTTACCAAACTTTGAAAA
* *
657522 CCATTTTTT
1 ACAATTTTT
657531 TAAAATTGGT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
35 26 0.38
36 19 0.28
37 23 0.34
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (37 bp):
ACAATTTTTCAAACAAACATTTACCAAACTTTGAAAA
Found at i:657491 original size:21 final size:21
Alignment explanation
Indices: 657467--657527 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
657457 TTCAAAGAAA
657467 CATTTATCAAACTTTGAAAAC
1 CATTTATCAAACTTTGAAAAC
657488 CATTT-TCAAA---T--AAA-
1 CATTTATCAAACTTTGAAAAC
*
657502 CATTTACCAAACTTTGAAAAC
1 CATTTATCAAACTTTGAAAAC
657523 CATTT
1 CATTT
657528 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 14
0.68 0.02 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.22
17 1 0.03
18 1 0.03
20 8 0.25
21 10 0.31
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (21 bp):
CATTTATCAAACTTTGAAAAC
Found at i:657503 original size:35 final size:35
Alignment explanation
Indices: 657427--657528 Score: 150
Period size: 35 Copynumber: 2.9 Consensus size: 35
657417 ATATTTCAAC
* *
657427 AAACATCTACCAAACTTTGAAAAACAATTTTTCAAAG
1 AAACATTTACCAAACTTTG-AAAACCA-TTTTCAAAG
* *
657464 AAACATTTATCAAACTTTGAAAACCATTTTCAAAT
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
657499 AAACATTTACCAAACTTTGAAAACCATTTT
1 AAACATTTACCAAACTTTGAAAACCATTTT
657529 TTTAAAATTG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 37 0.62
36 6 0.10
37 17 0.28
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
Found at i:671290 original size:1 final size:1
Alignment explanation
Indices: 671284--671374 Score: 65
Period size: 1 Copynumber: 91.0 Consensus size: 1
671274 TCCTAAGTTG
* * * * * * * * * *
671284 AAAAAAAAAAACAAAACAAAACAAAACAAAACAAAACAAAAAACAAAACAAAAAAACAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
671349 AAAACAAAAAAACAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
671375 GGGAAGAACG
Statistics
Matches: 64, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:671314 original size:21 final size:21
Alignment explanation
Indices: 671285--671373 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 21
671275 CCTAAGTTGA
*
671285 AAAAAAAAAACAAAACAAAAC
1 AAAACAAAAACAAAACAAAAC
671306 AAAAC-AAAACAAAACAAAAAAC
1 AAAACAAAAACAAAAC--AAAAC
671328 AAAACAAAAAAACAAAAC-AAA-
1 AAAAC--AAAAACAAAACAAAAC
*
671349 AAAACAAAAA-AACAAAAAAAC
1 AAAACAAAAACAA-AACAAAAC
671370 AAAA
1 AAAA
671374 AGGGAAGAAC
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
18 2 0.03
19 7 0.12
20 13 0.22
21 13 0.22
22 13 0.22
25 10 0.17
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (21 bp):
AAAACAAAAACAAAACAAAAC
Found at i:671319 original size:25 final size:24
Alignment explanation
Indices: 671285--671373 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 24
671275 CCTAAGTTGA
671285 AAAAAA-AAAACAAAACAAAACAAA
1 AAAAAACAAAACAAAACAAAA-AAA
*
671309 ACAAAACAAAACAAAA-AACAAAACA
1 AAAAAACAAAACAAAACAA-AAAA-A
671334 AAAAAACAAAACAAAA-AAACAAAA
1 AAAAAACAAAACAAAACAAA-AAAA
671358 AAACAAA-AAAACAAAA
1 AAA-AAACAAAACAAAA
671374 AGGGAAGAAC
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
24 23 0.40
25 35 0.60
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAAAACAAAACAAAACAAAAAAA
Found at i:671341 original size:8 final size:8
Alignment explanation
Indices: 671284--671374 Score: 98
Period size: 8 Copynumber: 11.2 Consensus size: 8
671274 TCCTAAGTTG
671284 AAAA-AAA
1 AAAACAAA
671291 AAAACAAA
1 AAAACAAA
* *
671299 ACAA-AAC
1 AAAACAAA
671306 AAAACAAA
1 AAAACAAA
671314 ACAAA-ACAA
1 A-AAACA-AA
671323 AAAACAAA
1 AAAACAAA
*
671331 ACAAAAAAA
1 A-AAACAAA
671340 CAAAACAAA
1 -AAAACAAA
671349 AAAACAAA
1 AAAACAAA
671357 AAAACAAA
1 AAAACAAA
671365 AAAACAAA
1 AAAACAAA
671373 AA
1 AA
671375 GGGAAGAACG
Statistics
Matches: 71, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
7 9 0.13
8 42 0.59
9 19 0.27
10 1 0.01
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAACAAA
Found at i:671374 original size:25 final size:25
Alignment explanation
Indices: 671285--671374 Score: 105
Period size: 27 Copynumber: 3.5 Consensus size: 25
671275 CCTAAGTTGA
671285 AAAAAAAAAACAAAACAAAACAAAAC
1 AAAAAAAAAA-AAAACAAAACAAAAC
671311 AAAACAAAACAAAAAACAAAACAAAA-
1 AAAA-AAAA-AAAAAACAAAACAAAAC
671337 AAACAAAACAAAAAAAC-AAA-AAAAC
1 AAA-AAAA-AAAAAAACAAAACAAAAC
*
671362 AAAAAAACAAAAA
1 AAAAAAAAAAAAA
671375 GGGAAGAACG
Statistics
Matches: 58, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
23 5 0.09
24 8 0.14
25 6 0.10
26 17 0.29
27 20 0.34
28 2 0.03
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAAAACAAAACAAAAC
Found at i:672368 original size:105 final size:105
Alignment explanation
Indices: 672181--672746 Score: 879
Period size: 105 Copynumber: 5.4 Consensus size: 105
672171 AGGTTTTACC
* *
672181 CAGATCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
672246 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
672286 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCCGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
672351 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCCAA-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTT
* * * *
672391 CAGAGCCAATTTCAATTTCAAAACGAAAGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
672456 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTC-AATTT
* *
672497 -AGAGCCAATTTCAACGTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
672561 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTT
*
672602 -AGAGCCAATTTCAACTTCACAACGAAGGATATTGGTCTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * * *
672666 ACGAAGGGACCACTGGTTGTCAACGAATCATTTCCCAGTTC
66 ACGAAGGGACCGCTGGTTGTCAAC-AAACATTTCTCAATTT
* * *
672707 CAGAACCGATTTCAACTTCACAGC-AGAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGA-AGGATATTGGACTC
672747 GGAACAATAC
Statistics
Matches: 426, Mismatches: 28, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
104 1 0.00
105 378 0.89
106 47 0.11
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:680103 original size:5 final size:5
Alignment explanation
Indices: 680093--680138 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 5
680083 TATTATTATT
* * * *
680093 TCGGG TCGGG TCGGG TCGAG TCAGG TCGGG TCGAG TCAGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG T
680139 TTCTAATTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.09, C:0.20, G:0.50, T:0.22
Consensus pattern (5 bp):
TCGGG
Found at i:680121 original size:15 final size:15
Alignment explanation
Indices: 680101--680138 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
680091 TTTCGGGTCG
680101 GGTCGGGTCGAGTCA
1 GGTCGGGTCGAGTCA
680116 GGTCGGGTCGAGTCA
1 GGTCGGGTCGAGTCA
680131 GGTCGGGT
1 GGTCGGGT
680139 TTCTAATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.11, C:0.18, G:0.50, T:0.21
Consensus pattern (15 bp):
GGTCGGGTCGAGTCA
Found at i:680601 original size:229 final size:228
Alignment explanation
Indices: 680183--680650 Score: 691
Period size: 229 Copynumber: 2.0 Consensus size: 228
680173 ACTTTCTTTT
680183 GGTCGGGTCGGGTCATTATTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGGGTGAA
1 GGTCGGGTCGGGT-ATTATTTTAAGTGTGATATTCGGGTC-GG-CGAGTTCGGGTTTAGGGTGAA
* *
680248 AAATACCCGACCCGAAAAATATTTATAATTTTACCTTATATATTTAGGAATAATTACAATAATAC
63 AAATACCCGACCCGAAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATAC
* *
680313 CCCTCTATATATAATTTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATATTTTTTT-TTA
128 CCCTCTATATATAATTTTTGTCAATTAAGTCACTGTTTTTATTAAATAAAAATATTTTTTTATTA
680377 TTTCAGGTCGGGTCGGATTTCTAATTCATATATTCAGGTC-
193 TTTCAGGT----T-GGATTTCTAATTCATATATTCAGGTCG
*
680417 GGTCGGGTC-GGT-TTTTTTTAAGTGTGATATTCGGGTC-G-G-GTTCGGGTTTAGGGTGAAAAA
1 GGTCGGGTCGGGTATTATTTTAAGTGTGATATTCGGGTCGGCGAGTTCGGGTTTAGGGTGAAAAA
* *
680477 TACCCGACCCGACCCAAAAAATATATAATTTTACCTTATATATTTATGAATAATTACAATAATAT
66 TACCCGACCCGA---AAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATAC
680542 CCCTCTATATAT-ATTTTTGTCAATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTTATT
128 CCCTCTATATATAATTTTTGTCAATTAAGTCACTGTTTTTATTAAATAAAAAT-ATTTTTTTATT
* *
680606 ATTTCAGGTTGGGTTTCTAATTCATATATTCGGGTCG
192 ATTTCAGGTTGGATTTCTAATTCATATATTCAGGTCG
680643 GGTCGGGT
1 GGTCGGGT
680651 GAAACTTTAT
Statistics
Matches: 219, Mismatches: 9, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
225 24 0.11
226 42 0.19
227 1 0.00
228 38 0.17
229 67 0.31
230 11 0.05
231 24 0.11
233 3 0.01
234 9 0.04
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (228 bp):
GGTCGGGTCGGGTATTATTTTAAGTGTGATATTCGGGTCGGCGAGTTCGGGTTTAGGGTGAAAAA
TACCCGACCCGAAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCC
TCTATATATAATTTTTGTCAATTAAGTCACTGTTTTTATTAAATAAAAATATTTTTTTATTATTT
CAGGTTGGATTTCTAATTCATATATTCAGGTCG
Found at i:687309 original size:17 final size:17
Alignment explanation
Indices: 687271--687311 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
687261 AGATTAGTCG
687271 ATTAGTTTTAATATATTT
1 ATTA-TTTTAATATATTT
687289 -TTATTTTAA-ATATTTT
1 ATTATTTTAATATA-TTT
687305 ATTATTT
1 ATTATTT
687312 ATTATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 9 0.43
17 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
ATTATTTTAATATATTT
Found at i:705367 original size:23 final size:23
Alignment explanation
Indices: 705336--705408 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
705326 ATAGGTAAAA
* **
705336 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGTGCTT
*
705359 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGTGCTT
705382 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGCTT
705405 ATAT
1 ATAT
705409 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:705833 original size:490 final size:491
Alignment explanation
Indices: 704913--707281 Score: 3999
Period size: 491 Copynumber: 4.8 Consensus size: 491
704903 TTTTTACATG
* *
704913 TTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * * * * *
704978 AATTTAAGTTTATATTTTGAGTGAGATTTAAGATATCAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGAT
* *
705043 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
705108 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
705173 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
705238 CACTATTAAAAAAAATTGAAACATAAATTGCATAACTTTAAAAAAAGTATCGATCCTTTTTAT-A
326 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
705302 AAAAGTAT-ATACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAAT
391 AAAAGTATGA-ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAAT
*
705366 GTAATAGGTAGTGTTTATATAATGTAATAGGTAGTGC
455 GTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* * *
705403 TTATATTGTAAAGTATCTATCCATTTTATAAAAGTATCCATACTTTTTTCACTGTAGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * *
705468 AATTTAAGGTTATCTTTTAAGTGAGTTTTAAGATATTAATTCAATAATTATAGGTGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGAT
*
705533 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAAAAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
705598 TTATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
* * *
705663 ATAATTAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
705728 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTAT-A
326 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
* *
705792 AAAAGTATGAACACTTTCAATATAATATGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
391 AAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATG
705857 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
456 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* * * *
705893 TTATATTGTAAAGTATCTATCATTTTTTATAAAAATGTCCATAATTTTTTCACTGTGGAAAATAT
1 TTATATTGTAAAGTATCTATC-CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACAT
*
705958 TAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA-GTCGTCTAATG
65 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGT-GTCTAATG
706022 ATTTATTTTTTACGTTAC-G-ATATATTATTATTAAATTAAAAACAATAAACATATATATTACAT
129 ATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACAT
* *
706085 ATATATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCA
194 ATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCA
*
706150 AAACAATCAAATAATTTATTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
259 AAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
706215 AACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT
324 AACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT
* * *
706280 AAAAAAAATATGAACACTTTCAATTTAATAGATAAAAATATGATGTAATAGGTAGCACTTATATA
389 -AAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATA
*
706345 ATGTAATAGGTAGCGTTTATATATTGTAATAGGTAGTGC
453 ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
706384 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
706449 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGAT
706514 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
706579 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAAATT-TAAATAATATTTTATAAAATATCAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTT-AAATTCTAAATATTATTTTATAAAATATCAA
*
706643 AACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
260 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
**
706708 ACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATATATCCTTTTTATA
325 ACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATA
* * *
706773 AAAAAG-ATCG-ATACTTTACAATATATTAGGTAAAAATATGATGTAATAGGTAGCGCTTATATA
390 AAAAAGTAT-GAACACTTT-CAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATA
* * *
706836 ATGTAATAGGTAGCGCTTATATATTGTAATAGGTAGCGC
453 ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* * * *
706875 TTATATTGTAAAATATCTATCTTTTTTATAGAAGTGCCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * *
706940 AATTTAAGGTTATCTTTTGAGTGATTTTTAAGATATTAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGAT
* *
707005 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
707070 TTATTATCATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
* * *
707135 ACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTAATATTGTAGGTGAAAAACATAAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
707200 CACTATT--AAAAAATTGAAACATAAATTACATAACTTTAAAAAAA-TATCGATCTTTTTTATAA
326 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
*
707262 AAAAATAT-AGACACTTTCAA
391 AAAAGTATGA-ACACTTTCAA
707282 CATATTATAA
Statistics
Matches: 1772, Mismatches: 92, Indels: 32
0.93 0.05 0.02
Matches are distributed among these distances:
488 22 0.01
489 277 0.16
490 615 0.35
491 627 0.35
492 226 0.13
493 5 0.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (491 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGAT
TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
AAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATG
TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
Found at i:705857 original size:23 final size:23
Alignment explanation
Indices: 705826--705898 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
705816 ATATGTAAAA
*
705826 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
705849 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
705872 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
705895 ATAT
1 ATAT
705899 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:706348 original size:23 final size:23
Alignment explanation
Indices: 706317--706389 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
706307 ATAGATAAAA
* *
706317 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
*
706340 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
706363 ATATATTGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
706386 ATAT
1 ATAT
706390 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:706839 original size:23 final size:23
Alignment explanation
Indices: 706808--706880 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
706798 TTAGGTAAAA
*
706808 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
706831 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
706854 ATATATTGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
706877 ATAT
1 ATAT
706881 TGTAAAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:706902 original size:981 final size:981
Alignment explanation
Indices: 704913--707281 Score: 4112
Period size: 981 Copynumber: 2.4 Consensus size: 981
704903 TTTTTACATG
* * *
704913 TTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATAATTTTTTCACTGTGGAAAACATT
* * *
704978 AATTTAAGTTTATATTTTGAGTGAGATTTAAGATATCAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGTATCTAATGAT
705043 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
705108 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
705173 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
705238 CACTATTAAAAAAAATTGAAACATAAATTGCATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
326 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
** *
705303 AAAGTATAT-ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATG
391 AAAAAATATAACACTTTCAATATAATAGATAAAAATATGATGTAATAGGTAGCACTTATATAATG
*
705367 TAATAGGTAGTGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCATTTTAT
456 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCATTTTAT
705432 AAAAGTATCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTAAGTGAGTTTT
521 AAAAGTATCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTAAGTGAGTTTT
705497 AAGATATTAATTCAATAATTATAGGTGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
586 AAGATATTAATTCAATAATTATAGGTGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
705562 ATTAAATTAAAAACAAAAAACATATATATTACATATTTATTATTATATTTGGTTAATATTGTTAA
651 ATTAAATTAAAAACAAAAAACATATATATTACATATTTATTATTATATTTGGTTAATATTGTTAA
* * *
705627 ATTTAAATTCTAAATATTATTTTATAAAATATCAAAATAATTAAATAATTTTTTGTGCAAATGAA
716 ATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAA
705692 ATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATT
781 ATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATT
* *
705757 ACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGAACACTTTCAATATAATATGT
846 ACATAACTTTAAAAAAAGTATAGATCATTTTTATAAAAAGTATGAACACTTTCAATATAATAGGT
*
705822 AAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGG
911 AAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATGTAATAGG
*
705887 TAGTGC
976 TAGCGC
* *
705893 TTATATTGTAAAGTATCTATCATTTTTTATAAAAATGTCCATAATTTTTTCACTGTGGAAAATAT
1 TTATATTGTAAAGTATCTATC-TTTTTTATAAAAGTGTCCATAATTTTTTCACTGTGGAAAACAT
*
705958 TAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA-GTCGTCTAATG
65 TAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGT-ATCTAATG
* *
706022 ATTTATTTTTTACGTTAC-G-ATATATTATTATTAAATTAAAAACAATAAACATATATATTACAT
129 ATTTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACAT
* *
706085 ATATATTATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCA
194 ATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCA
*
706150 AAACAATCAAATAATTTATTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
259 AAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
706215 AACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT
324 AACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT
*
706280 AAAAAAAATATGAACACTTTCAATTTAATAGATAAAAATATGATGTAATAGGTAGCACTTATATA
389 AAAAAAAATAT-AACACTTTCAATATAATAGATAAAAATATGATGTAATAGGTAGCACTTATATA
* *
706345 ATGTAATAGGTAGCGTTTATATATTGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTT
453 ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCATTT
* *
706410 TATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGT
518 TATAAAAGTATCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTAAGTGAGT
* *
706475 TTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGATTTATTTTTTACGTTACGGTATATATT
583 TTTAAGATATTAATTCAATAATTATAGGTGTCTAATGATTTATTTTTTACGTTACGGTATATATT
* *
706540 ATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGT
648 ATTATTAAATTAAAAACAAAAAACATATATATTACATATTTATTATTATATTTGGTTAATATTGT
*
706605 TAAATTTAAAATT-TAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
713 TAAATTT-AAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAA
*
706669 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
777 TGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
* * *
706734 AATTACATAACTTTAAAAAAAGTATATATCCTTTTTATAAAAAAG-ATCG-ATACTTTACAATAT
842 AATTACATAACTTTAAAAAAAGTATAGATCATTTTTAT-AAAAAGTAT-GAACACTTT-CAATAT
* *
706797 ATTAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATATTG
904 AATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATG
706862 TAATAGGTAGCGC
969 TAATAGGTAGCGC
* * * *
706875 TTATATTGTAAAATATCTATCTTTTTTATAGAAGTGCCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATAATTTTTTCACTGTGGAAAACATT
* *
706940 AATTTAAGGTTATCTTTTGAGTGATTTTTAAGATATTAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGTATCTAATGAT
707005 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
*
707070 TTATTATCATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
* * *
707135 ACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTAATATTGTAGGTGAAAAACATAAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
707200 CACTATT--AAAAAATTGAAACATAAATTACATAACTTTAAAAAAA-TATCGATCTTTTTTAT-A
326 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
707261 AAAAAATATAGACACTTTCAA
391 AAAAAATATA-ACACTTTCAA
707282 CATATTATAA
Statistics
Matches: 1316, Mismatches: 61, Indels: 25
0.94 0.04 0.02
Matches are distributed among these distances:
978 1 0.00
979 263 0.20
980 38 0.03
981 725 0.55
982 114 0.09
983 175 0.13
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (981 bp):
TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATAATTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGTATCTAATGAT
TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
AAAAAATATAACACTTTCAATATAATAGATAAAAATATGATGTAATAGGTAGCACTTATATAATG
TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCATTTTAT
AAAAGTATCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTAAGTGAGTTTT
AAGATATTAATTCAATAATTATAGGTGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
ATTAAATTAAAAACAAAAAACATATATATTACATATTTATTATTATATTTGGTTAATATTGTTAA
ATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAA
ATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATT
ACATAACTTTAAAAAAAGTATAGATCATTTTTATAAAAAGTATGAACACTTTCAATATAATAGGT
AAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATGTAATAGG
TAGCGC
Found at i:714808 original size:111 final size:111
Alignment explanation
Indices: 714613--714834 Score: 399
Period size: 111 Copynumber: 2.0 Consensus size: 111
714603 TGGAAATCAT
* *
714613 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTAATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
714678 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
714724 ATATCTCGACACTTTGCTAATACGGTAACATTTTAACGTTTTAATTTAATTTAATTTATTAGTAA
1 ATATCTCGACACTTTGCTAATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
714789 TAATTAGTTGATTTCTTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
714835 TTTTTGTAAT
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTAATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:716369 original size:18 final size:18
Alignment explanation
Indices: 716343--716414 Score: 117
Period size: 18 Copynumber: 4.0 Consensus size: 18
716333 CCAGCAGCCA
716343 CCGCATCCATATATGATG
1 CCGCATCCATATATGATG
*
716361 CCACATCCATATATGATG
1 CCGCATCCATATATGATG
*
716379 CCGCAGCCATATATGATG
1 CCGCATCCATATATGATG
*
716397 CCGCAACCATATATGATG
1 CCGCATCCATATATGATG
716415 TTGCCATCGC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (18 bp):
CCGCATCCATATATGATG
Found at i:720641 original size:41 final size:40
Alignment explanation
Indices: 720596--720687 Score: 139
Period size: 41 Copynumber: 2.3 Consensus size: 40
720586 CCCTGATCCA
* * *
720596 CGCTATACCCCTACGTGGCGTATATCATGGAGCAGGGGGGG
1 CGCTATACCCCTACGTGGCGTATAGCACGGAGCA-GGGGCG
*
720637 CGCTATACCCCTACGTGGCGTATAGCGCGGAGCAGGGGCG
1 CGCTATACCCCTACGTGGCGTATAGCACGGAGCAGGGGCG
720677 CGCTATACCCC
1 CGCTATACCCC
720688 ATGTGTAACC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 16 0.34
41 31 0.66
ACGTcount: A:0.18, C:0.30, G:0.34, T:0.17
Consensus pattern (40 bp):
CGCTATACCCCTACGTGGCGTATAGCACGGAGCAGGGGCG
Found at i:727678 original size:18 final size:18
Alignment explanation
Indices: 727655--727689 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
727645 AATATTAATC
* *
727655 TTAATATATTTTATTAAA
1 TTAATAAATATTATTAAA
727673 TTAATAAATATTATTAA
1 TTAATAAATATTATTAA
727690 TTACTAATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATAAATATTATTAAA
Found at i:727842 original size:24 final size:25
Alignment explanation
Indices: 727786--727860 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 25
727776 ATATAATGTC
** *
727786 ATATATTATTATTATTATATAAAAAT
1 ATATATTATTAAAATTAT-TAATAAT
727812 ATAATATTATTAAAATTATTAATAA-
1 AT-ATATTATTAAAATTATTAATAAT
727837 ATATATT-TTAAAAATTA-TAATAAT
1 ATATATTATT-AAAATTATTAATAAT
727861 TACTAGGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
23 8 0.19
24 12 0.28
25 2 0.05
26 7 0.16
27 14 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATATTATTAAAATTATTAATAAT
Found at i:727847 original size:23 final size:24
Alignment explanation
Indices: 727815--727859 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
727805 TAAAAATATA
727815 ATATTATT-AAAATTATTAATAAAT
1 ATATTATTAAAAATTA-TAATAAAT
727839 ATATT-TTAAAAATTATAATAA
1 ATATTATTAAAAATTATAATAA
727860 TTACTAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATTATTAAAAATTATAATAAAT
Found at i:731710 original size:26 final size:26
Alignment explanation
Indices: 731679--731739 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
731669 TATTGAACTC
731679 AAATTTGATGGATTTTAATTACATTT
1 AAATTTGATGGATTTTAATTACATTT
* *
731705 ATATTTGATGGATTTTAATTATATTT
1 AAATTTGATGGATTTTAATTACATTT
731731 AAATTTGAT
1 AAATTTGAT
731740 AAGATTGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.52
Consensus pattern (26 bp):
AAATTTGATGGATTTTAATTACATTT
Found at i:732222 original size:5 final size:5
Alignment explanation
Indices: 732212--732245 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
732202 AGGTTTGACT
732212 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
732246 AACAGTCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:736610 original size:24 final size:24
Alignment explanation
Indices: 736578--736626 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
736568 TGAGCTGGAA
736578 GATGTTGAAGACAAGGTCTGCATT
1 GATGTTGAAGACAAGGTCTGCATT
*
736602 GATGTTGAAGACAATGTCTGCATT
1 GATGTTGAAGACAAGGTCTGCATT
736626 G
1 G
736627 GAGCACATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (24 bp):
GATGTTGAAGACAAGGTCTGCATT
Found at i:738964 original size:29 final size:29
Alignment explanation
Indices: 738922--739010 Score: 124
Period size: 29 Copynumber: 3.1 Consensus size: 29
738912 TACCGGGGGT
*
738922 AGGTCGCCATGCACGCCCGGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
***
738951 AGGTCGCCATGCACGCCCAGCGACCTGGT
1 AGGTCGCCATGCACGCCCAGCGACCTACC
* *
738980 AGGTCGCCATGCATGCCCTGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
739009 AG
1 AG
739011 CCAACGACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.18, C:0.40, G:0.28, T:0.13
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:739288 original size:29 final size:29
Alignment explanation
Indices: 739227--739310 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
739217 ATGAATCCTT
** * **
739227 GGTCGCCCCGAGTGCATGGCGACCTCCTT
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
* *
739256 GGTCGCCGGGCGTGCATGGCGACCTAGGA
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
*
739285 GGTCGCTGGGAGTGCATGGCGACCTA
1 GGTCGCCGGGAGTGCATGGCGACCTA
739311 TGGTTGGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.13, C:0.30, G:0.39, T:0.18
Consensus pattern (29 bp):
GGTCGCCGGGAGTGCATGGCGACCTACGA
Found at i:741790 original size:15 final size:15
Alignment explanation
Indices: 741770--741800 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
741760 TTATTTTGTC
741770 AATAAAATTAAAGAA
1 AATAAAATTAAAGAA
741785 AATAAAATTAAAGAA
1 AATAAAATTAAAGAA
741800 A
1 A
741801 TAATATTTAT
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:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AATAAAATTAAAGAA
Found at i:743566 original size:184 final size:184
Alignment explanation
Indices: 743330--743717 Score: 620
Period size: 184 Copynumber: 2.1 Consensus size: 184
743320 TTTTTTAATT
* * * *
743330 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAAATAATTTAAATAATATATAAT
* *
743394 TATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
66 TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAATTTAAAAGTTATT
* * *
743459 GGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGACTT-AGCCCATATGTTA
131 GGATCTTAAATTATTAATTGAGTTTTAAATGATTT-GACTTGAACACATATGTTA
743513 TATATAATATATTTAATATTTTTTAATT-AAAAAACAGTTTACAAATAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAA-AGTTTACAAATAATTTAAATAATATATAA
* *
743577 TTATAAAATAAAAAATTTATATAATTTTTTTAATTAATTAATATTGATTTAAATTTAAAAGTTAT
65 TTATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAATTTAAAAGTTAT
* *
743642 TGGATCTTAAATTATTAATTGGGTTTTAAATGATTTGAGTTGAACACATATGTTA
130 TGGATCTTAAATTATTAATTGAGTTTTAAATGATTTGACTTGAACACATATGTTA
743697 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
743718 AAAATTTAAT
Statistics
Matches: 189, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
183 17 0.09
184 172 0.91
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (184 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAAATAATTTAAATAATATATAAT
TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAATTTAAAAGTTATT
GGATCTTAAATTATTAATTGAGTTTTAAATGATTTGACTTGAACACATATGTTA
Found at i:743742 original size:9 final size:9
Alignment explanation
Indices: 743723--743756 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
743713 TATTTAAAAT
743723 TTAATTTCGG
1 TTAA-TTCGG
743733 TTAATTCGG
1 TTAATTCGG
*
743742 TTAATTCGT
1 TTAATTCGG
743751 TTAATT
1 TTAATT
743757 AACCGAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (9 bp):
TTAATTCGG
Found at i:748490 original size:18 final size:17
Alignment explanation
Indices: 748467--748509 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
748457 ATATATACAT
748467 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
748485 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
748502 ATAA-AATA
1 ATAATAATA
748510 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:748939 original size:36 final size:37
Alignment explanation
Indices: 748867--748967 Score: 134
Period size: 36 Copynumber: 2.8 Consensus size: 37
748857 GTGCTTGTGG
* * * *
748867 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
748904 ATCCTATTTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
748940 ATCCTATTTTT-GAGAGTTTGAATCCTAG
1 ATCCTATTTTTAG-GAGTTTGAATCCTAG
748968 TAGGACGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 1 0.02
36 30 0.53
37 26 0.46
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:749446 original size:174 final size:179
Alignment explanation
Indices: 749024--749501 Score: 754
Period size: 174 Copynumber: 2.7 Consensus size: 179
749014 GAATTTTAAC
*
749024 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATT
1 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATT-AAAAAATTATATAAATTT
*
749089 TTATTTTATAATTATATATTATTTAAATTAATTTTAAATTGTTTTTTTAATTAAAAAATATTAAT
65 TTATTTTATAATTATATATTATTTAAATTAATTATAAATTG-TTTTTTAATT-AAAAATATTAAT
749154 ATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATA
128 ATA-TATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATA
749207 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTT
1 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATAT-AAATTT
* *
749272 TTATTTTATAATGATATATTATTTAAATTAATTGTAAATTGTTTTTTAATTAAAAA-A-T-AT-T
65 TTATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTTAATTAAAAATATTAATAT
* *
749333 A-A-ATATAACATATGGGCTAAGCCCAAACCATTTAAAACTCAATTGATA
130 ATATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATA
*
749381 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAATTTATATGAAATTT
1 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATAT-AAATTT
* * *
749446 TTATTTTAAAATTATATATTATTTAAATTAATTATAAACTT-TTTTTGAATTTAAAA
65 TTATTTTATAATTATATATTATTTAAATTAATTATAAA-TTGTTTTTTAATTAAAAA
749502 CATTTTTTTA
Statistics
Matches: 281, Mismatches: 12, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
174 155 0.55
175 3 0.01
177 2 0.01
178 2 0.01
179 1 0.00
180 1 0.00
181 5 0.02
182 22 0.08
183 90 0.32
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (179 bp):
ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTTAATTAAAAATATTAATATA
TATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATA
Found at i:751689 original size:18 final size:19
Alignment explanation
Indices: 751666--751708 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
751656 CAGTAATCAT
*
751666 ATTCC-CTGGTAATTTTAC
1 ATTCCACTGGTAATCTTAC
751684 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
751704 ATTCC
1 ATTCC
751709 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 4 0.18
20 15 0.68
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:751696 original size:20 final size:20
Alignment explanation
Indices: 751671--751708 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
751661 ATCATATTCC
*
751671 CTGGTAATTTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
751691 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
751709 GTGAACCAAA
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:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:755183 original size:31 final size:32
Alignment explanation
Indices: 755148--755209 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
755138 TTTTTTAAAT
755148 TTATAAAATAATCATTACA-TTTATCAAATTG
1 TTATAAAATAATCATTACATTTTATCAAATTG
* * *
755179 TTATATAATAATCATTATATTTTATTAAATT
1 TTATAAAATAATCATTACATTTTATCAAATT
755210 TGTACATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (32 bp):
TTATAAAATAATCATTACATTTTATCAAATTG
Found at i:755411 original size:16 final size:16
Alignment explanation
Indices: 755378--755416 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
755368 GTTTACTTCA
*
755378 GAATGA-TTAAACGTT
1 GAATGATTTAAACGCT
*
755393 GAATGATTTAAATGCT
1 GAATGATTTAAACGCT
755409 GAATGATT
1 GAATGATT
755417 CAGAGGCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (16 bp):
GAATGATTTAAACGCT
Found at i:765845 original size:78 final size:77
Alignment explanation
Indices: 765687--765833 Score: 278
Period size: 76 Copynumber: 1.9 Consensus size: 77
765677 ACTCACACAA
765687 CCTTGTACGAAATCCTGATGGGGGGGTTCTGTATGGTGTTGGAGCTTTGGTCTATGCTGCAAGGG
1 CCTTGTACGAAATCCTGAT-GGGGGGTTCTGTATGGTGTTGGAGCTTTGGTCTATGCTGCAAGGG
765752 TTCCAGAGCGGTG
65 TTCCAGAGCGGTG
765765 CCTTGTACGAAATCCTGAT-GGGGGTTCTGTATGGTGTTGGAGCTTTGGTCTATGCTGCAAGGGT
1 CCTTGTACGAAATCCTGATGGGGGGTTCTGTATGGTGTTGGAGCTTTGGTCTATGCTGCAAGGGT
765829 TCCAG
66 TCCAG
765834 CGGTGGATGC
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
76 50 0.72
78 19 0.28
ACGTcount: A:0.16, C:0.17, G:0.35, T:0.32
Consensus pattern (77 bp):
CCTTGTACGAAATCCTGATGGGGGGTTCTGTATGGTGTTGGAGCTTTGGTCTATGCTGCAAGGGT
TCCAGAGCGGTG
Found at i:766645 original size:25 final size:25
Alignment explanation
Indices: 766611--766665 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
766601 ACCTTGGATG
766611 GTGACATGCCACATTATCACCTTAT
1 GTGACATGCCACATTATCACCTTAT
766636 GTGACATGCCACATTATCACCTTAT
1 GTGACATGCCACATTATCACCTTAT
766661 GTGAC
1 GTGAC
766666 TTAGTAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (25 bp):
GTGACATGCCACATTATCACCTTAT
Found at i:768871 original size:210 final size:208
Alignment explanation
Indices: 768461--768878 Score: 777
Period size: 209 Copynumber: 2.0 Consensus size: 208
768451 GTCACCATGT
768461 TATAAATTTCAATCTCTAAGTGATTTATTAAAAGAAAAAAAACTTAGAAATTAGTCGTAAATGGA
1 TATAAATTTCAATCTCTAAGTGATTTATTAAAAGAAAAAAAACTTAGAAATTAGTCGTAAATGGA
768526 AGCTTATTCATCATCTTCTTCTACGGCTGGGTCAAAGACTCGAAGTCTTTCCCTGCGTCGCTTCA
66 AGCTTATTCATCATCTTCTTCTACGGCTGGGTCAAAGACTCGAAGTCTTTCCCTGCGTCGCTTCA
768591 CTCGATTCGTAAGCCATCGGAAAGCCCGGGAAGAAGCCGATTTCGCCATTGCAACCGACACCGCC
131 CTCGATTCGTAAGCCATCGGAAAGCCCGGGAAGAAGCCGATTTCGCCATTGCAACCGACACCGCC
768656 CAAAG-TTACAAG
196 CAAAGTTTACAAG
768668 TATAAATTTCAATCTCCTCAAGTGATTTATTAAAAGAAAAAAAACTTAGAAATTAGTCGTAAATG
1 TATAAATTTCAATCT-CT-AAGTGATTTATTAAAAGAAAAAAAACTTAGAAATTAGTCGTAAATG
*
768733 GAAGCTTATTCATCATCTTCTTCTATGGCTGGGTCAAAGGACTCGAAGTCTTTCCCTGCGTCGCT
64 GAAGCTTATTCATCATCTTCTTCTACGGCTGGGTCAAA-GACTCGAAGTCTTTCCCTGCGTCGCT
768798 TCACTCGATTCGTAAGCCGATCGGAAAGCCCGGGAAGAAGCCGATTTCGCCATTGCAACCGACA-
128 TCACTCGATTCGTAAGCC-ATCGGAAAGCCCGGGAAGAAGCCGATTTCGCCATTGCAACCGACAC
768862 CGCCCAAAGTTTACAAG
192 CGCCCAAAGTTTACAAG
768879 GTCGACCCTA
Statistics
Matches: 205, Mismatches: 1, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
207 15 0.07
208 2 0.01
209 83 0.40
210 53 0.26
211 52 0.25
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (208 bp):
TATAAATTTCAATCTCTAAGTGATTTATTAAAAGAAAAAAAACTTAGAAATTAGTCGTAAATGGA
AGCTTATTCATCATCTTCTTCTACGGCTGGGTCAAAGACTCGAAGTCTTTCCCTGCGTCGCTTCA
CTCGATTCGTAAGCCATCGGAAAGCCCGGGAAGAAGCCGATTTCGCCATTGCAACCGACACCGCC
CAAAGTTTACAAG
Found at i:769511 original size:15 final size:17
Alignment explanation
Indices: 769491--769525 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
769481 ATGATTTTTT
769491 TATTAT-TA-ATATATA
1 TATTATATATATATATA
769506 TATTATATATATATATA
1 TATTATATATATATATA
769523 TAT
1 TAT
769526 CCACTATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTATATATATATATA
Found at i:774919 original size:2 final size:2
Alignment explanation
Indices: 774914--774938 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
774904 TTTATTATTA
774914 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
774939 ATCACTATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:786602 original size:18 final size:19
Alignment explanation
Indices: 786567--786605 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
786557 TTCATTAAAT
*
786567 TTTAAATTAAGCATTTTAA
1 TTTAAAATAAGCATTTTAA
786586 TTTAAAATAAG-ATTTTAA
1 TTTAAAATAAGCATTTTAA
786604 TT
1 TT
786606 AATTATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTAAAATAAGCATTTTAA
Found at i:786805 original size:16 final size:16
Alignment explanation
Indices: 786784--786832 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
786774 ATTTGTTAAG
786784 AAATAAACATTCATTT
1 AAATAAACATTCATTT
786800 AAATAAACATTCATTT
1 AAATAAACATTCATTT
*
786816 AATTAAACATTCATTT
1 AAATAAACATTCATTT
786832 A
1 A
786833 GGATTGATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATAAACATTCATTT
Found at i:790131 original size:20 final size:20
Alignment explanation
Indices: 790106--790159 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
790096 TCCTACGCTG
*
790106 CCTTTCTTCCCTTTTATCCT
1 CCTTTCCTCCCTTTTATCCT
*
790126 CCTTTCCTCCCTTTTCTCCT
1 CCTTTCCTCCCTTTTATCCT
790146 CCTTTCCTCCCTTT
1 CCTTTCCTCCCTTT
790160 CCCTTATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.02, C:0.46, G:0.00, T:0.52
Consensus pattern (20 bp):
CCTTTCCTCCCTTTTATCCT
Found at i:791098 original size:29 final size:28
Alignment explanation
Indices: 791056--791140 Score: 152
Period size: 29 Copynumber: 3.0 Consensus size: 28
791046 CAGTGGCAAC
791056 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCC-T
791085 ATAGGTCGCCATGCACGCCCGGCGTCCT
1 ATAGGTCGCCATGCACGCCCGGCGTCCT
791113 ATAAGGTCGCCATGCACGCCCGGCGTCC
1 AT-AGGTCGCCATGCACGCCCGGCGTCC
791141 ATCATTATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 3 0.05
29 52 0.95
ACGTcount: A:0.15, C:0.39, G:0.28, T:0.18
Consensus pattern (28 bp):
ATAGGTCGCCATGCACGCCCGGCGTCCT
Found at i:791373 original size:15 final size:15
Alignment explanation
Indices: 791353--791413 Score: 67
Period size: 15 Copynumber: 4.1 Consensus size: 15
791343 TAGGTTGCCG
791353 GCGACATGGTAGGTC
1 GCGACATGGTAGGTC
791368 GCGACATGGTAGGTC
1 GCGACATGGTAGGTC
791383 GC--CATGG-A-GTCCC
1 GCGACATGGTAGGT--C
791396 GACGACATGGTAGGTC
1 G-CGACATGGTAGGTC
791412 GC
1 GC
791414 CATGGAGTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
11 2 0.05
12 1 0.03
13 7 0.18
14 1 0.03
15 18 0.46
16 7 0.18
17 1 0.03
18 2 0.05
ACGTcount: A:0.20, C:0.25, G:0.38, T:0.18
Consensus pattern (15 bp):
GCGACATGGTAGGTC
Found at i:791402 original size:29 final size:29
Alignment explanation
Indices: 791369--791439 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
791359 TGGTAGGTCG
791369 CGACATGGTAGGTCGCCATGGAGTCCCGA
1 CGACATGGTAGGTCGCCATGGAGTCCCGA
*
791398 CGACATGGTAGGTCGCCATGGAGTCCCTA
1 CGACATGGTAGGTCGCCATGGAGTCCCGA
791427 CGACATGGTAGGT
1 CGACATGGTAGGT
791440 GGTAGGGTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.21, C:0.25, G:0.34, T:0.20
Consensus pattern (29 bp):
CGACATGGTAGGTCGCCATGGAGTCCCGA
Found at i:791450 original size:12 final size:12
Alignment explanation
Indices: 791433--791457 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
791423 CCTACGACAT
791433 GGTAGGTGGTAG
1 GGTAGGTGGTAG
791445 GGTAGGTGGTAG
1 GGTAGGTGGTAG
791457 G
1 G
791458 TCGCCATGGA
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:0.16, C:0.00, G:0.60, T:0.24
Consensus pattern (12 bp):
GGTAGGTGGTAG
Found at i:791536 original size:35 final size:35
Alignment explanation
Indices: 791497--791564 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
791487 TCCTGCATCG
791497 CGACCAAGCTTTAACTGTAGCACTCATGCATGCAA
1 CGACCAAGCTTTAACTGTAGCACTCATGCATGCAA
*
791532 CGACCAAGCTTTAACTGTATCACTCATGCATGC
1 CGACCAAGCTTTAACTGTAGCACTCATGCATGC
791565 GTTGCATCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (35 bp):
CGACCAAGCTTTAACTGTAGCACTCATGCATGCAA
Found at i:792026 original size:21 final size:21
Alignment explanation
Indices: 792001--792044 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
791991 AATCTAGTTA
*
792001 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTGGTTAGTATAAATT
* *
792022 ATTAGTTGGTTAGTTTAAGTT
1 ATTAGTTGGTTAGTATAAATT
792043 AT
1 AT
792045 ATATTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (21 bp):
ATTAGTTGGTTAGTATAAATT
Found at i:792466 original size:14 final size:14
Alignment explanation
Indices: 792447--792473 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
792437 AGTAATTTAT
792447 TATTTTTTGTTGTC
1 TATTTTTTGTTGTC
792461 TATTTTTTGTTGT
1 TATTTTTTGTTGT
792474 TGTGTATGTG
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:0.07, C:0.04, G:0.15, T:0.74
Consensus pattern (14 bp):
TATTTTTTGTTGTC
Found at i:792473 original size:17 final size:17
Alignment explanation
Indices: 792444--792476 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
792434 GTGAGTAATT
792444 TATTATTTTTTGTTGTC
1 TATTATTTTTTGTTGTC
792461 TATT-TTTTGTTGTTGT
1 TATTATTTT-TTGTTGT
792477 GTATGTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.03, G:0.15, T:0.73
Consensus pattern (17 bp):
TATTATTTTTTGTTGTC
Found at i:792872 original size:26 final size:25
Alignment explanation
Indices: 792843--792907 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
792833 AAATCATATT
*
792843 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AATAAATATCAAATC
* *
792869 ATTAGATT-AATAATAATTATTAAATC
1 ATT--ATTAAATAATAAATATCAAATC
792895 ATTATT-AATAATA
1 ATTATTAAATAATA
792908 TTAGTAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 10 0.29
26 18 0.53
27 3 0.09
28 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTATTAAATAATAAATATCAAATC
Found at i:794478 original size:41 final size:40
Alignment explanation
Indices: 794390--794478 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 40
794380 TTAACAAAAC
* *
794390 AAACTAATTAATTATTTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAAATAATTTTTAACTATATAACTAT-AAACAT
* * * *
794431 ATACTAATTAAATAATTTTTAATTTATGTATACTAT-AACTT
1 AAACTAATTAAATAATTTTTAA-CTATATA-ACTATAAACAT
794472 AAACTAA
1 AAACTAA
794479 CAATCATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 29 0.74
42 5 0.13
43 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (40 bp):
AAACTAATTAAATAATTTTTAACTATATAACTATAAACAT
Found at i:794543 original size:16 final size:18
Alignment explanation
Indices: 794514--794552 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
794504 ACTAATTAAC
*
794514 ATTTATAATAATAAACTA
1 ATTTATAATAATAAACAA
794532 ATTTA-AAT-ATAAACAA
1 ATTTATAATAATAAACAA
794548 ATTTA
1 ATTTA
794553 CCTTATCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTTATAATAATAAACAA
Found at i:794910 original size:29 final size:29
Alignment explanation
Indices: 794868--794962 Score: 163
Period size: 29 Copynumber: 3.3 Consensus size: 29
794858 GTGACGCCGG
794868 GGCGACCTACAAGGTCGCCGGGACTACAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
794897 GGCGACCTACAAGGTCGCCGGGACTACAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
** *
794926 GGCGACCTACAAGGTCGCCCAGACTGCAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
794955 GGCGACCT
1 GGCGACCT
794963 CTCCATTGGC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.23, C:0.33, G:0.31, T:0.14
Consensus pattern (29 bp):
GGCGACCTACAAGGTCGCCGGGACTACAT
Found at i:794990 original size:32 final size:32
Alignment explanation
Indices: 794949--795030 Score: 164
Period size: 32 Copynumber: 2.6 Consensus size: 32
794939 GTCGCCCAGA
794949 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
1 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
794981 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
1 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
795013 CTGCATGGCGACCTCTCC
1 CTGCATGGCGACCTCTCC
795031 TCGTATAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.10, C:0.37, G:0.27, T:0.27
Consensus pattern (32 bp):
CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
Found at i:795163 original size:29 final size:29
Alignment explanation
Indices: 795121--795180 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
795111 CTCCCGTATG
*
795121 TCGCTTGGATTGCATGGCGTCCTACAAGA
1 TCGCCTGGATTGCATGGCGTCCTACAAGA
*
795150 TCGCCTGGATTGCATGGCGTCCTACGAGA
1 TCGCCTGGATTGCATGGCGTCCTACAAGA
795179 TC
1 TC
795181 ACTGTAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (29 bp):
TCGCCTGGATTGCATGGCGTCCTACAAGA
Found at i:795285 original size:2 final size:2
Alignment explanation
Indices: 795278--795329 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
795268 TCACCCAGTA
795278 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
795320 AT AT AT AT AT
1 AT AT AT AT AT
795330 TGTTTTCTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:809512 original size:2 final size:2
Alignment explanation
Indices: 809505--809533 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
809495 TTATTATTTT
809505 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
809534 TAAAAACTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:812742 original size:20 final size:20
Alignment explanation
Indices: 812690--812743 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
812680 AACTTAATAT
*
812690 TATTATTTTTAAAATATTAAAA
1 TATTATTTTT--ATTATTAAAA
*
812712 TAATT-TATTTATTATTAAAA
1 T-ATTATTTTTATTATTAAAA
812732 TATTATTTTTAT
1 TATTATTTTTAT
812744 AATTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
22 5 0.19
23 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTATTTTTATTATTAAAA
Found at i:812868 original size:23 final size:23
Alignment explanation
Indices: 812839--812890 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
812829 AGTGTTTTAT
812839 TATATTTTAAAAATATTAATTAA
1 TATATTTTAAAAATATTAATTAA
* * *
812862 TATATTTTAAATATCTTCATTAA
1 TATATTTTAAAAATATTAATTAA
*
812885 AATATT
1 TATATT
812891 ATTAGATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAA
Found at i:812991 original size:21 final size:22
Alignment explanation
Indices: 812965--813070 Score: 82
Period size: 21 Copynumber: 5.1 Consensus size: 22
812955 ATTTCTATGA
*
812965 ATTAATAA-ATATTATAATTTT
1 ATTAATAATATATTATAATATT
*
812986 ATTAATAATTTATTAT-ATATT
1 ATTAATAATATATTATAATATT
*
813007 ATTAA-AATATAATATAATA-T
1 ATTAATAATATATTATAATATT
* *
813027 CTT-AT-AT-TATTATAATATA
1 ATTAATAATATATTATAATATT
* * *
813046 ATTGATTATTTTATTATAATATT
1 ATT-AATAATATATTATAATATT
813069 AT
1 AT
813071 ATTATTAGAA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
18 9 0.14
19 5 0.08
20 11 0.17
21 21 0.32
22 7 0.11
23 13 0.20
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (22 bp):
ATTAATAATATATTATAATATT
Found at i:813026 original size:23 final size:24
Alignment explanation
Indices: 813000--813094 Score: 60
Period size: 23 Copynumber: 4.2 Consensus size: 24
812990 ATAATTTATT
813000 ATATATTATTA-AAATATAATATA
1 ATATATTATTAGAAATATAATATA
* ** *
813023 ATATCTTA-TATTATTATAATATA
1 ATATATTATTAGAAATATAATATA
** *
813046 AT-TGATTATT-TTATTATAATAT-
1 ATAT-ATTATTAGAAATATAATATA
813068 -TATATTATTAGAAATATTAATA-A
1 ATATATTATTAGAAATA-TAATATA
813091 ATAT
1 ATAT
813095 TTCTAATAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
21 7 0.12
22 7 0.12
23 39 0.68
24 4 0.07
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (24 bp):
ATATATTATTAGAAATATAATATA
Found at i:813059 original size:28 final size:28
Alignment explanation
Indices: 812995--813059 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
812985 TATTAATAAT
*
812995 TTATTATATATTATTAAAATATAATATA
1 TTATTTTATATTATTAAAATATAATATA
* * *
813023 ATATCTTATATTATTATAATATAAT-TGA
1 TTATTTTATATTATTAAAATATAATAT-A
813051 TTATTTTAT
1 TTATTTTAT
813060 TATAATATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
TTATTTTATATTATTAAAATATAATATA
Found at i:813142 original size:24 final size:25
Alignment explanation
Indices: 813106--813154 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
813096 TCTAATAATT
*
813106 AATATTTTTATTAAAATTATATTAA
1 AATATTTTTATTAAAATTAAATTAA
*
813131 AATA-TTTTATTAATATTAAATTAA
1 AATATTTTTATTAAAATTAAATTAA
813155 TAAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
AATATTTTTATTAAAATTAAATTAA
Found at i:817017 original size:10 final size:10
Alignment explanation
Indices: 817002--817027 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
816992 TGACTTAGAA
817002 ACCCGACCAG
1 ACCCGACCAG
817012 ACCCGACCAG
1 ACCCGACCAG
817022 ACCCGA
1 ACCCGA
817028 AATAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.50, G:0.19, T:0.00
Consensus pattern (10 bp):
ACCCGACCAG
Found at i:817567 original size:24 final size:24
Alignment explanation
Indices: 817535--817616 Score: 130
Period size: 24 Copynumber: 3.5 Consensus size: 24
817525 CATTTAATAA
*
817535 ATAAACGAACACGAACGAATGAAC
1 ATAAACGAACACGAACGAACGAAC
817559 ATAAACGAACACGAACGAACGAAC
1 ATAAACGAACACGAACGAACGAAC
**
817583 ATAAACGAACAC-AATAAACGAAC
1 ATAAACGAACACGAACGAACGAAC
817606 ATAAACGAACA
1 ATAAACGAACA
817617 ACACAAACAC
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 20 0.36
24 35 0.64
ACGTcount: A:0.57, C:0.22, G:0.13, T:0.07
Consensus pattern (24 bp):
ATAAACGAACACGAACGAACGAAC
Found at i:817568 original size:10 final size:10
Alignment explanation
Indices: 817555--817616 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 10
817545 ACGAACGAAT
817555 GAACATAAAC
1 GAACATAAAC
*
817565 GAACACGAACGAAC
1 GAACA-TAA--A-C
817579 GAACATAAAC
1 GAACATAAAC
817589 GAACACAATAAAC
1 G-A-AC-ATAAAC
817602 GAACATAAAC
1 GAACATAAAC
817612 GAACA
1 GAACA
817617 ACACAAACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
10 18 0.42
11 6 0.14
12 3 0.07
13 10 0.23
14 6 0.14
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (10 bp):
GAACATAAAC
Found at i:817589 original size:14 final size:14
Alignment explanation
Indices: 817538--817624 Score: 50
Period size: 14 Copynumber: 6.9 Consensus size: 14
817528 TTAATAAATA
**
817538 AACGAACACGAACG
1 AACGAACATAAACG
*
817552 AATGAACATAAACG
1 AACGAACATAAACG
*
817566 AAC--AC--GAACG
1 AACGAACATAAACG
817576 AACGAACATAAACG
1 AACGAACATAAACG
*
817590 AAC--ACA-ATA--
1 AACGAACATAAACG
817599 AACGAACATAAACG
1 AACGAACATAAACG
*
817613 AAC-AACACAAAC
1 AACGAACATAAAC
817625 ACAAAAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 19
0.66 0.11 0.23
Matches are distributed among these distances:
9 3 0.05
10 7 0.13
11 5 0.09
12 9 0.16
13 8 0.15
14 23 0.42
ACGTcount: A:0.57, C:0.24, G:0.13, T:0.06
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:817900 original size:14 final size:14
Alignment explanation
Indices: 817881--817926 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
817871 ACCCTCTGTT
817881 CGAACATAAATGAA
1 CGAACATAAATGAA
817895 CGAACATAAAT---
1 CGAACATAAATGAA
817906 -GAACATAAATGAA
1 CGAACATAAATGAA
817919 CGAACATA
1 CGAACATA
817927 TAATTAAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 10 0.36
14 18 0.64
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.15
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:826706 original size:26 final size:26
Alignment explanation
Indices: 826676--826741 Score: 116
Period size: 26 Copynumber: 2.5 Consensus size: 26
826666 ATACCCTTAT
826676 ATTTTATAAATTCATTTCCTTTTAAA
1 ATTTTATAAATTCATTTCCTTTTAAA
826702 ATTTTATAAATTCATTTCCTTTTAAA
1 ATTTTATAAATTCATTTCCTTTTAAA
826728 ATTTT-TAAAGTTCA
1 ATTTTATAAA-TTCA
826742 CTATCTAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 4 0.10
26 35 0.90
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTTTATAAATTCATTTCCTTTTAAA
Found at i:832794 original size:24 final size:24
Alignment explanation
Indices: 832762--832814 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
832752 CATTTAAATG
*
832762 ATAAACGAACACAAATGAACGAAC
1 ATAAACGAACACAAATAAACGAAC
* **
832786 ATAAACGAACATATGTAAACGAAC
1 ATAAACGAACACAAATAAACGAAC
832810 ATAAA
1 ATAAA
832815 TGAGCGTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.17, G:0.11, T:0.13
Consensus pattern (24 bp):
ATAAACGAACACAAATAAACGAAC
Found at i:832825 original size:20 final size:20
Alignment explanation
Indices: 832800--832837 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
832790 ACGAACATAT
832800 GTAAACGAACATAAATGAGC
1 GTAAACGAACATAAATGAGC
832820 GTAAACGAACATAAATGA
1 GTAAACGAACATAAATGA
832838 AAATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.13, G:0.18, T:0.16
Consensus pattern (20 bp):
GTAAACGAACATAAATGAGC
Found at i:834005 original size:17 final size:17
Alignment explanation
Indices: 833971--834022 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
833961 ACCGGACAAA
* *
833971 TTTATTATTTTAGAGAG
1 TTTATTAATTTACAGAG
*
833988 TTTATTAATTTACCGAG
1 TTTATTAATTTACAGAG
*
834005 --TATTAATTTAAAGAG
1 TTTATTAATTTACAGAG
834020 TTT
1 TTT
834023 CTACTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
TTTATTAATTTACAGAG
Found at i:834909 original size:184 final size:184
Alignment explanation
Indices: 834622--835009 Score: 622
Period size: 184 Copynumber: 2.1 Consensus size: 184
834612 AAAATTAATT
* * * * *
834622 TATATAA-AAATTAAATGTTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
*
834686 TATAAAATAAAATTTTCAGTTAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAATGTTATT
66 TATAAAATAAAATTTTCAGTTAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
* * *
834751 ATATTTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTTAGCCCATATGTTA
131 AGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
834805 TATATAATATATTTAATATTTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTAAAAAAA-AGTTTACAATTAATTTAAATAATATATAA
834870 TTATAAAATAAAAATTTT-A--TATAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTT
65 TTATAAAAT-AAAATTTTCAGTTA-AATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTT
* *
834932 ATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
128 ATTAGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
834989 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
835010 AAAATTTAAT
Statistics
Matches: 190, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
183 9 0.05
184 135 0.71
185 38 0.20
186 8 0.04
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (184 bp):
TATATAATATATTTAATATTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAATTTTCAGTTAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
AGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
Found at i:836234 original size:87 final size:87
Alignment explanation
Indices: 836131--836393 Score: 490
Period size: 87 Copynumber: 3.0 Consensus size: 87
836121 ATTACTTTAA
836131 AAACCTTATTGTTGAATCTAATAGTGTACTCACCTACTTAAATAAAATTTGCAAGGCACACAAAT
1 AAACCTTATTGTTGAATCTAATAGTGTACTCACCTACTTAAATAAAATTTGCAAGGCACACAAAT
836196 GATTCAATGATTTCAATCCGTG
66 GATTCAATGATTTCAATCCGTG
* * *
836218 AAACCTTATTGTTGAATTTAATAGCGTACTCACCTACTTGAATAAAATTTGCAAGGCACACAAAT
1 AAACCTTATTGTTGAATCTAATAGTGTACTCACCTACTTAAATAAAATTTGCAAGGCACACAAAT
836283 GATTCAATGATTTCAATCCGTG
66 GATTCAATGATTTCAATCCGTG
836305 AAACCTTATTGTTGAATCTAATAGTGTACTCACCTACTTAAATAAAATTTGCAAGGCACACAAAT
1 AAACCTTATTGTTGAATCTAATAGTGTACTCACCTACTTAAATAAAATTTGCAAGGCACACAAAT
*
836370 AATTCAATGATTTCAATCCGTG
66 GATTCAATGATTTCAATCCGTG
836392 AA
1 AA
836394 TTGTTTGTAG
Statistics
Matches: 169, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 169 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (87 bp):
AAACCTTATTGTTGAATCTAATAGTGTACTCACCTACTTAAATAAAATTTGCAAGGCACACAAAT
GATTCAATGATTTCAATCCGTG
Found at i:838446 original size:28 final size:26
Alignment explanation
Indices: 838392--838445 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
838382 ACATAGGTTT
838392 AAGTTACATCTATATTTATAATAAAA
1 AAGTTACATCTATATTTATAATAAAA
*
838418 AAGTTACATCTCTATTTATAATAAAA
1 AAGTTACATCTATATTTATAATAAAA
838444 AA
1 AA
838446 ACATGATACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (26 bp):
AAGTTACATCTATATTTATAATAAAA
Found at i:838916 original size:2 final size:2
Alignment explanation
Indices: 838909--838955 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
838899 ATGTCATCGT
838909 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
838951 TA TA T
1 TA TA T
838956 CAACTTCGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:844510 original size:17 final size:17
Alignment explanation
Indices: 844488--844542 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
844478 AGAAAAGATA
844488 ACAATAATACTTTAATC
1 ACAATAATACTTTAATC
*
844505 AC---AATA--TTAATA
1 ACAATAATACTTTAATC
844517 ACAATAATACTTTAATC
1 ACAATAATACTTTAATC
844534 ACAATAATA
1 ACAATAATA
844543 ATAGGACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
12 7 0.23
14 4 0.13
15 4 0.13
17 16 0.52
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (17 bp):
ACAATAATACTTTAATC
Found at i:844519 original size:29 final size:29
Alignment explanation
Indices: 844485--844545 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
844475 AATAGAAAAG
*
844485 ATAACAATAATACTTTAATCACAATATTA
1 ATAACAATAATACTTTAATCACAATAATA
844514 ATAACAATAATACTTTAATCACAATAATA
1 ATAACAATAATACTTTAATCACAATAATA
844543 ATA
1 ATA
844546 GGACTTTCCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (29 bp):
ATAACAATAATACTTTAATCACAATAATA
Done.