Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold448
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1018568
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 171214 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:478195 original size:16 final size:16
Alignment explanation
Indices: 478174--478210 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
478164 GATAAAGGTG
478174 GTCTCATAAAAGTGAA
1 GTCTCATAAAAGTGAA
* *
478190 GTCTCATAAGAGTGAT
1 GTCTCATAAAAGTGAA
478206 GTCTC
1 GTCTC
478211 GTCTCGGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (16 bp):
GTCTCATAAAAGTGAA
Found at i:484691 original size:4 final size:4
Alignment explanation
Indices: 484684--484772 Score: 178
Period size: 4 Copynumber: 22.2 Consensus size: 4
484674 AATCAGTCTA
484684 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
484732 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC T
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC T
484773 TGGAAACATA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 85 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:491864 original size:12 final size:12
Alignment explanation
Indices: 491847--491871 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
491837 AGGTCAAATA
491847 ATGATAAATGAT
1 ATGATAAATGAT
491859 ATGATAAATGAT
1 ATGATAAATGAT
491871 A
1 A
491872 AATAATACCT
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:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGATAAATGAT
Found at i:498137 original size:2 final size:2
Alignment explanation
Indices: 498130--498193 Score: 103
Period size: 2 Copynumber: 32.5 Consensus size: 2
498120 AAAGAAACTA
498130 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
498172 A- AA AA AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG A
498194 CATTTCACTT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:500554 original size:446 final size:440
Alignment explanation
Indices: 499693--500568 Score: 1321
Period size: 446 Copynumber: 2.0 Consensus size: 440
499683 TTTCAAAACA
*
499693 AAAAGGTTAAAAAAGATTTTAAATCACCAAGAGGATTTGAACCTAAAAACACTTCATGGTTGTAT
1 AAAAGGTTAAAAAAGATTTTAAATCACCAAGAGGATTTGAACCTAAAAACACTTCATGGTTGCAT
499758 TTACTAATCCAGGACCAAACAAGAGGGCTATACGAGACTTAACGATACGTGGTTTAAAAAAAATG
66 TTACTAATCCAGGACCAAACAAGAGGGCTATACGAGACTTAACGATACGTGGTTTAAAAAAAATG
* *
499823 TTCAAAACAACATTGTTATATCTCTAGACTTTTTTCCTCCAAAAAAAAAAATTTGAAAAAGTACA
131 TTCAAAACAACATTGTTATATCACTAGACTTTTTTCCTCCAAAAAAAAAAAATTGAAAAAGTACA
** *
499888 TAAAAAGTCATTTCTGGGTCATCTCTCCATCTTTTTTTAAAAAGCGACATTCTTATTGTAGAAAT
196 TAAAAAACCATTTCTGGGTCATCTCTCCATC---TTTT--AAAGCGACATTCTTAATGTAGAAAT
* *
499953 ATGTCATATTTACACGTTCGAAATTTGTACAGAGAACACCAAGAGACAACAAAATCAGCCGTAAA
256 ATGTCATATTTACACATTCCAAA--TGTACAGAGAACACCAAGAGACAACAAAATCAGCCGTAAA
* **
500018 AAAAGTAGGATTCTCCATCTGTTCCGTCGTTTTGCTCTATTTAGACCCATTTTGTGATCAAACCT
319 AAAAGTAGGATTCTCCATCTGTTCCGTCGTTTTGCTCAATTTAGACCCATAATGTGATCAAACCT
500083 TTTGCATTTCAAAATGCTTATTTTATGAACCACACTTTCTTACAAATTTTACATGTC
384 TTTGCATTTCAAAATGCTTATTTTATGAACCACACTTTCTTACAAATTTTACATGTC
*
500140 NAAAAGGTTAAAAAAGATTTTAAAAGGAATCACCAAGAGGATTTGAACCTAAAAACACTTTATGG
1 -AAAAGGTTAAAAAAGATTTT---A--AATCACCAAGAGGATTTGAACCTAAAAACACTTCATGG
* * * *
500205 TTGCATTTACTAATCCAGGTCGAAACCAGAGGGCTATACGAGACTTAACGATACGTGGTTT-TAA
60 TTGCATTTACTAATCCAGGACCAAACAAGAGGGCTATACGAGACTTAACGATACGTGGTTTAAAA
* **
500269 AAAATGTTTC-AAACAACATTGTTATATCACTGGACTTTGTTTTTTTTTCCAAAAAAAAAAAATT
125 AAAATG-TTCAAAACAACATTGTTATATCACTAGAC----TTTTTTCCTCCAAAAAAAAAAAATT
* * *
500333 GAAAAAGTACATAAAAAACCATTTCTGGGTCATCTCTCCGTC-TTT-AAGCGATATTTTTAATGT
185 GAAAAAGTACATAAAAAACCATTTCTGGGTCATCTCTCCATCTTTTAAAGCGACATTCTTAATGT
* * * *
500396 AGAAATATTTCATCTTTACACATTCCAAA-GTACAGAGAGCACCAAGAGATAACAAAATCAGCCG
250 AGAAATATGTCATATTTACACATTCCAAATGTACAGAGAACACCAAGAGACAACAAAATCAGCCG
500460 TAAAAAAAGTAGGATTCTCCATCTGTTCCGTCGTTTTGCTCAATTTAGACCCATAATGTGATCAA
315 TAAAAAAAGTAGGATTCTCCATCTGTTCCGTCGTTTTGCTCAATTTAGACCCATAATGTGATCAA
500525 ACCTTTTGCATTTCAAAATGCTTATTTTATGAACCACACTTTCT
380 ACCTTTTGCATTTCAAAATGCTTATTTTATGAACCACACTTTCT
500569 NATAGTATAT
Statistics
Matches: 392, Mismatches: 26, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
446 139 0.35
448 20 0.05
449 40 0.10
451 1 0.00
452 34 0.09
453 97 0.25
456 61 0.16
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (440 bp):
AAAAGGTTAAAAAAGATTTTAAATCACCAAGAGGATTTGAACCTAAAAACACTTCATGGTTGCAT
TTACTAATCCAGGACCAAACAAGAGGGCTATACGAGACTTAACGATACGTGGTTTAAAAAAAATG
TTCAAAACAACATTGTTATATCACTAGACTTTTTTCCTCCAAAAAAAAAAAATTGAAAAAGTACA
TAAAAAACCATTTCTGGGTCATCTCTCCATCTTTTAAAGCGACATTCTTAATGTAGAAATATGTC
ATATTTACACATTCCAAATGTACAGAGAACACCAAGAGACAACAAAATCAGCCGTAAAAAAAGTA
GGATTCTCCATCTGTTCCGTCGTTTTGCTCAATTTAGACCCATAATGTGATCAAACCTTTTGCAT
TTCAAAATGCTTATTTTATGAACCACACTTTCTTACAAATTTTACATGTC
Found at i:504592 original size:10 final size:10
Alignment explanation
Indices: 504577--504721 Score: 98
Period size: 10 Copynumber: 13.9 Consensus size: 10
504567 CAAATTAATA
504577 GTACAGTGGG
1 GTACAGTGGG
*
504587 GTACAGTGATG
1 GTACAGTG-GG
*
504598 GT-CAGTGCCCG
1 GTACAGTG--GG
*
504609 GTACAGTGGC
1 GTACAGTGGG
504619 GTACAGTGGG
1 GTACAGTGGG
*
504629 GTACAGTGATG
1 GTACAGTG-GG
*
504640 GT-CAGTGCCCG
1 GTACAGTG--GG
*
504651 GTACAGTGGC
1 GTACAGTGGG
504661 GTACAGTGGG
1 GTACAGTGGG
*
504671 GTACAGTGCTG
1 GTACAGTG-GG
**
504682 GT-CAGTGCCCT
1 GTACAGTG--GG
*
504693 GTACAGTGGC
1 GTACAGTGGG
504703 GTACAGTGGG
1 GTACAGTGGG
504713 GTACAGTGG
1 GTACAGTGG
504722 AAGTCAGTAA
Statistics
Matches: 108, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
10 75 0.69
11 18 0.17
12 15 0.14
ACGTcount: A:0.19, C:0.19, G:0.41, T:0.22
Consensus pattern (10 bp):
GTACAGTGGG
Found at i:504636 original size:42 final size:42
Alignment explanation
Indices: 504577--504720 Score: 270
Period size: 42 Copynumber: 3.4 Consensus size: 42
504567 CAAATTAATA
504577 GTACAGTGGGGTACAGTGATGGTCAGTGCCCGGTACAGTGGC
1 GTACAGTGGGGTACAGTGATGGTCAGTGCCCGGTACAGTGGC
504619 GTACAGTGGGGTACAGTGATGGTCAGTGCCCGGTACAGTGGC
1 GTACAGTGGGGTACAGTGATGGTCAGTGCCCGGTACAGTGGC
* *
504661 GTACAGTGGGGTACAGTGCTGGTCAGTGCCCTGTACAGTGGC
1 GTACAGTGGGGTACAGTGATGGTCAGTGCCCGGTACAGTGGC
504703 GTACAGTGGGGTACAGTG
1 GTACAGTGGGGTACAGTG
504721 GAAGTCAGTA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 100 1.00
ACGTcount: A:0.19, C:0.19, G:0.40, T:0.22
Consensus pattern (42 bp):
GTACAGTGGGGTACAGTGATGGTCAGTGCCCGGTACAGTGGC
Found at i:504718 original size:84 final size:83
Alignment explanation
Indices: 504577--504815 Score: 291
Period size: 84 Copynumber: 2.8 Consensus size: 83
504567 CAAATTAATA
* * *
504577 GTACAGTGGGGTACAGTGATGGTCAGTGCCCGGTACAGTGGCGTACAGTGGGGTACAGTGATGGT
1 GTACAGTGGGGTACAGTGCTGGTCAGTGCCCTGTACAGTGGCGTACAGTGGGGTACAGTGA-AGT
*
504642 CAGT-GCCCGGTACAGTGGC
65 CAGTAG-ACGGTACAGTGGC
504661 GTACAGTGGGGTACAGTGCTGGTCAGTGCCCTGTACAGTGGCGTACAGTGGGGTACAGTGGAAGT
1 GTACAGTGGGGTACAGTGCTGGTCAGTGCCCTGTACAGTGGCGTACAGTGGGGTACAGT-GAAGT
* *
504726 CAGTAAGACTGTACAGTGGT
65 CAGT-AGACGGTACAGTGGC
** * *** * *
504746 GTACAGTGGAATACAGTGCTGTTCAGTAGAAATGTACAGTGGGGTACAGAGGGGTACAGTGGAAG
1 GTACAGTGGGGTACAGTGCTGGTCAGT-GCCCTGTACAGTGGCGTACAGTGGGGTACAGT-GAAG
504811 TCAGT
64 TCAGT
504816 GAAATGTACA
Statistics
Matches: 137, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
84 63 0.46
85 36 0.26
86 38 0.28
ACGTcount: A:0.23, C:0.16, G:0.38, T:0.23
Consensus pattern (83 bp):
GTACAGTGGGGTACAGTGCTGGTCAGTGCCCTGTACAGTGGCGTACAGTGGGGTACAGTGAAGTC
AGTAGACGGTACAGTGGC
Found at i:504728 original size:42 final size:41
Alignment explanation
Indices: 504577--504816 Score: 248
Period size: 42 Copynumber: 5.7 Consensus size: 41
504567 CAAATTAATA
*
504577 GTACAGTGGGGTACAGTGATGGTCAGTGCCCGGTACAGTGGC
1 GTACAGTGGGGTACAGTGA-GGTCAGTGCCCTGTACAGTGGC
*
504619 GTACAGTGGGGTACAGTGATGGTCAGTGCCCGGTACAGTGGC
1 GTACAGTGGGGTACAGTGA-GGTCAGTGCCCTGTACAGTGGC
*
504661 GTACAGTGGGGTACAGTGCTGGTCAGTGCCCTGTACAGTGGC
1 GTACAGTGGGGTACAGTG-AGGTCAGTGCCCTGTACAGTGGC
* * *
504703 GTACAGTGGGGTACAGTGGAAGTCAGTAAG-ACTGTACAGTGGT
1 GTACAGTGGGGTACAGT-GAGGTCAGT--GCCCTGTACAGTGGC
** * * *** *
504746 GTACAGTGGAATACAGTGCTGTTCAGTAGAAATGTACAGTGGG
1 GTACAGTGGGGTACAGTG-AGGTCAGT-GCCCTGTACAGTGGC
* *
504789 GTACAGAGGGGTACAGTGGAAGTCAGTG
1 GTACAGTGGGGTACAGT-GAGGTCAGTG
504817 AAATGTACAG
Statistics
Matches: 172, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
42 108 0.63
43 62 0.36
44 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.38, T:0.23
Consensus pattern (41 bp):
GTACAGTGGGGTACAGTGAGGTCAGTGCCCTGTACAGTGGC
Found at i:504846 original size:43 final size:40
Alignment explanation
Indices: 504692--504857 Score: 115
Period size: 43 Copynumber: 3.9 Consensus size: 40
504682 GTCAGTGCCC
**
504692 TGTACAGTGGCGTACAGTGGGGTACAGTGGAAGTCAGT-AAGA
1 TGTACAGTGG-GTACAGT-AAGTACAGTGGAAGTCAGTGAA-A
**
504734 CTGTACAGTGGTGTACAGTGGAA-TACAGT-GCTGTTCAGTAGAAA
1 -TGTACAGTGG-GTACAGT--AAGTACAGTGGAAG-TCAGT-GAAA
*
504778 TGTACAGTGGGGTACAG-AGGGGTACAGTGGAAGTCAGTGAAA
1 TGTACAGT-GGGTACAGTA--AGTACAGTGGAAGTCAGTGAAA
*
504820 TGTACAGTGAGGTACAGTCAATGTACAGTGGATGTCAG
1 TGTACAGTG-GGTACAGT-AA-GTACAGTGGAAGTCAG
504858 ATAATGTCAG
Statistics
Matches: 100, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 21 0.21
43 68 0.68
44 7 0.07
45 2 0.02
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (40 bp):
TGTACAGTGGGTACAGTAAGTACAGTGGAAGTCAGTGAAA
Found at i:504864 original size:21 final size:21
Alignment explanation
Indices: 504799--504857 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
504789 GTACAGAGGG
504799 GTACAGTGGAAGTCAGTGAAAT
1 GTACAGTGGAAGTCAGT-AAAT
* *
504821 GTACAGT-GAGGTACAGTCAAT
1 GTACAGTGGAAGT-CAGTAAAT
*
504842 GTACAGTGGATGTCAG
1 GTACAGTGGAAGTCAG
504858 ATAATGTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 17 0.53
22 15 0.47
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (21 bp):
GTACAGTGGAAGTCAGTAAAT
Found at i:507705 original size:22 final size:22
Alignment explanation
Indices: 507677--507719 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
507667 AAAAATATTT
*
507677 TTGAATTTGATATAACGAATTC
1 TTGAATTTGATAAAACGAATTC
*
507699 TTGAATTTGTTAAAACGAATT
1 TTGAATTTGATAAAACGAATT
507720 TAAATCGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (22 bp):
TTGAATTTGATAAAACGAATTC
Found at i:507734 original size:19 final size:19
Alignment explanation
Indices: 507707--507805 Score: 74
Period size: 19 Copynumber: 4.8 Consensus size: 19
507697 TCTTGAATTT
*
507707 GTTAAAACGAATTTAAATC
1 GTTATAACGAATTTAAATC
*
507726 GTTATAACGAATTGTTGAATCC
1 GTTATAACGAA-T-TTAAAT-C
*
507748 GTTATAACGAA-TTAAATTT
1 GTTATAACGAATTTAAA-TC
* *
507767 GTTATAACAAATTTTAGGAAATT
1 GTTATAACGAA-TTT---AAATC
507790 GTTATAACGAATTTAA
1 GTTATAACGAATTTAA
507806 TCTGTTGTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
19 26 0.40
20 2 0.03
21 7 0.11
22 15 0.23
23 12 0.18
24 3 0.05
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.37
Consensus pattern (19 bp):
GTTATAACGAATTTAAATC
Found at i:507744 original size:41 final size:41
Alignment explanation
Indices: 507687--507805 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 41
507677 TTGAATTTGA
*
507687 TATAACGAATTCTTGAATTTGTTAAAACGAATTTAAA-TCGT
1 TATAACGAATT-TTGAATTTGTTATAACGAATTTAAATTCGT
** *
507728 TATAACGAATTGTTGAATCCGTTATAACGAA-TTAAATTTGT
1 TATAACGAATT-TTGAATTTGTTATAACGAATTTAAATTCGT
* *
507769 TATAACAAATTTTAGGAAATTGTTATAACGAATTTAA
1 TATAACGAATTTT--GAATTTGTTATAACGAATTTAA
507806 TCTGTTGTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
40 7 0.11
41 40 0.62
42 14 0.22
43 4 0.06
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (41 bp):
TATAACGAATTTTGAATTTGTTATAACGAATTTAAATTCGT
Found at i:507753 original size:22 final size:20
Alignment explanation
Indices: 507687--507760 Score: 78
Period size: 22 Copynumber: 3.5 Consensus size: 20
507677 TTGAATTTGA
*
507687 TATAACGAATTCTTGAATTTGT
1 TATAACGAATT-TTGAA-TCGT
* *
507709 TAAAACGAA-TTTAAATCGT
1 TATAACGAATTTTGAATCGT
507728 TATAACGAATTGTTGAATCCGT
1 TATAACGAATT-TTGAAT-CGT
507750 TATAACGAATT
1 TATAACGAATT
507761 AAATTTGTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 11 0.25
20 5 0.11
21 6 0.14
22 22 0.50
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (20 bp):
TATAACGAATTTTGAATCGT
Found at i:507836 original size:42 final size:41
Alignment explanation
Indices: 507700--507836 Score: 125
Period size: 42 Copynumber: 3.3 Consensus size: 41
507690 AACGAATTCT
* * * *
507700 TGAATTTGTTAAAACGAATTTAAATC-GTTATAACGAATTGT
1 TGAATTCGTTATAACGAATTT-AATCTGTTATAACAAATTGA
* * * *
507741 TGAATCCGTTATAACGAATTAAATTTGTTATAACAAATTTTA
1 TGAATTCGTTATAACGAATTTAATCTGTTATAACAAA-TTGA
* * *
507783 GGAAATT-GTTATAACGAATTTAATCTGTTGTAACAAATTCGC
1 TG-AATTCGTTATAACGAATTTAATCTGTTATAACAAATT-GA
507825 TGAATTCGTTAT
1 TGAATTCGTTAT
507837 TTCAAATTTT
Statistics
Matches: 75, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
40 3 0.04
41 33 0.44
42 36 0.48
43 3 0.04
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.39
Consensus pattern (41 bp):
TGAATTCGTTATAACGAATTTAATCTGTTATAACAAATTGA
Found at i:518307 original size:4 final size:4
Alignment explanation
Indices: 518300--518438 Score: 214
Period size: 4 Copynumber: 35.5 Consensus size: 4
518290 ACAGACAAAA
* * *
518300 AGAT AGAT AGAT AGAT AGAA AGAT AGATT A-AA AGAT AGAT AGAT AAAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGA-T AGAT AGAT AGAT AGAT AGAT
518348 AGAT AGAT AGAT A-AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
518395 AGAT AGAT AGAT AGAT AGAT AGAT AGAT --AT AGAT AGAT AGAT AG
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AG
518439 TGATTGATTG
Statistics
Matches: 124, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.02
3 4 0.03
4 116 0.94
5 2 0.02
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.24
Consensus pattern (4 bp):
AGAT
Found at i:521972 original size:20 final size:20
Alignment explanation
Indices: 521932--521975 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
521922 AACTGAAGTG
*
521932 GGACAGACAGACGGATGGAC
1 GGACAGACAGACAGATGGAC
521952 GGACAGACAGACAGA-GAGAC
1 GGACAGACAGACAGATG-GAC
521972 GGAC
1 GGAC
521976 GCAGAGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.39, C:0.20, G:0.39, T:0.02
Consensus pattern (20 bp):
GGACAGACAGACAGATGGAC
Found at i:522565 original size:164 final size:165
Alignment explanation
Indices: 522168--522675 Score: 726
Period size: 164 Copynumber: 3.1 Consensus size: 165
522158 TTAAATGGCG
*
522168 ACTTTGTTTATTTTTAGCCAAAATTTTTAAACAAA-TTTCCATCAAAGATTTCTCAGCAACTATT
1 ACTTTGTTTATTTTTAGCCAAAATTTTCAAACAAATTTTCC-TCAAAGATTTCTCAGCAACTATT
*
522232 TATCGCAGATGCTTGAAATTTTAACACACTATTTG-TATATGCATGCCATATCGTGGGATATATT
65 TATCGCAGATGCTTGAAATTTTAACACACTATTTGTTA-AGGCATGCCATATCGTGGGATATA-T
* * * *
522296 TTTGTATCAATCGGACGTCAAACTTTCTGTGAAAT-AAT
128 TTTGTACCAATCGGATGTC-AACTTTCTGTTAAATGAGT
*
522334 GAC--TGTTTATTTTTAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATTTCTCAGCAGCTATT
1 -ACTTTGTTTATTTTTAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATTTCTCAGCAACTATT
* * * *
522397 TATCGCAGATGCTTGAAATTTTTACACAGTGTTTGTTAAGGCATGCCGTATCGTGGGATATATTT
65 TATCGCAGATGCTTGAAATTTTAACACACTATTTGTTAAGGCATGCCATATCGTGGGATATATTT
*
522462 TGTACCAATCGGATGTCAACTTCCTGTTAAATGAGT
130 TGTACCAATCGGATGTCAACTTTCTGTTAAATGAGT
*
522498 ACTTTGTTTA-TTTTAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATTTCTCAGCAACTGTTT
1 ACTTTGTTTATTTTTAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATTTCTCAGCAACTATTT
* *
522562 ATCGCAGATGCTTGAAATTTTAACACACTATTTGTTTAGG-ATGCCATATTGTGGGATATATTTC
66 ATCGCAGATGCTTGAAATTTTAACACACTATTTGTTAAGGCATGCCATATCGTGGGATATATTT-
* * *
522626 TGTACCAATCGGATGCCAGCTTTCTGTTAAATGTCG-
130 TGTACCAATCGGATGTCAACTTTCTGTTAAATG-AGT
*
522662 ACTTTGCTTATTTT
1 ACTTTGTTTATTTT
522676 GCATATTCAC
Statistics
Matches: 308, Mismatches: 25, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
163 36 0.12
164 147 0.48
165 116 0.38
166 7 0.02
167 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (165 bp):
ACTTTGTTTATTTTTAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATTTCTCAGCAACTATTT
ATCGCAGATGCTTGAAATTTTAACACACTATTTGTTAAGGCATGCCATATCGTGGGATATATTTT
GTACCAATCGGATGTCAACTTTCTGTTAAATGAGT
Found at i:527180 original size:33 final size:33
Alignment explanation
Indices: 527135--527203 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
527125 TTAACAACTC
527135 AAATGTACTAGTTACATTTTTCCAGTATTTTGT
1 AAATGTACTAGTTACATTTTTCCAGTATTTTGT
* *
527168 AAATGTATTAGTTACATTTTTTCAGTATTTTGT
1 AAATGTACTAGTTACATTTTTCCAGTATTTTGT
527201 AAA
1 AAA
527204 GACTACAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (33 bp):
AAATGTACTAGTTACATTTTTCCAGTATTTTGT
Found at i:539123 original size:2 final size:2
Alignment explanation
Indices: 539116--539158 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
539106 AGACTGAAAA
* *
539116 TC TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC TC CC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
539158 T
1 T
539159 GCCTTGAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:539135 original size:14 final size:14
Alignment explanation
Indices: 539116--539158 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
539106 AGACTGAAAA
*
539116 TCTCTCTCTCTCTC
1 TCTCTCCCTCTCTC
539130 TCTCTCCCTCTCTC
1 TCTCTCCCTCTCTC
539144 TCTCTCCCTCTCTC
1 TCTCTCCCTCTCTC
539158 T
1 T
539159 GCCTTGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCTCCCTCTCTC
Found at i:543436 original size:2 final size:2
Alignment explanation
Indices: 543429--543465 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
543419 GTGTAGTAAA
543429 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
543466 ATGCTTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:544692 original size:2 final size:2
Alignment explanation
Indices: 544685--544738 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
544675 TGAGTCTCAT
*
544685 GA GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
544727 GA GA GA GA GA GA
1 GA GA GA GA GA GA
544739 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:549852 original size:4 final size:4
Alignment explanation
Indices: 549843--549991 Score: 262
Period size: 4 Copynumber: 37.2 Consensus size: 4
549833 GCAGACAAAA
* * *
549843 AGAT AGAT AGAT ATAT AGAT AGAT AGAT AGAA AGAT AGAT AGAT AAAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
*
549891 AGAT AGAT AGAT AAAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
549939 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
549987 AGAT A
1 AGAT A
549992 NNNNNNNNNN
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 137 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.25
Consensus pattern (4 bp):
AGAT
Found at i:574481 original size:12 final size:12
Alignment explanation
Indices: 574464--574505 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
574454 GATATGAGAG
574464 AGAGAGACAGAC
1 AGAGAGACAGAC
574476 AGAGAGACAGAC
1 AGAGAGACAGAC
* *
574488 AGACAGACACAC
1 AGAGAGACAGAC
574500 AGAGAG
1 AGAGAG
574506 TTTTGTAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.50, C:0.19, G:0.31, T:0.00
Consensus pattern (12 bp):
AGAGAGACAGAC
Found at i:574487 original size:4 final size:4
Alignment explanation
Indices: 574468--574502 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
574458 TGAGAGAGAG
* *
574468 AGAC AGAC AGAG AGAC AGAC AGAC AGAC ACAC AGA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
574503 GAGTTTTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.51, C:0.23, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAC
Found at i:574690 original size:2 final size:2
Alignment explanation
Indices: 574683--574733 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
574673 GATTTACATC
574683 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
574725 CT CT CT CT C
1 CT CT CT CT C
574734 ATCACCTAGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:577161 original size:7 final size:7
Alignment explanation
Indices: 577146--577212 Score: 80
Period size: 7 Copynumber: 9.6 Consensus size: 7
577136 TTTAGATATT
577146 GAATCTC
1 GAATCTC
*
577153 GAATTTC
1 GAATCTC
577160 GAATCTC
1 GAATCTC
577167 GAATCTC
1 GAATCTC
* *
577174 GTATTTC
1 GAATCTC
577181 GAATCTC
1 GAATCTC
* * *
577188 GTATTTT
1 GAATCTC
577195 GAATCTC
1 GAATCTC
577202 GAATCTC
1 GAATCTC
577209 GAAT
1 GAAT
577213 GATCCTTCTC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (7 bp):
GAATCTC
Found at i:577171 original size:21 final size:21
Alignment explanation
Indices: 577146--577212 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
577136 TTTAGATATT
577146 GAATCTCGAATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
*
577167 GAATCTCGTATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
* * * *
577188 GTATTTTGAATCTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
577209 GAAT
1 GAAT
577213 GATCCTTCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (21 bp):
GAATCTCGAATTTCGAATCTC
Found at i:578612 original size:4 final size:4
Alignment explanation
Indices: 578605--578683 Score: 158
Period size: 4 Copynumber: 19.8 Consensus size: 4
578595 CACAAATTTA
578605 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
578653 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
578684 AATTTGCAGG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.25
Consensus pattern (4 bp):
ATAG
Found at i:597095 original size:19 final size:19
Alignment explanation
Indices: 597071--597109 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
597061 ATGTTATTCA
597071 AAATTCCAGGTAAGGTTTT
1 AAATTCCAGGTAAGGTTTT
* *
597090 AAATTCCATGTTAGGTTTT
1 AAATTCCAGGTAAGGTTTT
597109 A
1 A
597110 GAATCGCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (19 bp):
AAATTCCAGGTAAGGTTTT
Found at i:600122 original size:13 final size:14
Alignment explanation
Indices: 600094--600123 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
600084 ATGTGATTAA
600094 TAAATTGTTGTTTT
1 TAAATTGTTGTTTT
600108 TAAATTGTT-TTTT
1 TAAATTGTTGTTTT
600121 TAA
1 TAA
600124 GCTAATCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (14 bp):
TAAATTGTTGTTTT
Found at i:603408 original size:12 final size:12
Alignment explanation
Indices: 603360--603399 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
603350 AGCTGAAGTG
*
603360 GGACATACAGAC
1 GGACAGACAGAC
*
603372 GGACGGACAGAC
1 GGACAGACAGAC
*
603384 AGACAGACAGAC
1 GGACAGACAGAC
603396 GGAC
1 GGAC
603400 TGACGGACGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.40, C:0.25, G:0.33, T:0.03
Consensus pattern (12 bp):
GGACAGACAGAC
Found at i:608465 original size:45 final size:45
Alignment explanation
Indices: 608379--608465 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
608369 TTAAATGTAT
*
608379 TAGTACAGAAATAACAAAAACTGTCTAAAATTATTTCAAATATAA
1 TAGTACAGAAATAACAAAAACTGTCTAAAATTACTTCAAATATAA
** ** *
608424 TAGTACAGTTATAACAAACCCTGTTTAAAA-TACTTCTAAATA
1 TAGTACAGAAATAACAAAAACTGTCTAAAATTACTTC-AAATA
608466 AATGAGTGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 5 0.14
45 30 0.86
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (45 bp):
TAGTACAGAAATAACAAAAACTGTCTAAAATTACTTCAAATATAA
Found at i:615278 original size:13 final size:12
Alignment explanation
Indices: 615247--615277 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
615237 ACAGAATGCA
615247 TAAAAAACAAAC
1 TAAAAAACAAAC
*
615259 TAAAAAACAAAT
1 TAAAAAACAAAC
615271 TAAAAAA
1 TAAAAAA
615278 AATACCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (12 bp):
TAAAAAACAAAC
Found at i:626907 original size:22 final size:23
Alignment explanation
Indices: 626871--626921 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
626861 AACTCTGGTC
*
626871 TACTCTCTGGATTTACTATGGCTT
1 TACTCTCTGGATTTACTATGG-GT
626895 TACTCT-TGG-TTTACTATGGGT
1 TACTCTCTGGATTTACTATGGGT
626916 TACTCT
1 TACTCT
626922 GGGTCTGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 7 0.27
22 10 0.38
23 3 0.12
24 6 0.23
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.47
Consensus pattern (23 bp):
TACTCTCTGGATTTACTATGGGT
Found at i:628082 original size:28 final size:28
Alignment explanation
Indices: 628039--628097 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
628029 TTCATTTGTT
628039 AATTTTCAATAAACGCTAATATATTGAC
1 AATTTTCAATAAACGCTAATATATTGAC
*
628067 AATTTTCAATATACGCTAATATATTGAC
1 AATTTTCAATAAACGCTAATATATTGAC
628095 AAT
1 AAT
628098 GAAAGTGTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (28 bp):
AATTTTCAATAAACGCTAATATATTGAC
Found at i:635218 original size:31 final size:31
Alignment explanation
Indices: 635156--635223 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
635146 TTGACGGAAA
* *
635156 TATTTCTGTTAAGTCGTACTTAAAATCATTCG
1 TATTT-TGTTAAGTCGTACTCAAAATAATTCG
*
635188 TATTTTGTTAAGTCGTAC-CAGGAATAATTCG
1 TATTTTGTTAAGTCGTACTCA-AAATAATTCG
635219 -ATTTT
1 TATTTT
635224 TTCATCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 6 0.19
31 21 0.66
32 5 0.16
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (31 bp):
TATTTTGTTAAGTCGTACTCAAAATAATTCG
Found at i:639183 original size:2 final size:2
Alignment explanation
Indices: 639176--639209 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
639166 CCATTAATAC
639176 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
639210 TTTAACTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:647775 original size:85 final size:84
Alignment explanation
Indices: 647653--647817 Score: 294
Period size: 85 Copynumber: 2.0 Consensus size: 84
647643 AATTTTGACG
* *
647653 AAAATTGTGGCCATGCCCCTTGAAGTAAAGAGTTTATTATAGTGACATGTGTATATATAATTACA
1 AAAATCGTGACCATGCCCCTTGAAGTAAAGAGTTTATTATAGTGACATGTGTATATATAATTACA
647718 AAATTCATTTTACAGNGACC
66 AAATTCATTTTACAG-GACC
*
647738 AAAATCGTGACCATGCCCCTTTAAGTAAAGAGTTTATTATAGTGACATGTGTATATATAATTACA
1 AAAATCGTGACCATGCCCCTTGAAGTAAAGAGTTTATTATAGTGACATGTGTATATATAATTACA
647803 AAATTCATTTTACAG
66 AAATTCATTTTACAG
647818 ATACAATGTC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (84 bp):
AAAATCGTGACCATGCCCCTTGAAGTAAAGAGTTTATTATAGTGACATGTGTATATATAATTACA
AAATTCATTTTACAGGACC
Found at i:654814 original size:2 final size:2
Alignment explanation
Indices: 654807--654843 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
654797 ATGGTTAAGC
654807 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
654844 TAGTAATATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:662560 original size:448 final size:447
Alignment explanation
Indices: 661724--662619 Score: 1747
Period size: 448 Copynumber: 2.0 Consensus size: 447
661714 ATATATATAT
* *
661724 ATATATATATGGACCTTAATTATCCATATGGTAAATCTAAATCTGCTATCAACAGCACTCATAAG
1 ATATATATATGAACCTTAATTATCCATATGGTAAATCTAAATCTGCCATCAACAGCACTCATAAG
661789 ATTAGGATTTTATTTTATCTACTATACATGGCACCAGCTTTGAGATATCTGTGAATTTCAAGATA
66 ATTAGGATTTTATTTTATCTACTATACATGGCACCAGCTTTGAGATATCTGTGAATTTCAAGATA
*
661854 AATATTACAATGATTATCATATTTTTCACAATACACTACATTTGGCTGGATTGTACAGATACGTG
131 AATATTACAATGATTATCATATTTTTCACAATACACTACATATGGCTGGATTGTACAGATACGTG
*
661919 TTCTCCTAGAGACTTCCTTATTAAGGATAATCAAAGGTTCTTTCTGGTTTTAAGTACTTTATGAG
196 TTCTCCTAGAGACTTCCTTATTAAGGATAATCAAAGATTCTTTCTGGTTTTAAGTACTTTATGAG
661984 ATTAACGCGTTCATTCATTGAGTCATCACTTACACGGACGCCCCCTCCCATTTTATTATCAACCA
261 ATTAACGCGTTCATTCATTGAGTCATCACTTACACGGACGCCCCCTCCCATTTTATTATCAACCA
662049 GCAACAAGATATGGTTTTTGATTGTTTTGTTTTGTTTTTTGCAATCAATCTCCGATTCTAAGAAA
326 GCAACAAGATATGGTTTTTGATTGTTTTGTTTTGTTTTTTGCAATCAATCTCCGATTCTAAGAAA
662114 CATGGTATCTTGTATTTGACCTTGTATTAGAGGGTGTTTATTATATGCCCACGTGGG
391 CATGGTATCTTGTATTTGACCTTGTATTAGAGGGTGTTTATTATATGCCCACGTGGG
662171 ANTATATATATGAACCTTAATTATCCATATGGTAAATCTAAATCTGCCATCAACAGCACTCATAA
1 A-TATATATATGAACCTTAATTATCCATATGGTAAATCTAAATCTGCCATCAACAGCACTCATAA
662236 GATTAGGATTTTATTTTATCTACTATACATGGCACCAGCTTTGAGATATCTGTGAATTTCAAGAT
65 GATTAGGATTTTATTTTATCTACTATACATGGCACCAGCTTTGAGATATCTGTGAATTTCAAGAT
662301 AAATATTACAATGATTATCATATTTTTCACAATACACTACATATGGCTGGATTGTACAGATACGT
130 AAATATTACAATGATTATCATATTTTTCACAATACACTACATATGGCTGGATTGTACAGATACGT
662366 GTTCTCCTAGAGACTTCCTTATTAAGGATAATCAAAGATTCTTTCTGGTTTTAAGTACTTTATGA
195 GTTCTCCTAGAGACTTCCTTATTAAGGATAATCAAAGATTCTTTCTGGTTTTAAGTACTTTATGA
662431 GATTAACGCGTTCATTCATTGAGTCATCACTTACACGGACGCCCCCTCCCATTTTATTATCAACC
260 GATTAACGCGTTCATTCATTGAGTCATCACTTACACGGACGCCCCCTCCCATTTTATTATCAACC
662496 AGCAACAAGATATGGTTTTTGATTGTTTTGTTTTGTTTTTTGCAATCAATCTCCGATTCTAAGAA
325 AGCAACAAGATATGGTTTTTGATTGTTTTGTTTTGTTTTTTGCAATCAATCTCCGATTCTAAGAA
662561 ACATGGTATCTTGTATTTGACCTTGTATTAGAGGGTGTTTATTATATGCCCACGTGGG
390 ACATGGTATCTTGTATTTGACCTTGTATTAGAGGGTGTTTATTATATGCCCACGTGGG
662619 A
1 A
662620 ATACACCCAG
Statistics
Matches: 444, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
447 1 0.00
448 443 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (447 bp):
ATATATATATGAACCTTAATTATCCATATGGTAAATCTAAATCTGCCATCAACAGCACTCATAAG
ATTAGGATTTTATTTTATCTACTATACATGGCACCAGCTTTGAGATATCTGTGAATTTCAAGATA
AATATTACAATGATTATCATATTTTTCACAATACACTACATATGGCTGGATTGTACAGATACGTG
TTCTCCTAGAGACTTCCTTATTAAGGATAATCAAAGATTCTTTCTGGTTTTAAGTACTTTATGAG
ATTAACGCGTTCATTCATTGAGTCATCACTTACACGGACGCCCCCTCCCATTTTATTATCAACCA
GCAACAAGATATGGTTTTTGATTGTTTTGTTTTGTTTTTTGCAATCAATCTCCGATTCTAAGAAA
CATGGTATCTTGTATTTGACCTTGTATTAGAGGGTGTTTATTATATGCCCACGTGGG
Found at i:663568 original size:2 final size:2
Alignment explanation
Indices: 663561--663617 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
663551 AAAGAATGAG
663561 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
663603 GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA G
663618 CAACTCAGTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:668643 original size:1 final size:1
Alignment explanation
Indices: 668637--668664 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
668627 ACCCTCCCTA
668637 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
668665 TCGTTTCCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:673562 original size:22 final size:21
Alignment explanation
Indices: 673522--673563 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
673512 TTAATACAAA
* *
673522 GCTAATACAAATGTTTGTTTT
1 GCTAATACAAATCTCTGTTTT
673543 GCTACATACAAATCTCTGTTT
1 GCTA-ATACAAATCTCTGTTT
673564 CTCAACGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
GCTAATACAAATCTCTGTTTT
Found at i:682173 original size:37 final size:33
Alignment explanation
Indices: 682146--682210 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
682136 CAAGAGTTTT
682146 CAAATGTAATTAATTAAATTACAATTAC-TTTG
1 CAAATGTAATTAATTAAATTACAATTACATTTG
*
682178 CAGATGTAATTAATTAAATTACAAATTACATTT
1 CAAATGTAATTAATTAAATTAC-AATTACATTT
682211 TCATCAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 21 0.70
33 6 0.20
34 3 0.10
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (33 bp):
CAAATGTAATTAATTAAATTACAATTACATTTG
Found at i:705230 original size:143 final size:144
Alignment explanation
Indices: 704878--705282 Score: 544
Period size: 143 Copynumber: 2.8 Consensus size: 144
704868 ATCGTGTTCG
* * * *
704878 GTCCATATCTTTCTTATGGAGAAACATTAGAAGTTATTACTTCACACAAAGATTGCTTATGTCCT
1 GTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTAGTTCACACAAAGATTGCTTATGACCT
* * * *
704943 AAGGGTGTGTCATGACCTTGACCCAAGGTCATTCAGGCAAGGTCAAGGTCACGGGCTGAAAAAGT
66 AAGGG-GTGTCATGACCTTGATCCAAGGTCATTCGGGCAAGGTCAAGGTTACGGGC-GAAAAAAT
* * *
705008 GCAAAATTTGTGTCCG
129 ACAAAATTCGTGTCCA
* *
705024 GTCCATGTCATTCTTATGGAGAAACATTGGAAGTTCTTAGTTCACACAAAGATTGCTTATGACCT
1 GTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTAGTTCACACAAAGATTGCTTATGACCT
* **
705089 AAGTGGGTGTCATGACCTTGATCCAAGGTCATTTGGGCAAGGTCAAGGTTA-TTG-GAAAAAATA
66 AAG-GGGTGTCATGACCTTGATCCAAGGTCATTCGGGCAAGGTCAAGGTTACGGGCGAAAAAATA
*
705152 CATAATTCGTGTCCA
130 CAAAATTCGTGTCCA
*
705167 GTCCATATCTTTCTAATGGAGAAACATTGGAAGTTCTTAGTTCACACAAAGATTGCTTATGACCT
1 GTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTAGTTCACACAAAGATTGCTTATGACCT
* * * * * *
705232 AAGGCTGTGTCATAATCTTGATCAAAAGTCATTCGGGCAAAGTCAAGGTTA
66 AAGG-GGTGTCATGACCTTGATCCAAGGTCATTCGGGCAAGGTCAAGGTTA
705283 GCTGCAGATC
Statistics
Matches: 230, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
142 1 0.00
143 123 0.53
145 1 0.00
146 103 0.45
147 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (144 bp):
GTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTAGTTCACACAAAGATTGCTTATGACCT
AAGGGGTGTCATGACCTTGATCCAAGGTCATTCGGGCAAGGTCAAGGTTACGGGCGAAAAAATAC
AAAATTCGTGTCCA
Found at i:705622 original size:10 final size:10
Alignment explanation
Indices: 705607--705646 Score: 71
Period size: 10 Copynumber: 4.0 Consensus size: 10
705597 GCGTCGATTT
705607 ACCCAAATGG
1 ACCCAAATGG
*
705617 ACCCAAATGA
1 ACCCAAATGG
705627 ACCCAAATGG
1 ACCCAAATGG
705637 ACCCAAATGG
1 ACCCAAATGG
705647 CGATTAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.42, C:0.30, G:0.17, T:0.10
Consensus pattern (10 bp):
ACCCAAATGG
Found at i:705763 original size:12 final size:12
Alignment explanation
Indices: 705748--705773 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
705738 GAAAAATAAA
705748 GACCCAAATGGC
1 GACCCAAATGGC
705760 GACCCAAATGGC
1 GACCCAAATGGC
705772 GA
1 GA
705774 TTCAAGCGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.31, G:0.27, T:0.08
Consensus pattern (12 bp):
GACCCAAATGGC
Found at i:708140 original size:162 final size:160
Alignment explanation
Indices: 707885--708269 Score: 429
Period size: 162 Copynumber: 2.4 Consensus size: 160
707875 AGGATGGGGC
707885 CACAATGGGGGTTCGACTTTTTACATACGAATATATAGAGTAAATCTTTAAAAATCTTCTCAAAA
1 CACAATGGGGGTTCGACTTTTTACATACGAATATATAGAGTAAATCTTTAAAAATCTTCTCAAAA
* * * *
707950 ACAGTTAGGCAAGGAAAGCTGAAACTTATGTGGAAGCATCTTCAGGTAGTGTAAATTAAAAATTG
66 ACAGTTAGGCAAGAAAAGCTGAAACTTATGTGGAAGCATCCTAAGGTAATGTAAATTAAAAATTG
708015 TGAAAATCATAACCCCGGGGTAGGGAAGGT
131 TGAAAATCATAACCCCGGGGTAGGGAAGGT
*
708045 CACAATGGGGAG-TCGAC-TTTTACCA-AGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCT
1 CACAATGGGG-GTTCGACTTTTTA-CATACGAATATATAGAGTAAATCTTTAAAAA---TCTTCT
* * * * *
708107 CAGAAACCGTTAGGCCAGAAAAGCTGAAACTTATGTGGAAGCATCCTAAGGTAATGTAGATTCAA
61 CAAAAACAGTTAGGCAAGAAAAGCTGAAACTTATGTGGAAGCATCCTAAGGTAATGTAAATTAAA
* * * * * ** *
708172 AGTTGTGAATACCATGACCTCAAGGGGTAGGGTGGGGC
126 AATTGTGAAAATCATAACC-C-CGGGGTAGGG-AAGGT
* * * * * *
708210 CATAATGGGAGG-TCTTA-TTTATACATAGGAATATATATAGTAAATCTTTAAACATCTTCT
1 CACAATGGG-GGTTC-GACTTTTTACATACGAATATATAGAGTAAATCTTTAAAAATCTTCT
708270 TTTCAAAAAA
Statistics
Matches: 190, Mismatches: 23, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
159 32 0.17
160 17 0.09
161 1 0.01
162 77 0.41
163 7 0.04
164 9 0.05
165 15 0.08
166 32 0.17
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (160 bp):
CACAATGGGGGTTCGACTTTTTACATACGAATATATAGAGTAAATCTTTAAAAATCTTCTCAAAA
ACAGTTAGGCAAGAAAAGCTGAAACTTATGTGGAAGCATCCTAAGGTAATGTAAATTAAAAATTG
TGAAAATCATAACCCCGGGGTAGGGAAGGT
Found at i:708417 original size:150 final size:147
Alignment explanation
Indices: 708161--708444 Score: 346
Period size: 150 Copynumber: 1.9 Consensus size: 147
708151 CCTAAGGTAA
* * *
708161 TGTAGATTCAAAGTTGTGAATACCATGACCTCAAGGGGTAGGGTGGGGCCATAATGGGAGGTCTT
1 TGTAGATTCAAAGTTGTAAAAACCATGACCTCAAGGGGTAGGGTGGGGCCACAATGGGAGGTCTT
* *
708226 ATTTATACATAGGAATATATATAGTAAATCTTTAAACATCTTCTTT-TCAAAAAAC-ATTTGGCC
66 ATTTATACATAGGAATATATATAATAAATCTTTAAAAATCTT-TTTCTC-AAAAACTATTTGGCC
708289 AGGAAAGCATCCTCAATTG
129 AGGAAAGCATCCTCAATTG
* ** *
708308 TGTAGATTCAAAGTTGTAAAAAGCATGACC-CTTGGGAGGTAGGGTGGGGCCACAGTGGGTATGG
1 TGTAGATTCAAAGTTGTAAAAACCATGACCTC-AAGG-GGTAGGGTGGGGCCACAATGGG-A-GG
**
708372 TCGATT-TTTA-ACATAGGAATATAT-TGAATAAATCTTTAAAAATCTTTTTCTCATGAACTATT
62 TC--TTATTTATACATAGGAATATATAT-AATAAATCTTTAAAAATCTTTTTCTCAAAAACTATT
708434 TGGCCAGGAAA
124 TGGCCAGGAAA
708445 CTGAAACTTG
Statistics
Matches: 117, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
146 1 0.01
147 29 0.25
148 20 0.17
149 9 0.08
150 52 0.44
151 4 0.03
152 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.31
Consensus pattern (147 bp):
TGTAGATTCAAAGTTGTAAAAACCATGACCTCAAGGGGTAGGGTGGGGCCACAATGGGAGGTCTT
ATTTATACATAGGAATATATATAATAAATCTTTAAAAATCTTTTTCTCAAAAACTATTTGGCCAG
GAAAGCATCCTCAATTG
Found at i:717186 original size:2 final size:2
Alignment explanation
Indices: 717179--717205 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
717169 TAAATTGCAC
717179 AT 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 AT A
717206 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:717240 original size:2 final size:2
Alignment explanation
Indices: 717233--717263 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
717223 NNNNNNNNNN
*
717233 TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
717264 CACTTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:733894 original size:28 final size:28
Alignment explanation
Indices: 733834--733901 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
733824 AGAGAGAGAG
* **
733834 AGAGAGAGAGAGAGAGTGGGAGTTAGGG
1 AGAGAGAGAGAGAGAGTGGGAGTAAGCA
*
733862 AGAGAAAGAGAGAGAGT-GGAGTAAGCA
1 AGAGAGAGAGAGAGAGTGGGAGTAAGCA
733889 ATGAGAGAGAGAG
1 A-GAGAGAGAGAG
733902 GGAAATAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 8 0.24
28 26 0.76
ACGTcount: A:0.43, C:0.01, G:0.47, T:0.09
Consensus pattern (28 bp):
AGAGAGAGAGAGAGAGTGGGAGTAAGCA
Found at i:733896 original size:2 final size:2
Alignment explanation
Indices: 733741--733877 Score: 184
Period size: 2 Copynumber: 68.5 Consensus size: 2
733731 TCAAAAAGCT
733741 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
733783 GA GA AA GG GA GA GA GA GA GA GA GA GA GA GA AA GA GA GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * *
733825 GA GA GA GA GA GA GA GA GA GA GA GA GT GG GA GT TA GG GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
733867 AA GA GA GA GA G
1 GA GA GA GA GA G
733878 TGGAGTAAGC
Statistics
Matches: 116, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 116 1.00
ACGTcount: A:0.47, C:0.00, G:0.50, T:0.02
Consensus pattern (2 bp):
GA
Found at i:736021 original size:150 final size:150
Alignment explanation
Indices: 735834--736112 Score: 443
Period size: 150 Copynumber: 1.9 Consensus size: 150
735824 CATGTGAGGA
* * * * *
735834 AAAAACTGAATGCATGGTTATGATGTCCATGAAGCCCTCTACCAAAACTGTGAAATTCATGGCCT
1 AAAAACTAAATGCATGATTATGATGTCCATAAAGCCCTCTACCAAAACTGTGAAATTCATGACCC
735899 CT-GGTTCAGGGGTTCAGGCTCTAGGGTAGGGCCAATATGACCATATAGTAAAAATGTATTAAAT
66 CTGGGTT-AGGGGTTCAGGCTCTAGGGTAGGGCCAATATGACCATATAGTAAAAATGTATTAAAT
735963 CTTAGACCATATATATTTGTT
130 CTTAGACCATATATATTTGTT
* * *
735984 AAAAACTAAATGCATGATTATGATGTCTATAAAGCCCTCTACCTAAATTGTGAAATTCATGACCC
1 AAAAACTAAATGCATGATTATGATGTCCATAAAGCCCTCTACCAAAACTGTGAAATTCATGACCC
* * *
736049 CTGGGTTAGGGGTTCGGGCTCTAGGGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAAT
66 CTGGGTTAGGGGTTCAGGCTCTAGGGTAGGGCCAATATGACCATATAGTAAAAATGTATTAAAT
736113 AATAACAAAT
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
150 113 0.97
151 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (150 bp):
AAAAACTAAATGCATGATTATGATGTCCATAAAGCCCTCTACCAAAACTGTGAAATTCATGACCC
CTGGGTTAGGGGTTCAGGCTCTAGGGTAGGGCCAATATGACCATATAGTAAAAATGTATTAAATC
TTAGACCATATATATTTGTT
Found at i:736676 original size:13 final size:13
Alignment explanation
Indices: 736658--736684 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
736648 ATACATCAGA
736658 ACTCTCACAAGAT
1 ACTCTCACAAGAT
736671 ACTCTCACAAGAT
1 ACTCTCACAAGAT
736684 A
1 A
736685 TCATATCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.30, G:0.07, T:0.22
Consensus pattern (13 bp):
ACTCTCACAAGAT
Found at i:738070 original size:5 final size:5
Alignment explanation
Indices: 738051--738095 Score: 65
Period size: 5 Copynumber: 8.8 Consensus size: 5
738041 TCAAGCTCTA
738051 TTTGTT TTTGTT TTTGT TTTGT TTTGT TTTGT TTT-T TTTGT TTTG
1 TTTG-T TTTG-T TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTG
738096 GGGGGGGGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.11
5 24 0.63
6 10 0.26
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (5 bp):
TTTGT
Found at i:738303 original size:104 final size:101
Alignment explanation
Indices: 738109--738316 Score: 371
Period size: 104 Copynumber: 2.0 Consensus size: 101
738099 GGGGGGGGGG
738109 GTGCTGGATTGTGAAGTGTTTCGTTGTTGTCAGCAGTCATTAGAAGTAACTTTAAATAAGTTTGA
1 GTGCTGGATTGTGAAGTGTTTCGTTGTTGTCAGCAGTCATTAGAAGTAACTTTAAATAAGTTTGA
738174 ATATTAATTTTGATTAATTTTACAATTTAAATGACA
66 ATATTAATTTTGATTAATTTTACAATTTAAATGACA
*
738210 GTGCTGGATTGTGAAGTGTTTCGTTGTTGTCAGCAGTCATTAGAAGTATTAACTTTAAATACGTT
1 GTGCTGGATTGTGAAGTGTTTCGTTGTTGTCAGCAGTCATTAGAAG---TAACTTTAAATAAGTT
*
738275 TGAATATTTATTTTGATTAATTTTACAATTTAAATGACA
63 TGAATATTAATTTTGATTAATTTTACAATTTAAATGACA
738314 GTG
1 GTG
738317 TTTTCCCTAG
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
101 46 0.45
104 56 0.55
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (101 bp):
GTGCTGGATTGTGAAGTGTTTCGTTGTTGTCAGCAGTCATTAGAAGTAACTTTAAATAAGTTTGA
ATATTAATTTTGATTAATTTTACAATTTAAATGACA
Found at i:746541 original size:8 final size:8
Alignment explanation
Indices: 746520--746561 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
746510 GATCACATTT
746520 TGTCCGTC
1 TGTCCGTC
746528 -GTCCGTC
1 TGTCCGTC
746535 TGTCCGTC
1 TGTCCGTC
*
746543 CGTCCGTC
1 TGTCCGTC
746551 TGTCCGTC
1 TGTCCGTC
746559 TGT
1 TGT
746562 AAACTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 7 0.23
8 24 0.77
ACGTcount: A:0.00, C:0.38, G:0.26, T:0.36
Consensus pattern (8 bp):
TGTCCGTC
Found at i:746543 original size:4 final size:4
Alignment explanation
Indices: 746521--746558 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
746511 ATCACATTTT
* *
746521 GTCC GT-C GTCC GTCT GTCC GTCC GTCC GTCT GTCC GTC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTC
746559 TGTAAACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.00, C:0.42, G:0.26, T:0.32
Consensus pattern (4 bp):
GTCC
Found at i:747798 original size:23 final size:23
Alignment explanation
Indices: 747765--747815 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
747755 GTATGTAAGC
*
747765 CCCGTACATTA-ATTTCAAAATAA
1 CCCGTAAATTAGA-TTCAAAATAA
* *
747788 CCCGTAAATTAGATTCACAATAG
1 CCCGTAAATTAGATTCAAAATAA
747811 CCCGT
1 CCCGT
747816 GCAGTTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (23 bp):
CCCGTAAATTAGATTCAAAATAA
Found at i:748346 original size:166 final size:163
Alignment explanation
Indices: 748064--748572 Score: 664
Period size: 166 Copynumber: 3.1 Consensus size: 163
748054 TCACCTGAGA
* * * *
748064 ATGGGGCCACAATGGGGGGTCGAAGTTTAACAAATGAATATATAGAGTAAATCTTTAGAAATCCT
1 ATGGGGCCACAAT-GGGGGTCGAAGTTTAACATATGAATATAAAGAGTAAATCTTTAAAAATCTT
*
748129 CTTCTCAGAAACTAATCGGCCAGGAAAGCTTAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGA
65 CTTCTCAGAAACTAATCGGCCAGGAAAGC-TGAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGA
**
748194 TTCAAAGATGTGAAAATCATGACCCCTGGGGATAGG
129 TTCAAATTTGTGAAAATCATGACCCCTGGGG-TAGG
* *
748230 GTGGGGCCACAATGGAGGGTCGAAGTTTAACATATGAATATAAAAAGTAAATCTTTAAAAATCTT
1 ATGGGGCCACAATGG-GGGTCGAAGTTTAACATATGAATATAAAGAGTAAATCTTTAAAAATCTT
* * * * *
748295 CTTCTCAGAAACTAATTGGCCAGGAAAGCTGACACTTGTGTGGATGCATCCTTATGTAGTGAAGA
65 CTTCTCAGAAACTAATCGGCCAGGAAAGCTGA-ACTTGTGTGGAAGCATCCTCAGGTAGTGTAGA
* *
748360 TTCAAATTTGTAAAAAGCATGACCCCTGGGGGTAGG
129 TTCAAATTTGTGAAAATCATGACCCCT-GGGGTAGG
* * * * *
748396 TTTGGGCCACAATGGGAGGTC-AATGTTTTACATAGGAATA-AACAGAGT-CATCTTTAAAAATC
1 ATGGGGCCACAATGGG-GGTCGAA-GTTTAACATATGAATATAA-AGAGTAAATCTTTAAAAATC
* * *
748458 TTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGGAACTTGCGTGAAAGCATCCTCAGGTAGTGTA
63 TTCTTCTCAGAAACTAATCGGCCAGGAAAGCT-GAACTTGTGTGGAAGCATCCTCAGGTAGTGTA
* *
748523 GATTCAAATTTGTGAAAATAATGATCCCCAGGGGTAGG
127 GATTCAAATTTGTGAAAATCATGA-CCCCTGGGGTAGG
748561 ATGGGGCCACAA
1 ATGGGGCCACAA
748573 AATGGGGGGG
Statistics
Matches: 299, Mismatches: 36, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
165 115 0.38
166 180 0.60
167 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (163 bp):
ATGGGGCCACAATGGGGGTCGAAGTTTAACATATGAATATAAAGAGTAAATCTTTAAAAATCTTC
TTCTCAGAAACTAATCGGCCAGGAAAGCTGAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATT
CAAATTTGTGAAAATCATGACCCCTGGGGTAGG
Found at i:753605 original size:2 final size:2
Alignment explanation
Indices: 753598--753628 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
753588 NNNNNNNNNN
753598 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
753629 TTTACTGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:755935 original size:145 final size:145
Alignment explanation
Indices: 755599--756125 Score: 695
Period size: 145 Copynumber: 3.6 Consensus size: 145
755589 TGTCTGTTTG
* **
755599 TATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAAATTGCTTATGACCTAAGAA
1 TATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGG
* * **
755664 TGTGTCATGACCTTGAACCAAGGTCAGTCGGGCAAGGTCAAAGTCTTTGGCAGAAAAAGTGCAAA
66 TGTGTCATGACCTTG-ACCAAGGTCATTTGGGCAAGGTCAAAGTCACTGGCAGAAAAAGTGCAAA
* *
755729 ATTCGTGTCCGGCCCA
130 ATTCGTGTCCAGTCCA
*
755745 TATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTTAGGG
1 TATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGG
* * * *
755810 TGTGTCATGACTTTGACTCGATGTCATTTGGGCAAGGTCAAGGTCACT-GCAGAAAAAGTGCAAA
66 TGTGTCATGACCTTGAC-CAAGGTCATTTGGGCAAGGTCAAAGTCACTGGCAGAAAAAGTGCAAA
755874 ATTCGTGTCCAGTCCA
130 ATTCGTGTCCAGTCCA
* * *
755890 TTTCTTTCTTATGGAGAAGCATT-AAATGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGG
1 TATCTTTCTTATGGAGAAACATTGGAA-GTTCTTACTTCACACAAAGATTGCTTATGACCTAAGG
* **
755954 GTGTGACCCGACCTTGACCCAAGGTCATTTGGGCAAGGTCAACA-TCACTGGCAG-AAAAGTGCA
65 GTGTGTCATGACCTTGA-CCAAGGTCATTTGGGCAAGGTCAA-AGTCACTGGCAGAAAAAGTGCA
*
756017 AAATTCATGT-CAGGTCCA
128 AAATTCGTGTCCA-GTCCA
* * * * * * *
756035 TATCTTTCTTATGGACAAATATTGGAAGTTCCTAATTCACATAAAGATTGCTTATAACCTGAGGG
1 TATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGG
*
756100 TCTGTCATGACCTTGACCCAAGGTCA
66 TGTGTCATGACCTTGA-CCAAGGTCA
756126 ATATAGGAAG
Statistics
Matches: 334, Mismatches: 40, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
144 4 0.01
145 225 0.67
146 105 0.31
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (145 bp):
TATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGG
TGTGTCATGACCTTGACCAAGGTCATTTGGGCAAGGTCAAAGTCACTGGCAGAAAAAGTGCAAAA
TTCGTGTCCAGTCCA
Found at i:759245 original size:165 final size:168
Alignment explanation
Indices: 758725--759243 Score: 556
Period size: 169 Copynumber: 3.1 Consensus size: 168
758715 GCTCTCTACC
* * * *
758725 AAAATTGTGAAATTCATGGCCCCTTGGTGT-GGGGTTCTGGCACAAGGGTGGGGCTCTAATGACT
1 AAAATTGTGAAATTCATGGCCCCTTGGT-TAGGGGTTCTTGTATAAGGGTGGGGCTCTAATGAAT
* * * * * * *
758789 ATATAGTGAAAATACACT-AATTCTTTTAAAATCTTCTCCT-CTGCTCTTGGGTATTTAGCCAAT
65 ATATAGAGAAAATGCATTAAATTCTTTAAAAATCTTCT-CTGCTGCCCTT-GATATTAAGCCAAT
* * * *
758852 AAACTAAGTACATGGTTATGATAAGGAAGAATGCCTCTTTT
128 GAACTAAGTACATAGTTATGATGAGGAAGAATGCCTCTTCT
* ** * * *
758893 AAAATTTTGAGTTTCATGGCCCC-TGGTTCAGGGGTTCTTGT-T-AGGATGGGACTCTAATGATT
1 AAAATTGTGAAATTCATGGCCCCTTGGTT-AGGGGTTCTTGTATAAGGGTGGGGCTCTAATGAAT
* * *
758955 ATATAGAGAAAATGCATTTAAAATTCTTCAAAAATATTCTC-GTCTGCTCCTTGATATTAA-ACA
65 ATATAGAGAAAATGCA-TT-AAATTCTTTAAAAATCTTCTCTG-CTGC-CCTTGATATTAAGCCA
* *
759018 GATGAACTAAGTACATAGTTATGATGAGTAATAATGCCTCTTCT
126 -ATGAACTAAGTACATAGTTATGATGAGGAAGAATGCCTCTTCT
* *
759062 AAAATTGTGAAATTCATTGCCCCTTGGTTAAGGGTTCTTGTATAAGGGTGGGGCTCTAATGAATA
1 AAAATTGTGAAATTCATGGCCCCTTGGTTAGGGGTTCTTGTATAAGGGTGGGGCTCTAATGAATA
* * * *
759127 TATAGAGGAAATGCA-TAAATTCTTTGAAAATCTTCTCTGCT-CCCAT-ATATTAAGCCCATGAA
66 TATAGAGAAAATGCATTAAATTCTTTAAAAATCTTCTCTGCTGCCCTTGATATTAAGCCAATGAA
* * *
759189 CTAAGTACAAAGTCATGATGAGGAAGAATGCTTCTTCT
131 CTAAGTACATAGTTATGATGAGGAAGAATGCCTCTTCT
*
759227 AAAATTTTGAAATTCAT
1 AAAATTGTGAAATTCAT
759244 TGGGGCTCTA
Statistics
Matches: 291, Mismatches: 46, Indels: 31
0.79 0.12 0.08
Matches are distributed among these distances:
165 61 0.21
166 36 0.12
167 6 0.02
168 52 0.18
169 95 0.33
170 9 0.03
171 32 0.11
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (168 bp):
AAAATTGTGAAATTCATGGCCCCTTGGTTAGGGGTTCTTGTATAAGGGTGGGGCTCTAATGAATA
TATAGAGAAAATGCATTAAATTCTTTAAAAATCTTCTCTGCTGCCCTTGATATTAAGCCAATGAA
CTAAGTACATAGTTATGATGAGGAAGAATGCCTCTTCT
Found at i:761690 original size:12 final size:12
Alignment explanation
Indices: 761673--761719 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
761663 ACCCTTGTGT
761673 GTCTGTCTGTCC
1 GTCTGTCTGTCC
761685 GTCTGTCTGT--
1 GTCTGTCTGTCC
*
761695 -TC-GTCCGTCC
1 GTCTGTCTGTCC
761705 GTCTGTCTGTCC
1 GTCTGTCTGTCC
761717 GTC
1 GTC
761720 CGTAACAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
8 5 0.17
9 2 0.07
11 2 0.07
12 20 0.69
ACGTcount: A:0.00, C:0.34, G:0.26, T:0.40
Consensus pattern (12 bp):
GTCTGTCTGTCC
Found at i:761706 original size:20 final size:20
Alignment explanation
Indices: 761681--761722 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
761671 GTGTCTGTCT
*
761681 GTCCGTCTGTCTGTTCGTCC
1 GTCCGTCTGTCTGTCCGTCC
761701 GTCCGTCTGTCTGTCCGTCC
1 GTCCGTCTGTCTGTCCGTCC
761721 GT
1 GT
761723 AACAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.36, G:0.26, T:0.38
Consensus pattern (20 bp):
GTCCGTCTGTCTGTCCGTCC
Found at i:761720 original size:16 final size:16
Alignment explanation
Indices: 761673--761722 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
761663 ACCCTTGTGT
*
761673 GTCTGTCTGTCCGTCT
1 GTCTGTCTGTCCGTCC
761689 GTCTGT-TCGTCCGTCC
1 GTCTGTCT-GTCCGTCC
761705 GTCTGTCTGTCCGTCC
1 GTCTGTCTGTCCGTCC
761721 GT
1 GT
761723 AACAAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 1 0.03
16 29 0.94
17 1 0.03
ACGTcount: A:0.00, C:0.34, G:0.26, T:0.40
Consensus pattern (16 bp):
GTCTGTCTGTCCGTCC
Found at i:762129 original size:166 final size:166
Alignment explanation
Indices: 761746--762261 Score: 811
Period size: 166 Copynumber: 3.1 Consensus size: 166
761736 GTCGCATTTA
* *
761746 TCTCAGCAACTATTTATCGCAGATGATTGAAATTTTTACACAGTGTTTGT-TAAGGCATGCCATA
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTAT-AGGCATGCCATA
* * *
761810 TCGTGGGATATATTGTTGTACCAATCAGACATCAACTTCCTGTTAAATGACGACTTTGCTTATTT
65 TCGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGACGACTTTGTTTA-TT
* * * *
761875 TTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGATT
129 TTTAGCAAAAATTTTCAAACAAATTTTTGTCAAAGAAT
* *
761913 TCTCAGCAACTATTTATCACAGATGCTTG-AATTTTATACACAATATTTGTATAGGCATGCCATA
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTT-TACACAGTATTTGTATAGGCATGCCATA
* * *
761977 TCGTGGGATATATTTTTGTACGAATCGGACGTCAACTTCGTGTTAAATGACGACTTTGTTTATTT
65 TCGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTT
762042 TTAGCAAAAATTTTCAAACAAATTTTTGTCAAAGAAT
130 TTAGCAAAAATTTTCAAACAAATTTTTGTCAAAGAAT
*
762079 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATAT
* * * *
762144 CGTTGGATATATTTTTGTACCAATCAGATGTCAACTTCCTGTTAAACGCCGACTTTGTTTATTTT
66 CGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
762209 TAGCAAAAATTTTCAAACAAATTTTTGTCAAAGAAT
131 TAGCAAAAATTTTCAAACAAATTTTTGTCAAAGAAT
*
762245 TCTCAGCAACTGTTTAT
1 TCTCAGCAACTATTTAT
762262 NNNNNNNNNN
Statistics
Matches: 322, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
166 208 0.65
167 113 0.35
168 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (166 bp):
TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATAT
CGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
TAGCAAAAATTTTCAAACAAATTTTTGTCAAAGAAT
Found at i:769044 original size:161 final size:163
Alignment explanation
Indices: 768637--769020 Score: 422
Period size: 163 Copynumber: 2.4 Consensus size: 163
768627 TAAATTTAGC
* * * * * * * * **
768637 TTTTCAAAACCGTAA-TGCACATCAATGGAACAGTCCCTATCATATCCCAAGATATGATGTCTCT
1 TTTTTAAAACC-TAATTGCAAATCTATAGAACAGCCCCAATCATATCCCAAGAGATGACGAGTCT
* * * * *
768701 ATCCATTAAATCATAAAAGGAGTTCTAGGATCTAT---GTTTTTTTTAAGTGATAAACGTCAATT
65 ATCCA-TAAATCATAAGAGGGGCTCTTGGATTTATGGGGTTTTTTTTAAGTGATAAACGTCAATT
*
768763 TTCTGCTACTTTTTGACTCCCTGGATGAAATTTAAAA
129 TTCTGCTACTATTTGA--CCCTGGATGAAATTTAAAA
* * ** * * *
768800 TTTTTAAAACCTAATTGCAAATCTTTAGAACAGTCCTTATCATATCCCAAGATATGATGTGTCTA
1 TTTTTAAAACCTAATTGCAAATCTATAGAACAGCCCCAATCATATCCCAAGAGATGACGAGTCTA
*
768865 TCCATTAAATCATAAGAGGGGCTCTTGGATTTATGGGGTTTTTTTT-ATTGATAAACGTCAATTT
66 TCCA-TAAATCATAAGAGGGGCTCTTGGATTTATGGGGTTTTTTTTAAGTGATAAACGTCAATTT
768929 TCTGCTACTATTTGA-CCTGGATGAAATTT-AAA
130 TCTGCTACTATTTGACCCTGGATGAAATTTAAAA
* * * *
768961 TTTTTAAAACCTTATTGCACATCTATAGGACAGCCCCAATTATATCCCAAGAGATGACGA
1 TTTTTAAAACCTAATTGCAAATCTATAGAACAGCCCCAATCATATCCCAAGAGATGACGA
769021 AGCTACTCCA
Statistics
Matches: 192, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
161 52 0.27
162 17 0.09
163 83 0.43
165 31 0.16
166 9 0.05
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (163 bp):
TTTTTAAAACCTAATTGCAAATCTATAGAACAGCCCCAATCATATCCCAAGAGATGACGAGTCTA
TCCATAAATCATAAGAGGGGCTCTTGGATTTATGGGGTTTTTTTTAAGTGATAAACGTCAATTTT
CTGCTACTATTTGACCCTGGATGAAATTTAAAA
Found at i:773461 original size:172 final size:172
Alignment explanation
Indices: 773022--773579 Score: 551
Period size: 172 Copynumber: 3.2 Consensus size: 172
773012 AACCTTGTTC
* * * ** * * **
773022 AAATCATGGTCCCCGGGGGTAGGGTGGGATTCACAGT-GGGGGGGGGGATG-AAA-TTTTATGTA
1 AAATCACGGTCCCCAGGAGTAGGGTGGG-GCCACAATGGGGGGGGGGGAGGTAAATTTTTACATA
* * * * * * * * * * *
773084 AGAATATATATAGAAAATCTTTAAAAATCTTCTTCTCAAAAGCAATTAGGCTAGAAAAGCTCAAA
65 GGAATATAAAGAGAAAATCTTTATAAATCTTCTTTTGAAAAACTACTAGGCCAGAAAAGCTCAAT
* * * * * ***
773149 TTGGAGTGAAAACATCCTCAGATAA-TGTAGATTCAAGTTTGTTT
130 TTTGAGTGGAAGCATCCTCAGA-AAGCGAAGATTCAAG-TTAAAT
** *
773193 AAATCATAGTCCCCAGGGGTAGGGGTAGGGTGGGGCCACAAT-----GGGGGGAGGTTAATTTTT
1 AAATCACGGTCCCCA--GG-A---GTAGGGTGGGGCCACAATGGGGGGGGGGGAGGTAAATTTTT
*
773253 ACATAGGAATATAAAGAGAAAATCTTTATGAATCTTCTTTTGAAAAACTACTAGGCCAGAAAAGC
60 ACATAGGAATATAAAGAGAAAATCTTTATAAATCTTCTTTTGAAAAACTACTAGGCCAGAAAAGC
*
773318 TCAATTTTGAG-GGAAAGCATCCTCAGAAAGCGAAGATTTAAGTTAAAT
125 TCAATTTTGAGTGG-AAGCATCCTCAGAAAGCGAAGATTCAAGTTAAAT
** * * *
773366 TCATCACGGTCCCCAGGGGTAGGGTGGGGCGACAATGGGGGGGGGGGGGGTAAATTTTTACATAG
1 AAATCACGGTCCCCAGGAGTAGGGTGGGGCCACAATGGGGGGGGGGGAGGTAAATTTTTACATAG
** *
773431 GAATATATTGAGAAAATCTTTATAAATCTTCTTTTGAAAAACTACTTGGCCAGAAAAGCTCAATT
66 GAATATAAAGAGAAAATCTTTATAAATCTTCTTTTGAAAAACTACTAGGCCAGAAAAGCTCAATT
* **
773496 TTGAGTGGAAGCATCCTCAGATAGCGAAGATTCAAGTTTTAT
131 TTGAGTGGAAGCATCCTCAGAAAGCGAAGATTCAAGTTAAAT
*
773538 AAATCATGGTCCCCAGGAGTAGGGTGGGGCCACAATGGGGGG
1 AAATCACGGTCCCCAGGAGTAGGGTGGGGCCACAATGGGGGG
773580 ATGAATTTTT
Statistics
Matches: 319, Mismatches: 52, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
167 17 0.05
171 15 0.05
172 163 0.51
173 23 0.07
174 86 0.27
176 5 0.02
177 10 0.03
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (172 bp):
AAATCACGGTCCCCAGGAGTAGGGTGGGGCCACAATGGGGGGGGGGGAGGTAAATTTTTACATAG
GAATATAAAGAGAAAATCTTTATAAATCTTCTTTTGAAAAACTACTAGGCCAGAAAAGCTCAATT
TTGAGTGGAAGCATCCTCAGAAAGCGAAGATTCAAGTTAAAT
Found at i:773971 original size:179 final size:179
Alignment explanation
Indices: 773666--774123 Score: 756
Period size: 179 Copynumber: 2.6 Consensus size: 179
773656 GGCTGCCAAA
* * *
773666 AGGGAACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGATAAGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* **
773731 GATCAATTGTACATATATCAGAGGTGTGCATATTGGTAGGATTTTGAATTCTGATAATTTATCGA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGGAAGGATTTTGAATTCCAATAATTTAT-GA
*
773796 AAAAATAACAGCTTTTGAACTTAGT-CTTTTTTGGCAAAATATTGCATAT
130 AAAAATAACAGCTTTTGAACTTAGTAATTTTTTGGCAAAATATTGCATAT
* * *
773845 AGGGTACCCTCATTGTACGGATAACTCCTCCAACAGTTCTCAAGATAGGAACTTGTTCTCTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* * *
773910 GATCAATTGTACTTATATTAGAGGTGTGCATATTGGAAGGATTTTGATTTCCAATAATTTATGAA
66 GATCAATTGTACATATATCAGAGGTGTGCATATTGGAAGGATTTTGAATTCCAATAATTTATGAA
773975 AAAATAACAGCTTTTGAACTTAGTAATTTTTTGGCAAAATATTGCATAT
131 AAAATAACAGCTTTTGAACTTAGTAATTTTTTGGCAAAATATTGCATAT
*
774024 AGGGTACCCTCGTTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
1 AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
* *
774089 TATTAATTGTACATATATCAGAGGTGTGCATATTG
66 GATCAATTGTACATATATCAGAGGTGTGCATATTG
774124 CCTGATTTAG
Statistics
Matches: 257, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
178 27 0.11
179 230 0.89
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (179 bp):
AGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGATAGGAAGTTGTTCTTTTGCA
GATCAATTGTACATATATCAGAGGTGTGCATATTGGAAGGATTTTGAATTCCAATAATTTATGAA
AAAATAACAGCTTTTGAACTTAGTAATTTTTTGGCAAAATATTGCATAT
Found at i:776691 original size:168 final size:167
Alignment explanation
Indices: 776534--777024 Score: 702
Period size: 168 Copynumber: 2.9 Consensus size: 167
776524 GGTTGCATAG
* * * * * *
776534 TTATAATGTCCATGAAGCCCTCTATCAAAATTGTGAAATTCATGGCCCCTGGGTCAGCGGTTTTT
1 TTATGATGTCCATGAAGCCCTCTATCAAAATTGTGAAATTCATGACCCCTGTGTCAGGGGTTCTG
776599 GCTCTAGAGTGGGGCCAATATGGCCATA-ATGTAAAAATGTATTAAATCTTAGAAAATCTTCTTC
66 GCTCTAGAGTGGGGCCAATATGGCCATATA-GTAAAAATGTATTAAATCTTAGAAAATCTTCTTC
*
776663 TCTACTACCAAAGATATTTGTTAAAAACTAAATGCATGA
130 TCTACTCCCAAA-ATATTTGTTAAAAACTAAATGCATGA
* *
776702 TTATGATGTCCATGAAGCCCTCTACTC-AAATTGTGAAATTTATGACCCCTGTATCAGGGGTTCT
1 TTATGATGTCCATGAAGCCCTCTA-TCAAAATTGTGAAATTCATGACCCCTGTGTCAGGGGTTCT
*
776766 GGCTCTAGAGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCGTCTTC
65 GGCTCTAGAGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTC
* *
776831 ACTACTCCCATATATATTTGTTAAAAACTAAATGCATGA
130 TCTACTCCCA-AAATATTTGTTAAAAACTAAATGCATGA
* *
776870 TTATGATGAACACCATGAAGCCCTCTA-CTAAAATTGTAAAATTCATGACCCCT-TGTCAGGGGT
1 TTATGATG---TCCATGAAGCCCTCTATC-AAAATTGTGAAATTCATGACCCCTGTGTCAGGGGT
* * * * *
776933 TCCGGCTCTAGGGTGGGGCAAATATGGCCATGTAGTTAAAATGTATTAAATCTTAGAAAATCTTC
62 TCTGGCTCTAGAGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTC
776998 TTCTCTACTCCCATAAATATTTGTTAA
127 TTCTCTACTCCCA-AAATATTTGTTAA
777025 CAAGAGGCCC
Statistics
Matches: 291, Mismatches: 24, Indels: 14
0.88 0.07 0.04
Matches are distributed among these distances:
168 157 0.54
169 5 0.02
170 93 0.32
171 36 0.12
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (167 bp):
TTATGATGTCCATGAAGCCCTCTATCAAAATTGTGAAATTCATGACCCCTGTGTCAGGGGTTCTG
GCTCTAGAGTGGGGCCAATATGGCCATATAGTAAAAATGTATTAAATCTTAGAAAATCTTCTTCT
CTACTCCCAAAATATTTGTTAAAAACTAAATGCATGA
Found at i:778804 original size:164 final size:164
Alignment explanation
Indices: 777506--778807 Score: 1559
Period size: 164 Copynumber: 7.9 Consensus size: 164
777496 TTGTGACCCG
* * * * *
777506 ACCCTACCCCTGGGGATCATGATTTTCACAATTTTGATTCTACACTTCATGAGGATGCTTCCACA
1 ACCCTACCCC-GGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACA
* * * * *
777571 CAAGTTTCAGCTTTCCTGGCTGATTAGTTTTTGAGAAGAAGATTTTAAAAGATTTACTCTTTATA
65 CAAGTGTCAGCTTTCCTGGATGATTAGTTTCTGAGAAG-ATA-TTT-AAAGATTTACTCTATATA
* * * *
777636 TTCCTATGTAAAAC-TT--CTACCCTCCATTGTGGCTCC
127 TTCCTATGTAAAACTTTAAC-ACCCCCCAATATGGCCCC
* * * * * *
777672 ATCCTACCCCCAGGGATCATGATTTTCAAAATTTTTAATCTACACTACCTGAGGATGCTTCCACA
1 ACCCTA-CCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACA
* * * * *
777737 CAAGTTTCAGCTTTCCTAGCTGATTAGTTTCTGAGACGATACTTAAAGATTTACTCTATATATTC
65 CAAGTGTCAGCTTTCCTGGATGATTAGTTTCTGAGAAGATATTTAAAGATTTACTCTATATATTC
*
777802 CTATGTAAAACTATAACAACCATCCCCCCAAATATGGCCCC
130 CTATGTAAAACT-T--TAA-CA-CCCCCC-AATATGGCCCC
* *
777843 ACCCTACCCCTGGGGGTAATGATTTTCACAACTTTGAATCCACACTACCTGAGGATGCTTCCACA
1 ACCCTACCCC-GGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACA
*
777908 CAAGTGTCAGCTTTCCTGGATGATTAGTTTCTGAGAAGTAGATTTTTAAAGATTTACTC-ATTAT
65 CAAGTGTCAGCTTTCCTGGATGATTAGTTTCTGAG-A--AGATATTTAAAGATTTACTCTA-TAT
* * * *
777972 ATTCCTATGTAAAAC-TT--CGACTCTCCATTGTGGCCCC
126 ATTCCTATGTAAAACTTTAAC-ACCCCCCAATATGGCCCC
* * *
778009 ACCCTACCCCGGGGGTCATTATTTTCACAACTTTGAATCTTCACTACCTGAGGATGCTTCCACTC
1 ACCCTACCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACAC
* * **
778074 AAGTGTCAGCTTTCCTGGATTATTAGTTTCTGAGAAGATATTTAAAGGTTTACTGAATATATTCC
66 AAGTGTCAGCTTTCCTGGATGATTAGTTTCTGAGAAGATATTTAAAGATTTACTCTATATATTCC
* *
778139 TATGTAAAAATTTAACACCCCCCAAAATGGCCCC
131 TATGTAAAACTTTAACACCCCCCAATATGGCCCC
*
778173 ACCCTACCCCGGGGGTCATGATTTTCACAACTTTGAATCTTCACTACCTGAGGATGCTTCCACAC
1 ACCCTACCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACAC
* **
778238 AAGTGTCAGCTTTCCTGGATGATTAGTTTCTGAGAAGATATTTAAAGGTTTACTGAATATATTCC
66 AAGTGTCAGCTTTCCTGGATGATTAGTTTCTGAGAAGATATTTAAAGATTTACTCTATATATTCC
*
778303 TATGTAAAAATTTAACACCCCCCAATATGGCCCC
131 TATGTAAAACTTTAACACCCCCCAATATGGCCCC
* * * *
778337 ACCCTACCCCGGGGGTCATTATTTTCACAACTTTGAATTTTCACTACCTGAGGATGCTTCCATAC
1 ACCCTACCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACAC
* * * *
778402 AAGTTTCAGCTTTCCTGGCTGATTAGTTTTTGAGAAGTAGATTTTTAAAGATTTACTC--TATAT
66 AAGTGTCAGCTTTCCTGGATGATTAGTTTCTGAG-A--AGATATTTAAAGATTTACTCTATATAT
* * * * * * *
778465 TCCTAGGCAAAA-TTTCA-ACCCTCCATTGTGGCTCC
128 TCCTATGTAAAACTTTAACACCCCCCAATATGGCCCC
* * ** ** * *
778500 ACCCTTCCCCCAGGAATTGTGATTTTCACAATTTTGAAT-AATCACTACCTGAGGATGCTTCCAC
1 ACCC-TACCCCGGGGGTCATGATTTTCACAACTTTGAATCTA-CACTACCTGAGGATGCTTCCAC
* * * * *
778564 ACAAGTTTCAGCTTTCCTGGATGATTAGTTTCTGAGAAGATATTTAGAGGTTTACTCAATTTATT
64 ACAAGTGTCAGCTTTCCTGGATGATTAGTTTCTGAGAAGATATTTAAAGATTTACTCTATATATT
778629 CCTATGTAAAACTTTAACACCCCCCAATATGGCCCC
129 CCTATGTAAAACTTTAACACCCCCCAATATGGCCCC
* * *
778665 ACCCTACCCCGGGGGTCATGATTTTCACAACTTTGAATCCACACTACCTGATGATG-TCTCCATA
1 ACCCTACCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCT-TCCACA
* * * *
778729 CAAGTGTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGATTTTTAATGATTTACTCTACATATTC
65 CAAGTGTCAGCTTTCCTGGATGATTAGTTTCTGAGAAGATATTTAAAGATTTACTCTATATATTC
778794 CTATGTAAAACTTT
130 CTATGTAAAACTTT
778808 GCCCCCCCCC
Statistics
Matches: 990, Mismatches: 115, Indels: 64
0.85 0.10 0.05
Matches are distributed among these distances:
161 17 0.02
162 34 0.03
163 68 0.07
164 474 0.48
165 122 0.12
166 107 0.11
167 26 0.03
168 1 0.00
169 1 0.00
170 10 0.01
171 92 0.09
172 2 0.00
173 1 0.00
174 35 0.04
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (164 bp):
ACCCTACCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACAC
AAGTGTCAGCTTTCCTGGATGATTAGTTTCTGAGAAGATATTTAAAGATTTACTCTATATATTCC
TATGTAAAACTTTAACACCCCCCAATATGGCCCC
Found at i:779152 original size:166 final size:165
Alignment explanation
Indices: 778845--779922 Score: 1238
Period size: 164 Copynumber: 6.5 Consensus size: 165
778835 CCATACCCCT
* * * * *
778845 ATATATTCCTATGTTAAA-TTGGACCCCCATTGTGACCCCACCCTACCCCTGGGGATCATGATTT
1 ATATATTCCTATGTAAAACTTCGACCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTT
* * * *
778909 TCACAATTTTGATTCTACACTTCCTGAGAATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATT
66 TCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATT
* * *
778974 AATTTTTGAGAAGAAGATTTTTAAAGATTTACTCT
131 AGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCA
* * * *
779009 TTATATTCCTATGTAAAACTTCGACCCTCCATTGTGGCTCCACCCTACCCCCAGGGATCATGATT
1 ATATATTCCTATGTAAAACTTCGACCC-CCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATT
* * * * *
779074 TTCAAAATTTTTAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTAGCTGGT
65 TTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGAT
* * *
779139 TAGTTTCTGAGAAG-ATA-CTTT-AAGATTTACTCT
130 TAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCA
* * * *
779172 ATATATTCCTATGTAAAACTATAACAACCATCCCCCCAAATATGGCCCCACCCTACCCCTGGGGG
1 ATATATTCCTATGTAAAACT-T-----CGA--CCCCC-ATTGTGGCCCCACCCTACCCCCGGGGG
* *
779237 TCATGATTTTCACAATTTTGAATCTTCACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCC
57 TCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCC
* * * * * *
779302 TGGATTATTAGTTTCT--G-AGAAGATATTTAAAGGTTTATTGA
122 TGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCA
* ***
779343 ATATATTCCTATGTAAAAATTTAAC-ACCCCCCAAAATGGCCCCACCCTA-CCCCGGGGGTCATG
1 ATATATTCCTATGT-AAAACTT--CGA-CCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATG
* *
779406 ATTTTCACAACTTTGAATCTTCACTACCTGAGGATGCTTCCACACAAGTGTCAGCTTTCCTGGCT
62 ATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCT
* * *
779471 GATTAGTTTCTGAGAAG--G-TATTTAAAGGTTTACTGA
127 GATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCA
* * * *
779507 ATATATTCCTATGTAAAAATTTAAC-ACCCCCCAATATGGCCCCACCCTA-CCCCGGGGGTCATT
1 ATATATTCCTATGT-AAAACTT--CGA-CCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATG
* * * *
779570 ATTTTCACAACTTTGAATTTTCACTACCTGAGGATGCTTCCATACAAGTTTCAGCTTTCCTGGAT
62 ATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCT
* *
779635 GATTAGTTT-TGAGAAGTAGATTTTTGAAGATTTACTCA
127 GATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCA
* * *
779673 TTATATTCCTATGTAATACTTCGACTCCCCATTGCGGCCCCACCCTACCCCCGGGGGTCATGATT
1 ATATATTCCTATGTAAAACTTCGAC-CCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATT
* *
779738 TTCACAACTGTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCAGAT
65 TTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGAT
*
779803 TAGTTT-TAGAGAAGAAGATTATTAAAGATTTACTC-
130 TAGTTTCT-GAGAAGAAGATTTTTAAAGATTTACTCA
* * * * **
779838 -TCTATTCCTAGGTAAAATTTCAACTCCCCATTGTGGCCCCACCCTACCCCCGGAAGTCATGATT
1 ATATATTCCTATGTAAAACTTCGAC-CCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATT
779902 TTCACAACTTTGAATCTACAC
65 TTCACAACTTTGAATCTACAC
779923 AAGTGTAGGC
Statistics
Matches: 807, Mismatches: 82, Indels: 50
0.86 0.09 0.05
Matches are distributed among these distances:
163 40 0.05
164 348 0.43
165 114 0.14
166 161 0.20
167 3 0.00
168 5 0.01
169 5 0.01
170 5 0.01
171 121 0.15
172 5 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (165 bp):
ATATATTCCTATGTAAAACTTCGACCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTT
TCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATT
AGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCA
Found at i:779797 original size:329 final size:327
Alignment explanation
Indices: 778880--779916 Score: 1297
Period size: 329 Copynumber: 3.1 Consensus size: 327
778870 CCCATTGTGA
* * * * *
778880 CCCCACCCTACCCCTGGGGATCATGATTTTCACAATTTTG-ATTCTACACTTCCTGAGAATGCTT
1 CCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATT-TTCACTACCTGAGGATGCTT
* * *
778944 CCACACAAGTTTCAGCTTTCCTGGCTGATTAATTTTTGAGAAGAAGATTTTTAAAGATTTACTCT
65 CCACACAAGTTTCAGCTTTCCTGGATGATT-AGTTTTGAGAAG-AGATTTTTAAAGATTTACTCA
* * *
779009 TTATATTCCTATGTAAAACTTCGACCCTCCATTGTGGCTCCACCCTACCCCCAGGGATCATGATT
128 TTATATTCCTATGTAAAACTTCGACCC-CCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATT
* * * * *
779074 TTCAAAATTTTTAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTAGCTGGT
192 TTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGAT
* **
779139 TAGTTTCTGAGAAGATACTTT-AAGATTTACTCTATATATTCCTATGTAAAACTATAACAACCAT
257 TAGTTTCTGAGAAGGTACTTTAAAGATTTA--CTATATATTCCTATGTAAAA--AT-TTAA-CA-
779203 CCCCCCAAATATGG
315 CCCCCC-AATATGG
* *
779217 CCCCACCCTACCCCTGGGGGTCATGATTTTCACAATTTTGAATCTTCACTACCTGAGGATGCTTC
1 CCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATTTTCACTACCTGAGGATGCTTC
* * * * * *
779282 CACACAAGTTTCAGCTTTCCTGGATTATTAGTTTCTGAG-A-AGATATTTAAAGGTTTATTGAAT
66 CACACAAGTTTCAGCTTTCCTGGATGATTAGTTT-TGAGAAGAGATTTTTAAAGATTTACTCATT
* ***
779345 ATATTCCTATGTAAAAATTTAAC-ACCCCCCAAAATGGCCCCACCCTA-CCCCGGGGGTCATGAT
130 ATATTCCTATGT-AAAACTT--CGA-CCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGAT
* *
779408 TTTCACAACTTTGAATCTTCACTACCTGAGGATGCTTCCACACAAGTGTCAGCTTTCCTGGCTGA
191 TTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGA
*
779473 TTAGTTTCTGAGAAGGTA-TTTAAAGGTTTACTGAATATATTCCTATGTAAAAATTTAACACCCC
256 TTAGTTTCTGAGAAGGTACTTTAAAGATTTACT--ATATATTCCTATGTAAAAATTTAACACCCC
779537 CCAATATGG
319 CCAATATGG
*
779546 CCCCACCCTACCCC-GGGGGTCATTATTTTCACAACTTTGAATTTTCACTACCTGAGGATGCTTC
1 CCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATTTTCACTACCTGAGGATGCTTC
* *
779610 CATACAAGTTTCAGCTTTCCTGGATGATTAGTTTTGAGAAGTAGATTTTTGAAGATTTACTCATT
66 CACACAAGTTTCAGCTTTCCTGGATGATTAGTTTTGAGAAG-AGATTTTTAAAGATTTACTCATT
* *
779675 ATATTCCTATGTAATACTTCGACTCCCCATTGCGGCCCCACCCTACCCCCGGGGGTCATGATTTT
130 ATATTCCTATGTAAAACTTCGAC-CCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTT
* *
779740 CACAACTGTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCAGATTA
194 CACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTA
* * * * * *
779805 GTTT-TAGAGAAGAAG-ATTATTAAAGATTTACTCTCTATTCCTAGGT-AAAATTTCA-ACTCCC
259 GTTTCT-GAGAAG--GTACT-TTAAAGATTTACTATATATTCCTATGTAAAAATTTAACACCCCC
* *
779866 CATTGTGG
320 CAATATGG
* **
779874 CCCCACCCTACCCCCGGAAGTCATGATTTTCACAACTTTGAAT
1 CCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAAT
779917 CTACACAAGT
Statistics
Matches: 615, Mismatches: 64, Indels: 50
0.84 0.09 0.07
Matches are distributed among these distances:
327 6 0.01
328 124 0.20
329 149 0.24
330 47 0.08
331 4 0.01
332 14 0.02
333 4 0.01
334 32 0.05
335 120 0.20
336 21 0.03
337 92 0.15
338 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (327 bp):
CCCCACCCTACCCCTGGGGGTCATGATTTTCACAACTTTGAATTTTCACTACCTGAGGATGCTTC
CACACAAGTTTCAGCTTTCCTGGATGATTAGTTTTGAGAAGAGATTTTTAAAGATTTACTCATTA
TATTCCTATGTAAAACTTCGACCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCA
CAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGT
TTCTGAGAAGGTACTTTAAAGATTTACTATATATTCCTATGTAAAAATTTAACACCCCCCAATAT
GG
Found at i:780567 original size:167 final size:164
Alignment explanation
Indices: 780228--780645 Score: 665
Period size: 167 Copynumber: 2.5 Consensus size: 164
780218 CCAAAATTGT
* * * * *
780228 AAAATTCATGACATCTGGGTCAGGGGTTCAGGGTTTAGGGTGGGGCCAATTTGGCCATATAGTAA
1 AAAATTCATGACCTCTGGGTCAGGGGTTCAGGCTCTAGAGTGGGGCCAATATGGCCATATAGTAA
780293 AAATGTATTAAATCTTAGAAAATCTTCTCCACTACCATATATATTTGTGAAAAACTAAATGCATG
66 AAATGTATTAAATCTTAGAAAATCTTCTCCACTACCATATATATTTGTGAAAAACTAAATGCATG
*
780358 ATTACGATGTCCATGAAGCCCTCTATTAAAATGG
131 ATTAAGATGTCCATGAAGCCCTCTATTAAAATGG
*
780392 AAAATTCATGACCTCTGGGTCAGTGGTTCAGGCTCTAGAGTGGGGCCAATATGGCCATATAGTAA
1 AAAATTCATGACCTCTGGGTCAGGGGTTCAGGCTCTAGAGTGGGGCCAATATGGCCATATAGTAA
*
780457 AAATGTATTAAATCTTAGAAAATCTTCTTCTCTACTACCATATATATTTGTTAAAAACTAAATGC
66 AAATGTATTAAATCTTAGAAAATCTTC-TC-C-ACTACCATATATATTTGTGAAAAACTAAATGC
*
780522 ATGATTAAGATGTCTATGAAGCCCTCTATTAAAATGG
128 ATGATTAAGATGTCCATGAAGCCCTCTATTAAAATGG
* * *
780559 GAAATTCATGACCTCTGGGTCAGGGGTTTAGGCTCTAGAGTGGGGCCAATATGGCCTTATAGTAA
1 AAAATTCATGACCTCTGGGTCAGGGGTTCAGGCTCTAGAGTGGGGCCAATATGGCCATATAGTAA
* * * *
780624 AAGTGTTTTTAATCTTATAAAA
66 AAATGTATTAAATCTTAGAAAA
780646 ACTTGAAAAA
Statistics
Matches: 234, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
164 86 0.37
165 2 0.01
166 1 0.00
167 145 0.62
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (164 bp):
AAAATTCATGACCTCTGGGTCAGGGGTTCAGGCTCTAGAGTGGGGCCAATATGGCCATATAGTAA
AAATGTATTAAATCTTAGAAAATCTTCTCCACTACCATATATATTTGTGAAAAACTAAATGCATG
ATTAAGATGTCCATGAAGCCCTCTATTAAAATGG
Found at i:782283 original size:45 final size:45
Alignment explanation
Indices: 782219--782310 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
782209 TGTTGCCATG
782219 TTCAGCGGAGCAGCTCTTTTAGCAGGTGTCGCGACAGTGGGTGCA
1 TTCAGCGGAGCAGCTCTTTTAGCAGGTGTCGCGACAGTGGGTGCA
782264 TTCAGCGGAGCAGCTCTTTTAGCAGGTGTCGCGACAGTGGGTGCA
1 TTCAGCGGAGCAGCTCTTTTAGCAGGTGTCGCGACAGTGGGTGCA
782309 TT
1 TT
782311 TATTGTGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.17, C:0.22, G:0.35, T:0.26
Consensus pattern (45 bp):
TTCAGCGGAGCAGCTCTTTTAGCAGGTGTCGCGACAGTGGGTGCA
Found at i:783635 original size:33 final size:33
Alignment explanation
Indices: 783593--783888 Score: 560
Period size: 33 Copynumber: 9.0 Consensus size: 33
783583 CCCTCTAAGG
783593 GGACACAGGTAGACTTTACCTGTATATACTTTA
1 GGACACAGGTAGACTTTACCTGTATATACTTTA
783626 GGACACAGGTAGACTTTACCTGTATATACTTT-
1 GGACACAGGTAGACTTTACCTGTATATACTTTA
783658 GTGACACAGGTAGACTTTACCTGTATATACTTTA
1 G-GACACAGGTAGACTTTACCTGTATATACTTTA
783692 GGACACAGGTAGACTTTACCTGTATATACTTTA
1 GGACACAGGTAGACTTTACCTGTATATACTTTA
783725 GGACACAGGTAGACTTTACCTGTATATACTTTA
1 GGACACAGGTAGACTTTACCTGTATATACTTTA
783758 GGACACAGGTAGACTTTACCTGTATATACTTTA
1 GGACACAGGTAGACTTTACCTGTATATACTTTA
783791 GGACACAGGTAGACTTTACCTGTATATACTTT-
1 GGACACAGGTAGACTTTACCTGTATATACTTTA
783823 GTGACACAGGTAGACTTTACCTGTATATACTTTA
1 G-GACACAGGTAGACTTTACCTGTATATACTTTA
783857 GGACACAGGTAGACTTTACCTGTATATACTTT
1 GGACACAGGTAGACTTTACCTGTATATACTTT
783889 NNNNNNNNNN
Statistics
Matches: 259, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
32 2 0.01
33 255 0.98
34 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (33 bp):
GGACACAGGTAGACTTTACCTGTATATACTTTA
Found at i:786209 original size:2 final size:2
Alignment explanation
Indices: 786202--786241 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
786192 ATTTGTTTTA
786202 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
786242 TATATATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:789192 original size:17 final size:17
Alignment explanation
Indices: 789170--789205 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
789160 ACATCGTATT
* *
789170 ATTAGGTATATGAGACA
1 ATTAGGAATATCAGACA
789187 ATTAGGAATATCAGACA
1 ATTAGGAATATCAGACA
789204 AT
1 AT
789206 ACAAAACCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.28
Consensus pattern (17 bp):
ATTAGGAATATCAGACA
Found at i:799560 original size:14 final size:14
Alignment explanation
Indices: 799541--799570 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
799531 TATTCACATC
799541 TACATTTCTGTCCT
1 TACATTTCTGTCCT
799555 TACATTTCTGTCCT
1 TACATTTCTGTCCT
799569 TA
1 TA
799571 ACAAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.27, G:0.07, T:0.50
Consensus pattern (14 bp):
TACATTTCTGTCCT
Found at i:823647 original size:1 final size:1
Alignment explanation
Indices: 823641--823704 Score: 119
Period size: 1 Copynumber: 64.0 Consensus size: 1
823631 TTGTTTGGGG
*
823641 TTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
823705 GGGGGGGGGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.00, C:0.02, G:0.00, T:0.98
Consensus pattern (1 bp):
T
Found at i:826207 original size:21 final size:21
Alignment explanation
Indices: 826180--826386 Score: 224
Period size: 21 Copynumber: 9.9 Consensus size: 21
826170 AAAATATTTT
826180 TTTCGCGAATAAACGCGAAAC
1 TTTCGCGAATAAACGCGAAAC
* *
826201 GTTCGCG-ATATAACGCGTAAC
1 TTTCGCGAATA-AACGCGAAAC
826222 TTTCGCGAATAAACGCGAAAC
1 TTTCGCGAATAAACGCGAAAC
** *
826243 TTTCGCG-ATATAACGCGTTAG
1 TTTCGCGAATA-AACGCGAAAC
** **
826264 TTTCGCGTTTATTCGCGAAAC
1 TTTCGCGAATAAACGCGAAAC
** *
826285 TAACGCGAATAAACGCGTAAC
1 TTTCGCGAATAAACGCGAAAC
826306 TTTCGCGAATAAACGCGAAAC
1 TTTCGCGAATAAACGCGAAAC
* *
826327 TTTTGCG-ATATAACGCGTAAC
1 TTTCGCGAATA-AACGCGAAAC
826348 TTTCGCGAATAAACGCGAAAC
1 TTTCGCGAATAAACGCGAAAC
826369 TTTCGCG-ATATAACGCGA
1 TTTCGCGAATA-AACGCGA
826387 TTAAACGCGA
Statistics
Matches: 152, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
20 12 0.08
21 132 0.87
22 8 0.05
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
TTTCGCGAATAAACGCGAAAC
Found at i:826239 original size:42 final size:42
Alignment explanation
Indices: 826180--826385 Score: 306
Period size: 42 Copynumber: 4.9 Consensus size: 42
826170 AAAATATTTT
*
826180 TTTCGCGAATAAACGCGAAACGTTCGCGATATAACGCGTAAC
1 TTTCGCGAATAAACGCGAAACTTTCGCGATATAACGCGTAAC
* *
826222 TTTCGCGAATAAACGCGAAACTTTCGCGATATAACGCGTTAG
1 TTTCGCGAATAAACGCGAAACTTTCGCGATATAACGCGTAAC
** ** **
826264 TTTCGCGTTTATTCGCGAAACTAACGCGA-ATAAACGCGTAAC
1 TTTCGCGAATAAACGCGAAACTTTCGCGATAT-AACGCGTAAC
*
826306 TTTCGCGAATAAACGCGAAACTTTTGCGATATAACGCGTAAC
1 TTTCGCGAATAAACGCGAAACTTTCGCGATATAACGCGTAAC
826348 TTTCGCGAATAAACGCGAAACTTTCGCGATATAACGCG
1 TTTCGCGAATAAACGCGAAACTTTCGCGATATAACGCG
826386 ATTAAACGCG
Statistics
Matches: 143, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
41 2 0.01
42 139 0.97
43 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (42 bp):
TTTCGCGAATAAACGCGAAACTTTCGCGATATAACGCGTAAC
Found at i:826499 original size:24 final size:23
Alignment explanation
Indices: 826454--826499 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
826444 ATAATTACTG
*
826454 AAAACAAATATATTAATTTAAAT
1 AAAACAAATATATTAATATAAAT
826477 AAAACAAAATGATATT-ATATAAA
1 AAAAC-AAAT-ATATTAATATAAA
826500 GATGTAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAACAAATATATTAATATAAAT
Found at i:827524 original size:21 final size:21
Alignment explanation
Indices: 827255--827523 Score: 341
Period size: 21 Copynumber: 12.8 Consensus size: 21
827245 ATAATAATTC
* *
827255 CGCGTTAATTCGCGAAACTTA
1 CGCGTTTATTCGCGAAAGTTA
*
827276 CGCGTTTATTCGCGAAAGTTT
1 CGCGTTTATTCGCGAAAGTTA
*
827297 CGCGTTTATTCGCGAAAGTTT
1 CGCGTTTATTCGCGAAAGTTA
*
827318 CGCGTTTATTTGCGAAAGTTA
1 CGCGTTTATTCGCGAAAGTTA
*
827339 CGCG-TTATATCGCGACAGTTA
1 CGCGTTTAT-TCGCGAAAGTTA
*
827360 CGCGTTTATTCGCGAAAGTTT
1 CGCGTTTATTCGCGAAAGTTA
*
827381 CGCGTTTATTCGCGAAAGTTT
1 CGCGTTTATTCGCGAAAGTTA
*
827402 CGCG-TTATATCGCGAATGTTA
1 CGCGTTTAT-TCGCGAAAGTTA
*
827423 CGCG-TTATATCGCGAATGTTA
1 CGCGTTTAT-TCGCGAAAGTTA
*
827444 CGCG-TTATATCGCGAAAGTTT
1 CGCGTTTAT-TCGCGAAAGTTA
*
827465 CGCGTTAATTCGCGAAAGTTA
1 CGCGTTTATTCGCGAAAGTTA
*
827486 CGCG-TTATATCGCGAAAATTA
1 CGCGTTTAT-TCGCGAAAGTTA
827507 CGCGTTTATTCGCGAAA
1 CGCGTTTATTCGCGAAA
827524 AAAAGATTTT
Statistics
Matches: 225, Mismatches: 17, Indels: 12
0.89 0.07 0.05
Matches are distributed among these distances:
20 11 0.05
21 203 0.90
22 11 0.05
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (21 bp):
CGCGTTTATTCGCGAAAGTTA
Found at i:837620 original size:13 final size:13
Alignment explanation
Indices: 837602--837628 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
837592 TTTTCTCTTT
837602 TTAATGTTTACAA
1 TTAATGTTTACAA
837615 TTAATGTTTACAA
1 TTAATGTTTACAA
837628 T
1 T
837629 GCTTTAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TTAATGTTTACAA
Found at i:839930 original size:2 final size:2
Alignment explanation
Indices: 839923--839958 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
839913 GCTGCAATTG
839923 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
839959 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:841171 original size:2 final size:2
Alignment explanation
Indices: 841164--841205 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
841154 TTCAGTGTTT
841164 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
841206 TATAACGCTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:843351 original size:1 final size:1
Alignment explanation
Indices: 843347--843378 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
843337 AAAAATCTGT
843347 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
843379 CATTTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:848605 original size:2 final size:2
Alignment explanation
Indices: 848598--848636 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
848588 AAAGAATGTA
848598 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
848637 GTGTTGAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:865884 original size:24 final size:24
Alignment explanation
Indices: 865857--865906 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
865847 ATTGTTTAAC
865857 TTGTGGTCCAAACAAGCACCGTCG
1 TTGTGGTCCAAACAAGCACCGTCG
865881 TTGTGGTCCAAACAAGCACCGTCG
1 TTGTGGTCCAAACAAGCACCGTCG
865905 TT
1 TT
865907 TATACTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (24 bp):
TTGTGGTCCAAACAAGCACCGTCG
Found at i:866889 original size:40 final size:40
Alignment explanation
Indices: 866829--866940 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
866819 AGCCTGCGAC
**
866829 AATGGTGTTTAAATGTGAGACGTTTAGAGTACAAACTAAT
1 AATGGTGTTTAAATACGAGACGTTTAGAGTACAAACTAAT
* * *
866869 AATGGTGTTTAAACACGAGACATTTAAAGTACAAACTAAT
1 AATGGTGTTTAAATACGAGACGTTTAGAGTACAAACTAAT
* * * *
866909 GATTGTGTTCAAATACAAGACGTTTAGAGTAC
1 AATGGTGTTTAAATACGAGACGTTTAGAGTAC
866941 TTTCATAAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (40 bp):
AATGGTGTTTAAATACGAGACGTTTAGAGTACAAACTAAT
Found at i:870137 original size:8 final size:8
Alignment explanation
Indices: 870126--870159 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
870116 TAAAAAGTTT
870126 ACAGACGG
1 ACAGACGG
870134 ACAGACGG
1 ACAGACGG
870142 ACAGACGG
1 ACAGACGG
870150 AC-GACGG
1 ACAGACGG
870157 ACA
1 ACA
870160 AAATGTGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.38, C:0.26, G:0.35, T:0.00
Consensus pattern (8 bp):
ACAGACGG
Found at i:871789 original size:2 final size:2
Alignment explanation
Indices: 871782--871809 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
871772 NNNNNNNNNN
871782 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
871810 ATAGATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:880045 original size:23 final size:22
Alignment explanation
Indices: 880015--880083 Score: 106
Period size: 21 Copynumber: 3.2 Consensus size: 22
880005 TCTCTCTCTG
880015 TCTC-TCTCTCTCTCCCCACTC
1 TCTCTTCTCTCTCTCCCCACTC
880036 TCTCTT-TCTCTCTCCCCACTC
1 TCTCTTCTCTCTCTCCCCACTC
*
880057 TTTCTTTCTCTCTCTCCCCACTC
1 TCTC-TTCTCTCTCTCCCCACTC
880080 TCTC
1 TCTC
880084 CCAACTCTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 22 0.51
22 3 0.07
23 18 0.42
ACGTcount: A:0.04, C:0.52, G:0.00, T:0.43
Consensus pattern (22 bp):
TCTCTTCTCTCTCTCCCCACTC
Found at i:880084 original size:34 final size:34
Alignment explanation
Indices: 880043--880117 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
880033 CTCTCTCTTT
* *
880043 CTCTCTCCCCACTCTTTCTTTCTCTCTCTCCCCA
1 CTCTCTCCCAACTCTCTCTTTCTCTCTCTCCCCA
* **
880077 CTCTCTCCCAACTCTCTCTTTCTTTCTCTTTCCA
1 CTCTCTCCCAACTCTCTCTTTCTCTCTCTCCCCA
880111 CTCTCTC
1 CTCTCTC
880118 TCTTTCTCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.07, C:0.49, G:0.00, T:0.44
Consensus pattern (34 bp):
CTCTCTCCCAACTCTCTCTTTCTCTCTCTCCCCA
Found at i:880105 original size:25 final size:22
Alignment explanation
Indices: 880077--880128 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
880067 TCTCTCCCCA
880077 CTCTCTCCCAACTCTCTCTTTCTTT
1 CTCTCTCCC-ACTCTCTC--TCTTT
*
880102 CTCT-TTCCACTCTCTCTCTTT
1 CTCTCTCCCACTCTCTCTCTTT
880123 CTCTCT
1 CTCTCT
880129 GTTTCCACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 9 0.36
22 1 0.04
23 8 0.32
24 3 0.12
25 4 0.16
ACGTcount: A:0.06, C:0.44, G:0.00, T:0.50
Consensus pattern (22 bp):
CTCTCTCCCACTCTCTCTCTTT
Found at i:880113 original size:23 final size:23
Alignment explanation
Indices: 880087--880143 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 23
880077 CTCTCTCCCA
*
880087 ACTCTCTCTTTCTTTCTCTTTCC
1 ACTCTCTCTTTCTCTCTCTTTCC
*
880110 ACTCTCTCTCTTTCTCTCTGTTTCC
1 A--CTCTCTCTTTCTCTCTCTTTCC
880135 ACTCTCTCT
1 ACTCTCTCT
880144 GTTTCCACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 9 0.30
25 21 0.70
ACGTcount: A:0.05, C:0.40, G:0.02, T:0.53
Consensus pattern (23 bp):
ACTCTCTCTTTCTCTCTCTTTCC
Found at i:880121 original size:15 final size:15
Alignment explanation
Indices: 880101--880222 Score: 146
Period size: 15 Copynumber: 8.3 Consensus size: 15
880091 TCTCTTTCTT
880101 TCTCTTTCCACTCTC
1 TCTCTTTCCACTCTC
880116 TCTC-TT----TCTC
1 TCTCTTTCCACTCTC
*
880126 TCTGTTTCCACTCTC
1 TCTCTTTCCACTCTC
*
880141 TCTGTTTCCACTCTC
1 TCTCTTTCCACTCTC
*
880156 TCTCTTTCCACACTC
1 TCTCTTTCCACTCTC
*
880171 TCTCTTTCCACACTC
1 TCTCTTTCCACTCTC
880186 TCTCTTTCCACTCTC
1 TCTCTTTCCACTCTC
*
880201 TCTCTCTTACCCCTCTC
1 TCTCT-TT-CCACTCTC
880218 TCTCT
1 TCTCT
880223 CTCTTACCCC
Statistics
Matches: 95, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
10 7 0.07
11 2 0.02
14 2 0.02
15 70 0.74
16 2 0.02
17 12 0.13
ACGTcount: A:0.07, C:0.45, G:0.02, T:0.46
Consensus pattern (15 bp):
TCTCTTTCCACTCTC
Found at i:880133 original size:25 final size:25
Alignment explanation
Indices: 880088--880205 Score: 110
Period size: 30 Copynumber: 4.3 Consensus size: 25
880078 TCTCTCCCAA
*
880088 CTCTCTCTTTCTTTCTCTTTCCACT
1 CTCTCTCTTTCTCTCTCTTTCCACT
*
880113 CTCTCTCTTTCTCTCTGTTTCCACT
1 CTCTCTCTTTCTCTCTCTTTCCACT
* *
880138 CTCTCTGTTTCCACTCTCTCTCTTTCCACA
1 CTCTCT-CTT----TCTCTCTCTTTCCACT
880168 CTCTCTCTTTCCACACTCTCTCTTTCCACT
1 CTCTCTCTTT-----CTCTCTCTTTCCACT
880198 CTCTCTCT
1 CTCTCTCT
880206 CTTACCCCTC
Statistics
Matches: 76, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
25 30 0.39
26 2 0.03
29 2 0.03
30 42 0.55
ACGTcount: A:0.07, C:0.43, G:0.02, T:0.48
Consensus pattern (25 bp):
CTCTCTCTTTCTCTCTCTTTCCACT
Found at i:880156 original size:17 final size:16
Alignment explanation
Indices: 880122--880281 Score: 112
Period size: 15 Copynumber: 9.4 Consensus size: 16
880112 TCTCTCTCTT
880122 TCTCTCTGTTTCCACTC
1 TCTCTCT-TTTCCACTC
*
880139 TCTCT-GTTTCCACTC
1 TCTCTCTTTTCCACTC
*
880154 TCTCTC-TTTCCACAC
1 TCTCTCTTTTCCACTC
*
880169 TCTCTC-TTTCCACAC
1 TCTCTCTTTTCCACTC
880184 TCTCTC-TTTCCACTC
1 TCTCTCTTTTCCACTC
* *
880199 TCTCTCTCTTACCCCTC
1 TCTCTCT-TTTCCACTC
880216 TCTCTCTCTCTTACCCCACTC
1 TCTCTCT-T-TT---CCACTC
880237 TCTCTGTCTCTCTCTCCACTC
1 TCTC--TCT-T-T-TCCACTC
**
880258 TCTCTCTTACCCCACTC
1 TCTCTCTT-TTCCACTC
880275 TCTCTCT
1 TCTCTCT
880282 CCCCACTCAC
Statistics
Matches: 123, Mismatches: 10, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
15 57 0.46
17 34 0.28
18 2 0.02
19 3 0.02
21 19 0.15
23 7 0.06
24 1 0.01
ACGTcount: A:0.08, C:0.47, G:0.02, T:0.42
Consensus pattern (16 bp):
TCTCTCTTTTCCACTC
Found at i:880207 original size:21 final size:21
Alignment explanation
Indices: 880196--880264 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 21
880186 TCTCTTTCCA
880196 CTCTCTCTCTCTTACC-C-CT
1 CTCTCTCTCTCTTACCACTCT
880215 CTCTCTCTCTCTTACCCCACTCT
1 CTCTCTCTCTCTTA--CCACTCT
*
880238 CTCTGTCTCTCTCT-CCACTCT
1 CTCTCTCTCTCT-TACCACTCT
880259 CTCTCT
1 CTCTCT
880265 TACCCCACTC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
19 14 0.33
21 14 0.33
22 1 0.02
23 13 0.30
24 1 0.02
ACGTcount: A:0.06, C:0.51, G:0.01, T:0.42
Consensus pattern (21 bp):
CTCTCTCTCTCTTACCACTCT
Found at i:880235 original size:38 final size:38
Alignment explanation
Indices: 880193--880282 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 38
880183 CTCTCTCTTT
*
880193 CCACTCTCTCTCTCT-TACCC-CTCTCTCTCTCTCTTACC
1 CCACTCTCTCTCTCTCT-CCCTC-CACTCTCTCTCTTACC
* *
880231 CCACTCTCTCTGTCTCTCTCTCCACTCTCTCTCTTACC
1 CCACTCTCTCTCTCTCTCCCTCCACTCTCTCTCTTACC
880269 CCACTCTCTCTCTC
1 CCACTCTCTCTCTC
880283 CCCACTCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 44 0.96
39 2 0.04
ACGTcount: A:0.08, C:0.52, G:0.01, T:0.39
Consensus pattern (38 bp):
CCACTCTCTCTCTCTCTCCCTCCACTCTCTCTCTTACC
Found at i:880279 original size:21 final size:21
Alignment explanation
Indices: 880193--880600 Score: 196
Period size: 21 Copynumber: 19.8 Consensus size: 21
880183 CTCTCTCTTT
880193 CCACTCTCTCTCTCT-T-A-C
1 CCACTCTCTCTCTCTCTCACC
*
880211 CC-CTCTCTCTCTCTCTTACC
1 CCACTCTCTCTCTCTCTCACC
* * *
880231 CCACTCTCTCTGTCTCTCTCT
1 CCACTCTCTCTCTCTCTCACC
880252 CCA--CTCTCTCTCT-T-ACC
1 CCACTCTCTCTCTCTCTCACC
*
880269 CCACTCTCTCTCTC-CCCACTC
1 CCACTCTCTCTCTCTCTCAC-C
* * *
880290 ACTTTCAACCCACTTTCTCACTCTCACC
1 -C---C-A--CTCTCTCTCTCTCTCACC
** *
880318 CCACAT-GATCTCACTCTCACC
1 CCAC-TCTCTCTCTCTCTCACC
880339 CCACTCTCTCTCTCACTCTCACC
1 CCACTCTCTCTCT--CTCTCACC
* * *
880362 CTACTCTCTC-AT-TCTCATC
1 CCACTCTCTCTCTCTCTCACC
* * *
880381 CCACTTTCTCTCAC-CCCA-C
1 CCACTCTCTCTCTCTCTCACC
* * *
880400 TCACTCTCTCACT-T-TCATC
1 CCACTCTCTCTCTCTCTCACC
* *
880419 CCATTCTCTCTCACTCTCA-C
1 CCACTCTCTCTCTCTCTCACC
880439 CCACTCTCTCTCTCTCTCACACC
1 CCACTCTCTCTCTCTCT--CACC
* *
880462 CCACTCTTCCTCTCACTTTCACC
1 CCACTC-T-CTCTCTCTCTCACC
*
880485 CCACTCTCTCTCACTCTCACC
1 CCACTCTCTCTCTCTCTCACC
*
880506 CCA----CTCTCACTCTCACC
1 CCACTCTCTCTCTCTCTCACC
* * *
880523 CTAATCTCTCT-TACTATCACC
1 CCACTCTCTCTCT-CTCTCACC
* * *
880544 CCACTCTCTCTCACACACACC
1 CCACTCTCTCTCTCTCTCACC
**
880565 CCACTCTCTCTCTCTAACACC
1 CCACTCTCTCTCTCTCTCACC
*
880586 TC-CTCTCTCTCTCTC
1 CCACTCTCTCTCTCTC
880601 ACCTACTCTC
Statistics
Matches: 298, Mismatches: 54, Indels: 74
0.70 0.13 0.17
Matches are distributed among these distances:
17 32 0.11
18 6 0.02
19 53 0.18
20 38 0.13
21 103 0.35
22 5 0.02
23 35 0.12
24 2 0.01
25 9 0.03
26 1 0.00
27 1 0.00
28 9 0.03
29 4 0.01
ACGTcount: A:0.15, C:0.52, G:0.00, T:0.33
Consensus pattern (21 bp):
CCACTCTCTCTCTCTCTCACC
Found at i:880282 original size:2 final size:2
Alignment explanation
Indices: 879998--880264 Score: 85
Period size: 2 Copynumber: 139.0 Consensus size: 2
879988 CTCTGTCCCA
* * *
879998 CT CT CT CT CT CT CT CT GT CT CT CT CT CT CT C- CC CA CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * *
880039 CT TT CT CT CT C- CC CA CT CT TT CT TT CT CT CT CT C- CC CA CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * *
880079 CT CT CC CAA CT CT CT CT TT CT TT CT CT TT C- CA CT CT CT CT CT
1 CT CT CT C-T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * *
880121 TT CT CT CT GT TT C- CA CT CT CT CT GT TT C- CA CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * * *
880161 TT C- CA CA CT CT CT CT TT C- CA CA CT CT CT CT TT C- CA CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * *
880200 CT CT CT CT -T AC- CC CT CT CT CT CT CT CT -T AC- CC CA CT CT CT
1 CT CT CT CT CT -CT CT CT CT CT CT CT CT CT CT -CT CT CT CT CT CT
* *
880240 CT GT CT CT CT CT C- CA CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
880265 TACCCCACTC
Statistics
Matches: 199, Mismatches: 49, Indels: 34
0.71 0.17 0.12
Matches are distributed among these distances:
1 14 0.07
2 184 0.92
3 1 0.01
ACGTcount: A:0.06, C:0.48, G:0.01, T:0.45
Consensus pattern (2 bp):
CT
Found at i:880335 original size:6 final size:6
Alignment explanation
Indices: 880326--880521 Score: 82
Period size: 6 Copynumber: 35.0 Consensus size: 6
880316 CCCCACATGA
* * * * *
880326 TCTCAC TCTCAC -CCCAC TCTCTC TCTCAC TCTCAC CCTACTC TCTCAT
1 TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCT-CAC TCTCAC
* * * * * *
880374 TCTCA- TCCCAC T-T-TC TCTCAC -CCCAC TCACTC TCTCAC TTTCA-
1 TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC
* * * * *
880417 TCCCA- T-TCTC TCTCAC TCTCAC -C-CAC TCTCTC TCTCTC TCACAC
1 TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC
* * *
880461 -CCCAC TCTTC-C TCTCAC TTTCAC -CCCAC TCT--C TCTCAC TCTCAC
1 TCTCAC TC-TCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC
*
880505 -CCCAC TCTCAC TCTCAC
1 TCTCAC TCTCAC TCTCAC
880522 CCTAATCTCT
Statistics
Matches: 138, Mismatches: 35, Indels: 34
0.67 0.17 0.16
Matches are distributed among these distances:
4 10 0.07
5 33 0.24
6 90 0.65
7 5 0.04
ACGTcount: A:0.15, C:0.53, G:0.00, T:0.33
Consensus pattern (6 bp):
TCTCAC
Found at i:880349 original size:15 final size:15
Alignment explanation
Indices: 880243--880350 Score: 54
Period size: 15 Copynumber: 6.5 Consensus size: 15
880233 ACTCTCTCTG
* * *
880243 TCTCTCTCTCCACTC
1 TCTCTCTCACCCCAC
*
880258 TCTCTCTTACCCCAC
1 TCTCTCTCACCCCAC
*
880273 TCTCTCTCTCCCCAC
1 TCTCTCTCACCCCAC
* * *
880288 TCACTTTCAACCCAC
1 TCTCTCTCACCCCAC
880303 TTTCTCACTCTCACCCCAC
1 --TCT--CTCTCACCCCAC
880322 ATGATCTCACTCTCACCCCAC
1 ----TCT--CTCTCACCCCAC
880343 TCTCTCTC
1 TCTCTCTC
880351 TCACTCTCAC
Statistics
Matches: 72, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
15 40 0.56
17 5 0.07
19 10 0.14
21 17 0.24
ACGTcount: A:0.15, C:0.52, G:0.01, T:0.32
Consensus pattern (15 bp):
TCTCTCTCACCCCAC
Found at i:880355 original size:44 final size:42
Alignment explanation
Indices: 880305--880637 Score: 225
Period size: 38 Copynumber: 8.0 Consensus size: 42
880295 CAACCCACTT
*
880305 TCTCACTCTCACCCCACATGATCTCACTCTCACCCCACTCTCTC
1 TCTCACTCTCACCCCAC-T-CTCTCACTCTCACCCCACTCTCTC
* * *
880349 TCTCACTCTCACCCTACTCTCTCATTCTCATCCCACT-T-TC
1 TCTCACTCTCACCCCACTCTCTCACTCTCACCCCACTCTCTC
* * * *
880389 TCTCAC-CCCA-CTCACTCTCTCACTTTCATCCCA-T-TCTC
1 TCTCACTCTCACCCCACTCTCTCACTCTCACCCCACTCTCTC
* *
880427 TCTCACTCTCACCCACTCTCTCTCTCTCTCACACCCCACTCT-TCC
1 TCTCACTCTCACCC-CACTCTCTCACTCT--CACCCCACTCTCT-C
* *
880472 TCTCACTTTCACCCCACTCTCTCTCACTCTCACCCCACTCTCAC
1 TCTCACTCTCACCCCA--CTCTCTCACTCTCACCCCACTCTCTC
* * *
880516 TCTCACCCT-A----ATCTCTCTTACTATCACCCCA--CTCTC
1 TCTCACTCTCACCCCA-CTCTCTCACTCTCACCCCACTCTCTC
* * * *
880552 TCTCACACACACCCCACTCTCTCTCTCTAACACCTCCTCTCTCTC
1 TCTCACTCTCACCCCACTCTCTCACTCT--CACC-CCACTCTCTC
* * *
880597 TCTCAC-CT-ACTCTCAC-CCCACACTCTCACCCC-CTCTCTC
1 TCTCACTCTCAC-CCCACTCTCTCACTCTCACCCCACTCTCTC
880636 TC
1 TC
880638 ATCCCACTCT
Statistics
Matches: 231, Mismatches: 35, Indels: 51
0.73 0.11 0.16
Matches are distributed among these distances:
36 11 0.05
37 3 0.01
38 45 0.19
39 16 0.07
40 20 0.09
41 17 0.07
42 20 0.09
43 19 0.08
44 43 0.19
45 26 0.11
46 11 0.05
ACGTcount: A:0.16, C:0.53, G:0.00, T:0.31
Consensus pattern (42 bp):
TCTCACTCTCACCCCACTCTCTCACTCTCACCCCACTCTCTC
Found at i:880395 original size:57 final size:58
Alignment explanation
Indices: 880331--880450 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 58
880321 CATGATCTCA
* * *
880331 CTCTCACCCCACTCTCTCTCTCACTCTCA-CCC-TACTCTCTCATTCTCATCCCACTTT
1 CTCTCACCCCACTCACTCTCTCACTCTCATCCCATACTCTCTCACTCTCA-CCCACTCT
* *
880388 CTCTCACCCCACTCACTCTCTCACTTTCATCCCATTCTCTCTCACTCTCACCCACTCT
1 CTCTCACCCCACTCACTCTCTCACTCTCATCCCATACTCTCTCACTCTCACCCACTCT
880446 CTCTC
1 CTCTC
880451 TCTCTCACAC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
57 27 0.48
58 15 0.27
59 14 0.25
ACGTcount: A:0.14, C:0.52, G:0.00, T:0.34
Consensus pattern (58 bp):
CTCTCACCCCACTCACTCTCTCACTCTCATCCCATACTCTCTCACTCTCACCCACTCT
Found at i:880466 original size:66 final size:67
Alignment explanation
Indices: 880387--880579 Score: 199
Period size: 66 Copynumber: 3.0 Consensus size: 67
880377 CATCCCACTT
* * * *
880387 TCTCTCACCCCACTCACT-CTCTCACTTTCATCCCATTCTCTCTCACTCTCA-CCCACTCTCTCT
1 TCTCACACCCCACTC-CTCCTCTCACTTTCACCCCACTCTCTCTCACTCTCACCCCACTCTCACT
880450 CTC
65 CTC
*
880453 TCTCACACCCCACTCTTCCTCTCACTTTCACCCCACTCTCTCTCACTCTCACCCCACTCTCA---
1 TCTCACACCCCACTCCTCCTCTCACTTTCACCCCACTCTCTCTCACTCTCACCCCACTCTCACTC
880515 -C
66 TC
* * * * * * *
880516 TCT--CACCCTAAT-CT-CTCTTACTATCACCCCACTCTCTCTCACACACACCCCACTCTCTCTC
1 TCTCACACCCCACTCCTCCTCTCACTTTCACCCCACTCTCTCTCACTCTCACCCCACTCTCACTC
880577 TC
66 TC
880579 T
1 T
880580 AACACCTCCT
Statistics
Matches: 108, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
59 39 0.36
60 1 0.01
61 7 0.06
63 6 0.06
65 1 0.01
66 45 0.42
67 9 0.08
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (67 bp):
TCTCACACCCCACTCCTCCTCTCACTTTCACCCCACTCTCTCTCACTCTCACCCCACTCTCACTC
TC
Found at i:880578 original size:59 final size:61
Alignment explanation
Indices: 880326--880578 Score: 180
Period size: 59 Copynumber: 4.2 Consensus size: 61
880316 CCCCACATGA
* * * * ** * *
880326 TCTCACTCTCACCCCACTC-TCTCTCTCACTCTCACCCTA--CTCTCTCATTCTCATCCCAC
1 TCTCTCTCTCACCCCAATCTTC-CTCTCACTATCACCCCACTCTCTCTCACACACACCCCAC
* * * * * * * *
880385 T-T-TCTCTCACCCCACTC-ACTCTCTCACTTTCATCCCATTCTCTCTCACTCTCACCCACTCTC
1 TCTCTCTCTCACCCCAATCTTC-CTCTCACTATCACCCCACTCTCTCTCACACACA-CC-C-CAC
* * * *
880447 TCTCTCTCTCACACCCCACTCTTCCTCTCACTTTCACCCCACTCTCTCTCACTCTCACCCCAC
1 TCTCTCTCT--CACCCCAATCTTCCTCTCACTATCACCCCACTCTCTCTCACACACACCCCAC
* * *
880510 TCTCACTCTCACCCTAATC-T-CTCTTACTATCACCCCACTCTCTCTCACACACACCCCAC
1 TCTCTCTCTCACCCCAATCTTCCTCTCACTATCACCCCACTCTCTCTCACACACACCCCAC
880569 TCTCTCTCTC
1 TCTCTCTCTC
880579 TAACACCTCC
Statistics
Matches: 164, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
57 30 0.18
58 1 0.01
59 58 0.35
60 2 0.01
61 9 0.05
62 3 0.02
63 11 0.07
64 6 0.04
65 2 0.01
66 41 0.25
67 1 0.01
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (61 bp):
TCTCTCTCTCACCCCAATCTTCCTCTCACTATCACCCCACTCTCTCTCACACACACCCCAC
Found at i:880706 original size:13 final size:13
Alignment explanation
Indices: 880606--880691 Score: 52
Period size: 13 Copynumber: 6.4 Consensus size: 13
880596 CTCTCACCTA
*
880606 CTCTCACCCCACA
1 CTCTCACCCCACT
*
880619 CTCTCACCCCCTCT
1 CTCTCA-CCCCACT
*
880633 CTCTCATCCCACT
1 CTCTCACCCCACT
880646 CTCACTGCA-CCCACT
1 CT--CT-CACCCCACT
*
880661 -T-ACACCCCACTCT
1 CTCTCACCCCA--CT
*
880674 CTCTCACTCCACT
1 CTCTCACCCCACT
880687 CTCTC
1 CTCTC
880692 TCTCACCCCA
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
10 2 0.04
11 4 0.07
13 22 0.39
14 13 0.23
15 14 0.25
16 2 0.04
ACGTcount: A:0.16, C:0.57, G:0.01, T:0.26
Consensus pattern (13 bp):
CTCTCACCCCACT
Found at i:880832 original size:20 final size:20
Alignment explanation
Indices: 880827--881157 Score: 475
Period size: 20 Copynumber: 16.1 Consensus size: 20
880817 GGAGGAGGTA
880827 AGGAGGA-TAAGTAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
880846 AGGAGGAGTAAGTAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
880866 AGGAGGAGTAAGTAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
880886 AGGAGGAGTAAGTAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
880906 AGGAGGAGTAAGTAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
880926 AGGAGGAGTAAGTAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
880946 AGGAGGAGTAAGTAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
880966 AGGAGGAGTAAGTAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
880986 AGGAGGAGTAAGTAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
*
881006 AGGAGGAGTTAGTAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
*
881026 AGGAGGAGTTAGTAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
**
881046 AGGAGGAGTTGGTAAGGAGGAGG
1 AGGAGGAGTAAGTAA-GA--AGG
*
881069 AGGAGGAGTTAGTAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
*
881089 AGGAGGAGGAGGAGTTAGGAAGAAGG
1 AGGAGGAGTA--AG-T---AAGAAGG
* * *
881115 AGGAGGAGTTAGGAAGGAGG
1 AGGAGGAGTAAGTAAGAAGG
* *
881135 AGGAGGAGTTAGGAAGAAGG
1 AGGAGGAGTAAGTAAGAAGG
881155 AGG
1 AGG
881158 GAGGTGAAGA
Statistics
Matches: 292, Mismatches: 10, Indels: 19
0.91 0.03 0.06
Matches are distributed among these distances:
19 7 0.02
20 244 0.84
21 2 0.01
22 4 0.01
23 18 0.06
24 2 0.01
26 15 0.05
ACGTcount: A:0.42, C:0.00, G:0.47, T:0.11
Consensus pattern (20 bp):
AGGAGGAGTAAGTAAGAAGG
Found at i:880833 original size:3 final size:3
Alignment explanation
Indices: 880794--880824 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
880784 GAGGAAGAAA
880794 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG G
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG G
880825 TAAGGAGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:881032 original size:26 final size:26
Alignment explanation
Indices: 881023--881122 Score: 110
Period size: 26 Copynumber: 4.2 Consensus size: 26
881013 GTTAGTAAGA
881023 AGGAGGAGGAGTTAGTAAGAAGGA--
1 AGGAGGAGGAGTTAGTAAGAAGGAGG
* *
881047 ----GGAGGAGTTGGTAAGGAGGAGG
1 AGGAGGAGGAGTTAGTAAGAAGGAGG
881069 A-G-G-AGGAGTTAGTAAGAAGGAGG
1 AGGAGGAGGAGTTAGTAAGAAGGAGG
*
881092 AGGAGGAGGAGTTAGGAAGAAGGAGG
1 AGGAGGAGGAGTTAGTAAGAAGGAGG
881118 AGGAG
1 AGGAG
881123 TTAGGAAGGA
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
20 18 0.28
23 19 0.30
24 2 0.03
25 1 0.02
26 24 0.38
ACGTcount: A:0.37, C:0.00, G:0.52, T:0.11
Consensus pattern (26 bp):
AGGAGGAGGAGTTAGTAAGAAGGAGG
Found at i:881066 original size:3 final size:3
Alignment explanation
Indices: 881060--881142 Score: 58
Period size: 3 Copynumber: 25.7 Consensus size: 3
881050 GGAGTTGGTA
* * * *
881060 AGG AGG AGG AGG AGG AGTT AGTA AGA AGG AGG AGG AGG AGG AGTT AGG
1 AGG AGG AGG AGG AGG AG-G AG-G AGG AGG AGG AGG AGG AGG AG-G AGG
* *
881108 AAGA AGG AGG AGG AGTT AGG AAGG AGG AGG AGG AG
1 -AGG AGG AGG AGG AG-G AGG -AGG AGG AGG AGG AG
881143 TTAGGAAGAA
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
3 52 0.79
4 14 0.21
ACGTcount: A:0.37, C:0.00, G:0.54, T:0.08
Consensus pattern (3 bp):
AGG
Done.