Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397269.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5666189
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 144833 characters in sequence are not A, C, G, or T
File 12 of 14
Found at i:4562231 original size:4 final size:4
Alignment explanation
Indices: 4562222--4562261 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
4562212 AAAGGGAGGA
*
4562222 AAGG AAGG AAGG AAGG ATGG AAGG AA-G AA-G AAGG -AGG AAG
1 AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAG
4562262 CTAAGAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 9 0.28
4 23 0.72
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (4 bp):
AAGG
Found at i:4562268 original size:18 final size:18
Alignment explanation
Indices: 4562222--4562261 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
4562212 AAAGGGAGGA
4562222 AAGGAAGGAAGGAAGGATGG
1 AAGGAA-GAA-GAAGGATGG
4562242 AAGGAAGAAGAAGGA-GG
1 AAGGAAGAAGAAGGATGG
4562259 AAG
1 AAG
4562262 CTAAGAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 3 0.15
20 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (18 bp):
AAGGAAGAAGAAGGATGG
Found at i:4568921 original size:3 final size:3
Alignment explanation
Indices: 4568913--4568948 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
4568903 CTCAACAAGA
4568913 TAT TAT TAT T-T TAT TAT TAT T-T TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4568949 CATATATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.20
3 24 0.80
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:4568929 original size:11 final size:11
Alignment explanation
Indices: 4568913--4568948 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
4568903 CTCAACAAGA
4568913 TATTATTATTT
1 TATTATTATTT
4568924 TATTATTATTT
1 TATTATTATTT
4568935 TATTATTATTT
1 TATTATTATTT
4568946 TAT
1 TAT
4568949 CATATATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTATTATTT
Found at i:4573022 original size:15 final size:16
Alignment explanation
Indices: 4573004--4573033 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4572994 AAGAAGGATT
4573004 CTGAA-AAGAAAAAAA
1 CTGAACAAGAAAAAAA
4573019 CTGAACAAGAAAAAA
1 CTGAACAAGAAAAAA
4573034 TGGAAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.10, G:0.13, T:0.07
Consensus pattern (16 bp):
CTGAACAAGAAAAAAA
Found at i:4578661 original size:18 final size:19
Alignment explanation
Indices: 4578640--4578681 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
4578630 GTCAAAAAGA
4578640 ATATTTTA-GAATAAAATC
1 ATATTTTATGAATAAAATC
*
4578658 ATATTTTATTAATAAAATC
1 ATATTTTATGAATAAAATC
4578677 ATATT
1 ATATT
4578682 AAAATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (19 bp):
ATATTTTATGAATAAAATC
Found at i:4597340 original size:29 final size:29
Alignment explanation
Indices: 4597299--4597445 Score: 158
Period size: 29 Copynumber: 5.1 Consensus size: 29
4597289 TAACTTACAC
*
4597299 ATGTTTGTCTTAATTTATAC-AGAAAAAT
1 ATGTTTGTCTTAATTTAGACAAGAAAAAT
*
4597327 ATGTTTGGTCTTAATTTAGAGAAG-AAAAT
1 ATGTTT-GTCTTAATTTAGACAAGAAAAAT
*
4597356 ATGTTTGTCTTAATTTAAGACGAGAAAAAT
1 ATGTTTGTCTTAATTT-AGACAAGAAAAAT
* *
4597386 ATTTTTGTCTTAATCTAGACAAGAAAACAT
1 ATGTTTGTCTTAATTTAGACAAGAAAA-AT
* * *
4597416 A--TTTATCTCAATTTAGACAATATAAAAT
1 ATGTTTGTCTTAATTTAGACAAGA-AAAAT
4597444 AT
1 AT
4597446 TTTTAGTTGT
Statistics
Matches: 101, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
28 36 0.36
29 41 0.41
30 24 0.24
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (29 bp):
ATGTTTGTCTTAATTTAGACAAGAAAAAT
Found at i:4597433 original size:28 final size:27
Alignment explanation
Indices: 4597302--4597447 Score: 132
Period size: 28 Copynumber: 5.1 Consensus size: 27
4597292 CTTACACATG
*
4597302 TTTGTCTTAATTTATAC-AGAAAAATA
1 TTTGTCTTAATTTAGACAAGAAAAATA
* *
4597328 TGTTTGGTCTTAATTTAGAGAAGAAAATATG
1 --TTT-GTCTTAATTTAGACAAGAAAA-ATA
*
4597359 TTTGTCTTAATTTAAGACGAGAAAAATA
1 TTTGTCTTAATTT-AGACAAGAAAAATA
*
4597387 TTTTTGTCTTAATCTAGACAAGAAAACATA
1 --TTTGTCTTAATTTAGACAAGAAAA-ATA
* * *
4597417 TTTATCTCAATTTAGACAATATAAAATA
1 TTTGTCTTAATTTAGACAAGA-AAAATA
4597445 TTT
1 TTT
4597448 TTAGTTGTCT
Statistics
Matches: 98, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
28 38 0.39
29 37 0.38
30 21 0.21
31 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (27 bp):
TTTGTCTTAATTTAGACAAGAAAAATA
Found at i:4598668 original size:35 final size:36
Alignment explanation
Indices: 4598598--4598668 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
4598588 TCTCCTTAAT
* * **
4598598 TTTTTTTTTAAGAAAAAAGAGTTTTTGTTGTATCAA
1 TTTTTTTTTAAGAAAAAAGAATTTTTCTTACATCAA
4598634 TTTTTTTTTAAG-AAAAAGAATTTTTCTTACATCAA
1 TTTTTTTTTAAGAAAAAAGAATTTTTCTTACATCAA
4598669 AATTTTGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (36 bp):
TTTTTTTTTAAGAAAAAAGAATTTTTCTTACATCAA
Found at i:4598716 original size:17 final size:18
Alignment explanation
Indices: 4598687--4598725 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
4598677 TATTATAAAA
4598687 AAAATACTTTTTTCT-ATT
1 AAAATACTTTTTT-TGATT
4598705 AAAATA-TTTTTTTGATT
1 AAAATACTTTTTTTGATT
4598722 AAAA
1 AAAA
4598726 AAAAGAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.05
17 13 0.65
18 6 0.30
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (18 bp):
AAAATACTTTTTTTGATT
Found at i:4598726 original size:18 final size:19
Alignment explanation
Indices: 4598686--4598726 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4598676 TTATTATAAA
4598686 AAAAATACTTTTTTCTATT
1 AAAAATACTTTTTTCTATT
4598705 -AAAATA-TTTTTT-TGATT
1 AAAAATACTTTTTTCT-ATT
4598722 AAAAA
1 AAAAA
4598727 AAAGAATGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.05
17 9 0.45
18 10 0.50
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (19 bp):
AAAAATACTTTTTTCTATT
Found at i:4606794 original size:29 final size:29
Alignment explanation
Indices: 4606744--4606821 Score: 115
Period size: 28 Copynumber: 2.8 Consensus size: 29
4606734 ATGGCAGCTT
* *
4606744 AAACATGTTT-GTCTTCATTTAGACAAGA
1 AAACATGTTTGGTCTTAATTTAGAAAAGA
4606772 AAACATGTTTGGTCTTAATTTAGAAAAGA
1 AAACATGTTTGGTCTTAATTTAGAAAAGA
*
4606801 AAATATG-TTGGTCTTAATTTA
1 AAACATGTTTGGTCTTAATTTA
4606822 AGATAAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (29 bp):
AAACATGTTTGGTCTTAATTTAGAAAAGA
Found at i:4606820 original size:28 final size:28
Alignment explanation
Indices: 4606748--4606836 Score: 106
Period size: 29 Copynumber: 3.1 Consensus size: 28
4606738 CAGCTTAAAC
* * * *
4606748 ATGTTTGTCTTCATTTAGACAAGAAAAC
1 ATGTTGGTCTTAATTTAGAAAAGAAAAT
4606776 ATGTTTGGTCTTAATTTAGAAAAGAAAAT
1 ATG-TTGGTCTTAATTTAGAAAAGAAAAT
*
4606805 ATGTTGGTCTTAATTTAAGATAAAAAAAAT
1 ATGTTGGTCTTAATTT-AGA-AAAGAAAAT
4606835 AT
1 AT
4606837 TTTTTGTCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
28 16 0.30
29 27 0.51
30 10 0.19
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (28 bp):
ATGTTGGTCTTAATTTAGAAAAGAAAAT
Found at i:4613258 original size:180 final size:180
Alignment explanation
Indices: 4612894--4613306 Score: 471
Period size: 180 Copynumber: 2.3 Consensus size: 180
4612884 AATGTATGTT
* * * * *
4612894 TAGGAATTTAA-TTCCAATAAAATTTATCCTAAT--A-AACTCTCAAGGAGCTATTCCAAAATAA
1 TAGGAATTTAACTACTAATAAAATTTATCCTAATAGATAAC-C-CATGAAACTATTCCAAAATAA
* *
4612955 ATTTTCAGGATTTTAGGAGGTGATTTATCCATTCAAAAAATTCAAAAACCATGACAATTATATGT
64 ATTTTCAGGATTCTAGGAGGTGATTTAGCCATTCAAAAAATTCAAAAACCATGACAATTATATGT
* * *
4613020 AGGTGGCAAAATCGGTTTTTGAGTCCTTTTGAGATTCTTTGTGACCTAAACA
129 AGGTGGCAAAATCGATTTTTGAGTCCTTTTGAAATTATTTGTGACCTAAACA
* * * * *
4613072 TAGGAATTTAACT-CTTAATAAAATTTATGCTCATAGATAACCCATGAGACTATTTCATAATAAA
1 TAGGAATTTAACTAC-TAATAAAATTTATCCTAATAGATAACCCATGAAACTATTCCAAAATAAA
* * * *
4613136 TTTTTAGGATTCTAGGAGGTGATTTGGCCATTCAAAAAATTCAAAAA-TATTGA-ACATTATCTG
65 TTTTCAGGATTCTAGGAGGTGATTTAGCCATTCAAAAAATTCAAAAACCA-TGACA-ATTATATG
* * ** * * * *
4613199 TAGGTGGTAGAATTTATTTTTGAGTCCTTTTGAAATTATTTGTTACTTGAACT
128 TAGGTGGCAAAATCGATTTTTGAGTCCTTTTGAAATTATTTGTGACCTAAACA
* *
4613252 TAGGAATTTAATTACTAATAAAATTTATCCTAATAGATAACTCATGAAACTATTC
1 TAGGAATTTAACTACTAATAAAATTTATCCTAATAGATAACCCATGAAACTATTC
4613307 TGAAATATTT
Statistics
Matches: 195, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
178 12 0.06
179 19 0.10
180 158 0.81
181 3 0.02
182 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (180 bp):
TAGGAATTTAACTACTAATAAAATTTATCCTAATAGATAACCCATGAAACTATTCCAAAATAAAT
TTTCAGGATTCTAGGAGGTGATTTAGCCATTCAAAAAATTCAAAAACCATGACAATTATATGTAG
GTGGCAAAATCGATTTTTGAGTCCTTTTGAAATTATTTGTGACCTAAACA
Found at i:4632894 original size:69 final size:69
Alignment explanation
Indices: 4632797--4633354 Score: 572
Period size: 69 Copynumber: 8.1 Consensus size: 69
4632787 GCCCAAATGT
* * * * *
4632797 GGTGACACACCATGACCTAGTGGGGTGACAAGCCATGCCCTAGTGGGGTGATAGGCCATGCCCTA
1 GGTGACACGCCATGCCCTAGTGGGGTGACAAGCCATGCCCTAGTGGGGTGACATGCCATGCCCCA
4632862 GTGC
66 GTGC
* * * ** * * * *
4632866 GGTGACACGTCATGCCCGAATGCAGTGACACGCCATGCCCCAGTGGGGTGATAAGCCATGCCCCA
1 GGTGACACGCCATGCCCTAGTGGGGTGACAAGCCATGCCCTAGTGGGGTGACATGCCATGCCCCA
* *
4632931 ATGGG
66 GT-GC
** * * **
4632936 GGTGACAAACCATGCCCTAGTGGGGTGACAAGCCATGCCCCAATGGGGGTGACAAACCATGCCCC
1 GGTGACACGCCATGCCCTAGTGGGGTGACAAGCCATGCCCTAGT-GGGGTGACATGCCATGCCCC
4633001 AGTAG-
65 AGT-GC
* * * * * * *
4633006 AGTGACAAGCCATGCCCCAGTGGGGTGACACGACATGGCCTAGTGGGGTGACATGCCATACCCCA
1 GGTGACACGCCATGCCCTAGTGGGGTGACAAGCCATGCCCTAGTGGGGTGACATGCCATGCCCCA
4633071 GTGC
66 GTGC
* * * *
4633075 GATGACACGCCATGCCCTAGTAGGGTG---A--CATGCCCTAGTGAGGTGACAGGCCATGCCCCA
1 GGTGACACGCCATGCCCTAGTGGGGTGACAAGCCATGCCCTAGTGGGGTGACATGCCATGCCCCA
*
4633135 ATGC
66 GTGC
* *
4633139 GGTGACACGCCATGCCCCAGTGGGGTGACAAGCCATGCCCTAGTGGGGTGACATGACATGCCCCA
1 GGTGACACGCCATGCCCTAGTGGGGTGACAAGCCATGCCCTAGTGGGGTGACATGCCATGCCCCA
*
4633204 GTGG
66 GTGC
* * * *
4633208 GGTGACAAGCCATACCTTAGTGGGGTGACAGGCCATG-CCTCAGTGGGGTGACATGCCATGCCCC
1 GGTGACACGCCATGCCCTAGTGGGGTGACAAGCCATGCCCT-AGTGGGGTGACATGCCATGCCCC
* *
4633272 TGTGT
65 AGTGC
* * ** * * *
4633277 GGTGACACGCCATGCCCGAATGCAGTGACACGACATGCCCTAGTGGGGTGACACGCCATGCCCCA
1 GGTGACACGCCATGCCCTAGTGGGGTGACAAGCCATGCCCTAGTGGGGTGACATGCCATGCCCCA
*
4633342 GTGT
66 GTGC
4633346 GGTGACACG
1 GGTGACACG
4633355 TCACGTGGTT
Statistics
Matches: 404, Mismatches: 75, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
64 55 0.14
67 1 0.00
68 4 0.01
69 248 0.61
70 75 0.19
71 21 0.05
ACGTcount: A:0.22, C:0.29, G:0.32, T:0.17
Consensus pattern (69 bp):
GGTGACACGCCATGCCCTAGTGGGGTGACAAGCCATGCCCTAGTGGGGTGACATGCCATGCCCCA
GTGC
Found at i:4633108 original size:18 final size:18
Alignment explanation
Indices: 4633085--4633122 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
4633075 GATGACACGC
4633085 CATGCCCTAGT-AGGGTGA
1 CATGCCCTAGTGA-GGTGA
4633103 CATGCCCTAGTGAGGTGA
1 CATGCCCTAGTGAGGTGA
4633121 CA
1 CA
4633123 GGCCATGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.21
Consensus pattern (18 bp):
CATGCCCTAGTGAGGTGA
Found at i:4633354 original size:23 final size:23
Alignment explanation
Indices: 4632797--4633354 Score: 514
Period size: 23 Copynumber: 24.4 Consensus size: 23
4632787 GCCCAAATGT
* * *
4632797 GGTGACACACCATGACCTAGTGG
1 GGTGACACGCCATGCCCCAGTGG
* *
4632820 GGTGACAAGCCATGCCCTAGTGG
1 GGTGACACGCCATGCCCCAGTGG
* * * *
4632843 GGTGATAGGCCATGCCCTAGTGC
1 GGTGACACGCCATGCCCCAGTGG
* * * *
4632866 GGTGACACGTCATGCCCGAATGC
1 GGTGACACGCCATGCCCCAGTGG
*
4632889 AGTGACACGCCATGCCCCAGTGG
1 GGTGACACGCCATGCCCCAGTGG
* * *
4632912 GGTGATAAGCCATGCCCCAATGGG
1 GGTGACACGCCATGCCCCAGT-GG
** *
4632936 GGTGACAAACCATGCCCTAGTGG
1 GGTGACACGCCATGCCCCAGTGG
* *
4632959 GGTGACAAGCCATGCCCCAATGGG
1 GGTGACACGCCATGCCCCAGT-GG
** *
4632983 GGTGACAAACCATGCCCCAGTAG
1 GGTGACACGCCATGCCCCAGTGG
* *
4633006 AGTGACAAGCCATGCCCCAGTGG
1 GGTGACACGCCATGCCCCAGTGG
* * *
4633029 GGTGACACGACATGGCCTAGTGG
1 GGTGACACGCCATGCCCCAGTGG
* * *
4633052 GGTGACATGCCATACCCCAGTGC
1 GGTGACACGCCATGCCCCAGTGG
* * *
4633075 GATGACACGCCATGCCCTAGTAG
1 GGTGACACGCCATGCCCCAGTGG
* *
4633098 GGTG--A---CATGCCCTAGTGA
1 GGTGACACGCCATGCCCCAGTGG
* * *
4633116 GGTGACAGGCCATGCCCCAATGC
1 GGTGACACGCCATGCCCCAGTGG
4633139 GGTGACACGCCATGCCCCAGTGG
1 GGTGACACGCCATGCCCCAGTGG
* *
4633162 GGTGACAAGCCATGCCCTAGTGG
1 GGTGACACGCCATGCCCCAGTGG
* *
4633185 GGTGACATGACATGCCCCAGTGG
1 GGTGACACGCCATGCCCCAGTGG
* * **
4633208 GGTGACAAGCCATACCTTAGTGG
1 GGTGACACGCCATGCCCCAGTGG
* *
4633231 GGTGACAGGCCATGCCTCAGTGG
1 GGTGACACGCCATGCCCCAGTGG
* * *
4633254 GGTGACATGCCATGCCCCTGTGT
1 GGTGACACGCCATGCCCCAGTGG
* * *
4633277 GGTGACACGCCATGCCCGAATGC
1 GGTGACACGCCATGCCCCAGTGG
* * *
4633300 AGTGACACGACATGCCCTAGTGG
1 GGTGACACGCCATGCCCCAGTGG
*
4633323 GGTGACACGCCATGCCCCAGTGT
1 GGTGACACGCCATGCCCCAGTGG
4633346 GGTGACACG
1 GGTGACACG
4633355 TCACGTGGTT
Statistics
Matches: 438, Mismatches: 90, Indels: 14
0.81 0.17 0.03
Matches are distributed among these distances:
18 15 0.03
20 1 0.00
21 1 0.00
23 381 0.87
24 40 0.09
ACGTcount: A:0.22, C:0.29, G:0.32, T:0.17
Consensus pattern (23 bp):
GGTGACACGCCATGCCCCAGTGG
Found at i:4641568 original size:2 final size:2
Alignment explanation
Indices: 4641561--4641592 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4641551 TTATACTATA
*
4641561 TG TG TG TG TT TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4641593 ATGAATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:4643607 original size:6 final size:6
Alignment explanation
Indices: 4643596--4643629 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
4643586 AGGTGGCTAC
*
4643596 AAAATG AAAATG AAAATG AAAATG AATATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
4643630 CATCCCTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.18
Consensus pattern (6 bp):
AAAATG
Found at i:4649583 original size:23 final size:23
Alignment explanation
Indices: 4649549--4649608 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
4649539 TTTGTCATGT
* * **
4649549 TGTTACATGCCATTTTTCAACTA
1 TGTTACACGCCATTTCTCAAAAA
*
4649572 TGTTACACGCCA-TGCTCAAAAA
1 TGTTACACGCCATTTCTCAAAAA
4649594 TGTTACACGCCATTT
1 TGTTACACGCCATTT
4649609 GCTTTATGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (23 bp):
TGTTACACGCCATTTCTCAAAAA
Found at i:4660375 original size:2 final size:2
Alignment explanation
Indices: 4660368--4660418 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
4660358 AATGTTATGA
* * * *
4660368 AT AT AT AT AT AT AT AT AT AT TT TT GT AT AA AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4660409 AT AC AT AT AT
1 AT AT AT AT AT
4660419 TTAATTTATA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4664298 original size:13 final size:13
Alignment explanation
Indices: 4664282--4664312 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4664272 TTTTCTTATA
*
4664282 AATTTTGAATGTG
1 AATTTTGAATGTC
4664295 AATTTTGAATGTC
1 AATTTTGAATGTC
4664308 AATTT
1 AATTT
4664313 ATAATTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.48
Consensus pattern (13 bp):
AATTTTGAATGTC
Found at i:4664310 original size:229 final size:229
Alignment explanation
Indices: 4663903--4664339 Score: 685
Period size: 229 Copynumber: 1.9 Consensus size: 229
4663893 TGGCGAAACA
* * * *
4663903 AATTGGGAAAAGCAAGGCAAAATCACTTATGATGATTTACATTTACGTTTATATTTGTTTGATAT
1 AATTGAGAAAAGCAAGGCAAAATCACTTATAATGATTTACATTTACGTTTACATTTGTTTGACAT
* * * * *
4663968 TTTTAAATATTGTGTATTTGTGACTATTTTTAGTGGTATGAACTTGACTTTGAATTTTAGTTTTT
66 TTTAAAATATTGTGTATTTATGACGAATTTTAATGGTATGAACTTGACTTTGAATTTTAGTTTTT
* *
4664033 AACGCGTGTTTTTTCTTATAAATTTTGAATGTGAATTTTGGATGTCAATTGATGATTTAGTCATC
131 AACGCGTGTTTTTTCTTATAAATTTTGAATGTGAATTTTGAATGTCAATTGATAATTTAGTCATC
*
4664098 ATTGATAAAATTTTGAATGTGAATTTTGGATGTC
196 ATTGACAAAATTTTGAATGTGAATTTTGGATGTC
* ** * *
4664132 AATTGAGAAAAGCAAGGCAAAATCATTTATAATGATTTAGTTTTATGTTTACATTTGTTTGACGT
1 AATTGAGAAAAGCAAGGCAAAATCACTTATAATGATTTACATTTACGTTTACATTTGTTTGACAT
*
4664197 TTTAAAATATTGTGTGTTTATGACGAATTTTAATGGTATGAACTTGACTTTGAATTTTAGTTTTT
66 TTTAAAATATTGTGTATTTATGACGAATTTTAATGGTATGAACTTGACTTTGAATTTTAGTTTTT
* * *
4664262 AATGCTTGTTTTTTCTTATAAATTTTGAATGTGAATTTTGAATGTCAATTTATAATTTAGTCATC
131 AACGCGTGTTTTTTCTTATAAATTTTGAATGTGAATTTTGAATGTCAATTGATAATTTAGTCATC
4664327 ATTGACAAAATTT
196 ATTGACAAAATTT
4664340 AGAGATTTTG
Statistics
Matches: 187, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
229 187 1.00
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.46
Consensus pattern (229 bp):
AATTGAGAAAAGCAAGGCAAAATCACTTATAATGATTTACATTTACGTTTACATTTGTTTGACAT
TTTAAAATATTGTGTATTTATGACGAATTTTAATGGTATGAACTTGACTTTGAATTTTAGTTTTT
AACGCGTGTTTTTTCTTATAAATTTTGAATGTGAATTTTGAATGTCAATTGATAATTTAGTCATC
ATTGACAAAATTTTGAATGTGAATTTTGGATGTC
Found at i:4669667 original size:22 final size:21
Alignment explanation
Indices: 4669627--4669668 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4669617 ATGTTGTGCA
4669627 TAAATATATATCTATATATAT
1 TAAATATATATCTATATATAT
4669648 TAAATAATCATAT-TATATATA
1 TAAAT-AT-ATATCTATATATA
4669669 ATTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATATATATCTATATATAT
Found at i:4670258 original size:40 final size:40
Alignment explanation
Indices: 4670209--4670287 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
4670199 TCCATTACCC
* *
4670209 CATCTTATAGCAATGCTTTGCTGTCAATTGAAAATTCTCT
1 CATCCTATAGCAATGCTTTGCTCTCAATTGAAAATTCTCT
*
4670249 CATCCTATAGCAATGCTTTTCTCTCAATTGAAAATTCTC
1 CATCCTATAGCAATGCTTTGCTCTCAATTGAAAATTCTC
4670288 GCAACATAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (40 bp):
CATCCTATAGCAATGCTTTGCTCTCAATTGAAAATTCTCT
Found at i:4673995 original size:10 final size:11
Alignment explanation
Indices: 4673969--4673993 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4673959 TTAACAGGTT
4673969 AAAATAATAAA
1 AAAATAATAAA
4673980 AAAATAATAAA
1 AAAATAATAAA
4673991 AAA
1 AAA
4673994 TATTATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:4674836 original size:189 final size:187
Alignment explanation
Indices: 4674516--4674896 Score: 505
Period size: 189 Copynumber: 2.0 Consensus size: 187
4674506 AAAGATTGTT
*
4674516 AAAATATTAATGTGAATATGTGAGATTTAACATAACAAGTCAATTATATCAAATAAATATATTTT
1 AAAATATTAATGTAAATATGTGAGATTTAACATAACAAGTCAATTATATCAAATAAATATATTTT
* * * * *
4674581 TCAAAAAAATTATACATTAAAATTTTTATTCTCTAGTTTAAAATGTTTTACGGTTTACAAATTTT
66 TCAAAAAAATTAAACATTAAAATTTTTATTCTCAAGTTTAAAATGTTTCACAGCTTACAAATTTT
* *
4674646 AATCTATAAATGAAAAATAGTAAAGATAAAAAAAATTATAATGAAAATTACTAGTTGAA
131 AATC-ATAAATGAAAAATAGTAAAGATAAAAAAAATTATAATAAAAATTAATAGTT-AA
* * *
4674705 AAAATATTAATGTAAATGTGTGAGATTTAACATAACAAGTTAATTATGTCAAATAAGCAT-TATT
1 AAAATATTAATGTAAATATGTGAGATTTAACATAACAAGTCAATTATATCAAATAA--ATATATT
* * * * *
4674769 TTT-ATAAAAATTAAATATTTAAATTTTTATTCTCAAGTTTAAAGTGTTTCACAGCTTGCAAATT
64 TTTCAAAAAAATTAAACATTAAAATTTTTATTCTCAAGTTTAAAATGTTTCACAGCTTACAAATT
** ** * * *
4674833 TTAATCATGCATGAATGATAGTAAAGATTAAAATAATTATAGTAAAAATTAATAGTTAA
129 TTAATCATAAATGAAAAATAGTAAAGATAAAAAAAATTATAATAAAAATTAATAGTTAA
4674892 AAAAT
1 AAAAT
4674897 CTTGACGTAA
Statistics
Matches: 167, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
187 7 0.04
188 42 0.25
189 109 0.65
190 7 0.04
191 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (187 bp):
AAAATATTAATGTAAATATGTGAGATTTAACATAACAAGTCAATTATATCAAATAAATATATTTT
TCAAAAAAATTAAACATTAAAATTTTTATTCTCAAGTTTAAAATGTTTCACAGCTTACAAATTTT
AATCATAAATGAAAAATAGTAAAGATAAAAAAAATTATAATAAAAATTAATAGTTAA
Found at i:4675322 original size:255 final size:251
Alignment explanation
Indices: 4674704--4675380 Score: 578
Period size: 251 Copynumber: 2.7 Consensus size: 251
4674694 TACTAGTTGA
* * * * * * * * * ** *
4674704 AAAAATATTAATGTAAATGTGTGAGATTTAACATAACAAGTTAATTATGTCAAATAAGCATTATT
1 AAAAATATTGACGTAAATATATGACATTTAATATAAAAAATTAA-TATGTAAAATAAATATAATT
* * * * * * * * * * * * *
4674769 TTTATAAAAATTAAATATTTAAATTTTTATTCTCAAGTTTAAAGTGTTTCACAGCTTGCAAATTT
65 TTCAGAAAAATTAAAAATTTAAATATTTATTTTCGAGCTAAAAGTATTTAATAGTTTACAAATTT
* * * * *
4674834 TAATC-ATGCATGAATGATAGTAAAGATTAAAATAATTATAGTAAAAATTAATAGTTAAAAAATC
130 TAATCTATGCATGAATAATAATAAAGATAAAAATAATTATAATAAAAATTAACAGTTAAAAAATC
* * * * * *
4674898 TTGACGTAAAATGATAAGAATTAACGTAAAATATTATAAAGGTGGAATAAGCATCAT
195 TTGACGGAAAATGATAAGAATTAACGTAAAAAATTATAAAGATGAAACAAGAATCAT
* * * * * *
4674955 CAAAATATTGATGTAAATGTATGATATTTAATATAAAAAGTTAATTATGTCAAATAAATATAATT
1 AAAAATATTGACGTAAATATATGACATTTAATATAAAAAATTAA-TATGTAAAATAAATATAATT
* * * ** *
4675020 TTCAGAAAAATTAAATATTTAAATTTTTATTTTCGAGTTTGAAGTATTTTATA-TCTTACAAATT
65 TTCAGAAAAATTAAAAATTTAAATATTTATTTTCGAGCTAAAAGTATTTAATAGT-TTACAAATT
* * * * *
4675084 TTAATCTATGCATGAATAACAATAAAGGTAAAAATAATTATAATGAAAGTTAGCAGGTT-AAAAA
129 TTAATCTATGCATGAATAATAATAAAGATAAAAATAATTATAATAAAAATTAACA-GTTAAAAAA
* * *
4675148 TTTTGACGAGAAAAGTTG-TAAGAATTAACTTAAAAAATTATAAAGATGAAACAAGAATTAT
193 TCTTGACG-GAAAA--TGATAAGAATTAACGTAAAAAATTATAAAGATGAAACAAGAATCAT
* * *
4675209 AAAAATATTGACGTAAATATGTGACATTTAATGTAACATAACAATTAA-AT-TAAAATAAATTTA
1 AAAAATATTGACGTAAATATATGACATTTAATAT-A-A-AA-AATTAATATGTAAAATAAATATA
* * *
4675272 ATTTT-TGTTAAAATTAAAAATTTAAATATTTATTATT-GAGCTAAAAGTATTTAATAGTTTATA
62 ATTTTCAG-AAAAATTAAAAATTTAAATATTTATT-TTCGAGCTAAAAGTATTTAATAGTTTACA
* ** * *
4675335 AATTTTAATTTATAAATGAATAATAATAAAAATAAAAATAGTTATA
125 AATTTTAATCTATGCATGAATAATAATAAAGATAAAAATAATTATA
4675381 GCTAAAATAT
Statistics
Matches: 350, Mismatches: 63, Indels: 22
0.80 0.14 0.05
Matches are distributed among these distances:
251 115 0.33
252 50 0.14
253 7 0.02
254 65 0.19
255 100 0.29
256 6 0.02
257 2 0.01
258 5 0.01
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (251 bp):
AAAAATATTGACGTAAATATATGACATTTAATATAAAAAATTAATATGTAAAATAAATATAATTT
TCAGAAAAATTAAAAATTTAAATATTTATTTTCGAGCTAAAAGTATTTAATAGTTTACAAATTTT
AATCTATGCATGAATAATAATAAAGATAAAAATAATTATAATAAAAATTAACAGTTAAAAAATCT
TGACGGAAAATGATAAGAATTAACGTAAAAAATTATAAAGATGAAACAAGAATCAT
Found at i:4680159 original size:123 final size:123
Alignment explanation
Indices: 4679882--4680323 Score: 325
Period size: 123 Copynumber: 3.6 Consensus size: 123
4679872 TGCCAATTTG
* * *
4679882 ATTGGACTTAAATTC-TTTCGTGTCAACATAATTGGACTTATGCATCTTGGATGCCAGTTTGATT
1 ATTGGGCTTAAATTCTTTTC-TGTCAACGTAATTGGACTTATACATCTTGGATGCCAGTTTGATT
* * * ** ** * **
4679946 GAGCTTAAACTCCTTTTGTGCCAATGTAACTAGACTTATTTATCTTGAATGCTAATTTG
65 GGGCTTAAACTCCTTTTATGCCAACGTAACTAGACTTATACATCGAGAATGCTAAGTAA
* * * * * *
4680005 ATTAGGCTTATACTT-TTTTGTGTCGATGTAATTGGACTTATACATCCTGGATGCCAGTTTGATT
1 ATTGGGCTTA-AATTCTTTTCTGTCAACGTAATTGGACTTATACATCTTGGATGCCAGTTTGATT
* * * * * *
4680069 GGGCTTAAGCT-CTTTTATGCCAACGTAATTGGACTTATACATCGAGGATGTTAGGTAA
65 GGGCTTAAACTCCTTTTATGCCAACGTAACTAGACTTATACATCGAGAATGCTAAGTAA
* * * *
4680127 ATTGGGCTTAAATTCCTTTTCTGCCAACGTAATTGGACTTATATATCTTGGATACTAGTTTGATT
1 ATTGGGCTTAAATT-CTTTTCTGTCAACGTAATTGGACTTATACATCTTGGATGCCAGTTTGATT
* * ** ** * ** * * * ** * *
4680192 AGGCTTAAAATAATTTCCTACCAATATAACTAGGCTTAAATATCTTGGATGCTAGGTAA
65 GGGCTTAAACTCCTTTTATGCCAACGTAACTAGACTTATACATCGAGAATGCTAAGTAA
* * * * * ** * *
4680251 ATTGAGCTGAAACTC-TTTCATGCCAACATAGCTGGACTTATACACCTTGGATGCCAATTTGATT
1 ATTGGGCTTAAATTCTTTTC-TGTCAACGTAATTGGACTTATACATCTTGGATGCCAGTTTGATT
*
4680315 GGACTTAAA
65 GGGCTTAAA
4680324 ATCATTTTGT
Statistics
Matches: 248, Mismatches: 65, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
121 3 0.01
122 46 0.19
123 149 0.60
124 50 0.20
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (123 bp):
ATTGGGCTTAAATTCTTTTCTGTCAACGTAATTGGACTTATACATCTTGGATGCCAGTTTGATTG
GGCTTAAACTCCTTTTATGCCAACGTAACTAGACTTATACATCGAGAATGCTAAGTAA
Found at i:4680416 original size:62 final size:61
Alignment explanation
Indices: 4679841--4680503 Score: 380
Period size: 62 Copynumber: 10.8 Consensus size: 61
4679831 AATTCTCTTG
* * * * * * * *
4679841 TGCCAAGATAATT-GAGCTTAGATATCTTGGATGCCAATTTGATTGGACTTAAATTCTTTCG
1 TGCCAACATAATTGGA-CTTATACATCTTGGATGCTAGTTTGATTGGGCTTAAAATCTTTCA
* * * * * **
4679902 TGTCAACATAATTGGACTTATGCATCTTGGATGCCAGTTTGATTGAGCTTAAACTCCTTTTG
1 TGCCAACATAATTGGACTTATACATCTTGGATGCTAGTTTGATTGGGCTTAAAAT-CTTTCA
** * * ** * * * * * * **
4679964 TGCCAATGTAACTAGACTTATTTATCTTGAATGCTAATTTGATTAGGCTTATACTTTTTTG
1 TGCCAACATAATTGGACTTATACATCTTGGATGCTAGTTTGATTGGGCTTAAAATCTTTCA
* * ** * * ** *
4680025 TGTCGATGTAATTGGACTTATACATCCTGGATGCCAGTTTGATTGGGCTTAAGCTCTTTTA
1 TGCCAACATAATTGGACTTATACATCTTGGATGCTAGTTTGATTGGGCTTAAAATCTTTCA
* ** * * ** *
4680086 TGCCAACGTAATTGGACTTATACATCGAGGATGTTAGGTAAATTGGGCTTAAATTCCTTTTC-
1 TGCCAACATAATTGGACTTATACATCTTGGATGCTAGTTTGATTGGGCTTAAAAT-C-TTTCA
* * * * * *
4680148 TGCCAACGTAATTGGACTTATATATCTTGGATACTAGTTTGATTAGGCTTAAAATAATTTCC
1 TGCCAACATAATTGGACTTATACATCTTGGATGCTAGTTTGATTGGGCTTAAAAT-CTTTCA
* * * * * * ** * * *
4680210 TACCAATATAACTAGG-CTTAAATATCTTGGATGCTAGGTAAATTGAGCTGAAACTCTTTCA
1 TGCCAACATAA-TTGGACTTATACATCTTGGATGCTAGTTTGATTGGGCTTAAAATCTTTCA
** * * * * **
4680271 TGCCAACATAGCTGGACTTATACACCTTGGATGCCAATTTGATTGGACTTAAAATCATTTTG
1 TGCCAACATAATTGGACTTATACATCTTGGATGCTAGTTTGATTGGGCTTAAAATC-TTTCA
* * * * * * * * * *
4680333 TGCCCATAAAACTAGATTTAAAGATCTTCGATGCTAGTTTGATTGGGCTTAAAATCACTTCA
1 TGCCAACATAATTGGACTTATACATCTTGGATGCTAGTTTGATTGGGCTTAAAATC-TTTCA
* * ** * * *
4680395 TGCCAACATAATTGGACTTAAACATCTTGGATGCTACTTAAATTGAGCTTAAATTTTTTCA
1 TGCCAACATAATTGGACTTATACATCTTGGATGCTAGTTTGATTGGGCTTAAAATCTTTCA
* * * * * *
4680456 TACCAACAT-ACTAGACTTAGACATCTTGTATGCCAGTTTGATTGGGCT
1 TGCCAACATAATTGGACTTATACATCTTGGATGCTAGTTTGATTGGGCT
4680504 GAAGTCCTTT
Statistics
Matches: 455, Mismatches: 139, Indels: 17
0.74 0.23 0.03
Matches are distributed among these distances:
60 32 0.07
61 193 0.42
62 224 0.49
63 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (61 bp):
TGCCAACATAATTGGACTTATACATCTTGGATGCTAGTTTGATTGGGCTTAAAATCTTTCA
Found at i:4682624 original size:10 final size:10
Alignment explanation
Indices: 4682606--4682647 Score: 50
Period size: 9 Copynumber: 4.1 Consensus size: 10
4682596 CTTACAATTC
*
4682606 TCTTATTTTT
1 TCTTTTTTTT
4682616 TC-TTTTTTT
1 TCTTTTTTTT
4682625 TCTTTTTCTTT
1 TCTTTTT-TTT
4682636 CTCTTTTTTTT
1 -TCTTTTTTTT
4682647 T
1 T
4682648 ATACCTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 8 0.29
10 7 0.25
11 6 0.21
12 7 0.25
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:4682628 original size:19 final size:21
Alignment explanation
Indices: 4682606--4682649 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
4682596 CTTACAATTC
4682606 TCTTATTT-TTTCT-TTTTTT
1 TCTTATTTCTTTCTCTTTTTT
4682625 TCTT-TTTCTTTCTCTTTTTT
1 TCTTATTTCTTTCTCTTTTTT
4682645 T-TTAT
1 TCTTAT
4682650 ACCTTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.14
19 11 0.50
20 8 0.36
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (21 bp):
TCTTATTTCTTTCTCTTTTTT
Found at i:4688391 original size:21 final size:21
Alignment explanation
Indices: 4688362--4688404 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4688352 AAGTGATTAA
4688362 TTTAAGTTATTTTAGTTAAAT
1 TTTAAGTTATTTTAGTTAAAT
* *
4688383 TTTAGGTTATTTTATTTAAAT
1 TTTAAGTTATTTTAGTTAAAT
4688404 T
1 T
4688405 ACTTTAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTAAGTTATTTTAGTTAAAT
Found at i:4690183 original size:15 final size:16
Alignment explanation
Indices: 4690163--4690204 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
4690153 GTTCTCTTGC
*
4690163 ATTTATTATTATTA-T
1 ATTTATTATTATCACT
4690178 ATTTATTATTATCACT
1 ATTTATTATTATCACT
4690194 ATTTCATTATT
1 ATTT-ATTATT
4690205 TCTTTTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTATTATTATCACT
Found at i:4691294 original size:21 final size:21
Alignment explanation
Indices: 4691256--4691296 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4691246 CGATTTAGAA
4691256 GTTTGTTTGGCTTTCTTTTTG
1 GTTTGTTTGGCTTTCTTTTTG
*
4691277 GTTT-TTTGGTTTTGCTTTTT
1 GTTTGTTTGGCTTT-CTTTTT
4691297 TTTGTTATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.00, C:0.07, G:0.22, T:0.71
Consensus pattern (21 bp):
GTTTGTTTGGCTTTCTTTTTG
Found at i:4696893 original size:2 final size:2
Alignment explanation
Indices: 4696888--4696912 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4696878 CAAAAAATTG
4696888 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 T
4696913 TTTGAGCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4697491 original size:16 final size:18
Alignment explanation
Indices: 4697463--4697498 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4697453 TAATTTTTAA
4697463 TTATAATTTAG-TTATTT
1 TTATAATTTAGTTTATTT
4697480 TTATAA-TTAGTTTATTT
1 TTATAATTTAGTTTATTT
4697497 TT
1 TT
4697499 TGTGAGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
TTATAATTTAGTTTATTT
Found at i:4701778 original size:36 final size:36
Alignment explanation
Indices: 4701738--4701834 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 36
4701728 CATTGCAGGT
*
4701738 GGTTATCGCTTGATCTCGTTAAAAAACCAATTTAAA
1 GGTTATCGCTTGATCTCGTTAAAAAACCAATGTAAA
* * * *** *
4701774 GGTTATCTCTTGATCCCATTAAAAAACTGGTGTAAG
1 GGTTATCGCTTGATCTCGTTAAAAAACCAATGTAAA
*
4701810 GGTTATCGCTTGATCTTG-TAAAAAA
1 GGTTATCGCTTGATCTCGTTAAAAAA
4701835 GCCATTGTGA
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
35 7 0.14
36 42 0.86
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (36 bp):
GGTTATCGCTTGATCTCGTTAAAAAACCAATGTAAA
Found at i:4704784 original size:3 final size:3
Alignment explanation
Indices: 4704776--4704805 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4704766 ATTTAAATCT
4704776 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4704806 GTGACTTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4710419 original size:15 final size:15
Alignment explanation
Indices: 4710401--4710444 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
4710391 NTGATTACAG
*
4710401 GTAATGTGATTGCAT
1 GTAATGTGATTGCAA
4710416 GTAATGTGATTGCAA
1 GTAATGTGATTGCAA
*
4710431 GCAATGTGATTGCA
1 GTAATGTGATTGCA
4710445 GGAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (15 bp):
GTAATGTGATTGCAA
Found at i:4710720 original size:24 final size:24
Alignment explanation
Indices: 4710663--4710726 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 24
4710653 TTTTAATGTC
4710663 ATATATTT-TATTTTCATTTATTA
1 ATATATTTATATTTTCATTTATTA
* *
4710686 TTATAATTTTATATATTTTATTT-TTA
1 ATAT-A-TTTATAT-TTTCATTTATTA
4710712 ATATATTTATATTTT
1 ATATATTTATATTTT
4710727 GTTATGTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 6 0.18
24 8 0.24
25 4 0.12
26 9 0.26
27 7 0.21
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
ATATATTTATATTTTCATTTATTA
Found at i:4710789 original size:115 final size:114
Alignment explanation
Indices: 4710603--4710927 Score: 468
Period size: 104 Copynumber: 3.0 Consensus size: 114
4710593 AATTAATCAG
*
4710603 TTATATTTTTTA--TTATTAATTTT-TAAATAATATCATCTCTTGAATATTATTTTTAATGTCAT
1 TTATATTTTTTATGTTATT-ATTTTAT-AATAATATCATCTCTTAAATA-TATTTTTAATGTCAT
*
4710665 ATATTTTATTTTCATTTATTATTATAATTTTATATATTTTATTTTTAATATA
63 ATATTTTATTTTCATTTATTATTATAATCTTATATATTTTATTTTTAATATA
4710717 TTTATATTTTGTTATGTTATTATTTTATAATAATATCATCTCTTAAATATA-TTTTAATGTCATA
1 -TTATATTTT-TTATGTTATTATTTTATAATAATATCATCTCTTAAATATATTTTTAATGTCATA
4710781 TATTTTATTTTCATTTATTA-TAT-ATCTTATATATTTTA-TTTT-ATATA
64 TATTTTATTTTCATTTATTATTATAATCTTATATATTTTATTTTTAATATA
4710828 TTATA--TTTT-TGTTATTA-TTTA-AATAATATCATCTCTTAAAT-TATTTTTAATGT-ATAT-
1 TTATATTTTTTATGTTATTATTTTATAATAATATCATCTCTTAAATATATTTTTAATGTCATATA
4710885 TTTTATTTTCATTTATTATTATAATCTTATATA-TTTATTTTTA
66 TTTTATTTTCATTTATTATTATAATCTTATATATTTTATTTTTA
4710928 TTTCTTTAAT
Statistics
Matches: 199, Mismatches: 2, Indels: 28
0.87 0.01 0.12
Matches are distributed among these distances:
102 18 0.09
103 13 0.07
104 43 0.22
105 4 0.02
106 8 0.04
107 2 0.01
108 2 0.01
110 5 0.03
111 5 0.03
112 4 0.02
113 14 0.07
114 3 0.02
115 42 0.21
116 5 0.03
117 25 0.13
118 6 0.03
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (114 bp):
TTATATTTTTTATGTTATTATTTTATAATAATATCATCTCTTAAATATATTTTTAATGTCATATA
TTTTATTTTCATTTATTATTATAATCTTATATATTTTATTTTTAATATA
Found at i:4710820 original size:21 final size:20
Alignment explanation
Indices: 4710794--4710842 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
4710784 TTTATTTTCA
*
4710794 TTTATTATATATCTTATATAT
1 TTTATTATATATATTATAT-T
*
4710815 TTTATTTTATATATTATATT
1 TTTATTATATATATTATATT
*
4710835 TTTGTTAT
1 TTTATTAT
4710843 TATTTAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATTATATATATTATATT
Found at i:4710848 original size:51 final size:50
Alignment explanation
Indices: 4710768--4710927 Score: 159
Period size: 51 Copynumber: 3.1 Consensus size: 50
4710758 CTTAAATATA
4710768 TTTTAATGTCATATATTTTATTTTCATTTATTATAT-ATCTTATATATTTTAT
1 TTTTAATGT-ATAT-TTTTATTTTCATTTATTATATAATCTTATATA-TTTAT
* * * *
4710820 TTTATATAT-TATATTTTTGTTATT-ATTTAAATAATATCATCTCT-TA-AATTAT
1 TTT-TA-ATGTATATTTTTATT-TTCATTT--ATTATATAATCT-TATATATTTAT
4710872 TTTTAATGTATATTTTTATTTTCATTTATTATTATAATCTTATATATTTAT
1 TTTTAATGTATATTTTTATTTTCATTTATTA-TATAATCTTATATATTTAT
4710923 TTTTA
1 TTTTA
4710928 TTTCTTTAAT
Statistics
Matches: 89, Mismatches: 7, Indels: 25
0.74 0.06 0.21
Matches are distributed among these distances:
49 4 0.04
50 13 0.15
51 37 0.42
52 16 0.18
53 10 0.11
54 8 0.09
55 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (50 bp):
TTTTAATGTATATTTTTATTTTCATTTATTATATAATCTTATATATTTAT
Found at i:4710988 original size:48 final size:45
Alignment explanation
Indices: 4710921--4711061 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
4710911 TTATATATTT
4710921 ATTTTTATTTCTTTA--ATATATTTTTTATATTATATATTTATTTTA
1 ATTTTTA-TTCTTTATTATATATTTTTTATATTAT-TATTTATTTTA
**
4710966 ATTTGTT-TTACTTATATTATATAAATTTTATATT-TTATTTATTTTTA
1 ATTT-TTATT-CTT-TATTATATATTTTTTATATTATTATTTA-TTTTA
* * *
4711013 ATTTTTGATTCTTTGTTATATATTTATTT-TAGTATTTTTTATTTTA
1 ATTTTT-ATTCTTTATTATATATTT-TTTATATTATTATTTATTTTA
4711059 ATT
1 ATT
4711062 ATAACAGTAT
Statistics
Matches: 79, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
44 2 0.03
45 7 0.09
46 32 0.41
47 22 0.28
48 16 0.20
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (45 bp):
ATTTTTATTCTTTATTATATATTTTTTATATTATTATTTATTTTA
Found at i:4723363 original size:21 final size:20
Alignment explanation
Indices: 4723337--4723378 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
4723327 TAATTTAAAA
4723337 TAAAATAACATCAAATTTAAC
1 TAAAATAACAT-AAATTTAAC
4723358 TAAAATAACATAAA-TTAAC
1 TAAAATAACATAAATTTAAC
4723377 TA
1 TA
4723379 CTCAACATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.33
20 3 0.14
21 11 0.52
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAATAACATAAATTTAAC
Found at i:4727314 original size:95 final size:95
Alignment explanation
Indices: 4727151--4727340 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
4727141 CTTTGATTCG
*
4727151 ATCTCGTTCGTCCAAACACCTTCAAAAGAGATGAAAACGCATTACTATTCTTAATAAAAAAAGAC
1 ATCTCGTTCGTCCAAACACCTTCAAAAGAGATGAAAACACATTACTATTCTTAATAAAAAAAGAC
4727216 CTAATCAGCCTAAAATAAACTAAAATCAAC
66 CTAATCAGCCTAAAATAAACTAAAATCAAC
4727246 ATCTCGTTCGTCCAAACACCTTCAAAAGAGATGAAAACACATTACTATTCTTAATAAAAAAAGAC
1 ATCTCGTTCGTCCAAACACCTTCAAAAGAGATGAAAACACATTACTATTCTTAATAAAAAAAGAC
4727311 CTAATCAGCCTAAAATAAACTAAAATCAAC
66 CTAATCAGCCTAAAATAAACTAAAATCAAC
4727341 TTACCTAAGT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.23
Consensus pattern (95 bp):
ATCTCGTTCGTCCAAACACCTTCAAAAGAGATGAAAACACATTACTATTCTTAATAAAAAAAGAC
CTAATCAGCCTAAAATAAACTAAAATCAAC
Found at i:4728260 original size:20 final size:20
Alignment explanation
Indices: 4728243--4728301 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
4728233 ACATCTATGG
4728243 ATAGATGAAC-AGATCTATCC
1 ATAGAT-AACTAGATCTATCC
4728263 ATAGATAACTAGATCTATCC
1 ATAGATAACTAGATCTATCC
4728283 ATAGATAACTAGATCTATC
1 ATAGATAACTAGATCTATC
4728302 AATGGATGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 3 0.08
20 35 0.92
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (20 bp):
ATAGATAACTAGATCTATCC
Found at i:4729332 original size:68 final size:68
Alignment explanation
Indices: 4729254--4729503 Score: 349
Period size: 68 Copynumber: 3.7 Consensus size: 68
4729244 CATGTTTGGT
* * * **
4729254 ATGATGAATGCCATGGGATTATGTATATTATGTATATTCCATATACTACATGAGATGATTAAGTT
1 ATGATAAATGCCATGAGATTATGTATATGATGTATATTCCATATACTACATGAGATGATTAAGAA
**
4729319 TGC
66 AAC
* * * * * * *
4729322 GTGATAAATGCCATGATATTATGTATATGATTTATATCCCATATACTACATGAGATGACTGAGAC
1 ATGATAAATGCCATGAGATTATGTATATGATGTATATTCCATATACTACATGAGATGATTAAGAA
4729387 AAC
66 AAC
*
4729390 ATGATAAATGCCATGAGATTATGTATATGATGTATTTTCCATATACTACATGAGATGATTAAGAA
1 ATGATAAATGCCATGAGATTATGTATATGATGTATATTCCATATACTACATGAGATGATTAAGAA
4729455 AAC
66 AAC
4729458 ATGATAAATGCCATGAGATTATGTATATGATGTAT-TGTCCATATAC
1 ATGATAAATGCCATGAGATTATGTATATGATGTATAT-TCCATATAC
4729504 CTTACGAGAT
Statistics
Matches: 160, Mismatches: 21, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
67 1 0.01
68 159 0.99
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (68 bp):
ATGATAAATGCCATGAGATTATGTATATGATGTATATTCCATATACTACATGAGATGATTAAGAA
AAC
Found at i:4731756 original size:6 final size:6
Alignment explanation
Indices: 4731727--4731759 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
4731717 GAAAAATAGA
*
4731727 AAAAGA AAAAGG AAAAGG AAAAGG AAAAGG AAA
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAA
4731760 CTCCTTTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:4737216 original size:22 final size:22
Alignment explanation
Indices: 4737190--4737234 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4737180 TAAATCATTC
4737190 TCCTTAACTTAGATTAATGGAA
1 TCCTTAACTTAGATTAATGGAA
4737212 TCCTTAACTTAGATTAATGGAA
1 TCCTTAACTTAGATTAATGGAA
4737234 T
1 T
4737235 ACATGGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (22 bp):
TCCTTAACTTAGATTAATGGAA
Found at i:4741341 original size:24 final size:24
Alignment explanation
Indices: 4741300--4741347 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4741290 AAGTCAATCT
*
4741300 TCATCCTCCTTCGCAGTAGCATCA
1 TCATCCTCATTCGCAGTAGCATCA
*
4741324 TCATCCTCATCTCG-AGTAGGATCA
1 TCATCCTCAT-TCGCAGTAGCATCA
4741348 ATGGGCAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.29
Consensus pattern (24 bp):
TCATCCTCATTCGCAGTAGCATCA
Found at i:4747063 original size:74 final size:73
Alignment explanation
Indices: 4746985--4747150 Score: 188
Period size: 74 Copynumber: 2.2 Consensus size: 73
4746975 NNNNNNNNNN
** *
4746985 ATTAAGTCTTCTTTGTCTTGTAATTGAATTCTCTAGTAGTGACCTCTTAGTTGACTAACCATGCT
1 ATTAAGTCTT-TTTGTCTTGTAATTGAAGCCTCTAGTAATGACCTCTTAGTTGACTAACCATGCT
* *
4747050 TTTTAGTCG
65 TCTTAGTCA
* * * * ** *
4747059 ATTAAGTTCTTTCTATCTTGTAATTGAAGCCTTTTGTAATGAGTTCTTAGTTGACTAACCGTGCT
1 ATTAAG-TCTTTTTGTCTTGTAATTGAAGCCTCTAGTAATGACCTCTTAGTTGACTAACCATGCT
4747124 TCTTAGTCA
65 TCTTAGTCA
*
4747133 ACTAAGTCTTTTTTGTCT
1 ATTAAGTC-TTTTTGTCT
4747151 CATAATCTAC
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
73 2 0.03
74 69 0.92
75 4 0.05
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.46
Consensus pattern (73 bp):
ATTAAGTCTTTTTGTCTTGTAATTGAAGCCTCTAGTAATGACCTCTTAGTTGACTAACCATGCTT
CTTAGTCA
Found at i:4750696 original size:156 final size:156
Alignment explanation
Indices: 4750485--4750796 Score: 579
Period size: 156 Copynumber: 2.0 Consensus size: 156
4750475 GTTGAATTTC
*
4750485 AATGTGCTTGGTTTTAAAGTGCTGAACTGGATTTTTTGAGATGTTTATAGTACTTGTGTTATCAC
1 AATGTGCTTGGTTTTAAAGTGCTGAACTGGATTTTTTGAGATGTTTATAGCACTTGTGTTATCAC
4750550 AAAATATGGGTATATTATGCATGGTTACTCCAAAATCTTTTAATTGTTGTTTAATCCATATAATT
66 AAAATATGGGTATATTATGCATGGTTACTCCAAAATCTTTTAATTGTTGTTTAATCCATATAATT
*
4750615 TGAGCACAACAACTTCCTACGGAAAT
131 TGAGCACAACAACTTCCTAAGGAAAT
* *
4750641 AATGTGCTTGGTTTTATAGTGCTGAACTGGATTTTTTGAGATGTTTATAGCACTTGTGTTATCCC
1 AATGTGCTTGGTTTTAAAGTGCTGAACTGGATTTTTTGAGATGTTTATAGCACTTGTGTTATCAC
*
4750706 AAAATATGGGTATATTATGCATGGTTACTCCAAAATCTTTTAATTGTTGTTTGATCCATATAATT
66 AAAATATGGGTATATTATGCATGGTTACTCCAAAATCTTTTAATTGTTGTTTAATCCATATAATT
4750771 TGAGCACAACAACTTCCTAAGGAAAT
131 TGAGCACAACAACTTCCTAAGGAAAT
4750797 GTATTCAGCT
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 151 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (156 bp):
AATGTGCTTGGTTTTAAAGTGCTGAACTGGATTTTTTGAGATGTTTATAGCACTTGTGTTATCAC
AAAATATGGGTATATTATGCATGGTTACTCCAAAATCTTTTAATTGTTGTTTAATCCATATAATT
TGAGCACAACAACTTCCTAAGGAAAT
Found at i:4756130 original size:74 final size:73
Alignment explanation
Indices: 4755958--4756134 Score: 223
Period size: 73 Copynumber: 2.4 Consensus size: 73
4755948 CAGATAAAGT
* * * * * *
4755958 GCTCTT-AGTTGACTAACCATACTTCTTAGTTGATTAAGTCTTTTCTGTCTTGTAATTAATTTTC
1 GCTCTTGA-TTGACTAACCATGCTTCTTAGTTGAGTAAGTCTCTTCTGTCTTGGAATTAAGTCTC
* *
4756022 TGGCAGTGA
65 TAGCAATGA
*
4756031 GCTCTTGGTTGACTAACCATGCTTCTTAGTTGAGTAAGTTCTCTT-TGTCTTGGAATTGAAGTCT
1 GCTCTTGATTGACTAACCATGCTTCTTAGTTGAGTAAG-TCTCTTCTGTCTTGGAATT-AAGTCT
4756095 CTAGCAATGA
64 CTAGCAATGA
*
4756105 GCTTTTGATTGACTAACCATGCTTCTTAGT
1 GCTCTTGATTGACTAACCATGCTTCTTAGT
4756135 CAATTAAGTC
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
73 45 0.50
74 45 0.50
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (73 bp):
GCTCTTGATTGACTAACCATGCTTCTTAGTTGAGTAAGTCTCTTCTGTCTTGGAATTAAGTCTCT
AGCAATGA
Found at i:4773418 original size:31 final size:31
Alignment explanation
Indices: 4773380--4773452 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
4773370 ACCCTTATCA
* *
4773380 ACCTTGGGCTA-CTAATGTGCATTCCCATTAC
1 ACCTTGGGCTATC-AATGTACATCCCCATTAC
*
4773411 ACCTTGGGCTATCAATGTATATCCCCATTAC
1 ACCTTGGGCTATCAATGTACATCCCCATTAC
4773442 ACCTTGGGCTA
1 ACCTTGGGCTA
4773453 GCAACGTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (31 bp):
ACCTTGGGCTATCAATGTACATCCCCATTAC
Found at i:4773462 original size:31 final size:31
Alignment explanation
Indices: 4773403--4773465 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
4773393 AATGTGCATT
* *
4773403 CCCATTACACCTTGGGCTATCAATGTATATC
1 CCCATTACACCTTGGGCTAGCAACGTATATC
4773434 CCCATTACACCTTGGGCTAGCAACGTATATC
1 CCCATTACACCTTGGGCTAGCAACGTATATC
4773465 C
1 C
4773466 TTATTGCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (31 bp):
CCCATTACACCTTGGGCTAGCAACGTATATC
Found at i:4773479 original size:31 final size:31
Alignment explanation
Indices: 4773403--4773481 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
4773393 AATGTGCATT
* * *
4773403 CCCATTACACCTTGGGCTATCAATGTATATC
1 CCCATTACAACTTGGGCTAGCAACGTATATC
*
4773434 CCCATTACACCTTGGGCTAGCAACGTATATC
1 CCCATTACAACTTGGGCTAGCAACGTATATC
** *
4773465 CTTATTGCAACTTGGGC
1 CCCATTACAACTTGGGC
4773482 ATTTTATGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.30
Consensus pattern (31 bp):
CCCATTACAACTTGGGCTAGCAACGTATATC
Found at i:4773764 original size:68 final size:68
Alignment explanation
Indices: 4773603--4773933 Score: 336
Period size: 68 Copynumber: 4.9 Consensus size: 68
4773593 CACATACATG
* * * * *
4773603 CTTACTCATCTCAT-TAGGTATATGAAATTTACATCATTTACATAATCTCATGGCATT--T-ATG
1 CTTAATCATCTCATATA-GTATATGGAATATACATCATATACATATTCTCATGGCATTCATCATG
4773664 C-TA
65 CATA
* * *
4773667 GCTCAATCATCTCATGTAGTATATGGAATATACATCATATACATATTCTCATGGCATTGATCATG
1 -CTTAATCATCTCATATAGTATATGGAATATACATCATATACATATTCTCATGGCATTCATCATG
4773732 CATA
65 CATA
* * *
4773736 CTTAATCATCTCATGTAGTATATGGAATATACATCATATACAAATTCTCATGGCATTAATCATGC
1 CTTAATCATCTCATATAGTATATGGAATATACATCATATACATATTCTCATGGCATTCATCATGC
4773801 ATA
66 ATA
* * * * * * * *
4773804 CTTAATCACCTCATATTGTATATGGAATTTACATCATATACACCATCCT-ATGGTATACACCATG
1 CTTAATCATCTCATATAGTATATGGAATATACATCATATACA-TATTCTCATGGCATTCATCATG
4773868 CATA
65 CATA
* * * * * * *
4773872 CTT-GTCACCTCATATGGTATATGGAAT-TCACATAATACACATAATCTTATGGCATTCATCAT
1 CTTAATCATCTCATATAGTATATGGAATAT-ACATCATATACATATTCTCATGGCATTCATCAT
4773934 ACCAACATGC
Statistics
Matches: 229, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
65 48 0.21
66 6 0.03
67 44 0.19
68 125 0.55
69 6 0.03
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (68 bp):
CTTAATCATCTCATATAGTATATGGAATATACATCATATACATATTCTCATGGCATTCATCATGC
ATA
Found at i:4775079 original size:16 final size:17
Alignment explanation
Indices: 4775052--4775089 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
4775042 GGATTCCATA
4775052 AAAATATCAAAAAAATC
1 AAAATATCAAAAAAATC
*
4775069 AAAAT-TCAAAAGAATC
1 AAAATATCAAAAAAATC
4775085 AAAAT
1 AAAAT
4775090 CTAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.68, C:0.11, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAATATCAAAAAAATC
Found at i:4786620 original size:2 final size:2
Alignment explanation
Indices: 4786613--4786637 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4786603 TGGTTTTGGT
4786613 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 T
4786638 GTGTTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4787240 original size:2 final size:2
Alignment explanation
Indices: 4787233--4787270 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4787223 CCTAATGACA
4787233 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4787271 GGACTAATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4794970 original size:33 final size:33
Alignment explanation
Indices: 4794886--4794960 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
4794876 GCTGACATGG
* * *
4794886 CATGCTAATATATAATAATTAATGATGATGCGA
1 CATGCTAATATATTATAATTAAAGATAATGCGA
*
4794919 CATGCTAATATATTATAATTAAAGATAATGTGA
1 CATGCTAATATATTATAATTAAAGATAATGCGA
4794952 CATGCTAAT
1 CATGCTAAT
4794961 TCGTTATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (33 bp):
CATGCTAATATATTATAATTAAAGATAATGCGA
Found at i:4795821 original size:5 final size:5
Alignment explanation
Indices: 4795811--4795858 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
4795801 ATATTATAAT
* *
4795811 TAAAA TAAAA T-ATA TAATA TAAGAA TAAAA TTAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA -TAAAA TAAAA TAAAA TA
4795859 TAAAAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 3 0.08
5 26 0.68
6 9 0.24
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (5 bp):
TAAAA
Found at i:4795917 original size:14 final size:14
Alignment explanation
Indices: 4795900--4796369 Score: 132
Period size: 14 Copynumber: 33.2 Consensus size: 14
4795890 AACAAATTAA
4795900 ATAAAATATATAAT
1 ATAAAATATATAAT
4795914 ATAAAA-A-AT-AT
1 ATAAAATATATAAT
* *
4795925 ATAAAGAAATGA-AAA
1 ATAAA-ATAT-ATAAT
4795940 ATAAAATATAATAAT
1 ATAAAATAT-ATAAT
* *
4795955 -TAATAATAAATAAAA
1 ATAA-AATATAT-AAT
4795970 ATAAAATATATGACAT
1 ATAAAATATAT-A-AT
4795986 -TAAAA-ATAT-AT
1 ATAAAATATATAAT
*
4795997 TTAAAATATGATATTAT
1 ATAAAATAT-ATA--AT
4796014 ATAAAA-AT-TAAT
1 ATAAAATATATAAT
*
4796026 AATATAATATA-AAT
1 -ATAAAATATATAAT
* *
4796040 ATATTAAAAATAAAAT
1 ATA--AAATATATAAT
4796056 ATAAAATATATAAT
1 ATAAAATATATAAT
4796070 ATAAAATA-ATAAAT
1 ATAAAATATAT-AAT
*
4796084 ATTGACATTAA-AAATACAT
1 A-T-A-A--AATATATA-AT
*
4796103 TTAAGAA-ATGA-AAT
1 ATAA-AATAT-ATAAT
4796117 ATTAAAA-AT-TAAT
1 A-TAAAATATATAAT
*
4796130 AATAAAAATATAAATAT
1 -AT-AAAATATATA-AT
*
4796147 ATTAAAATAAAT-AT
1 A-TAAAATATATAAT
4796161 ATAAAATATAATAA-
1 ATAAAATAT-ATAAT
4796175 ATAAAATA-A-AA-
1 ATAAAATATATAAT
*
4796186 ATAAAATATATGAT
1 ATAAAATATATAAT
4796200 ATTAAAA-ATAT-AT
1 A-TAAAATATATAAT
*
4796213 TTAAAATATGATATAT
1 ATAAAATAT-ATA-AT
4796229 ATAAAA-AT-TAAT
1 ATAAAATATATAAT
4796241 AATAAAA-ATATAAT
1 -ATAAAATATATAAT
*
4796255 ATATTAAAAATA-AAT
1 ATA--AAATATATAAT
4796270 AT-AAATATTATAAT
1 ATAAAATA-TATAAT
4796284 A-ATAAATA-A-AA-
1 ATA-AAATATATAAT
*
4796295 ATAAAATATATGAT
1 ATAAAATATATAAT
4796309 ATTAAAA-ATAT-AT
1 A-TAAAATATATAAT
* *
4796322 TTAAGAAATGATATTAT
1 AT-A-AAAT-ATATAAT
4796339 ATAAAA-AT-TAAT
1 ATAAAATATATAAT
*
4796351 AATAAAAAATATAAAT
1 -ATAAAATATAT-AAT
4796367 ATA
1 ATA
4796370 TTAAACTTAT
Statistics
Matches: 353, Mismatches: 31, Indels: 143
0.67 0.06 0.27
Matches are distributed among these distances:
11 25 0.07
12 31 0.09
13 58 0.16
14 98 0.28
15 75 0.21
16 42 0.12
17 15 0.04
18 3 0.01
19 6 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (14 bp):
ATAAAATATATAAT
Found at i:4796001 original size:27 final size:26
Alignment explanation
Indices: 4795970--4796374 Score: 199
Period size: 27 Copynumber: 14.7 Consensus size: 26
4795960 ATAAATAAAA
*
4795970 ATAAAATATATGACATTAAAAATATAT
1 ATAAAATATAT-ATATTAAAAATATAT
*
4795997 TTAAAATATGATATTATATAAAAATTAATAAT
1 ATAAAATAT-ATA-TAT-TAAAAA-T-AT-AT
* * *
4796029 ATAATATAAATATATTAAAAATAAAAT
1 ATAAAATATATATATTAAAAAT-ATAT
*
4796056 ATAAAATATATA-A-TATAAA-ATA-
1 ATAAAATATATATATTAAAAATATAT
* *
4796078 AT-AAATAT-TGACATTAAAAATACAT
1 ATAAAATATAT-ATATTAAAAATATAT
* *
4796103 TTAAGAA-ATGAAATATTAAAAAT-TAAT
1 ATAA-AATAT-ATATATTAAAAATAT-AT
*
4796130 AATAAAAATATAAATATATTAAAATAAATAT
1 -AT-AAAATAT--ATATATTAAAA-ATATAT
* * *
4796161 ATAAAATATA-ATA-AATAAAATAAAA
1 ATAAAATATATATATTA-AAAATATAT
4796186 ATAAAATATATGATATTAAAAATATAT
1 ATAAAATATAT-ATATTAAAAATATAT
*
4796213 TTAAAATATGATATATATAAAAAT-TAAT
1 ATAAAATAT-ATATAT-TAAAAATAT-AT
*
4796241 AATAAAAATATAATATATTAAAAATAAAT
1 -AT-AAAATAT-ATATATTAAAAATATAT
* * *
4796270 AT-AAATAT-TATAATAATAAATAAAA
1 ATAAAATATATATATTAA-AAATATAT
4796295 ATAAAATATATGATATTAAAAATATAT
1 ATAAAATATAT-ATATTAAAAATATAT
*
4796322 TTAAGAA-ATGATATTATATAAAAATTAATAAT
1 ATAA-AATAT-ATA-TAT-TAAAAA-T-AT-AT
*
4796354 AAAAAATATAAATATATTAAA
1 ATAAAATAT--ATATATTAAA
4796375 CTTATATTTT
Statistics
Matches: 293, Mismatches: 40, Indels: 86
0.70 0.10 0.21
Matches are distributed among these distances:
20 1 0.00
21 7 0.02
22 3 0.01
23 7 0.02
24 9 0.03
25 29 0.10
26 22 0.08
27 72 0.25
28 37 0.13
29 39 0.13
30 30 0.10
31 16 0.05
32 18 0.06
33 3 0.01
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (26 bp):
ATAAAATATATATATTAAAAATATAT
Found at i:4796035 original size:111 final size:110
Alignment explanation
Indices: 4795941--4796374 Score: 626
Period size: 109 Copynumber: 4.0 Consensus size: 110
4795931 AAATGAAAAA
4795941 TAAAATATAATAAT-TAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTTAA-AAT
1 TAAAATATAA-AATATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTTAAGAA-
*
4796004 ATGATATTATATAAAAATTAATAAT-ATAATATAAATATATTAAAAA
64 ATGATATTATATAAAAATTAATAATAAAAATATAAATATATTAAAAA
* *
4796050 TAAAATATAAAATAT-ATAATATAA-AATAAT-AAATAT-TGACATTAAAAATACATTTAAGAAA
1 TAAAATATAAAATATAATAATA-AATAAAAATAAAATATATGACATTAAAAATATATTTAAGAAA
*
4796111 TGA-AATAT-TAAAAATTAATAATAAAAATATAAATATATT-AAAA
65 TGATATTATATAAAAATTAATAATAAAAATATAAATATATTAAAAA
*
4796154 TAAATATATAAAATATAATAAATAAAATAAAAATAAAATATATGATATTAAAAATATATTTAA-A
1 TAAA-ATATAAAATATAAT-AAT-AAATAAAAATAAAATATATGACATTAAAAATATATTTAAGA
4796218 ATATGATA-TATATAAAAATTAATAATAAAAATAT-AATATATTAAAAA
63 A-ATGATATTATATAAAAATTAATAATAAAAATATAAATATATTAAAAA
*
4796265 T-AAATATAAATATTATAATAATAAATAAAAATAAAATATATGATATTAAAAATATATTTAAGAA
1 TAAAATATAAA-A-TATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTTAAGAA
4796329 ATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTAAA
64 ATGATATTATATAAAAATTAATAAT-AAAAATATAAATATATTAAA
4796375 CTTATATTTT
Statistics
Matches: 297, Mismatches: 7, Indels: 39
0.87 0.02 0.11
Matches are distributed among these distances:
104 22 0.07
105 30 0.10
106 26 0.09
107 13 0.04
108 20 0.07
109 73 0.25
110 60 0.20
111 42 0.14
112 11 0.04
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (110 bp):
TAAAATATAAAATATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTTAAGAAAT
GATATTATATAAAAATTAATAATAAAAATATAAATATATTAAAAA
Found at i:4796036 original size:22 final size:22
Alignment explanation
Indices: 4796012--4796186 Score: 87
Period size: 22 Copynumber: 8.4 Consensus size: 22
4796002 ATATGATATT
4796012 ATATAAAAATTAATAATAT--A
1 ATATAAAAATTAATAATATAAA
4796032 ATATAAATATATTAA-AA-ATAAA
1 ATATAAA-A-ATTAATAATATAAA
4796054 ATAT-AAAA-TATATAATATAAA
1 ATATAAAAATTA-ATAATATAAA
* * *
4796075 ATAATAAATATTGA-CAT-TAAA
1 AT-ATAAAAATTAATAATATAAA
* * * *
4796096 A-AT-ACATTTAAGAA-ATGAA
1 ATATAAAAATTAATAATATAAA
4796115 ATATTAAAAATTAATAATA-AAA
1 ATA-TAAAAATTAATAATATAAA
*
4796137 ATATAAATATATTAA-AATA-AAT
1 ATATAAA-A-ATTAATAATATAAA
4796159 ATAT-AAAATATAATAA-ATAAA
1 ATATAAAAAT-TAATAATATAAA
4796180 ATA-AAAA
1 ATATAAAA
4796187 TAAAATATAT
Statistics
Matches: 118, Mismatches: 15, Indels: 43
0.67 0.09 0.24
Matches are distributed among these distances:
18 6 0.05
19 11 0.09
20 18 0.15
21 34 0.29
22 38 0.32
23 10 0.08
24 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (22 bp):
ATATAAAAATTAATAATATAAA
Found at i:4796181 original size:43 final size:41
Alignment explanation
Indices: 4796108--4796305 Score: 104
Period size: 38 Copynumber: 5.0 Consensus size: 41
4796098 TACATTTAAG
4796108 AAATGAAATAT-TAAAAATTAAT-AATAAAAATATAAATATATTA
1 AAAT-AAATATATAAAAA-TAATAAAT-AAAA-ATAAATATATTA
4796151 AAATAAATATATAAAATATAATAAAT-AAAATAAA-A-A-TA
1 AAATAAATATATAAAA-ATAATAAATAAAAATAAATATATTA
* ** * *
4796189 AAATATATGATATTAAAAAT-ATATTTAAAATATGATATATATAA
1 AAATAAAT-ATA-TAAAAATAATAAATAAAA-AT-AAATATATTA
* * *
4796233 AAATTAATA-ATAAAAAT-AT-AAT-ATATTAAA-A-A-TA
1 AAATAAATATATAAAAATAATAAATAAAAATAAATATATTA
*
4796267 AATATAAATAT-T-ATAATAATAAATAAAAATAAAATATAT
1 AA-ATAAATATATAAAAATAATAAATAAAAAT-AAATATAT
4796306 GATATTAAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 42
0.67 0.10 0.24
Matches are distributed among these distances:
34 7 0.06
35 10 0.08
36 4 0.03
37 5 0.04
38 17 0.14
39 12 0.10
40 10 0.08
41 16 0.14
42 11 0.09
43 15 0.13
44 11 0.09
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (41 bp):
AAATAAATATATAAAAATAATAAATAAAAATAAATATATTA
Found at i:4796209 original size:32 final size:31
Alignment explanation
Indices: 4795931--4796302 Score: 126
Period size: 32 Copynumber: 12.2 Consensus size: 31
4795921 ATATATAAAG
*
4795931 AAATGAAAAATAAAATATA-ATAATTAATAAT-
1 AAAT-AAAAATAAAATATATAT-ATTAAAAATA
*
4795962 AAATAAAAATAAAATATATGACATTAAAAATA
1 AAATAAAAATAAAATATAT-ATATTAAAAATA
* * * **
4795994 TATTTAAAATATGATAT-TATA-TAAAAAT-
1 AAATAAAAATAAAATATATATATTAAAAATA
* * * *
4796022 TAAT-AATATAATATAAATATATTAAAAATA
1 AAATAAAAATAAAATATATATATTAAAAATA
*
4796052 AAAT----ATAAAATATATAATATAAAATAATA
1 AAATAAAAATAAAATATAT-ATATTAAA-AATA
* * * * *
4796081 AATATTGACATTAAAA-ATACAT-TTAAGAAATG
1 AA-A-TAAAAATAAAATATATATATTAA-AAATA
** * *
4796113 AAATATTAA-AAATTA-ATA-ATAAAAATATA
1 AAATAAAAATAAAATATATATATTAAAA-ATA
*
4796142 AATATATTAAAAT-AAATATATAAAATATAATAAATA
1 AA-ATA--AAAATAAAATATAT-ATAT-TAA-AAATA
4796178 AAATAAAAATAAAATATATGATATTAAAAATA
1 AAATAAAAATAAAATATAT-ATATTAAAAATA
* * * ** *
4796210 TATTTAAAATATGATATATATA--AAAATTA
1 AAATAAAAATAAAATATATATATTAAAAATA
4796239 ATAATAAAAAT---ATA-ATATATTAAAAATA
1 A-AATAAAAATAAAATATATATATTAAAAATA
* * *
4796267 AATATAAATATTATAATA-ATA-AATAAAAATA
1 AA-ATAAA-AATAAAATATATATATTAAAAATA
4796298 AAATA
1 AAATA
4796303 TATGATATTA
Statistics
Matches: 258, Mismatches: 47, Indels: 73
0.68 0.12 0.19
Matches are distributed among these distances:
26 5 0.02
27 21 0.08
28 28 0.11
29 40 0.16
30 36 0.14
31 29 0.11
32 52 0.20
33 13 0.05
34 15 0.06
35 10 0.04
36 7 0.03
37 2 0.01
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.33
Consensus pattern (31 bp):
AAATAAAAATAAAATATATATATTAAAAATA
Found at i:4796249 original size:82 final size:85
Alignment explanation
Indices: 4796115--4796362 Score: 207
Period size: 82 Copynumber: 3.0 Consensus size: 85
4796105 AAGAAATGAA
*
4796115 ATATTAAAAATTAATAATAAAAATATAAATATATTAAAATAAATATATAAAATATAATA-AAT-A
1 ATATTAAAAATTAATAATAAAAATATAAATATATAAAAATAAATATATAAAATATAATATAATAA
4796178 AAATAAAAATAAAATATATG
66 AAATAAAAATAAAATATATG
* * * * *
4796198 ATATTAAAAA-T-ATATTTAAAATATGATATATATAAAAATTAATA-ATAAAAATATAATATATT
1 ATATTAAAAATTAATAATAAAAATAT-AAATATATAAAAATAAATATAT-AAAATATAATATAAT
*
4796260 AAAAATAAATAT-AAATAT-T-
64 AAAAATAAAAATAAAATATATG
* * * * * *
4796279 ATAATAATAAA-TAAAAAT-AAAATATATGATAT-TAAAAATATATTTA-AGAAATGATATTAT-
1 ATATTAA-AAATTAATAATAAAAATATA-AATATATAAAAATAAATATATA-AAAT-ATAATATA
* *
4796339 ATAAAAATTAATAATAAAAAATAT
62 ATAAAAA-TAAAAATAAAATATAT
4796363 AAATATATTA
Statistics
Matches: 133, Mismatches: 19, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
80 1 0.01
81 39 0.29
82 56 0.42
83 26 0.20
84 11 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (85 bp):
ATATTAAAAATTAATAATAAAAATATAAATATATAAAAATAAATATATAAAATATAATATAATAA
AAATAAAAATAAAATATATG
Found at i:4796576 original size:15 final size:15
Alignment explanation
Indices: 4796523--4796563 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
4796513 TTTTCCTTAT
4796523 AATCACATTACTTGC
1 AATCACATTACTTGC
4796538 AATCACATTACTTGC
1 AATCACATTACTTGC
4796553 AATCACATTAC
1 AATCACATTAC
4796564 CTGTAATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.32
Consensus pattern (15 bp):
AATCACATTACTTGC
Found at i:4797484 original size:15 final size:16
Alignment explanation
Indices: 4797447--4797484 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4797437 CCAAAATTTA
*
4797447 GATTTTGATTCTTTTG
1 GATTTTTATTCTTTTG
*
4797463 GAATTTTATT-TTTTG
1 GATTTTTATTCTTTTG
4797478 GATTTTT
1 GATTTTT
4797485 TATTGAATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.16, C:0.03, G:0.16, T:0.66
Consensus pattern (16 bp):
GATTTTTATTCTTTTG
Found at i:4804130 original size:71 final size:73
Alignment explanation
Indices: 4804010--4804156 Score: 174
Period size: 71 Copynumber: 2.0 Consensus size: 73
4804000 TTACATATAT
** *
4804010 GAAAAAAATAACTATTGGAGATCATTAAATACATATTACCATTAATTGA-TTGCAAATA-GAGGA
1 GAAAAAAATAACTATTAAAGATCATTAAATACATACTACCATTAATTGATTTGCAAATAGGA-GA
4804073 AATAGTTAA
65 AATAGTTAA
* * * * * *
4804082 GAAAAAAA-AGCTATTAAAGATCATTAAATATATGCTACTATTACTTGATTTGGAAATAGGAGAA
1 GAAAAAAATAACTATTAAAGATCATTAAATACATACTACCATTAATTGATTTGCAAATAGGAGAA
*
4804146 ATAGTTGA
66 ATAGTTAA
4804154 GAA
1 GAA
4804157 TTAATAGTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
71 32 0.51
72 29 0.46
73 2 0.03
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (73 bp):
GAAAAAAATAACTATTAAAGATCATTAAATACATACTACCATTAATTGATTTGCAAATAGGAGAA
ATAGTTAA
Found at i:4808614 original size:18 final size:18
Alignment explanation
Indices: 4808591--4808631 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4808581 TGTTCATGAA
4808591 GGTGGCCAAAGTAGTCAG
1 GGTGGCCAAAGTAGTCAG
** *
4808609 GGTGGCCATGGTGGTCAG
1 GGTGGCCAAAGTAGTCAG
4808627 GGTGG
1 GGTGG
4808632 AACCAAACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.15, G:0.49, T:0.20
Consensus pattern (18 bp):
GGTGGCCAAAGTAGTCAG
Found at i:4812352 original size:20 final size:20
Alignment explanation
Indices: 4812324--4812361 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4812314 AACTCTAAAT
*
4812324 TTCAGCAAAATTGAAAAAGA
1 TTCACCAAAATTGAAAAAGA
*
4812344 TTCACCAAAGTTGAAAAA
1 TTCACCAAAATTGAAAAA
4812362 ATTAGATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (20 bp):
TTCACCAAAATTGAAAAAGA
Found at i:4826049 original size:73 final size:74
Alignment explanation
Indices: 4825950--4826111 Score: 204
Period size: 73 Copynumber: 2.2 Consensus size: 74
4825940 ACCACTGCTA
* * **
4825950 CTTAGTCAATTAAGTCGTTTCTATCTCTGAA-TCCAGTTTCTAGCAGT-A-GCCTTTTAGTTGAC
1 CTTAGTCGATTAAGTCATTTCTATCTCTGAACT-CAGTTTCTAGCAGTAAGGCCTTTT-GTCAAC
*
4826012 TAACAAAACTT
64 CAACAAAACTT
* * * *
4826023 CTTAGTCGATTACGTCATTTCTATCTCTGAACTTAGTTTCTAGCAGTAAGGTCTTTTGTCAACCG
1 CTTAGTCGATTAAGTCATTTCTATCTCTGAACTCAGTTTCTAGCAGTAAGGCCTTTTGTCAACCA
4826088 ACAAAACTT
66 ACAAAACTT
4826097 CTTAGTCGATTAAGT
1 CTTAGTCGATTAAGT
4826112 GTTTTCTGTC
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
73 41 0.54
74 29 0.38
75 6 0.08
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (74 bp):
CTTAGTCGATTAAGTCATTTCTATCTCTGAACTCAGTTTCTAGCAGTAAGGCCTTTTGTCAACCA
ACAAAACTT
Found at i:4828582 original size:17 final size:19
Alignment explanation
Indices: 4828547--4828586 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
4828537 TTCAATCTGA
4828547 AAATATAATCTTTATTTTG
1 AAATATAATCTTTATTTTG
*
4828566 AAATA-AATTTTTA-TTTG
1 AAATATAATCTTTATTTTG
4828583 AAAT
1 AAAT
4828587 CTACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 7 0.35
19 5 0.25
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (19 bp):
AAATATAATCTTTATTTTG
Found at i:4828846 original size:40 final size:40
Alignment explanation
Indices: 4828802--4828884 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
4828792 AGTGCGGCTT
* * * *
4828802 TTGATACTGTCTGACCATA-TCATTTCCTTTTTGGTTTTGG
1 TTGATACTATCTGACAATACT-ATTTCCTTTTTGCTTTCGG
* *
4828842 TTGATACTATTTGACAATACTATTTGCTTTTTGCTTTCGG
1 TTGATACTATCTGACAATACTATTTCCTTTTTGCTTTCGG
4828882 TTG
1 TTG
4828885 CTTTTCAGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.51
Consensus pattern (40 bp):
TTGATACTATCTGACAATACTATTTCCTTTTTGCTTTCGG
Found at i:4846523 original size:36 final size:36
Alignment explanation
Indices: 4846475--4846571 Score: 97
Period size: 37 Copynumber: 2.7 Consensus size: 36
4846465 GGCCAGCCGA
* *
4846475 TGGAGAAACAGATCACGCACATGCCTAAGCAATAGG
1 TGGAGAATCAGATCACGCACATGCCGAAGCAATAGG
* ** *
4846511 TGGAGAATCAGATCAAGCACAACACCGAAGCAATTGG
1 TGGAGAATCAGATCACGCAC-ATGCCGAAGCAATAGG
* *
4846548 TGGAGAAAT-AGATCCCACACATGC
1 TGGAG-AATCAGATCACGCACATGC
4846572 TGAACCAACG
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
36 20 0.42
37 25 0.52
38 3 0.06
ACGTcount: A:0.39, C:0.23, G:0.24, T:0.14
Consensus pattern (36 bp):
TGGAGAATCAGATCACGCACATGCCGAAGCAATAGG
Found at i:4849398 original size:29 final size:28
Alignment explanation
Indices: 4849352--4849533 Score: 170
Period size: 29 Copynumber: 6.3 Consensus size: 28
4849342 TGGTAGCTTT
* * *
4849352 AACATGTTTGCCTTAATTTAGATAAGAA
1 AACATATTTGTCTTAATTTAGACAAGAA
*
4849380 AACATATTATGTCGTAATTTAGACAAGAA
1 AACATATT-TGTCTTAATTTAGACAAGAA
*
4849409 AACA-AGTTTGTCTTAATTTAGATAAGAA
1 AACATA-TTTGTCTTAATTTAGACAAGAA
* * **
4849437 ATCATGCTCAGTCTTAATTTAGACAAGAA
1 AACAT-ATTTGTCTTAATTTAGACAAGAA
* *
4849466 AATATATTTGTCTTAAATTAAGACAAGAA
1 AACATATTTGTCTT-AATTTAGACAAGAA
* *
4849495 AA-ATATTTTTTATCTTAATTTAGAAAAGAA
1 AACATA---TTTGTCTTAATTTAGACAAGAA
4849525 AACATATTT
1 AACATATTT
4849534 ACCTCAATTA
Statistics
Matches: 125, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
28 41 0.33
29 60 0.48
30 14 0.11
31 10 0.08
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (28 bp):
AACATATTTGTCTTAATTTAGACAAGAA
Found at i:4849455 original size:57 final size:57
Alignment explanation
Indices: 4849352--4849500 Score: 169
Period size: 57 Copynumber: 2.6 Consensus size: 57
4849342 TGGTAGCTTT
* * *
4849352 AACATGTTTGCCTTAATTTAGATAAGAAAACATATTATGTCGTAATTTAGACAAGAA
1 AACAAGTTTGTCTTAATTTAGATAAGAAAACATATCATGTCGTAATTTAGACAAGAA
* * *
4849409 AACAAGTTTGTCTTAATTTAGATAAGAAATCATGCTCA-GTCTTAATTTAGACAAGAA
1 AACAAGTTTGTCTTAATTTAGATAAGAAAACAT-ATCATGTCGTAATTTAGACAAGAA
* * *
4849466 AATATA-TTTGTCTTAAATTAAGACAAGAAAA-ATAT
1 AACA-AGTTTGTCTT-AATTTAGATAAGAAAACATAT
4849501 TTTTTATCTT
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
56 1 0.01
57 61 0.78
58 16 0.21
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.34
Consensus pattern (57 bp):
AACAAGTTTGTCTTAATTTAGATAAGAAAACATATCATGTCGTAATTTAGACAAGAA
Found at i:4849557 original size:59 final size:59
Alignment explanation
Indices: 4849448--4849559 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 59
4849438 TCATGCTCAG
* * * * * *
4849448 TCTTAATTTAGACAAGAAAATATATTTGTCTTAAATTAAGACAAGAAAAATATTTTTTA
1 TCTTAATTTAGAAAAGAAAACATATTTGACCTAAATTAAAAAAAGAAAAATATTTTTTA
* *
4849507 TCTTAATTTAGAAAAGAAAACATATTT-ACCTCAATTAAAAAAAGGTAAAATAT
1 TCTTAATTTAGAAAAGAAAACATATTTGACCTAAATTAAAAAAA-GAAAAATAT
4849560 ATTGTCTTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
58 11 0.25
59 33 0.75
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (59 bp):
TCTTAATTTAGAAAAGAAAACATATTTGACCTAAATTAAAAAAAGAAAAATATTTTTTA
Found at i:4855456 original size:40 final size:41
Alignment explanation
Indices: 4855394--4855470 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 41
4855384 TAATTTATAA
*
4855394 TTTAATTAAAATTTACTAATTAATAATTT-AAATATTTTAT
1 TTTAATTAAAATTTAATAATTAATAATTTAAAATATTTTAT
* * * *
4855434 TTTATTTATAATTTAATCATTAATATTTTAAAATATT
1 TTTAATTAAAATTTAATAATTAATAATTTAAAATATT
4855471 AATATTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 24 0.77
41 7 0.23
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.55
Consensus pattern (41 bp):
TTTAATTAAAATTTAATAATTAATAATTTAAAATATTTTAT
Found at i:4855539 original size:21 final size:23
Alignment explanation
Indices: 4855459--4855539 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 23
4855449 ATCATTAATA
*
4855459 TTTTAAAATATTA--ATATTTAAT
1 TTTTTAAATATTATTATATTT-AT
*
4855481 TTCATTTAAATATTATTATGATTTCT
1 TT--TTTAAATATTATTAT-ATTTAT
**
4855507 TTTTTATTTATT-TTAT-TTTAT
1 TTTTTAAATATTATTATATTTAT
4855528 TTTTTAAATATT
1 TTTTTAAATATT
4855540 GATAATTGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
21 14 0.30
22 2 0.04
23 4 0.09
24 18 0.38
26 5 0.11
27 4 0.09
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (23 bp):
TTTTTAAATATTATTATATTTAT
Found at i:4855600 original size:19 final size:18
Alignment explanation
Indices: 4855578--4855659 Score: 58
Period size: 19 Copynumber: 4.1 Consensus size: 18
4855568 GTAATTGGTC
4855578 ATTTAAATGTTAATATTTT
1 ATTTAAAT-TTAATATTTT
*
4855597 ATTTATAATTTAATTATTAAT
1 ATTTA-AATTTAA-TATT-TT
*
4855618 ATTTCAAAATATTAATAATTT
1 ATTT--AAAT-TTAATATTTT
4855639 ATTT-AATTTAAATATTATT
1 ATTTAAATTT-AATATT-TT
4855658 AT
1 AT
4855660 GATTAATTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
17 2 0.04
18 8 0.16
19 13 0.25
20 7 0.14
21 10 0.20
22 6 0.12
23 5 0.10
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (18 bp):
ATTTAAATTTAATATTTT
Found at i:4855890 original size:27 final size:27
Alignment explanation
Indices: 4855834--4855891 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
4855824 TTATTTTATT
* * * *
4855834 TTTATTTTAAATATTAATAACTGATTA
1 TTTATTTAAAATACTAATAACTAATAA
4855861 TTTATTTAAAATACTAATAA-TAAATAA
1 TTTATTTAAAATACTAATAACT-AATAA
4855888 TTTA
1 TTTA
4855892 AATATTAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (27 bp):
TTTATTTAAAATACTAATAACTAATAA
Found at i:4855921 original size:156 final size:155
Alignment explanation
Indices: 4855372--4856258 Score: 770
Period size: 153 Copynumber: 5.8 Consensus size: 155
4855362 TGTTCAATTA
* * * *
4855372 TTTAAATATTAATAATTTATAATTTAATTAAAAT-TTACTAATTAATAATTTAAATATT-TTATT
1 TTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATTAATAATTTAAATATTAATATT
* *
4855435 TTATTTATAATTTAATCATTAATATTTTAAAATATTAATATTTAATTTCATTTAAATATTATTAT
66 TTATTTATAATTTAATCATTAATATTTTAAAATATTAATAATTAATTTAATTTAAATATTATTAT
** *
4855500 GATTTCTTTTTTATTTATTTTATTTTATTT
131 GA--TCAATTAT-TTTATTTTA-TTT-TTT
* * * ** * *
4855530 TTTAAATATTGATAATTGATAATTTATTGAAAATATTAGTAATTGGTCATTTAAATGTTAATATT
1 TTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATTAATAATTTAAATATTAATATT
* * *
4855595 TTATTTATAATTTAATTATTAATATTTCAAAATATTAATAATTTATTTAATTTAAATATTATTAT
66 TTATTTATAATTTAATCATTAATATTTTAAAATATTAATAATTAATTTAATTTAAATATTATTAT
*
4855660 GATTAATTATTTTATTTTA--TTTT
131 GATCAATTATTTTATTTTATTTTTT
* * * * * *
4855683 TTAAAATATTAATAAGTGATAATGTATTTAAAATGTTAATAATTAATCATTTAAATACTAATATT
1 TTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATTAATAATTTAAATATTAATATT
* **********
4855748 TTATTTATAATTTAATCATTAATATATTAAAATATNNNNNNNNNNTTTAATTTAAATATTATTAT
66 TTATTTATAATTTAATCATTAATATTTTAAAATATTAATAATTAATTTAATTTAAATATTATTAT
4855813 GATCAATTATTTTATTTTATTTTTAT
131 GATCAATTATTTTATTTTATTTTT-T
* * * * *
4855839 TTTAAATATTAATAACTGATTATTTATTTAAAATACTAATAATAAATAATTTAAATATTAACATT
1 TTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATTAATAATTTAAATATTAATATT
* * *
4855904 TTATTTATAATTCAATCATTATTATTTTAAAATATTAAT--TT--TTTAATTTGAATATTATTAT
66 TTATTTATAATTTAATCATTAATATTTTAAAATATTAATAATTAATTTAATTTAAATATTATTAT
* *
4855965 --T-AATT-TTATATTATATTATATTT
131 GATCAATTATTTTATTTTATT-T-TTT
** *** *
4855988 TTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATTTTTAATTTGTTTA-AAATATT
1 TTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATTAATAATTTAAATATTAATATT
** * * * ***
4856052 AAAAATTGATAATTTAATTATTAATATTTT-ATATA-TAAT--TTAAATGTT-A-TT-ACGCTTA
66 --TTATTTATAATTTAATCATTAATATTTTAAAATATTAATAATT-AAT-TTAATTTAAATATTA
** *
4856110 TT-TG-T-TTTTAATTTATTTTATT----
127 TTATGATCAATTATTTTATTTTATTTTTT
* * * * *
4856132 TTTAAATAGTAATAATTTAAAATTTATGTT-AAATATTAATAATTGATCATTTAAATATTAATAT
1 TTTAAATATTAATAATTGATAATTTAT-TTAAAATATTAATAATTAATAATTTAAATATTAATAT
** * * *
4856196 TTTATTTATAATTTAATTTTTAATATATTAAAATATTAATATTTTATTTATAATTT-AATATTA
65 TTTATTTATAATTTAATCATTAATATTTTAAAATATTAATA-ATTAATT-TAATTTAAATATTA
4856259 ATATTTTAAA
Statistics
Matches: 592, Mismatches: 112, Indels: 59
0.78 0.15 0.08
Matches are distributed among these distances:
143 23 0.04
144 49 0.08
145 12 0.02
146 1 0.00
147 3 0.01
148 25 0.04
149 73 0.12
150 36 0.06
151 2 0.00
152 21 0.04
153 127 0.21
154 1 0.00
155 3 0.01
156 88 0.15
157 9 0.02
158 34 0.06
159 19 0.03
160 66 0.11
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (155 bp):
TTTAAATATTAATAATTGATAATTTATTTAAAATATTAATAATTAATAATTTAAATATTAATATT
TTATTTATAATTTAATCATTAATATTTTAAAATATTAATAATTAATTTAATTTAAATATTATTAT
GATCAATTATTTTATTTTATTTTTT
Found at i:4855977 original size:17 final size:17
Alignment explanation
Indices: 4855955--4855988 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4855945 TTTAATTTGA
4855955 ATATTATTATTA-ATTTT
1 ATATTA-TATTATATTTT
4855972 ATATTATATTATATTTT
1 ATATTATATTATATTTT
4855989 TTAAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTATATTATATTTT
Found at i:4856023 original size:27 final size:27
Alignment explanation
Indices: 4855984--4856067 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 27
4855974 ATTATATTAT
4855984 ATTT-TTT-AAATATTAATAATTGATA
1 ATTTATTTAAAATATTAATAATTGATA
**
4856009 ATTTATTTAAAATATTAATAATTTTTA
1 ATTTATTTAAAATATTAATAATTGATA
* *
4856036 ATTTGTTTAAAATATTAAAAATTGATA
1 ATTTATTTAAAATATTAATAATTGATA
4856063 ATTTA
1 ATTTA
4856068 ATTATTAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
25 4 0.08
26 3 0.06
27 43 0.86
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
ATTTATTTAAAATATTAATAATTGATA
Found at i:4856212 original size:41 final size:40
Alignment explanation
Indices: 4856154--4856288 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 40
4856144 TAATTTAAAA
*
4856154 TTTATGTTA-AATATTAATAATTGATCATTT-AAATATTAATAT
1 TTTAT-TTATAAT-TTAAT-ATTAAT-ATTTAAAATATTAATAT
*
4856196 TTTATTTATAATTTAATTTTTAATATATTAAAATATTAATAT
1 TTTATTTATAATTTAA-TATTAATAT-TTAAAATATTAATAT
*
4856238 TTTATTTATAATTTAATATTAATATTTTAAAATATTAGTAT
1 TTTATTTATAATTTAATATTAATA-TTTAAAATATTAATAT
4856279 TTTA-TTATAA
1 TTTATTTATAA
4856289 GTTGGATTCA
Statistics
Matches: 84, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
40 8 0.10
41 38 0.45
42 38 0.45
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (40 bp):
TTTATTTATAATTTAATATTAATATTTAAAATATTAATAT
Found at i:4856230 original size:42 final size:41
Alignment explanation
Indices: 4856184--4856288 Score: 167
Period size: 42 Copynumber: 2.6 Consensus size: 41
4856174 TTGATCATTT
*
4856184 AAATATTAATATTTTATTTATAATTTAATTTTTAATATATTA
1 AAATATTAATATTTTATTTATAATTTAA-TATTAATATATTA
*
4856226 AAATATTAATATTTTATTTATAATTTAATATTAATATTTTA
1 AAATATTAATATTTTATTTATAATTTAATATTAATATATTA
*
4856267 AAATATTAGTATTTTA-TTATAA
1 AAATATTAATATTTTATTTATAA
4856289 GTTGGATTCA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 6 0.10
41 26 0.43
42 28 0.47
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (41 bp):
AAATATTAATATTTTATTTATAATTTAATATTAATATATTA
Found at i:4856242 original size:117 final size:116
Alignment explanation
Indices: 4855989--4856270 Score: 266
Period size: 117 Copynumber: 2.4 Consensus size: 116
4855979 ATTATATTTT
* * ** *
4855989 TTAAATATTAATAATTGATAATTTA-TTTAAAATATTAATAATTTTTAATTTGTTTAAAATATTA
1 TTAAATATTAAT-ATT--TTATTTATTTTTAAATATTAATAATTTAAAATTTATTTAAAATATTA
* * *
4856053 AAAATTGATAATTTAATTATTAATATTTTATATATAATTTAAATGTTATTACGC
63 AAAATTGATAATTTAAATATTAATATTTTATATATAATTTAAATGTTAATACGA
** * ** * *
4856107 TTATTTGTTTTTAATTTATTTTATTTTTAAATAGTAATAATTTAAAATTTATGTT-AAATATTAA
1 TTAAATATTAATATTTTA-TTTATTTTTAAATATTAATAATTTAAAATTTAT-TTAAAATATTAA
* * * * * *
4856171 TAATTGATCATTTAAATATTAATATTTTATTTATAATTTAATTTTTAATA-TA
64 AAATTGATAATTTAAATATTAATATTTTATATATAATTTAAATGTTAATACGA
* *
4856223 TTAAAATATTAATATTTTATTTATAATTT-AATATTAATATTTTAAAAT
1 TT-AAATATTAATATTTTATTTAT-TTTTAAATATTAATAATTTAAAAT
4856271 ATTAGTATTT
Statistics
Matches: 129, Mismatches: 30, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
115 2 0.02
116 28 0.22
117 90 0.70
118 9 0.07
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (116 bp):
TTAAATATTAATATTTTATTTATTTTTAAATATTAATAATTTAAAATTTATTTAAAATATTAAAA
ATTGATAATTTAAATATTAATATTTTATATATAATTTAAATGTTAATACGA
Found at i:4856273 original size:16 final size:15
Alignment explanation
Indices: 4856181--4856282 Score: 69
Period size: 16 Copynumber: 7.3 Consensus size: 15
4856171 TAATTGATCA
4856181 TTTAAATATTAATAT
1 TTTAAATATTAATAT
*
4856196 TTT--AT-TT-ATAA
1 TTTAAATATTAATAT
* *
4856207 TTTAATTTTTAATAT
1 TTTAAATATTAATAT
*
4856222 ATTAAAATATTAATAT
1 -TTTAAATATTAATAT
*
4856238 TTT--AT-TT-ATAA
1 TTTAAATATTAATAT
4856249 TTT-AATATTAATAT
1 TTTAAATATTAATAT
*
4856263 TTTAAAATATTAGTAT
1 TTT-AAATATTAATAT
4856279 TTTA
1 TTTA
4856283 TTATAAGTTG
Statistics
Matches: 67, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
11 12 0.18
12 6 0.09
13 7 0.10
14 8 0.12
15 9 0.13
16 25 0.37
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (15 bp):
TTTAAATATTAATAT
Found at i:4859155 original size:25 final size:27
Alignment explanation
Indices: 4859106--4859162 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 27
4859096 ACGTGGCTAG
4859106 GGCCATGGGATGTGATATAAGTGGCAA
1 GGCCATGGGATGTGATATAAGTGGCAA
* * *
4859133 GGCCATGGG-T-TGTTATATGTGGCTA
1 GGCCATGGGATGTGATATAAGTGGCAA
4859158 GGCCA
1 GGCCA
4859163 CAAGTGANNN
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 17 0.63
26 1 0.04
27 9 0.33
ACGTcount: A:0.23, C:0.14, G:0.37, T:0.26
Consensus pattern (27 bp):
GGCCATGGGATGTGATATAAGTGGCAA
Found at i:4861409 original size:28 final size:28
Alignment explanation
Indices: 4861365--4861527 Score: 155
Period size: 28 Copynumber: 5.6 Consensus size: 28
4861355 TGGCAGGTTT
*
4861365 AATATGTTTTTTCTTAATTTAGACAAGAA
1 AATATG-TTTGTCTTAATTTAGACAAGAA
* *
4861394 AACATGTTTATCTTAATTTAGACAAGAA
1 AATATGTTTGTCTTAATTTAGACAAGAA
*
4861422 AATATGTTTGTCTTAATTTAAGGCAAGAAA
1 AATATGTTTGTCTTAATTT-AGACAAG-AA
* * *
4861452 AATATGTTTTGTCTTAATCTAAACCAGAA
1 AATATG-TTTGTCTTAATTTAGACAAGAA
* * * * * *
4861481 AACATATATGCCTCAATTTAGACAAGAT
1 AATATGTTTGTCTTAATTTAGACAAGAA
*
4861509 AATATGTTTTGTCTAAATT
1 AATATG-TTTGTCTTAATT
4861528 AAAGACAAAA
Statistics
Matches: 107, Mismatches: 23, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
28 57 0.53
29 26 0.24
30 12 0.11
31 12 0.11
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (28 bp):
AATATGTTTGTCTTAATTTAGACAAGAA
Found at i:4861513 original size:87 final size:88
Alignment explanation
Indices: 4861365--4861527 Score: 220
Period size: 87 Copynumber: 1.9 Consensus size: 88
4861355 TGGCAGGTTT
* * * * * * *
4861365 AATATGTTTTTTCTTAATTTAGACAAGAAAACATGTTTATCTTAATTTAGACAAGAAAATATG-T
1 AATATGTTTTGTCTTAATCTAAACAAGAAAACATATATACCTCAATTTAGACAAGAAAATATGTT
*
4861429 TTGTCTTAATTTAAGGCAAGAAA
66 TTGTCTAAATTTAAGGCAAGAAA
* * *
4861452 AATATGTTTTGTCTTAATCTAAACCAGAAAACATATATGCCTCAATTTAGACAAGATAATATGTT
1 AATATGTTTTGTCTTAATCTAAACAAGAAAACATATATACCTCAATTTAGACAAGAAAATATGTT
4861517 TTGTCTAAATT
66 TTGTCTAAATT
4861528 AAAGACAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
87 53 0.83
88 11 0.17
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (88 bp):
AATATGTTTTGTCTTAATCTAAACAAGAAAACATATATACCTCAATTTAGACAAGAAAATATGTT
TTGTCTAAATTTAAGGCAAGAAA
Found at i:4862724 original size:2 final size:2
Alignment explanation
Indices: 4862717--4862742 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4862707 ACTATAGCCA
4862717 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
4862743 AGAGTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4863243 original size:20 final size:20
Alignment explanation
Indices: 4863206--4863244 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4863196 ATAGATAAGA
* *
4863206 GCCATTTATCTATTGATCTG
1 GCCATTTATCGATAGATCTG
*
4863226 GCCATTTATGGATAGATCT
1 GCCATTTATCGATAGATCT
4863245 ACTCATGTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (20 bp):
GCCATTTATCGATAGATCTG
Found at i:4870692 original size:30 final size:30
Alignment explanation
Indices: 4870656--4870723 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
4870646 TTGAAATTTG
4870656 ATATATATGTTTATATGCATTTATGTATGT
1 ATATATATGTTTATATGCATTTATGTATGT
*
4870686 ATATATATGTTTATCTGCATTTATGTATGT
1 ATATATATGTTTATATGCATTTATGTATGT
4870716 ATATATAT
1 ATATATAT
4870724 ACATACATAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.53
Consensus pattern (30 bp):
ATATATATGTTTATATGCATTTATGTATGT
Found at i:4872602 original size:8 final size:8
Alignment explanation
Indices: 4872579--4872677 Score: 94
Period size: 8 Copynumber: 12.5 Consensus size: 8
4872569 AGATTCAGCT
4872579 AGGAAGCAA
1 AGGAAG-AA
4872588 AGGAAGAA
1 AGGAAGAA
*
4872596 AGAAAGAA
1 AGGAAGAA
*
4872604 AGCAAGAA
1 AGGAAGAA
*
4872612 A-GCAGAA
1 AGGAAGAA
*
4872619 AGGAAGTA
1 AGGAAGAA
4872627 AGGAAGAA
1 AGGAAGAA
* *
4872635 AGGGAGAG
1 AGGAAGAA
*
4872643 AGG-AGGA
1 AGGAAGAA
*
4872650 AGGAAGTA
1 AGGAAGAA
4872658 AGGAAGAA
1 AGGAAGAA
*
4872666 AGGGAGAA
1 AGGAAGAA
4872674 AGGA
1 AGGA
4872678 GGAAGAAGAA
Statistics
Matches: 73, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
7 10 0.14
8 57 0.78
9 6 0.08
ACGTcount: A:0.56, C:0.03, G:0.39, T:0.02
Consensus pattern (8 bp):
AGGAAGAA
Found at i:4872620 original size:23 final size:23
Alignment explanation
Indices: 4872592--4872636 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4872582 AAGCAAAGGA
4872592 AGAAAGAAAGAAAGCAAGAAAGC
1 AGAAAGAAAGAAAGCAAGAAAGC
* * *
4872615 AGAAAGGAAGTAAGGAAGAAAG
1 AGAAAGAAAGAAAGCAAGAAAG
4872637 GGAGAGAGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.62, C:0.04, G:0.31, T:0.02
Consensus pattern (23 bp):
AGAAAGAAAGAAAGCAAGAAAGC
Found at i:4872653 original size:31 final size:31
Alignment explanation
Indices: 4872587--4872682 Score: 129
Period size: 31 Copynumber: 3.1 Consensus size: 31
4872577 CTAGGAAGCA
* * ** * *
4872587 AAGGAAGAAAGAAAGAAAGCAAGAAAGCAGA
1 AAGGAAGTAAGGAAGAAAGGGAGAAAGGAGG
*
4872618 AAGGAAGTAAGGAAGAAAGGGAGAGAGGAGG
1 AAGGAAGTAAGGAAGAAAGGGAGAAAGGAGG
4872649 AAGGAAGTAAGGAAGAAAGGGAGAAAGGAGG
1 AAGGAAGTAAGGAAGAAAGGGAGAAAGGAGG
4872680 AAG
1 AAG
4872683 AAGAAAAGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.55, C:0.02, G:0.41, T:0.02
Consensus pattern (31 bp):
AAGGAAGTAAGGAAGAAAGGGAGAAAGGAGG
Found at i:4875702 original size:8 final size:8
Alignment explanation
Indices: 4875682--4875757 Score: 73
Period size: 8 Copynumber: 9.0 Consensus size: 8
4875672 AGATTCAGCT
4875682 AGGAAGCAA
1 AGGAAG-AA
4875691 AGGAAGAA
1 AGGAAGAA
4875699 AGGAAGAA
1 AGGAAGAA
*
4875707 AGAAAGAA
1 AGGAAGAA
*
4875715 A-GCAGAA
1 AGGAAGAA
*
4875722 AGGAAAAA
1 AGGAAGAA
4875730 AGGAAGAAA
1 AGGAAG-AA
4875739 AGGGAGAGAA
1 A-GGA-AGAA
4875749 GAGGAAGAA
1 -AGGAAGAA
4875758 GAAAATAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
7 5 0.09
8 27 0.48
9 13 0.23
10 8 0.14
11 3 0.05
ACGTcount: A:0.62, C:0.03, G:0.36, T:0.00
Consensus pattern (8 bp):
AGGAAGAA
Found at i:4875721 original size:23 final size:23
Alignment explanation
Indices: 4875695--4875738 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4875685 AAGCAAAGGA
*
4875695 AGAAAGGAAGAAAGAAAGAAAGC
1 AGAAAGGAAAAAAGAAAGAAAGC
*
4875718 AGAAAGGAAAAAAGGAAGAAA
1 AGAAAGGAAAAAAGAAAGAAA
4875739 AGGGAGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (23 bp):
AGAAAGGAAAAAAGAAAGAAAGC
Found at i:4881827 original size:17 final size:17
Alignment explanation
Indices: 4881776--4881818 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
4881766 TTATTCAAAT
*
4881776 GTGATTATTCAAATTAA
1 GTGACTATTCAAATTAA
4881793 GTGACTATTCAAATTAA
1 GTGACTATTCAAATTAA
*
4881810 GTTACTATT
1 GTGACTATT
4881819 TATATTAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (17 bp):
GTGACTATTCAAATTAA
Found at i:4884735 original size:16 final size:16
Alignment explanation
Indices: 4884693--4884743 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
4884683 ATTTTTCCTC
* *
4884693 CTTTCTTCCTCTCTTT
1 CTTTCTCCCTTTCTTT
**
4884709 CTTTCAGCCTTTCTTT
1 CTTTCTCCCTTTCTTT
4884725 CTTTCTCCCTTTCTCTT
1 CTTTCTCCCTTTCT-TT
4884742 CT
1 CT
4884744 CACTTTGTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.02, C:0.37, G:0.02, T:0.59
Consensus pattern (16 bp):
CTTTCTCCCTTTCTTT
Found at i:4890397 original size:25 final size:25
Alignment explanation
Indices: 4890369--4890429 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
4890359 ATTAGGCGGT
4890369 CGTAACCACATATCACAACTTGTGG
1 CGTAACCACATATCACAACTTGTGG
*
4890394 CGTAACCGCATATCACAACTTGTGG
1 CGTAACCACATATCACAACTTGTGG
* *
4890419 CTTAGCCACAT
1 CGTAACCACAT
4890430 GTAATCACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (25 bp):
CGTAACCACATATCACAACTTGTGG
Found at i:4891640 original size:4 final size:4
Alignment explanation
Indices: 4891623--4891673 Score: 52
Period size: 4 Copynumber: 12.5 Consensus size: 4
4891613 NNNNNNNCTC
*
4891623 CTTT CTTC CTTT CTTT CTTT CTCCTT -TTT -TTT CTTT CTTT CTTT CTCTT
1 CTTT CTTT CTTT CTTT CTTT CT--TT CTTT CTTT CTTT CTTT CTTT CT-TT
4891672 CT
1 CT
4891674 CACTTTGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
3 5 0.12
4 29 0.71
5 5 0.12
6 2 0.05
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:4902060 original size:2 final size:2
Alignment explanation
Indices: 4902053--4902082 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4902043 TGAAAACAAC
4902053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4902083 GAATCGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4902151 original size:86 final size:85
Alignment explanation
Indices: 4902003--4902162 Score: 268
Period size: 86 Copynumber: 1.9 Consensus size: 85
4901993 GGACCATTTA
**
4902003 GAATTCAAAATTTTTGAAATTGTTAACCTTTTTTCATTAATGAAAACAACATATATATATATATA
1 GAATTCAAAATTTTTGAAATTGTTAACCTTTTTTCAGCAATGAAAACAACATATATATATATATA
4902068 TATATATATATATATGAATC
66 TATATATATATATATGAATC
*
4902088 GAATTCAAAATGTTTT-AAATTGTTAACCCTTTTTTTAGCAATGAAAACAACATATATATATATA
1 GAATTCAAAAT-TTTTGAAATTGTTAA-CCTTTTTTCAGCAATGAAAACAACATATATATATATA
4902152 TATATATATAT
64 TATATATATAT
4902163 CAAATTAAGG
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
85 21 0.30
86 49 0.70
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (85 bp):
GAATTCAAAATTTTTGAAATTGTTAACCTTTTTTCAGCAATGAAAACAACATATATATATATATA
TATATATATATATATGAATC
Found at i:4905334 original size:18 final size:18
Alignment explanation
Indices: 4905313--4905347 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4905303 ATATATATAT
*
4905313 ATATATATATACACACAC
1 ATATATACATACACACAC
*
4905331 ATATATACATACGCACA
1 ATATATACATACACACA
4905348 TTTTATTCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (18 bp):
ATATATACATACACACAC
Found at i:4905337 original size:2 final size:2
Alignment explanation
Indices: 4905293--4905323 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4905283 CTAGGCAACC
4905293 AT AT 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 AT AT A
4905324 CACACACATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4908820 original size:80 final size:80
Alignment explanation
Indices: 4908736--4909199 Score: 578
Period size: 80 Copynumber: 5.8 Consensus size: 80
4908726 ATAACATTTC
* * * * * *
4908736 CATAAATTATCATCATGCTTAGCTCATAGTATATATGATTATCTCAACACATACATCTCATGGCA
1 CATAAATCATCAACATGCTTAGCCCATAGTGTATATGACTATCCCAACACATACATCTCATGGCA
**
4908801 TGCATTTCAGGACCT
66 TGCATTTCATAACCT
* * * *
4908816 CATAAATCACTC-ACATGCTTAGCCTATAGTGTTTATGACTATCCCAACACCTACATCTCATGGA
1 CATAAATCA-TCAACATGCTTAGCCCATAGTGTATATGACTATCCCAACACATACATCTCATGGC
4908880 ATGCATTTCATAACCT
65 ATGCATTTCATAACCT
* * * * *
4908896 CATAAATCATTAACATGCTTAGCCCATAGTGTTTATAACTATCCCAACACCTACATCTCATGGAA
1 CATAAATCATCAACATGCTTAGCCCATAGTGTATATGACTATCCCAACACATACATCTCATGGCA
4908961 TGCATTTCATAACCT
66 TGCATTTCATAACCT
* *
4908976 CATAAATCA-CTAACATGCTTA-CCTTATAGTGTATATGACTATACCAACACATACATCTTC-TG
1 CATAAATCATC-AACATGCTTAGCC-CATAGTGTATATGACTATCCCAACACATACATC-TCATG
4909038 GCATGCATTTCATAACCT
63 GCATGCATTTCATAACCT
** *
4909056 CATAAATCACTC-TTATGCTTAGCCCATAGTGTATATGACTATCCCAACACATACATCTCATTGC
1 CATAAATCA-TCAACATGCTTAGCCCATAGTGTATATGACTATCCCAACACATACATCTCATGGC
* *
4909120 AAGCACTTCATAACCT
65 ATGCATTTCATAACCT
* ** * * *
4909136 CATAAATCAGCCCCATGCTTAGCCCATAATGAATATGACTATCCCAAAACATACATCTCATGGC
1 CATAAATCATCAACATGCTTAGCCCATAGTGTATATGACTATCCCAACACATACATCTCATGGC
4909200 GTGTTTATTA
Statistics
Matches: 338, Mismatches: 36, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
79 6 0.02
80 325 0.96
81 6 0.02
82 1 0.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.31
Consensus pattern (80 bp):
CATAAATCATCAACATGCTTAGCCCATAGTGTATATGACTATCCCAACACATACATCTCATGGCA
TGCATTTCATAACCT
Found at i:4909159 original size:240 final size:240
Alignment explanation
Indices: 4908749--4909198 Score: 645
Period size: 240 Copynumber: 1.9 Consensus size: 240
4908739 AAATTATCAT
* * *
4908749 CATGCTTAGCTCATAGTATATATGATTATCTCAACACATACATCTCATGGCATGCATTTCAGGAC
1 CATGCTTACCTCATAGTATATATGACTATCTCAACACATACATCTCATGGCATGCATTTCAGAAC
* * * *
4908814 CTCATAAATCACTCACATGCTTAGCCTATAGTGTTTATGACTATCCCAACACCTACATCTCATGG
66 CTCATAAATCACTCACATGCTTAGCCCATAGTGTATATGACTATCCCAACACATACATCTCATGC
* ** * ** *
4908879 AATGCATTTCATAACCTCATAAATCATTAACATGCTTAGCCCATAGTGTTTATAACTATCCCAAC
131 AATGCACTTCATAACCTCATAAATCAGCAACATGCTTAGCCCATAATGAATATAACTATCCCAAA
*
4908944 ACCTACATCTCATGGAATGCATTTCATAACCTCATAAATCACTAA
196 ACATACATCTCATGGAATGCATTTCATAACCTCATAAATCACTAA
* * *
4908989 CATGCTTACCTTATAGTGTATATGACTATAC-CAACACATACATCTTC-TGGCATGCATTTCATA
1 CATGCTTACCTCATAGTATATATGACTAT-CTCAACACATACATC-TCATGGCATGCATTTCAGA
**
4909052 ACCTCATAAATCACTCTTATGCTTAGCCCATAGTGTATATGACTATCCCAACACATACATCTCAT
64 ACCTCATAAATCACTCACATGCTTAGCCCATAGTGTATATGACTATCCCAACACATACATCTCA-
** *
4909117 TGCAA-GCACTTCATAACCTCATAAATCAGCCCCATGCTTAGCCCATAATGAATATGACTATCCC
128 TGCAATGCACTTCATAACCTCATAAATCAGCAACATGCTTAGCCCATAATGAATATAACTATCCC
4909181 AAAACATACATCTCATGG
193 AAAACATACATCTCATGG
4909199 CGTGTTTATT
Statistics
Matches: 184, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
240 177 0.96
241 7 0.04
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (240 bp):
CATGCTTACCTCATAGTATATATGACTATCTCAACACATACATCTCATGGCATGCATTTCAGAAC
CTCATAAATCACTCACATGCTTAGCCCATAGTGTATATGACTATCCCAACACATACATCTCATGC
AATGCACTTCATAACCTCATAAATCAGCAACATGCTTAGCCCATAATGAATATAACTATCCCAAA
ACATACATCTCATGGAATGCATTTCATAACCTCATAAATCACTAA
Found at i:4910284 original size:21 final size:21
Alignment explanation
Indices: 4910258--4910336 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
4910248 AAATTGTATC
4910258 GATACATTATGAACATATGTT
1 GATACATTATGAACATATGTT
*
4910279 GATAC---ATGACCATATGTAT
1 GATACATTATGAACATATGT-T
* * *
4910298 CGATACATCATGAACATGTATT
1 -GATACATTATGAACATATGTT
4910320 GATACATT-TGAAACATA
1 GATACATTATG-AACATA
4910337 ATGCAATTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
18 11 0.24
19 1 0.02
20 7 0.15
21 17 0.37
22 1 0.02
23 9 0.20
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
GATACATTATGAACATATGTT
Found at i:4910292 original size:18 final size:20
Alignment explanation
Indices: 4910252--4910305 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 20
4910242 CTAAAAAAAT
4910252 TGTATCGATACATTATGAACATA
1 TGTATCGATAC---ATGAACATA
*
4910275 TGT-T-GATACATGACCATA
1 TGTATCGATACATGAACATA
4910293 TGTATCGATACAT
1 TGTATCGATACAT
4910306 CATGAACATG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 11 0.39
19 1 0.04
20 7 0.25
21 5 0.18
22 1 0.04
23 3 0.11
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGAACATA
Found at i:4914723 original size:28 final size:27
Alignment explanation
Indices: 4914677--4914734 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
4914667 AAAGGCCTGA
*
4914677 AATGATGTGTGCATATGTTTGGCACCT
1 AATGATGTGTGCATATGTTTGACACCT
* *
4914704 AATGATGTAGTGCATGTGTTTGACACTT
1 AATGATGT-GTGCATATGTTTGACACCT
4914732 AAT
1 AAT
4914735 TGAATGTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (27 bp):
AATGATGTGTGCATATGTTTGACACCT
Found at i:4922253 original size:17 final size:18
Alignment explanation
Indices: 4922216--4922253 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4922206 ATAGCTAAAT
*
4922216 AAAGAAATCAGTAGAACA
1 AAAGAAATCAGAAGAACA
*
4922234 AAAGAAATCA-AAGAAGA
1 AAAGAAATCAGAAGAACA
4922251 AAA
1 AAA
4922254 TCAAGGCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.68, C:0.08, G:0.16, T:0.08
Consensus pattern (18 bp):
AAAGAAATCAGAAGAACA
Found at i:4924068 original size:26 final size:25
Alignment explanation
Indices: 4924027--4924083 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
4924017 AAAAACATAA
**
4924027 AAACTAATAAATAAATGGTAAAAAT
1 AAACTAATAAATAAATACTAAAAAT
4924052 AAACTTAATAGAA-AAATACTAAAAAT
1 AAAC-TAATA-AATAAATACTAAAAAT
4924078 -AACTAA
1 AAACTAA
4924084 ATTCTAACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 3 0.11
25 7 0.25
26 16 0.57
27 2 0.07
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (25 bp):
AAACTAATAAATAAATACTAAAAAT
Done.