Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 91 of 378
Found at i:24661816 original size:43 final size:43
Alignment explanation
Indices: 24661740--24661864 Score: 139
Period size: 42 Copynumber: 2.9 Consensus size: 43
24661730 CTCGTACAAT
* * *
24661740 GCCAACGTCTCAGACGTGGTCTTACATGTAATCAAATATCGAC
1 GCCAACATCCCAGACGTGGTCTTACATGAAATCAAATATCGAC
* *
24661783 GCC-ACTGTCCCAGACAG-GGTCTTACATGAAATCAAATAT-GAT
1 GCCAAC-ATCCCAGAC-GTGGTCTTACATGAAATCAAATATCGAC
* * *
24661825 GCCAACATCCCAGACGTGGTCTTACACGAAAACACATATC
1 GCCAACATCCCAGACGTGGTCTTACATGAAATCAAATATC
24661865 AGATCTTATG
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 34 0.49
43 34 0.49
44 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (43 bp):
GCCAACATCCCAGACGTGGTCTTACATGAAATCAAATATCGAC
Found at i:24661849 original size:42 final size:43
Alignment explanation
Indices: 24661738--24661864 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
24661728 AGCTCGTACA
* *
24661738 ATGCCAACGTCTCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
*
24661781 ACGCC-ACTGTCCCAGACAG-GGTCTTACATGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAAATATCG
* * * *
24661823 ATGCCAACATCCCAGACGTGGTCTTACACGAAAACACATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATC
24661865 AGATCTTATG
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 34 0.48
43 35 0.49
44 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
Found at i:24666886 original size:25 final size:25
Alignment explanation
Indices: 24666854--24666905 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
24666844 ATAGTAAAGG
**
24666854 GTTATTGCTTTTTGGCTG-ATTTGAT
1 GTTATTGCCATTT-GCTGAATTTGAT
24666879 GTTATTGCCATTTGCTGAATTTGAT
1 GTTATTGCCATTTGCTGAATTTGAT
24666904 GT
1 GT
24666906 GATTTTGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.15, C:0.10, G:0.23, T:0.52
Consensus pattern (25 bp):
GTTATTGCCATTTGCTGAATTTGAT
Found at i:24670134 original size:15 final size:15
Alignment explanation
Indices: 24670114--24670145 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24670104 TTATTTAAGT
24670114 TATATATAAATATTA
1 TATATATAAATATTA
*
24670129 TATATATAATTATTA
1 TATATATAAATATTA
24670144 TA
1 TA
24670146 ATTATTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATATAAATATTA
Found at i:24670152 original size:3 final size:3
Alignment explanation
Indices: 24670124--24670208 Score: 77
Period size: 3 Copynumber: 28.7 Consensus size: 3
24670114 TATATATAAA
* * * * **
24670124 TAT TA- TAT ATAT AAT TAT TAT AAT TAT TAAC CAT TAT TAT GGT T-T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
24670169 TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
24670209 AATAAAGTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
2 6 0.09
3 56 0.85
4 4 0.06
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:24671991 original size:16 final size:16
Alignment explanation
Indices: 24671972--24672002 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24671962 CTTCTTCACT
24671972 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
24671988 TACTTACTTACTTAA
1 TACTCACTTACTTAA
24672003 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:24672008 original size:20 final size:20
Alignment explanation
Indices: 24671969--24672008 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24671959 AAACTTCTTC
* *
24671969 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
24671989 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
24672009 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:24672380 original size:55 final size:55
Alignment explanation
Indices: 24672195--24672449 Score: 208
Period size: 55 Copynumber: 4.8 Consensus size: 55
24672185 ACACGGGTAC
* * * *
24672195 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-T-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * * * * ** *
24672244 CTTACCATTACCCTGTCTCGACATGGTCTTATGTGGTATACTTGCCTTAT-G-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* * *
24672297 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAGAAA
* * * * *
24672352 CTTATCAATGCCCTGTCTTGACATGGTCTTAAATGATATCCTTGCC-T-TAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
* *
24672405 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
24672450 AAACCCTAAT
Statistics
Matches: 162, Mismatches: 33, Indels: 16
0.77 0.16 0.08
Matches are distributed among these distances:
49 34 0.21
50 1 0.01
52 1 0.01
53 47 0.29
54 11 0.07
55 66 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (55 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAA
Found at i:24672396 original size:108 final size:110
Alignment explanation
Indices: 24672240--24672442 Score: 286
Period size: 108 Copynumber: 1.9 Consensus size: 110
24672230 GTATCCTTTT
* ** *
24672240 GAAACTTACCATTACCCTGTCTCGACATGGTCTTATGTGGTATACTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATACCCTGTCTCGACATGGTCTTAAATGATATACTTGCCTTA-GAAACCTCACC
24672303 AA-TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* * * * *
24672348 GAAACTTATCAATGCCCTGTCTTGACATGGTCTTAAATGATATCCTTGCCTTAGAAACCTTACCA
1 GAAACTTACCAATACCCTGTCTCGACATGGTCTTAAATGATATACTTGCCTTAGAAACCTCACCA
*
24672413 ATTTCCATGCCTTGGCATGGTCTTACATGG
66 ATTGCCATGCCTTGGCATGGTCTTACATGG
24672443 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATACCCTGTCTCGACATGGTCTTAAATGATATACTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:24673662 original size:12 final size:12
Alignment explanation
Indices: 24673645--24673671 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24673635 GGGATGTTAC
24673645 AAAGAGAAAGAA
1 AAAGAGAAAGAA
24673657 AAAGAGAAAGAA
1 AAAGAGAAAGAA
24673669 AAA
1 AAA
24673672 TAAAAGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAGAGAAAGAA
Found at i:24674616 original size:28 final size:28
Alignment explanation
Indices: 24674563--24674646 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
24674553 CACTCTGTGC
*
24674563 TATTCTGGTGTGTTTTGGATGAATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
24674592 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* * *
24674620 GATACTGGCGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
24674647 CTAGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 31 0.63
29 18 0.37
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:24680252 original size:27 final size:27
Alignment explanation
Indices: 24680222--24680298 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 27
24680212 GTACTCCCGA
24680222 TTTACAGAATTACCGTTTTACCCTC-AG
1 TTTA-AGAATTACCGTTTTACCCTCGAG
* *
24680249 TTTATAGAATTACTGTTTTACCCTCGAT
1 TTTA-AGAATTACCGTTTTACCCTCGAG
24680277 TTGTAA-AATTACCGTTTTACCC
1 TT-TAAGAATTACCGTTTTACCC
24680299 CCGTTTTACC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 38 0.86
28 4 0.09
29 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (27 bp):
TTTAAGAATTACCGTTTTACCCTCGAG
Found at i:24680277 original size:54 final size:54
Alignment explanation
Indices: 24680219--24680596 Score: 402
Period size: 54 Copynumber: 6.8 Consensus size: 54
24680209 AAAGTACTCC
* *
24680219 CGATTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACTGTTTTACCCT
1 CGATTTACAAAATTACCGTTTTACCCTCGA-TTTATAGAATTACCGTTTTACCCT
*
24680273 CGATTTGTA-AAATTACCGTTTTACCCCCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCC
1 CGA-TT-TACAAA--A-----TTA---CCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCC
24680337 T
54 T
**
24680338 CGATTTGTAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
** * * * * *
24680392 CGATTTGTAAAATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCCC
1 CGATTTACAAAATTACCGTTTTACCCTC-GATTTATAGAATTACCGTTTTACCCT
* * *
24680446 CGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
* * *
24680500 CGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
* * * * *
24680554 TGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 CGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTAC
24680597 TAAAATACCC
Statistics
Matches: 282, Mismatches: 26, Indels: 32
0.83 0.08 0.09
Matches are distributed among these distances:
53 1 0.00
54 219 0.78
55 5 0.02
56 2 0.01
57 4 0.01
62 4 0.01
63 1 0.00
64 5 0.02
65 40 0.14
66 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (54 bp):
CGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
Found at i:24680314 original size:38 final size:38
Alignment explanation
Indices: 24680263--24680336 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
24680253 TAGAATTACT
*
24680263 GTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCCC
1 GTTTTACCCTCGATTTATAAAATTACCGTTTTACCCCC
* *
24680301 GTTTTACCCTCGATTTATAGAATTACTGTTTTACCC
1 GTTTTACCCTCGATTTATAAAATTACCGTTTTACCC
24680337 TCGATTTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.42
Consensus pattern (38 bp):
GTTTTACCCTCGATTTATAAAATTACCGTTTTACCCCC
Found at i:24680379 original size:92 final size:92
Alignment explanation
Indices: 24680219--24680552 Score: 277
Period size: 81 Copynumber: 3.9 Consensus size: 92
24680209 AAAGTACTCC
* * *
24680219 CGATTTACAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTGTTTTACCCTCGATTTGTAAA
1 CGATTTACAGAATTACCGTTTTACCCTCAGTTTATAAAATTACCGTTTTACCCTCGATTTATAAA
24680284 ATTACCGTTTTACCCCCGTTTTACCCT
66 ATTACCGTTTTACCCCCGTTTTACCCT
* * * *
24680311 CGATTTATAGAATTACTGTTTTACCCTC-GATTTGTAAAATTACCGTTTTACCCTCGATTTATAG
1 CGATTTACAGAATTACCGTTTTACCCTCAG-TTTATAAAATTACCGTTTTACCCTCGATTTATAA
* *
24680375 AATTACCGTTTTACCCTCG-ATT----T
65 AATTACCGTTTTACCCCCGTTTTACCCT
* * * * * * *
24680398 -G---TA-A-AATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCCCCGATTTACAT
1 CGATTTACAGAATTACCGTTTTACCCTC-AGTTTATAAAATTACCGTTTTACCCTCGATTTATAA
24680456 AATTA------T-----CGTTTTACCCT
65 AATTACCGTTTTACCCCCGTTTTACCCT
* * * *
24680473 CGATTTACAGAATTACCGTTTTACCCTC-GATTTACAGAATTACCATTTTACCCTCGATTTATAG
1 CGATTTACAGAATTACCGTTTTACCCTCAG-TTTATAAAATTACCGTTTTACCCTCGATTTATAA
*
24680537 AATTACTGTTTTACCC
65 AATTACCGTTTTACCC
24680553 TTGATTTACA
Statistics
Matches: 192, Mismatches: 24, Indels: 53
0.71 0.09 0.20
Matches are distributed among these distances:
70 2 0.01
71 2 0.01
75 2 0.01
76 1 0.01
79 2 0.01
80 2 0.01
81 98 0.51
82 2 0.01
83 2 0.01
86 1 0.01
87 2 0.01
91 3 0.02
92 73 0.38
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (92 bp):
CGATTTACAGAATTACCGTTTTACCCTCAGTTTATAAAATTACCGTTTTACCCTCGATTTATAAA
ATTACCGTTTTACCCCCGTTTTACCCT
Found at i:24680597 original size:27 final size:27
Alignment explanation
Indices: 24680299--24680596 Score: 391
Period size: 27 Copynumber: 11.0 Consensus size: 27
24680289 CGTTTTACCC
*
24680299 CCGTTTTACCCTCGATTTATAGAATTA
1 CCGTTTTACCCTCGATTTACAGAATTA
* ** *
24680326 CTGTTTTACCCTCGATTTGTAAAATTA
1 CCGTTTTACCCTCGATTTACAGAATTA
*
24680353 CCGTTTTACCCTCGATTTATAGAATTA
1 CCGTTTTACCCTCGATTTACAGAATTA
** *
24680380 CCGTTTTACCCTCGATTTGTAAAATTA
1 CCGTTTTACCCTCGATTTACAGAATTA
* *
24680407 CCGTTTTACCC-CTAATTTACATAATTA
1 CCGTTTTACCCTC-GATTTACAGAATTA
* * *
24680434 CCATTTTACCCCCGATTTACATAATTA
1 CCGTTTTACCCTCGATTTACAGAATTA
*
24680461 TCGTTTTACCCTCGATTTACAGAATTA
1 CCGTTTTACCCTCGATTTACAGAATTA
24680488 CCGTTTTACCCTCGATTTACAGAATTA
1 CCGTTTTACCCTCGATTTACAGAATTA
* *
24680515 CCATTTTACCCTCGATTTATAGAATTA
1 CCGTTTTACCCTCGATTTACAGAATTA
* *
24680542 CTGTTTTACCCTTGATTTACAGAATTA
1 CCGTTTTACCCTCGATTTACAGAATTA
* *
24680569 CTGTTTTACCCTCGATTTACAAAATTA
1 CCGTTTTACCCTCGATTTACAGAATTA
24680596 C
1 C
24680597 TAAAATACCC
Statistics
Matches: 242, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 240 0.99
28 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
CCGTTTTACCCTCGATTTACAGAATTA
Found at i:24680633 original size:81 final size:81
Alignment explanation
Indices: 24680305--24680640 Score: 271
Period size: 81 Copynumber: 4.1 Consensus size: 81
24680295 ACCCCCGTTT
* * ** ****
24680305 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
***
24680370 TATAGAATTACCGTTT
66 TATAGAATTACCGCAA
** * * * *** *
24680386 TACCCTCGATTTGTAAAATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCCCCGAT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTC-GATTTACAAAATTACCAAAATACCCTCGAT
* * * ***
24680450 TTACATAATTATCGTTT
65 TTATAGAATTACCGCAA
* ***
24680467 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* ***
24680532 TATAGAATTACTGTTT
66 TATAGAATTACCGCAA
* * * * *
24680548 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
*
24680613 TGT-GAAATTACCGCAA
66 TATAG-AATTACCGCAA
*
24680629 TACCCTCAATTT
1 TACCCTCGATTT
24680641 GTAAAACTAC
Statistics
Matches: 214, Mismatches: 38, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
80 2 0.01
81 211 0.99
82 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAGAATTACCGCAA
Found at i:24681863 original size:25 final size:25
Alignment explanation
Indices: 24681835--24681882 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24681825 TTATACCATG
* * *
24681835 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
24681860 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
24681883 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:24681985 original size:20 final size:20
Alignment explanation
Indices: 24681925--24681985 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
24681915 ATAAATATGG
*
24681925 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
24681945 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
24681965 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
24681985 T
1 T
24681986 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:24682062 original size:24 final size:24
Alignment explanation
Indices: 24682035--24682177 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
24682025 GAGGAAGTGA
24682035 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
24682059 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
24682083 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
24682106 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
24682130 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
24682154 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
24682178 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:24682128 original size:47 final size:47
Alignment explanation
Indices: 24682035--24682177 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
24682025 GAGGAAGTGA
24682035 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
24682083 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
24682130 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
24682178 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:24682151 original size:71 final size:72
Alignment explanation
Indices: 24682035--24682178 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
24682025 GAGGAAGTGA
*
24682035 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
24682098 CCAGTTAT
65 CCAGTTAT
** * *
24682106 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
24682171 CAGTTAT
66 CAGTTAT
24682178 A
1 A
24682179 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:24682404 original size:31 final size:31
Alignment explanation
Indices: 24682369--24682432 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
24682359 CGTTTACAGT
24682369 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
24682400 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
24682431 AA
1 AA
24682433 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:24688754 original size:20 final size:20
Alignment explanation
Indices: 24688726--24688763 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24688716 TACATTAAGT
24688726 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
24688746 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
24688764 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:24698761 original size:8 final size:9
Alignment explanation
Indices: 24698710--24698768 Score: 66
Period size: 10 Copynumber: 6.3 Consensus size: 9
24698700 TATTTAAGTC
24698710 TAAAAATTA
1 TAAAAATTA
24698719 TTAAAATATTA
1 -TAAAA-ATTA
*
24698730 TAAGAATTA
1 TAAAAATTA
*
24698739 TTAAAAACTA
1 -TAAAAATTA
24698749 TAAAAATTA
1 TAAAAATTA
24698758 -AAAAATTA
1 TAAAAATTA
24698766 TAA
1 TAA
24698769 TTTTTGTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
8 8 0.19
9 14 0.33
10 16 0.38
11 4 0.10
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:24698850 original size:27 final size:26
Alignment explanation
Indices: 24698803--24698862 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
24698793 TGAAAAATAA
* * *
24698803 TAAAACATTATAAATATTAG-AAATT
1 TAAAAAATTATAAAAAATAGAAAATT
24698828 GTAAAAAATTATAAAAAAATAGAAAATT
1 -TAAAAAATTAT-AAAAAATAGAAAATT
24698856 TAAAAAA
1 TAAAAAA
24698863 ATAATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 14 0.48
28 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (26 bp):
TAAAAAATTATAAAAAATAGAAAATT
Found at i:24698861 original size:17 final size:18
Alignment explanation
Indices: 24698832--24698865 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24698822 GAAATTGTAA
24698832 AAAATTATAAAAAAATAG
1 AAAATTATAAAAAAATAG
24698850 AAAATT-TAAAAAAATA
1 AAAATTATAAAAAAATA
24698866 ATTAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAATTATAAAAAAATAG
Found at i:24699505 original size:24 final size:24
Alignment explanation
Indices: 24699477--24699522 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
24699467 TCTTTTATCA
*
24699477 TTTTATTA-TTTTTATATAATTTCT
1 TTTTATAATTTTTTA-ATAATTTCT
24699501 TTTTATAATTTTTTAATAATTT
1 TTTTATAATTTTTTAATAATTT
24699523 TTCTACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTATAATTTTTTAATAATTTCT
Found at i:24704647 original size:22 final size:23
Alignment explanation
Indices: 24704622--24704682 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
24704612 AGCACATGTA
* *
24704622 GGGTTCGCATAAATA-ACATATT
1 GGGTTTGCATAAATATACATATG
* *
24704644 GGGTTTGCAT-GATATTCATATG
1 GGGTTTGCATAAATATACATATG
24704666 GGGTTTGCATAAATATA
1 GGGTTTGCATAAATATA
24704683 ATAAGGGATT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 3 0.10
22 24 0.77
23 4 0.13
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (23 bp):
GGGTTTGCATAAATATACATATG
Found at i:24704914 original size:27 final size:27
Alignment explanation
Indices: 24704877--24704930 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
24704867 GTGTTTGAAT
*
24704877 ACAGGGACTCACTTATAGAGGTTCGCA
1 ACAGGGACTCACCTATAGAGGTTCGCA
* *
24704904 ACAGGGGCTCACCTATAGGGGTTCGCA
1 ACAGGGACTCACCTATAGAGGTTCGCA
24704931 TTCAAGGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (27 bp):
ACAGGGACTCACCTATAGAGGTTCGCA
Found at i:24705579 original size:24 final size:24
Alignment explanation
Indices: 24705551--24705597 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
24705541 CTAAATTTTA
24705551 TTCCTATTTCTTCTAGCCCTATTT
1 TTCCTATTTCTTCTAGCCCTATTT
24705575 TTCCTATTTCTTCTAGCCCTATT
1 TTCCTATTTCTTCTAGCCCTATT
24705598 CTTAGGATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.13, C:0.30, G:0.04, T:0.53
Consensus pattern (24 bp):
TTCCTATTTCTTCTAGCCCTATTT
Found at i:24721944 original size:17 final size:17
Alignment explanation
Indices: 24721918--24721951 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24721908 TCTCTCTCTC
24721918 TTTTACTTATTTTTTAT
1 TTTTACTTATTTTTTAT
*
24721935 TTTTATTTATTTTTTAT
1 TTTTACTTATTTTTTAT
24721952 AGTAACATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTACTTATTTTTTAT
Found at i:24722658 original size:14 final size:16
Alignment explanation
Indices: 24722618--24722661 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
24722608 TTTTCAACAT
*
24722618 AAATTAAACCAAATTCA
1 AAATTAAA-TAAATTCA
24722635 AAATTAAATAAATT-A
1 AAATTAAATAAATTCA
24722650 AAA-TAAATAAAT
1 AAATTAAATAAAT
24722662 ATGGGTTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
16 5 0.19
17 8 0.31
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATTAAATAAATTCA
Found at i:24728842 original size:13 final size:13
Alignment explanation
Indices: 24728826--24728860 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
24728816 AAGTGTAGAA
24728826 AAAAAGGAAAAAG
1 AAAAAGGAAAAAG
24728839 AAAAAGG-AAAAG
1 AAAAAGGAAAAAG
*
24728851 AAAAAAGAAA
1 AAAAAGGAAA
24728861 TATTGAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAGGAAAAAG
Found at i:24731356 original size:32 final size:32
Alignment explanation
Indices: 24731315--24731406 Score: 166
Period size: 32 Copynumber: 2.9 Consensus size: 32
24731305 TTCAATCATT
24731315 TCAATATCCAACAAGCTTAAAACATAATAAAG
1 TCAATATCCAACAAGCTTAAAACATAATAAAG
*
24731347 TCAATATCCAACAAGCTTAAAACATAATAAAT
1 TCAATATCCAACAAGCTTAAAACATAATAAAG
*
24731379 TCAATATCTAACAAGCTTAAAACATAAT
1 TCAATATCCAACAAGCTTAAAACATAAT
24731407 CAATATCTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.52, C:0.18, G:0.04, T:0.25
Consensus pattern (32 bp):
TCAATATCCAACAAGCTTAAAACATAATAAAG
Found at i:24731430 original size:27 final size:27
Alignment explanation
Indices: 24731315--24731433 Score: 78
Period size: 32 Copynumber: 4.0 Consensus size: 27
24731305 TTCAATCATT
* *
24731315 TCAATATCCAACAAGCTTAAAACATAATAAA
1 TCAATATCTAACAAGATTAAAAC---AT-AA
* *
24731346 GTCAATATCCAACAAGCTTAAAACATAATAAA
1 -TCAATATCTAACAAGATTAAAAC---AT-AA
*
24731378 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
24731406 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
24731433 T
1 T
24731434 AATTTCAAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.02
27 23 0.28
28 2 0.02
29 2 0.02
32 53 0.65
ACGTcount: A:0.52, C:0.18, G:0.04, T:0.25
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:24735489 original size:17 final size:17
Alignment explanation
Indices: 24735467--24735519 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
24735457 TCTTCAACAG
24735467 ACAGATGCAAAATCCAA
1 ACAGATGCAAAATCCAA
*
24735484 ACAGAT--TAAA--CAA
1 ACAGATGCAAAATCCAA
24735497 ACAGATGCAAAATCCAA
1 ACAGATGCAAAATCCAA
24735514 ACAGAT
1 ACAGAT
24735520 TCTTCAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 9 0.30
15 6 0.20
17 15 0.50
ACGTcount: A:0.55, C:0.21, G:0.11, T:0.13
Consensus pattern (17 bp):
ACAGATGCAAAATCCAA
Found at i:24735501 original size:30 final size:30
Alignment explanation
Indices: 24735462--24735520 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
24735452 AAGATTCTTC
*
24735462 AACAGACAGATGCAAAATCCAAACAGATTA
1 AACAAACAGATGCAAAATCCAAACAGATTA
24735492 AACAAACAGATGCAAAATCCAAACAGATT
1 AACAAACAGATGCAAAATCCAAACAGATT
24735521 CTTCAACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.54, C:0.20, G:0.12, T:0.14
Consensus pattern (30 bp):
AACAAACAGATGCAAAATCCAAACAGATTA
Found at i:24745567 original size:23 final size:21
Alignment explanation
Indices: 24745531--24745589 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
24745521 AGAATACTAA
24745531 AATAATAAATAATAAATAAAGG
1 AATAAT-AATAATAAATAAAGG
*
24745553 AATGATATAATAAT-AATAAAGT
1 AAT-A-ATAATAATAAATAAAGG
*
24745575 AATACTAATAATAAA
1 AATAATAATAATAAA
24745590 ATACCAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 13 0.41
23 7 0.22
24 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (21 bp):
AATAATAATAATAAATAAAGG
Found at i:24745776 original size:24 final size:24
Alignment explanation
Indices: 24745729--24745778 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
24745719 AAGGGTAAAG
* *
24745729 AAATAAATAAATGAACGAATATAT
1 AAATAAATAAATAAACGAAAATAT
24745753 AAATAAATAAATAAAAC-AAAATAT
1 AAATAAATAAAT-AAACGAAAATAT
24745777 AA
1 AA
24745779 CAATACATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (24 bp):
AAATAAATAAATAAACGAAAATAT
Found at i:24747493 original size:24 final size:24
Alignment explanation
Indices: 24747466--24747514 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
24747456 ATATGATTTG
*
24747466 AAAATAATAATAATAACACATGCA
1 AAAATAATAATAATAAAACATGCA
24747490 AAAATAATAATAATAAAACATGCA
1 AAAATAATAATAATAAAACATGCA
24747514 A
1 A
24747515 TATTTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.65, C:0.10, G:0.04, T:0.20
Consensus pattern (24 bp):
AAAATAATAATAATAAAACATGCA
Found at i:24749332 original size:28 final size:30
Alignment explanation
Indices: 24749300--24749361 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
24749290 GATAATTTCA
24749300 ATATA-AATTATTCAATTTATTT-TA-TTAT
1 ATATATAATTATT-AATTTATTTATATTTAT
* *
24749328 ATATATATTTATTTATTTATTTATATTTAT
1 ATATATAATTATTAATTTATTTATATTTAT
24749358 ATAT
1 ATAT
24749362 TTTTGTTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 13 0.45
29 8 0.28
30 8 0.28
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (30 bp):
ATATATAATTATTAATTTATTTATATTTAT
Found at i:24749339 original size:20 final size:19
Alignment explanation
Indices: 24749314--24749357 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
24749304 AAATTATTCA
24749314 ATTTATTTTATTATATATAT
1 ATTTATTTTATT-TATATAT
*
24749334 ATTTA-TTTATTTATTTAT
1 ATTTATTTTATTTATATAT
24749352 ATTTAT
1 ATTTAT
24749358 ATATTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 11 0.50
19 6 0.27
20 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTATTTTATTTATATAT
Found at i:24749351 original size:24 final size:24
Alignment explanation
Indices: 24749314--24749363 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
24749304 AAATTATTCA
24749314 ATTTATTTTATTATATATATATTT
1 ATTTATTTTATTATATATATATTT
* *
24749338 ATTTA-TTTATT-TATATTTATAT
1 ATTTATTTTATTATATATATATTT
24749360 ATTT
1 ATTT
24749364 TTGTTTGCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.54
23 6 0.25
24 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
ATTTATTTTATTATATATATATTT
Found at i:24749701 original size:81 final size:82
Alignment explanation
Indices: 24749507--24749821 Score: 363
Period size: 82 Copynumber: 3.8 Consensus size: 82
24749497 CTTTGAATAA
* * * * *
24749507 AATCTGTTTCGGGATTTATTCCCAG-CGATCAACATATTTTATTCCATTTTTTATTTTGTTT-TC
1 AATCTGTTTCGGGATTTATTCACAGCCGTTTAACATATTTTATTCTA-TTTTAATTTTGTTTCT-
*
24749570 AAATGAGAAATTAAAATTAAAT
64 AAAT-A-AAATT-AAATTGAAT
*
24749592 AAAATTTGTTTCGGGATTTATTCAC-GCCGTTTAACATATTTTATTCTATTTTAATTTTGTTTCT
1 --AATCTGTTTCGGGATTTATTCACAGCCGTTTAACATATTTTATTCTATTTTAATTTTGTTTCT
24749656 AAATAAAATTAAATTGAAT
64 AAATAAAATTAAATTGAAT
* * *
24749675 AATCTGTTTTGGGATTTATTCAC-GCCGTTTAACAGATTTTATTCTATTTTAATTTTGTTTCCAA
1 AATCTGTTTCGGGATTTATTCACAGCCGTTTAACATATTTTATTCTATTTTAATTTTGTTT-CTA
*
24749739 AATAGAATTAAATTGAAT
65 AATAAAATTAAATTGAAT
* * * * *
24749757 AATCTGTTTTGGGATTTATTC-CAGTCATTTAACAAATTTTATT-TGATTTTGATTTTGTTTCTA
1 AATCTGTTTCGGGATTTATTCACAGCCGTTTAACATATTTTATTCT-ATTTTAATTTTGTTTCTA
24749820 AA
65 AA
24749822 CGAGAAGGCT
Statistics
Matches: 206, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
81 63 0.31
82 71 0.34
83 8 0.04
84 5 0.02
85 1 0.00
86 18 0.09
87 40 0.19
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (82 bp):
AATCTGTTTCGGGATTTATTCACAGCCGTTTAACATATTTTATTCTATTTTAATTTTGTTTCTAA
ATAAAATTAAATTGAAT
Found at i:24749963 original size:77 final size:78
Alignment explanation
Indices: 24749799--24749974 Score: 194
Period size: 77 Copynumber: 2.2 Consensus size: 78
24749789 CAAATTTTAT
* * *
24749799 TTGATTTTGATTTTGTTTCTAAACGAGAAGGCTTAATCAAATAATTATGTTTCGAGATTTATTCC
1 TTGATTTTGATTTTGTTTCCAAAC--GAAGACTTAATCAAATAATTATGTTTCGAGATTTAATCC
* * *
24749864 CGTCGCTTAACAGAT
64 CGTCGATTAACAAAC
* * * * * **
24749879 TTTATTTTGATTTTGTTTCCAAAC-AAGATTTAATTAAATAATTTTGTTTCGGGATTTAATCTTG
1 TTGATTTTGATTTTGTTTCCAAACGAAGACTTAATCAAATAATTATGTTTCGAGATTTAATCCCG
24749943 TC-ATTCAACAAAC
66 TCGATT-AACAAAC
24749956 TTGATTTTGATTTTGTTTC
1 TTGATTTTGATTTTGTTTC
24749975 ATAATTTTAA
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
76 2 0.02
77 57 0.70
80 22 0.27
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.47
Consensus pattern (78 bp):
TTGATTTTGATTTTGTTTCCAAACGAAGACTTAATCAAATAATTATGTTTCGAGATTTAATCCCG
TCGATTAACAAAC
Found at i:24750550 original size:184 final size:184
Alignment explanation
Indices: 24750241--24750583 Score: 641
Period size: 184 Copynumber: 1.9 Consensus size: 184
24750231 ACAAAAGTTG
*
24750241 ATAAGTTTTCTAATTCTAGTTTTGTTTCTTAACAGAAAATGGAAACTCCTAACAATTCAATCAAT
1 ATAAGTTTTCTAATTCTAGTTTTGTTTCTTAACAGAAAATGGAAACTCCCAACAATTCAATCAAT
24750306 TCACAATTTGAAGCTTTGGTTCAAGCGCAATCTTCGATCCAAAACTCAGTGTTACCGGTGGCAGC
66 TCACAATTTGAAGCTTTGGTTCAAGCGCAATCTTCGATCCAAAACTCAGTGTTACCGGTGGCAGC
*
24750371 TGCTGTAAGTGTAACAACTAGTTTTCAGTTTGTGGTTCACTTTTAGAAATAGAT
131 TACTGTAAGTGTAACAACTAGTTTTCAGTTTGTGGTTCACTTTTAGAAATAGAT
*
24750425 ATAAGTTTTCTAATTCTAGTTTTGTTTCTTAACAGAAAATGGAAACTCCCACCAATTCAATCAAT
1 ATAAGTTTTCTAATTCTAGTTTTGTTTCTTAACAGAAAATGGAAACTCCCAACAATTCAATCAAT
* *
24750490 TCGCAATTTGAAGCTTTGGTTCAAGCGCAATCTTCGATCCAAAACTTAGTGTTACCGGTGGCAGC
66 TCACAATTTGAAGCTTTGGTTCAAGCGCAATCTTCGATCCAAAACTCAGTGTTACCGGTGGCAGC
24750555 TACTGTAAGTGTAACAACTAGTTTTCAGT
131 TACTGTAAGTGTAACAACTAGTTTTCAGT
24750584 AAAATTGGAA
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
184 154 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (184 bp):
ATAAGTTTTCTAATTCTAGTTTTGTTTCTTAACAGAAAATGGAAACTCCCAACAATTCAATCAAT
TCACAATTTGAAGCTTTGGTTCAAGCGCAATCTTCGATCCAAAACTCAGTGTTACCGGTGGCAGC
TACTGTAAGTGTAACAACTAGTTTTCAGTTTGTGGTTCACTTTTAGAAATAGAT
Found at i:24750671 original size:8 final size:8
Alignment explanation
Indices: 24750658--24750684 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
24750648 TTTTATGATC
24750658 TATAGAAT
1 TATAGAAT
24750666 TATAGAAT
1 TATAGAAT
24750674 TATAGAAT
1 TATAGAAT
24750682 TAT
1 TAT
24750685 CGTGTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (8 bp):
TATAGAAT
Found at i:24752991 original size:25 final size:25
Alignment explanation
Indices: 24752926--24752981 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
24752916 TCCATCGGCC
24752926 TATTCTGTGCAAATGGTAAAAATTA
1 TATTCTGTGCAAATGGTAAAAATTA
24752951 TATTCTGTGCAAATGGTAAAAATTA
1 TATTCTGTGCAAATGGTAAAAATTA
24752976 -ATTCTG
1 TATTCTG
24752982 GTTATAATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.19
25 25 0.81
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (25 bp):
TATTCTGTGCAAATGGTAAAAATTA
Found at i:24756932 original size:20 final size:20
Alignment explanation
Indices: 24756904--24756952 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
24756894 ATGTATCCTG
*
24756904 ATTTTATTTGATTATAATCA
1 ATTTGATTTGATTATAATCA
* *
24756924 ATTTGATTTTATTTTAATCA
1 ATTTGATTTGATTATAATCA
*
24756944 AATTGATTT
1 ATTTGATTT
24756953 AATTGCCCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (20 bp):
ATTTGATTTGATTATAATCA
Found at i:24758211 original size:2 final size:2
Alignment explanation
Indices: 24758204--24758269 Score: 59
Period size: 2 Copynumber: 33.5 Consensus size: 2
24758194 TCATTGATGC
* *
24758204 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AA ACT AT -T A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
24758245 AT -T AT AT AT -T AT AT GAT AT GAT AT A
1 AT AT AT AT AT AT AT AT -AT AT -AT AT A
24758270 ACATTATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
1 4 0.08
2 44 0.83
3 5 0.09
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:24758227 original size:20 final size:18
Alignment explanation
Indices: 24758204--24758284 Score: 75
Period size: 16 Copynumber: 4.6 Consensus size: 18
24758194 TCATTGATGC
24758204 ATATATATATAT-ACA-T
1 ATATATATATATAACATT
24758220 ATATATATATATAAACTATT
1 ATATATATATAT-AAC-ATT
*
24758240 A-ATATAT-TAT-ATATT
1 ATATATATATATAACATT
24758255 ATATGATATGATATAACATT
1 ATAT-ATAT-ATATAACATT
24758275 ATATA-ATATA
1 ATATATATATA
24758285 GTAAGAGGGT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
15 4 0.07
16 15 0.28
17 7 0.13
18 7 0.13
19 11 0.20
20 10 0.19
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (18 bp):
ATATATATATATAACATT
Found at i:24758370 original size:17 final size:17
Alignment explanation
Indices: 24758345--24758382 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
24758335 ATTTTAACCA
24758345 ATATAATAAATAA-TAAT
1 ATATAAT-AATAATTAAT
*
24758362 ATATGATAATAATTAAT
1 ATATAATAATAATTAAT
24758379 ATAT
1 ATAT
24758383 TATATATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATAATAATAATTAAT
Found at i:24759133 original size:16 final size:15
Alignment explanation
Indices: 24759091--24759166 Score: 59
Period size: 16 Copynumber: 5.0 Consensus size: 15
24759081 GTTCTAAGCC
*
24759091 CGAATCTCAAAAAATT
1 CGAA-CTCAAAAAAAT
* *
24759107 C-AAGTCTAAAAAAT
1 CGAACTCAAAAAAAT
24759121 CCGAACT-AAAAAATAT
1 -CGAACTCAAAAAA-AT
24759137 -GAACTCAAAAAAATT
1 CGAACTCAAAAAAA-T
*
24759152 CAAACTCAAAAAAAT
1 CGAACTCAAAAAAAT
24759167 TCGAGTATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.29
15 16 0.33
16 18 0.38
ACGTcount: A:0.58, C:0.17, G:0.05, T:0.20
Consensus pattern (15 bp):
CGAACTCAAAAAAAT
Found at i:24759167 original size:16 final size:16
Alignment explanation
Indices: 24759138--24759168 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24759128 AAAAAATATG
24759138 AACTCAAAAAAATTCA
1 AACTCAAAAAAATTCA
24759154 AACTCAAAAAAATTC
1 AACTCAAAAAAATTC
24759169 GAGTATGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (16 bp):
AACTCAAAAAAATTCA
Found at i:24760486 original size:2 final size:2
Alignment explanation
Indices: 24760479--24760508 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24760469 AAAAGTAGAA
24760479 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
24760509 TAAATCTCGA
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:24761828 original size:113 final size:113
Alignment explanation
Indices: 24761668--24761877 Score: 300
Period size: 113 Copynumber: 1.9 Consensus size: 113
24761658 TAGTCACTAT
** * * **
24761668 ATATTTAGCTGATTTGTTTTAGGGTTCATAAGAAATTGTGTGATTTTTTATATTTTTT-AATT-G
1 ATATTTAGCCAATTTATTTTAGGGTTAATAAGAAATTAAGTGATTTTTTAT-TTTTTTAAATTAG
24761731 AATATTGATGAAACATTTCTTTCCCATGCGTGAAATGTATTCGGATAAGC
65 -ATATTGATGAAACATTTCTTTCCCATGCGTGAAATGTATTCGGATAAGC
24761781 ATATTTAGCCAATTTATTTTAGGGTTAATAAGAAATTAAG-GATTTTTTTATTTTTTTAAATTAG
1 ATATTTAGCCAATTTATTTTAGGGTTAATAAGAAATTAAGTGA-TTTTTTATTTTTTTAAATTAG
* *
24761845 ATATTGATGAAATATTTCTTTTCCATGCGTGAA
65 ATATTGATGAAACATTTCTTTCCCATGCGTGAA
24761878 TATTAGAGTA
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
112 8 0.09
113 77 0.90
114 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (113 bp):
ATATTTAGCCAATTTATTTTAGGGTTAATAAGAAATTAAGTGATTTTTTATTTTTTTAAATTAGA
TATTGATGAAACATTTCTTTCCCATGCGTGAAATGTATTCGGATAAGC
Found at i:24762275 original size:30 final size:29
Alignment explanation
Indices: 24762226--24762285 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
24762216 AAATTGTATA
24762226 TGGGTAAATTTTATTTTTTTTAATTATTG
1 TGGGTAAATTTTATTTTTTTTAATTATTG
24762255 TGGGTAAATTTTATTTTTTTTAATTATTG
1 TGGGTAAATTTTATTTTTTTTAATTATTG
24762284 TG
1 TG
24762286 TTGGCTAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (29 bp):
TGGGTAAATTTTATTTTTTTTAATTATTG
Found at i:24764028 original size:10 final size:10
Alignment explanation
Indices: 24764013--24764039 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
24764003 TACTCCTTCA
24764013 AGCTCAAATC
1 AGCTCAAATC
24764023 AGCTCAAATC
1 AGCTCAAATC
24764033 AGCTCAA
1 AGCTCAA
24764040 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:24765683 original size:12 final size:11
Alignment explanation
Indices: 24765666--24765696 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
24765656 CAAGTTTGAA
24765666 AAAAAAAATCCG
1 AAAAAAAAT-CG
24765678 AAAAAAAATCG
1 AAAAAAAATCG
24765689 AAAAAAAA
1 AAAAAAAA
24765697 AAGTGATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.77, C:0.10, G:0.06, T:0.06
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:24765697 original size:12 final size:13
Alignment explanation
Indices: 24765665--24765697 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
24765655 ACAAGTTTGA
24765665 AAAAAAAAATCCG
1 AAAAAAAAATCCG
24765678 -AAAAAAAAT-CG
1 AAAAAAAAATCCG
24765689 AAAAAAAAA
1 AAAAAAAAA
24765698 AGTGATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 17 0.89
ACGTcount: A:0.79, C:0.09, G:0.06, T:0.06
Consensus pattern (13 bp):
AAAAAAAAATCCG
Found at i:24770869 original size:10 final size:10
Alignment explanation
Indices: 24770854--24770880 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
24770844 TACTCCTTCA
24770854 AGCTCAAATC
1 AGCTCAAATC
24770864 AGCTCAAATC
1 AGCTCAAATC
24770874 AGCTCAA
1 AGCTCAA
24770881 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:24774191 original size:51 final size:51
Alignment explanation
Indices: 24774090--24774235 Score: 141
Period size: 51 Copynumber: 2.7 Consensus size: 51
24774080 TAACCCTCAA
* * * * *
24774090 CACCCTCACCACCTATACTACCAGCGACCTCACCACCCTTACCTTCACCCTCTCCCT
1 CACCCTCACCACATTTACTACCAACAACCTCACCA-CC---CC-T-ACCCTCACCCT
* *
24774147 CGCCCTCACCAC-TATTACTGCCAACAACCTCACCACCCCTACCCTCACCCT
1 CACCCTCACCACAT-TTACTACCAACAACCTCACCACCCCTACCCTCACCCT
* *
24774198 CACTCTTACCACATTTACTACCAACAACCTCACCACCC
1 CACCCTCACCACATTTACTACCAACAACCTCACCACCC
24774236 TCACCACCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
51 42 0.55
52 2 0.03
53 2 0.03
56 3 0.04
57 28 0.36
ACGTcount: A:0.25, C:0.53, G:0.03, T:0.20
Consensus pattern (51 bp):
CACCCTCACCACATTTACTACCAACAACCTCACCACCCCTACCCTCACCCT
Found at i:24774931 original size:16 final size:16
Alignment explanation
Indices: 24774910--24774941 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24774900 CAAAGTTATC
24774910 AACAACAACAAATAGA
1 AACAACAACAAATAGA
*
24774926 AACAACAACCAATAGA
1 AACAACAACAAATAGA
24774942 CATATTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.22, G:0.06, T:0.06
Consensus pattern (16 bp):
AACAACAACAAATAGA
Found at i:24776697 original size:17 final size:18
Alignment explanation
Indices: 24776669--24776702 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24776659 CTAGTTAGTG
24776669 TTTAACTTGTTTTAATTT
1 TTTAACTTGTTTTAATTT
24776687 TTTAA-TTGTTTTAATT
1 TTTAACTTGTTTTAATT
24776703 GTGGGTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (18 bp):
TTTAACTTGTTTTAATTT
Found at i:24776698 original size:9 final size:9
Alignment explanation
Indices: 24776669--24776704 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
24776659 CTAGTTAGTG
24776669 TTTAACTTGT
1 TTTAA-TTGT
24776679 TTTAATT-T
1 TTTAATTGT
24776687 TTTAATTGT
1 TTTAATTGT
24776696 TTTAATTGT
1 TTTAATTGT
24776705 GGGTAAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.32
9 12 0.48
10 5 0.20
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.67
Consensus pattern (9 bp):
TTTAATTGT
Found at i:24776766 original size:18 final size:18
Alignment explanation
Indices: 24776733--24776771 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
24776723 TTCTAATTTT
*
24776733 TTTTTTAATTTTAATT-A
1 TTTTTTAATTTAAATTCA
24776750 TTTTTTAAGTTTAAATTCA
1 TTTTTTAA-TTTAAATTCA
24776769 TTT
1 TTT
24776772 GCTGGCGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTTAATTTAAATTCA
Found at i:24786289 original size:28 final size:28
Alignment explanation
Indices: 24786257--24786352 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
24786247 CTCGATGTAC
* *
24786257 CGCACACTAAGTGCCATAATCAATAACT
1 CGCACACTAAGTGCCATACTCAATATCT
* * * *
24786285 CGCACACTAAGTGTCATTCTCAATGTTT
1 CGCACACTAAGTGCCATACTCAATATCT
* *
24786313 TGCACACTAAGTGCCATACTCGATATCT
1 CGCACACTAAGTGCCATACTCAATATCT
*
24786341 TGCACACTAAGT
1 CGCACACTAAGT
24786353 CTTGTATATA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTAAGTGCCATACTCAATATCT
Found at i:24786410 original size:40 final size:40
Alignment explanation
Indices: 24786366--24786447 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
24786356 GTATATACCT
*
24786366 GAAGCTATCTCGAATCGCACACTAAGTGCCAAATTTAGCC
1 GAAGCTATCTCGAACCGCACACTAAGTGCCAAATTTAGCC
* * *
24786406 GAAGCTATCTCGAACCGTACACTAAGTGTCTAATTTAGCC
1 GAAGCTATCTCGAACCGCACACTAAGTGCCAAATTTAGCC
24786446 GA
1 GA
24786448 TATGTCGTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (40 bp):
GAAGCTATCTCGAACCGCACACTAAGTGCCAAATTTAGCC
Found at i:24787177 original size:19 final size:19
Alignment explanation
Indices: 24787153--24787195 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
24787143 CTCGCTAAAT
24787153 AATCTCATAAGGTCCGATG
1 AATCTCATAAGGTCCGATG
*
24787172 AATCTCATAAGGTCTGATG
1 AATCTCATAAGGTCCGATG
24787191 AATCT
1 AATCT
24787196 TAGGTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
AATCTCATAAGGTCCGATG
Found at i:24791246 original size:46 final size:46
Alignment explanation
Indices: 24791196--24791367 Score: 183
Period size: 45 Copynumber: 3.7 Consensus size: 46
24791186 TGGTTGAGCA
*
24791196 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
24791242 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
24791289 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
24791335 -CTCG-AGTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24791368 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
43 6 0.06
45 31 0.30
46 31 0.30
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:24797444 original size:19 final size:19
Alignment explanation
Indices: 24797420--24797462 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
24797410 TAAATACCTA
24797420 AGATTCATCAGACCTTATG
1 AGATTCATCAGACCTTATG
24797439 AGATTCATCAGACCTTATG
1 AGATTCATCAGACCTTATG
24797458 AGATT
1 AGATT
24797463 ATTTAGCGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (19 bp):
AGATTCATCAGACCTTATG
Found at i:24801730 original size:46 final size:46
Alignment explanation
Indices: 24801680--24801850 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
24801670 TGGTTGAGCA
24801680 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
24801726 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
24801771 CATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
24801818 CCCGAGCT-GTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24801851 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 11, Indels: 21
0.76 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 12 0.12
45 21 0.20
46 36 0.35
47 24 0.23
49 3 0.03
50 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24802110 original size:19 final size:20
Alignment explanation
Indices: 24802073--24802110 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
24802063 ATAAGGTGGT
24802073 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
24802093 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
24802111 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:24807814 original size:17 final size:17
Alignment explanation
Indices: 24807792--24807836 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
24807782 AACTAAGAAA
24807792 TAAAAGTGTTGCACTTG
1 TAAAAGTGTTGCACTTG
24807809 TAAAAGTGTTGCACTTG
1 TAAAAGTGTTGCACTTG
24807826 TAAAAGTGTTG
1 TAAAAGTGTTG
24807837 TGGCAAAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (17 bp):
TAAAAGTGTTGCACTTG
Found at i:24809318 original size:46 final size:45
Alignment explanation
Indices: 24809247--24809418 Score: 154
Period size: 46 Copynumber: 3.8 Consensus size: 45
24809237 TGGTTGAGCA
24809247 TCCGAACTCG-TGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
24809292 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* * *
24809337 CATCCGAACTCGTTGAGTTGAGTTCGAGCTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
24809385 CCCGAGCTTGTTGAGTTGAGTCCGAATTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24809419 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 13 0.13
46 46 0.46
47 27 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:24809679 original size:19 final size:20
Alignment explanation
Indices: 24809642--24809679 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
24809632 ATAAGGTGGT
24809642 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
24809662 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
24809680 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:24813030 original size:28 final size:28
Alignment explanation
Indices: 24812982--24813091 Score: 121
Period size: 28 Copynumber: 3.9 Consensus size: 28
24812972 AATGTCGTTG
* * *
24812982 CATACTCGATGTCTCACACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
* *
24813010 CATAATCAATAACTCGCACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
* * * * *
24813038 CATTCTCAATGTTTCGCACTCTAAGTGT
1 CATACTCAATATCTCGCACACTAAGTGC
*
24813066 CATACTCGATATCTCGCACACTAAGT
1 CATACTCAATATCTCGCACACTAAGT
24813092 ACCGTACATA
Statistics
Matches: 65, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (28 bp):
CATACTCAATATCTCGCACACTAAGTGC
Found at i:24813144 original size:40 final size:40
Alignment explanation
Indices: 24813100--24813183 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
24813090 GTACCGTACA
** *
24813100 TAGCCGAAGCTTTCTCGAATCGCACACTAAGTGCCAAATT
1 TAGCCGAAGCCATATCGAATCGCACACTAAGTGCCAAATT
* *
24813140 TAGCCGAAGCCATATTGAATCGCACACTAAGTGTCAAATT
1 TAGCCGAAGCCATATCGAATCGCACACTAAGTGCCAAATT
24813180 TAGC
1 TAGC
24813184 TGATATGTCG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (40 bp):
TAGCCGAAGCCATATCGAATCGCACACTAAGTGCCAAATT
Found at i:24841543 original size:26 final size:26
Alignment explanation
Indices: 24841514--24841563 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
24841504 GACCAATTCC
*
24841514 TATAAACATTTCACACAACCATTTTG
1 TATAAACAATTCACACAACCATTTTG
* * *
24841540 TATAACCAATTCATATAACCATTT
1 TATAAACAATTCACACAACCATTT
24841564 GTCATCTGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAACAATTCACACAACCATTTTG
Found at i:24841546 original size:13 final size:13
Alignment explanation
Indices: 24841494--24841563 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
24841484 TTGTACATAT
*
24841494 ATTTCCATATGACC
1 ATTT-CATATAACC
* * *
24841508 AATTCCTATAAAC
1 ATTTCATATAACC
* *
24841521 ATTTCACACAACC
1 ATTTCATATAACC
**
24841534 ATTTTGTATAACC
1 ATTTCATATAACC
*
24841547 AATTCATATAACC
1 ATTTCATATAACC
24841560 ATTT
1 ATTT
24841564 GTCATCTGGT
Statistics
Matches: 39, Mismatches: 17, Indels: 1
0.68 0.30 0.02
Matches are distributed among these distances:
13 36 0.92
14 3 0.08
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:24841877 original size:46 final size:46
Alignment explanation
Indices: 24841646--24841873 Score: 294
Period size: 46 Copynumber: 5.0 Consensus size: 46
24841636 TTATCTTCGA
* * * * **
24841646 CATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * **
24841692 CATGTTGTCATGGTATCTTTCAACCATGGTATTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
24841738 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
** *
24841784 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* **
24841830 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
24841874 TTCAGTAAGC
Statistics
Matches: 164, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 164 1.00
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:24842457 original size:17 final size:18
Alignment explanation
Indices: 24842417--24842458 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
24842407 GATCCAAATT
* *
24842417 AATAATTTCATTCAATAT
1 AATAATTTCAATCAATAA
*
24842435 ATTAATTT-AATCAATAA
1 AATAATTTCAATCAATAA
24842452 AATAATT
1 AATAATT
24842459 CATATCCTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATTTCAATCAATAA
Found at i:24843980 original size:11 final size:11
Alignment explanation
Indices: 24843964--24843995 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
24843954 TATCTTTCCT
*
24843964 TAATAAAGTAA
1 TAATAAAATAA
24843975 TAATAAAATAA
1 TAATAAAATAA
24843986 TAATAAAATA
1 TAATAAAATA
24843996 TCTTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:24848255 original size:39 final size:41
Alignment explanation
Indices: 24848191--24848285 Score: 124
Period size: 39 Copynumber: 2.4 Consensus size: 41
24848181 GACTTTGATC
*
24848191 GGCACTAAGTGTAC-AATTGGAAATAGCTCCGGCTACA-AA
1 GGCACTAAGTGTGCGAATTGGAAATAGCTCCGGCTACATAA
* * * *
24848230 GGCACTAAGTGTGCGAGTTGG-AATAGCTTCGGCTATATGA
1 GGCACTAAGTGTGCGAATTGGAAATAGCTCCGGCTACATAA
24848270 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
24848286 TACTGAGATA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 27 0.55
40 22 0.45
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAATTGGAAATAGCTCCGGCTACATAA
Found at i:24851452 original size:3 final size:3
Alignment explanation
Indices: 24851444--24851468 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24851434 CAGTATTAAT
24851444 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
24851469 TGAATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:24851958 original size:25 final size:26
Alignment explanation
Indices: 24851930--24851981 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
24851920 GAATGTTCCC
24851930 TGTTTCTT-TTCTATTTCTTTTT-CTT
1 TGTTTCTTCTTCT-TTTCTTTTTACTT
*
24851955 TGTTTCTTCTTCTTTTTTTTTTACTT
1 TGTTTCTTCTTCTTTTCTTTTTACTT
24851981 T
1 T
24851982 TTTTATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (26 bp):
TGTTTCTTCTTCTTTTCTTTTTACTT
Found at i:24851962 original size:14 final size:13
Alignment explanation
Indices: 24851943--24851984 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
24851933 TTCTTTTCTA
24851943 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
*
24851956 GTTTCTTCTTCTTT
1 -TTTCTTTTTCTTT
*
24851970 TTT-TTTTACTTT
1 TTTCTTTTTCTTT
24851982 TTT
1 TTT
24851985 TATTATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 12 0.48
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTCTTTTTCTTT
Found at i:24852160 original size:18 final size:18
Alignment explanation
Indices: 24852128--24852183 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
24852118 TTTATTCATT
*
24852128 AATATAATAATATAATATC
1 AATA-AATAAAATAATATC
* *
24852147 AATTAATTAAATAATGAT-
1 AATAAATAAAATAAT-ATC
24852165 AATAAATAAAATAAATATC
1 AATAAATAAAAT-AATATC
24852184 TATTTAATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 21 0.72
19 8 0.28
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (18 bp):
AATAAATAAAATAATATC
Found at i:24852534 original size:54 final size:54
Alignment explanation
Indices: 24852473--24852582 Score: 204
Period size: 54 Copynumber: 2.0 Consensus size: 54
24852463 GTAATTATCT
24852473 TTTACTTAATTTTCAAG-TAAATAAATAAATATAATACAAATGTATATATTCACA
1 TTTACTTAATTTTCAAGAT-AATAAATAAATATAATACAAATGTATATATTCACA
24852527 TTTACTTAATTTTCAAGATAATAAATAAATATAATACAAATGTATATATTCACA
1 TTTACTTAATTTTCAAGATAATAAATAAATATAATACAAATGTATATATTCACA
24852581 TT
1 TT
24852583 ATTACAAATG
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
54 54 0.98
55 1 0.02
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (54 bp):
TTTACTTAATTTTCAAGATAATAAATAAATATAATACAAATGTATATATTCACA
Found at i:24856344 original size:9 final size:9
Alignment explanation
Indices: 24856305--24856337 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
24856295 TACATCACTG
24856305 AACTAATTC
1 AACTAATTC
24856314 AACTAATTC
1 AACTAATTC
24856323 AACTAATTC
1 AACTAATTC
24856332 AACTAA
1 AACTAA
24856338 ATTAACTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (9 bp):
AACTAATTC
Found at i:24856753 original size:35 final size:35
Alignment explanation
Indices: 24856714--24856784 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
24856704 TATGGCTATG
24856714 AAATTAAATGGTTAAGGGATTTAAATTTTAATTTT
1 AAATTAAATGGTTAAGGGATTTAAATTTTAATTTT
24856749 AAATTAAATGGTTAAGGGATTTAAATTTTAATTTT
1 AAATTAAATGGTTAAGGGATTTAAATTTTAATTTT
24856784 A
1 A
24856785 CCATTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (35 bp):
AAATTAAATGGTTAAGGGATTTAAATTTTAATTTT
Found at i:24860213 original size:20 final size:20
Alignment explanation
Indices: 24860184--24860227 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
24860174 TACATATAAA
* *
24860184 TAAAACTTATAATTATTTTT
1 TAAAACTTATAATGAATTTT
* *
24860204 TAAAATTTATTATGAATTTT
1 TAAAACTTATAATGAATTTT
24860224 TAAA
1 TAAA
24860228 GTCAGAACAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TAAAACTTATAATGAATTTT
Found at i:24861205 original size:93 final size:93
Alignment explanation
Indices: 24861095--24861265 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
24861085 GCCCCTAAGT
* *
24861095 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
24861160 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
24861188 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
24861253 CGAGTTCGGATGC
66 CGAGTTCGGATGC
24861266 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24861262 original size:46 final size:46
Alignment explanation
Indices: 24861090--24861262 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
24861080 AACCCGCCCC
* * * *
24861090 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
24861136 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
24861184 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
24861229 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24861263 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:24868291 original size:93 final size:93
Alignment explanation
Indices: 24868181--24868351 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
24868171 GCCCCTAAGT
* *
24868181 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
24868246 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
24868274 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
24868339 CGAGTTCGGATGC
66 CGAGTTCGGATGC
24868352 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24868341 original size:46 final size:46
Alignment explanation
Indices: 24868176--24868348 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
24868166 AACCCGCCCC
* * * * *
24868176 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
24868222 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
24868270 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
24868315 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24868349 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:24873555 original size:49 final size:49
Alignment explanation
Indices: 24873476--24873589 Score: 140
Period size: 49 Copynumber: 2.3 Consensus size: 49
24873466 GCTGTGTCCA
* * * *
24873476 AGACAGGTCTTACACTGGCTTTCATATATCAAG-GCCGATGCCGTATCCC
1 AGACAGGTCTTACACTAGCTCTCATATATC-AGTGCCAATGCCATATCCC
* * * *
24873525 AGACAGGTTTTACACTAGCTCTCATCTATCAGTGTCAATGCCATGTCCC
1 AGACAGGTCTTACACTAGCTCTCATATATCAGTGCCAATGCCATATCCC
24873574 AGACAGGTCTTACACT
1 AGACAGGTCTTACACT
24873590 GACACACAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 2 0.04
49 53 0.96
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (49 bp):
AGACAGGTCTTACACTAGCTCTCATATATCAGTGCCAATGCCATATCCC
Found at i:24873714 original size:46 final size:46
Alignment explanation
Indices: 24873650--24873777 Score: 172
Period size: 46 Copynumber: 2.8 Consensus size: 46
24873640 TATATCTCGA
* *
24873650 GGTCGATGCATGTCCCAGACATGTCTTACACTATCTCTCGTC-TCA-AT
1 GGTCGATGCATGTCCCAGACATGTCTTACACTAGCT-T--TCATAATAT
*
24873697 -GTCGATGCATGTTCCAGACATGTCTTACACTAGCTTTCATAATAT
1 GGTCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCATAATAT
*
24873742 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
1 GGTCGATGCATGTCCCAGACATGTCTTACACTAGCT
24873778 CACATACCAC
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.03
44 2 0.03
45 3 0.04
46 66 0.90
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.31
Consensus pattern (46 bp):
GGTCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCATAATAT
Found at i:24875612 original size:17 final size:17
Alignment explanation
Indices: 24875592--24875626 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
24875582 ATATGCATGT
24875592 AAACCAAATGGCATGCC
1 AAACCAAATGGCATGCC
*
24875609 AAACCTAATGGCATGCC
1 AAACCAAATGGCATGCC
24875626 A
1 A
24875627 TACATATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.29, G:0.17, T:0.14
Consensus pattern (17 bp):
AAACCAAATGGCATGCC
Found at i:24875847 original size:31 final size:31
Alignment explanation
Indices: 24875810--24875873 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
24875800 AGTTTAAATT
24875810 ATATGTGCCAAATTCACTAAATTCTATTTAA
1 ATATGTGCCAAATTCACTAAATTCTATTTAA
24875841 ATATGTGCCAAATTCACTAAATTCTATTTAA
1 ATATGTGCCAAATTCACTAAATTCTATTTAA
24875872 AT
1 AT
24875874 CTAACACATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (31 bp):
ATATGTGCCAAATTCACTAAATTCTATTTAA
Found at i:24885859 original size:23 final size:24
Alignment explanation
Indices: 24885824--24885869 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
24885814 AAATAACTAG
*
24885824 AAATAAAGAGAA-TATAGAAAATA
1 AAATAAAGAGAATTAAAGAAAATA
24885847 AAATAAATG-GAATTAAAGAAAAT
1 AAATAAA-GAGAATTAAAGAAAAT
24885870 GAGGGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (24 bp):
AAATAAAGAGAATTAAAGAAAATA
Found at i:24886687 original size:74 final size:74
Alignment explanation
Indices: 24886561--24886705 Score: 245
Period size: 74 Copynumber: 2.0 Consensus size: 74
24886551 GGCTGTGTCA
* *
24886561 CACGGTCGTGTGGCTCGAGTTTATGGCCGTGTGTATGTCAATACTTAGGAATTTTTAGCCCTATT
1 CACGATCGTGTGGCTCGAGTTTATGGCCATGTGTATGTCAATACTTAGGAATTTTTAGCCCTATT
*
24886626 TTCACATGG
66 TCCACATGG
* *
24886635 CACGATCGTGTGGCTCGAGTTTATGGCCATGTGTATGTCAATACTTGGGAATTTTTAGCCCTGTT
1 CACGATCGTGTGGCTCGAGTTTATGGCCATGTGTATGTCAATACTTAGGAATTTTTAGCCCTATT
24886700 TCCACA
66 TCCACA
24886706 CGGCCAAGGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (74 bp):
CACGATCGTGTGGCTCGAGTTTATGGCCATGTGTATGTCAATACTTAGGAATTTTTAGCCCTATT
TCCACATGG
Found at i:24892512 original size:2 final size:2
Alignment explanation
Indices: 24892501--24892535 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
24892491 ATCCACTCAC
24892501 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24892536 CTTAAACTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:24896969 original size:26 final size:26
Alignment explanation
Indices: 24896940--24896994 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
24896930 GGTTTTTTAG
24896940 AAGTAGTTTTCTTCTTTATTTTCTTT
1 AAGTAGTTTTCTTCTTTATTTTCTTT
24896966 AAGTAGTTTTCTTCTTTATTTTCTTT
1 AAGTAGTTTTCTTCTTTATTTTCTTT
24896992 AAG
1 AAG
24896995 GAGTCATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (26 bp):
AAGTAGTTTTCTTCTTTATTTTCTTT
Found at i:24919019 original size:24 final size:24
Alignment explanation
Indices: 24918954--24919024 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
24918944 CTGTCAGGAG
*
24918954 AGGATTTAGGAGTTGATAAGCGAT
1 AGGATTTAGGAGTTGATAAGGGAT
24918978 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
24919002 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
24919025 GGAAATCTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.35, C:0.03, G:0.37, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:24920480 original size:27 final size:27
Alignment explanation
Indices: 24920440--24920551 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
24920430 AGGAAGCGTC
*
24920440 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
24920467 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
24920494 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
24920522 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
24920548 CTGG
1 CTGG
24920552 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:24920546 original size:54 final size:54
Alignment explanation
Indices: 24920440--24920551 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
24920430 AGGAAGCGTC
* *
24920440 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
24920494 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
24920548 CTGG
1 CTGG
24920552 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:24925425 original size:24 final size:24
Alignment explanation
Indices: 24925393--24925463 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
24925383 CTATCAGGAG
24925393 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
24925417 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
24925441 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
24925464 GGACATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:24926909 original size:27 final size:27
Alignment explanation
Indices: 24926869--24926973 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 27
24926859 AGGAAGCGTC
*
24926869 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
24926896 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
24926923 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
24926951 CTGGTGACTCTGTCAC-ATTATCT
1 CTGGTGGCTCTGCCACAATTATCT
24926974 ATTCTGGCAG
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.04
27 48 0.70
28 18 0.26
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:24926979 original size:54 final size:54
Alignment explanation
Indices: 24926869--24926980 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
24926859 AGGAAGCGTC
* * *
24926869 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * *
24926923 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
24926977 CTGG
1 CTGG
24926981 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:24934806 original size:31 final size:31
Alignment explanation
Indices: 24934768--24934828 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
24934758 AAGCCAAAAA
*
24934768 TATCGATTTGGTATTGATACTTTTTGTCAAG
1 TATCGATTTGGTATCGATACTTTTTGTCAAG
* *
24934799 TATCGATTTTGTATCGATATTTTTTGTCAA
1 TATCGATTTGGTATCGATACTTTTTGTCAA
24934829 ATATTGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.23, C:0.10, G:0.16, T:0.51
Consensus pattern (31 bp):
TATCGATTTGGTATCGATACTTTTTGTCAAG
Found at i:24938810 original size:61 final size:61
Alignment explanation
Indices: 24938740--24938861 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
24938730 TTAGAATGAA
24938740 AAAATGGTATCAATACAGATTTTCATATCAATACCTATTAGAAAAATATCGATACTTATTT
1 AAAATGGTATCAATACAGATTTTCATATCAATACCTATTAGAAAAATATCGATACTTATTT
24938801 AAAATGGTATCAATACAGATTTTCATATCAATACCTATTAGAAAAATATCGATACTTATTT
1 AAAATGGTATCAATACAGATTTTCATATCAATACCTATTAGAAAAATATCGATACTTATTT
24938862 CTTCAGTATC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (61 bp):
AAAATGGTATCAATACAGATTTTCATATCAATACCTATTAGAAAAATATCGATACTTATTT
Found at i:24943550 original size:126 final size:126
Alignment explanation
Indices: 24943325--24943585 Score: 495
Period size: 126 Copynumber: 2.1 Consensus size: 126
24943315 AATAGCTCAT
24943325 CTTGAATTAAGTTTGGGTTCCTGGCATGTACCTAAGTTAGGTCTTGTGGTTTATTGTTATTCTTG
1 CTTGAATTAAGTTTGGGTTCCTGGCATGTACCTAAGTTAGGTCTTGTGGTTTATTGTTATTCTTG
24943390 ATGCTTTTGGGTTCATTTTAATAACTTGACCTTATAATGTTTTAATGATAGATTCTGGATC
66 ATGCTTTTGGGTTCATTTTAATAACTTGACCTTATAATGTTTTAATGATAGATTCTGGATC
*
24943451 CTTGAATTAAGTTTGGGTTCTTGGCATGTACCTAAGTTAGGTCTTGTGGTTTATTGTTATTCTTG
1 CTTGAATTAAGTTTGGGTTCCTGGCATGTACCTAAGTTAGGTCTTGTGGTTTATTGTTATTCTTG
* *
24943516 ATGCTTTTGGGTTCATTTTAATAACTTGACCTTATAATGTTTTAATGATGGATTCTGGATG
66 ATGCTTTTGGGTTCATTTTAATAACTTGACCTTATAATGTTTTAATGATAGATTCTGGATC
24943577 CTTGAATTA
1 CTTGAATTA
24943586 GTAGGTAATA
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 132 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.46
Consensus pattern (126 bp):
CTTGAATTAAGTTTGGGTTCCTGGCATGTACCTAAGTTAGGTCTTGTGGTTTATTGTTATTCTTG
ATGCTTTTGGGTTCATTTTAATAACTTGACCTTATAATGTTTTAATGATAGATTCTGGATC
Found at i:24946659 original size:40 final size:40
Alignment explanation
Indices: 24946589--24946766 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
24946579 AAGCCAAGTA
* * * * *
24946589 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
24946628 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24946668 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
24946708 CCTTCGGGACTTAGCTCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
24946748 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
24946767 TTATCATCCA
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.10
40 111 0.90
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:24951008 original size:2 final size:2
Alignment explanation
Indices: 24950958--24951000 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
24950948 GGGTGTGACA
24950958 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24950999 AT
1 AT
24951001 GAATATATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:24951047 original size:16 final size:16
Alignment explanation
Indices: 24951026--24951084 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
24951016 AATTCTAGTT
24951026 ATATCTATATTCAACA
1 ATATCTATATTCAACA
* *
24951042 ATATCTATATTCTAGA
1 ATATCTATATTCAACA
24951058 ATATCTATATTCAACA
1 ATATCTATATTCAACA
24951074 ATATCTATATT
1 ATATCTATATT
24951085 ATTTTTTAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.42
Consensus pattern (16 bp):
ATATCTATATTCAACA
Found at i:24951064 original size:32 final size:33
Alignment explanation
Indices: 24951017--24951084 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
24951007 ATGAATGGTA
*
24951017 ATTCTAGTTATATCTATATTCAACAATATCTAT
1 ATTCTAGTAATATCTATATTCAACAATATCTAT
24951050 ATTCTAG-AATATCTATATTCAACAATATCTAT
1 ATTCTAGTAATATCTATATTCAACAATATCTAT
24951082 ATT
1 ATT
24951085 ATTTTTTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 27 0.79
33 7 0.21
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (33 bp):
ATTCTAGTAATATCTATATTCAACAATATCTAT
Found at i:24953785 original size:20 final size:20
Alignment explanation
Indices: 24953760--24953797 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24953750 GCTGACAAAA
24953760 CAGTCACTCAAGTTTCAATT
1 CAGTCACTCAAGTTTCAATT
*
24953780 CAGTCACTCAATTTTCAA
1 CAGTCACTCAAGTTTCAA
24953798 AAAATAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (20 bp):
CAGTCACTCAAGTTTCAATT
Found at i:24953988 original size:47 final size:49
Alignment explanation
Indices: 24953917--24954022 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 49
24953907 CCTCTCATCC
*
24953917 CTCTCCCTCT--CCCTCTTCCCCACCATCCCT-C-CCTATTTTGATTCT
1 CTCTCCCTCTCCCCCTCTTCCCCACCATCCCTCCTCCTACTTTGATTCT
*
24953962 CTCTCCCTCTCCCCCTCTTCCGCACCATCCCTCCCTCCTACTTTGATTCT
1 CTCTCCCTCTCCCCCTCTTCCCCACCATCCCT-CCTCCTACTTTGATTCT
24954012 -T-TCCCTCTCCC
1 CTCTCCCTCTCCC
24954023 TCATTGTCCC
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
45 10 0.19
47 19 0.35
48 10 0.19
49 2 0.04
50 13 0.24
ACGTcount: A:0.08, C:0.54, G:0.03, T:0.36
Consensus pattern (49 bp):
CTCTCCCTCTCCCCCTCTTCCCCACCATCCCTCCTCCTACTTTGATTCT
Done.