Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 12 of 213
Found at i:3452338 original size:41 final size:41
Alignment explanation
Indices: 3452281--3452382 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
3452271 GCATAGCGCT
*
3452281 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
* *
3452322 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
*
3452363 TAGCGGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
3452383 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
Found at i:3455791 original size:24 final size:24
Alignment explanation
Indices: 3455741--3455792 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
3455731 AATCAAAGTC
* *
3455741 AAATATATTATGCTAATAAATGGT
1 AAATATATTATACTAATAAATAGT
* *
3455765 AAATATATTATACTCATAAATATT
1 AAATATATTATACTAATAAATAGT
3455789 AAAT
1 AAAT
3455793 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATAGT
Found at i:3460094 original size:18 final size:20
Alignment explanation
Indices: 3460073--3460112 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
3460063 AGAGAGTTTG
3460073 AAGGAAGAAA-AGA-GAGAA
1 AAGGAAGAAAGAGAGGAGAA
3460091 AAGGAAGAAAGAGAGGAGAA
1 AAGGAAGAAAGAGAGGAGAA
3460111 AA
1 AA
3460113 CAGATAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 3 0.15
20 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (20 bp):
AAGGAAGAAAGAGAGGAGAA
Found at i:3460267 original size:25 final size:25
Alignment explanation
Indices: 3460211--3460277 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
3460201 ACTAATACTC
* * *
3460211 ACCAAAACGCACCGTCTAATTAACA
1 ACCAAAACTCACCGTTTAACTAACA
* *
3460236 ACTAAAACTCACCGTTTAACTAATA
1 ACCAAAACTCACCGTTTAACTAACA
* *
3460261 CCCAAAACTCCCCGTTT
1 ACCAAAACTCACCGTTT
3460278 TCAGTAACTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.39, C:0.33, G:0.06, T:0.22
Consensus pattern (25 bp):
ACCAAAACTCACCGTTTAACTAACA
Found at i:3465909 original size:18 final size:18
Alignment explanation
Indices: 3465888--3465990 Score: 81
Period size: 18 Copynumber: 5.8 Consensus size: 18
3465878 CGAAAGTTTT
* *
3465888 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAGAA
3465906 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAGAA
*
3465924 --TTTGTAAACACGA-ATA
1 TTTTTGAAAACACGAGA-A
* *
3465940 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
3465957 TTTTTGGAAAAAACGA-AA
1 TTTTT-GAAAACACGAGAA
*
3465975 TTTTCTTAAAACACGA
1 TTTT-TGAAAACACGA
3465991 CATTTTTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.01
16 13 0.19
17 13 0.19
18 35 0.50
19 8 0.11
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAA
Found at i:3465927 original size:16 final size:16
Alignment explanation
Indices: 3465894--3465959 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
3465884 TTTTTTTTTT
*
3465894 AAAATACGAGAATTTTTG
1 AAAACACGAGAA--TTTG
3465912 AAAACACGAGAATTTG
1 AAAACACGAGAATTTG
* *
3465928 TAAACACGA-ATATTTT
1 AAAACACGAGA-ATTTG
*
3465944 AGAAACACGAAAATTT
1 A-AAACACGAGAATTT
3465960 TTGGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 1 0.02
16 16 0.39
17 12 0.29
18 12 0.29
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (16 bp):
AAAACACGAGAATTTG
Found at i:3466035 original size:18 final size:16
Alignment explanation
Indices: 3466014--3466067 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
3466004 AACACGGGAA
3466014 TTTTTAAAACAAGACATT
1 TTTTTAAAACAA-A-ATT
*
3466032 TTTTTGAAACAAAATTT
1 TTTTTAAAACAAAA-TT
*
3466049 TTTCTTAAAAAAAAATT
1 TTT-TTAAAACAAAATT
3466066 TT
1 TT
3466068 AAATACGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 1 0.03
17 10 0.32
18 20 0.65
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (16 bp):
TTTTTAAAACAAAATT
Found at i:3466096 original size:16 final size:16
Alignment explanation
Indices: 3466060--3466112 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 16
3466050 TTCTTAAAAA
*
3466060 AAAATTTT-AAATACG
1 AAAATTTTAAAACACG
*
3466075 AGAATTTTAAAACACG
1 AAAATTTTAAAACACG
3466091 AAAATTTTTAAAACACG
1 AAAA-TTTTAAAACACG
*
3466108 GAAAT
1 AAAAT
3466113 ATATTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 7 0.22
16 10 0.31
17 15 0.47
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (16 bp):
AAAATTTTAAAACACG
Found at i:3466101 original size:17 final size:17
Alignment explanation
Indices: 3466079--3466335 Score: 118
Period size: 17 Copynumber: 14.1 Consensus size: 17
3466069 AATACGAGAA
3466079 TTTTAAAACACGAAAAT
1 TTTTAAAACACGAAAAT
3466096 TTTTAAAACACGGAAATATATTT
1 TTTTAAAACAC-G-AA-A-A--T
**
3466119 TTTTAAAACACGAATTTTTTTT
1 TTTTAAAACACGAA-----AAT
*
3466141 TTTTAAAACAAGAAAAT
1 TTTTAAAACACGAAAAT
* * *
3466158 TTTTGAAACACTAGAAT
1 TTTTAAAACACGAAAAT
* *
3466175 TTTGAAAACACGAAGATT
1 TTTTAAAACACGAA-AAT
* * *
3466193 TTTTGAAACATGAGAAT
1 TTTTAAAACACGAAAAT
**
3466210 TTTTAAAAGCACGAGGAT
1 TTTTAAAA-CACGAAAAT
* * *
3466228 TATTGAAAGCACGAAGAT
1 T-TTTAAAACACGAAAAT
* * *
3466246 TTATAAAAAACGACAAT
1 TTTTAAAACACGAAAAT
* *
3466263 TTTTGAAATACGAGAAAT
1 TTTTAAAACACGA-AAAT
* *
3466281 TTTTTAAACGCGAAAATTT
1 TTTTAAAACACGAAAA--T
*
3466300 TTTTCAAACACGAAAACT
1 TTTTAAAACACGAAAA-T
* *
3466318 TTTGAAAACGCGAAAAT
1 TTTTAAAACACGAAAAT
3466335 T
1 T
3466336 CGAAAATTTC
Statistics
Matches: 180, Mismatches: 44, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
17 69 0.38
18 57 0.32
19 22 0.12
20 1 0.01
21 3 0.02
22 15 0.08
23 12 0.07
25 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTAAAACACGAAAAT
Found at i:3466160 original size:23 final size:22
Alignment explanation
Indices: 3466095--3466161 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
3466085 AACACGAAAA
* *
3466095 TTTTTAAAACACGGAAATATATT
1 TTTTTAAAACAC-GAAATTTTTT
*
3466118 TTTTTAAAACACGAATTTTTTT
1 TTTTTAAAACACGAAATTTTTT
* *
3466140 TTTTTAAAACAAGAAAATTTTT
1 TTTTTAAAACACGAAATTTTTT
3466162 GAAACACTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
22 26 0.68
23 12 0.32
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.46
Consensus pattern (22 bp):
TTTTTAAAACACGAAATTTTTT
Found at i:3466209 original size:35 final size:35
Alignment explanation
Indices: 3466140--3466302 Score: 113
Period size: 35 Copynumber: 4.7 Consensus size: 35
3466130 GAATTTTTTT
* *
3466140 TTTTTAAAACAAGAA-AATTTTTGAAACACTAGAA
1 TTTTTAAAACACGAAGATTTTTTGAAACACTAGAA
*
3466174 TTTTGAAAACACGAAGATTTTTTGAAACA-TGAGAA
1 TTTTTAAAACACGAAGATTTTTTGAAACACT-AGAA
* * *
3466209 TTTTTAAAAGCACGAGGA-TTATTGAAAGCACGA-AGA
1 TTTTTAAAA-CACGAAGATTTTTTGAAA-CACTAGA-A
* * * *
3466245 TTTATAAAAAACGACA-A-TTTTTGAAATACGAGAAA
1 TTTTTAAAACACGA-AGATTTTTTGAAACACTAG-AA
* * *
3466280 TTTTTTAAACGCGAAAATTTTTT
1 TTTTTAAAACACGAAGATTTTTT
3466303 TCAAACACGA
Statistics
Matches: 102, Mismatches: 16, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
34 19 0.19
35 58 0.57
36 25 0.25
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (35 bp):
TTTTTAAAACACGAAGATTTTTTGAAACACTAGAA
Found at i:3466302 original size:19 final size:19
Alignment explanation
Indices: 3466280--3466335 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
3466270 ATACGAGAAA
3466280 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
3466298 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
3466316 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
3466335 T
1 T
3466336 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:3466379 original size:18 final size:17
Alignment explanation
Indices: 3466330--3466380 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
3466320 TGAAAACGCG
3466330 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
3466347 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
3466365 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
3466381 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:3466888 original size:9 final size:8
Alignment explanation
Indices: 3466874--3466939 Score: 73
Period size: 9 Copynumber: 8.0 Consensus size: 8
3466864 ATTGAACCCC
3466874 CTTTTTCTT
1 CTTTTT-TT
3466883 CTTTTTTT
1 CTTTTTTT
3466891 C-TTTTTT
1 CTTTTTTT
3466898 C-TTTTTT
1 CTTTTTTT
*
3466905 CCTTTTTT
1 CTTTTTTT
3466913 CTTTTTCTT
1 CTTTTT-TT
3466922 CTTTTTCTT
1 CTTTTT-TT
3466931 CCTTTTTTT
1 -CTTTTTTT
3466940 TTCTGCTGGG
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
7 14 0.26
8 14 0.26
9 19 0.36
10 6 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
CTTTTTTT
Found at i:3466897 original size:7 final size:7
Alignment explanation
Indices: 3466885--3466918 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
3466875 TTTTTCTTCT
3466885 TTTTTTC
1 TTTTTTC
3466892 TTTTTTC
1 TTTTTTC
3466899 TTTTTTCC
1 TTTTTT-C
3466907 TTTTTTC
1 TTTTTTC
3466914 TTTTT
1 TTTTT
3466919 CTTCTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:3466930 original size:15 final size:15
Alignment explanation
Indices: 3466876--3466927 Score: 77
Period size: 15 Copynumber: 3.3 Consensus size: 15
3466866 TGAACCCCCT
3466876 TTTTCTTCTTTTTTTC
1 TTTT-TTCTTTTTTTC
*
3466892 TTTTTTCTTTTTTCC
1 TTTTTTCTTTTTTTC
3466907 TTTTTTCTTTTTCTTC
1 TTTTTTCTTTTT-TTC
3466923 TTTTT
1 TTTTT
3466928 CTTCCTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
15 22 0.67
16 11 0.33
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:3466941 original size:15 final size:14
Alignment explanation
Indices: 3466884--3466941 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
3466874 CTTTTTCTTC
3466884 TTTTTTT-CTTTTT
1 TTTTTTTCCTTTTT
3466897 TCTTTTTTCCTTTTT
1 T-TTTTTTCCTTTTT
* *
3466912 TCTTTTT-C-TTCT
1 TTTTTTTCCTTTTT
*
3466924 TTTTCTTCCTTTTT
1 TTTTTTTCCTTTTT
3466938 TTTT
1 TTTT
3466942 CTGCTGGGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
12 8 0.22
13 3 0.08
14 18 0.50
15 7 0.19
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTCCTTTTT
Found at i:3466943 original size:14 final size:13
Alignment explanation
Indices: 3466875--3466941 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
3466865 TTGAACCCCC
3466875 TTTTTCTTCTTTT
1 TTTTTCTTCTTTT
3466888 TTTCTT-TT-TTCTT
1 TTT-TTCTTCTT-TT
*
3466901 TTTTCCTT-TTTT
1 TTTTTCTTCTTTT
3466913 CTTTTTCTTCTTTT
1 -TTTTTCTTCTTTT
* *
3466927 TCTTCCTT-TTTT
1 TTTTTCTTCTTTT
3466939 TTT
1 TTT
3466942 CTGCTGGGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
12 11 0.25
13 27 0.61
14 6 0.14
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTTCTTTT
Found at i:3467090 original size:12 final size:11
Alignment explanation
Indices: 3467072--3467097 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3467062 TCTTTCCCTT
3467072 CTTTTTTTTTG
1 CTTTTTTTTTG
3467083 CTTTTTTTTTG
1 CTTTTTTTTTG
3467094 CTTT
1 CTTT
3467098 GATTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.81
Consensus pattern (11 bp):
CTTTTTTTTTG
Found at i:3467246 original size:14 final size:13
Alignment explanation
Indices: 3467229--3467265 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
3467219 TTTTTCTTTC
3467229 TTTCTTCTTCCTCT
1 TTTCTTCTTCCT-T
3467243 TTTCTTCTTCCTT
1 TTTCTTCTTCCTT
*
3467256 CTTCTTCTTC
1 TTTCTTCTTC
3467266 AAAGTCTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTCTTCTTCCTT
Found at i:3467250 original size:21 final size:22
Alignment explanation
Indices: 3467220--3467264 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
3467210 ATTTCTTTTT
*
3467220 TTTTCTTTCTTTCTTCTTCCTC
1 TTTTCTTTCTTCCTTCTTCCTC
*
3467242 TTTTC-TTCTTCCTTCTTCTTC
1 TTTTCTTTCTTCCTTCTTCCTC
3467263 TT
1 TT
3467265 CAAAGTCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTCTTTCTTCCTTCTTCCTC
Found at i:3467369 original size:19 final size:19
Alignment explanation
Indices: 3467325--3467367 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
3467315 CGGTACTCTT
3467325 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
3467344 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
3467361 TTCTTTT
1 -TCTTTT
3467368 TCCTTCGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:3467373 original size:10 final size:10
Alignment explanation
Indices: 3467321--3467369 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
3467311 ACGCCGGTAC
3467321 TCTT-TCTTT
1 TCTTCTCTTT
* *
3467330 TCTTCTCCTC
1 TCTTCTCTTT
3467340 T-TTCTCTTT
1 TCTTCTCTTT
3467349 TCTTCTCTTT
1 TCTTCTCTTT
3467359 TCTTCT-TTT
1 TCTTCTCTTT
3467368 TC
1 TC
3467370 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 16 0.47
10 18 0.53
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:3467648 original size:29 final size:29
Alignment explanation
Indices: 3467615--3467731 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
3467605 TGTAATTTTT
*
3467615 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
3467644 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
3467674 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
3467703 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
3467732 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:3467670 original size:30 final size:30
Alignment explanation
Indices: 3467630--3467731 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
3467620 ATTTAGGATT
*
3467630 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
3467660 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
3467690 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
3467720 AAAATGCAATTT
1 AAAATGAAATTT
3467732 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:3467747 original size:15 final size:15
Alignment explanation
Indices: 3467727--3467755 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3467717 GTCAAAATGC
3467727 AATTTTTATTTTTTA
1 AATTTTTATTTTTTA
3467742 AATTTTTATTTTTT
1 AATTTTTATTTTTT
3467756 TTTGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
AATTTTTATTTTTTA
Found at i:3468226 original size:53 final size:54
Alignment explanation
Indices: 3468008--3468257 Score: 386
Period size: 53 Copynumber: 4.7 Consensus size: 54
3467998 CACGTGAGCC
* *
3468008 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
3468063 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
3468113 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
3468167 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
3468220 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
3468258 TTTTGAAACA
Statistics
Matches: 182, Mismatches: 7, Indels: 13
0.90 0.03 0.06
Matches are distributed among these distances:
50 48 0.26
52 1 0.01
53 50 0.27
54 39 0.21
55 38 0.21
56 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:3468295 original size:13 final size:14
Alignment explanation
Indices: 3468267--3468299 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
3468257 TTTTTGAAAC
3468267 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
3468281 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
3468294 ACAGAA
1 ACAGAA
3468300 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:3468307 original size:14 final size:14
Alignment explanation
Indices: 3468260--3468307 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
3468250 TGATTTTTTT
*
3468260 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
3468274 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
3468288 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
3468301 TTGAAAA
1 TTGAAAA
3468308 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:3468571 original size:72 final size:72
Alignment explanation
Indices: 3468383--3469690 Score: 1992
Period size: 72 Copynumber: 18.3 Consensus size: 72
3468373 ATTAGTAAAG
* * *
3468383 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
3468447 TTTGAAAA
65 TTTGAAAA
*
3468455 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
3468520 TTTGAAAA
65 TTTGAAAA
*
3468528 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
3468593 TTGAGAAG
66 TTGA-AAA
3468601 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
3468666 TTGAAAA
66 TTGAAAA
*
3468673 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
3468738 TTGAGAAG
66 TTGA-AAA
3468746 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
3468811 TTGAAAA
66 TTGAAAA
*
3468818 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
3468883 TTGAAAA
66 TTGAAAA
* *
3468890 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
3468955 TTTGAAAA
65 TTTGAAAA
* * *
3468963 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
3469028 TTTG-AAA
65 TTTGAAAA
3469035 CAGAAATTG-AAATACCTC-ACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
3469097 TTGAAAA
66 TTGAAAA
*
3469104 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
3469169 TTGAGAAG
66 TTGA-AAA
3469177 CAGAAATTGAAAATACCTCAACGTGTC-TGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
3469240 TTGAAAA
66 TTGAAAA
*
3469247 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
3469312 TTGAAAA
66 TTGAAAA
*
3469319 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
3469384 TTGAAAA
66 TTGAAAA
* *
3469391 GCAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT-AGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
3469454 TTTGAAAA
65 TTTGAAAA
* * *
3469462 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-TTCTCGCAATATGAGTTG-ATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
3469525 TTTAACAA
66 TTGAA-AA
* * * * ** *
3469533 CAGAAATT-AAATTA-CTC-AGGTGTCCTGA-GCTTAACTCACCTCTCGCAATATGAG-TCAA-T
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
3469592 TT-AAAA
66 TTGAAAA
* * * *** * * * *
3469598 CATAAACTAAAAATACCTTGGCGTGCCCCT-AGGCTCAACTCACTTCTCGCAATATGAGTTGATT
1 CAGAAATTGAAAATACCTCAACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
3469662 TTTGAAAAA
65 TTTG-AAAA
*
3469671 CAGAAATT-AAAAGA-CTCAAC
1 CAGAAATTGAAAATACCTCAAC
3469691 TCACCTCTCG
Statistics
Matches: 1157, Mismatches: 52, Indels: 54
0.92 0.04 0.04
Matches are distributed among these distances:
65 8 0.01
66 7 0.01
67 15 0.01
68 67 0.06
69 48 0.04
70 81 0.07
71 124 0.11
72 416 0.36
73 389 0.34
74 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (72 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:3468634 original size:145 final size:144
Alignment explanation
Indices: 3468383--3469678 Score: 2027
Period size: 145 Copynumber: 9.1 Consensus size: 144
3468373 ATTAGTAAAG
* * * *
3468383 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
3468447 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTG-AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
3468512 AGTTGAATTTTGAAAA
129 AGTTGAATTTTGAAAA
3468528 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
3468593 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
3468658 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
3468673 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
3468738 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
3468803 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
3468818 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
3468883 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTG-AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
3468948 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
* * * *
3468963 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
3469028 TTTGAAA-CAGAAATTG-AAATACCTC-ACGTGTC-TGAGGCTCAACTCATTTCTCGCAATATGA
65 TTTGAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
3469089 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
3469104 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
3469169 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTC-TGAGGCTCAACTCA-TTCTCGCAATATGA
66 TTGA-AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
3469232 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
3469247 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
3469312 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
3469377 TTGAATTTTGAAAA
131 TTGAATTTTGAAAA
* *
3469391 GCAGAAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT-AGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
* * * *
3469454 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-TTCTCGCAATATGA
65 TTTGAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
3469518 GTTG-ATTTTTAACAA
130 GTTGAATTTTGAA-AA
* * * ** *
3469533 CAGAAATT-AAATTA-CTC-AGGTGTCCTGA-GCTTAACTCACCTCTCGCAATATGAG-TCAA-T
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * * * *** * * *
3469592 TT-AAAACATAAACTAAAAATACCTTGGCGTGCCCCT-AGGCTCAACTCACTTCTCGCAATATGA
66 TTGAAAGCAGAAATTGAAAATACCTCAACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
3469655 GTTGATTTTTGAAAAA
130 GTTGAATTTTG-AAAA
3469671 CAGAAATT
1 CAGAAATT
3469679 AAAAGACTCA
Statistics
Matches: 1095, Mismatches: 38, Indels: 43
0.93 0.03 0.04
Matches are distributed among these distances:
136 35 0.03
137 24 0.02
138 37 0.03
139 13 0.01
140 71 0.06
141 63 0.06
142 63 0.06
143 186 0.17
144 100 0.09
145 436 0.40
146 67 0.06
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (144 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAA
Found at i:3482071 original size:3 final size:3
Alignment explanation
Indices: 3482065--3482110 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
3482055 TTTTCTTTCT
*
3482065 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
3482111 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:3482094 original size:10 final size:10
Alignment explanation
Indices: 3482079--3482107 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
3482069 TCTTCCTCTT
3482079 TTCTTCTTCC
1 TTCTTCTTCC
3482089 TTCTTCTTCC
1 TTCTTCTTCC
3482099 TTCTTCTTC
1 TTCTTCTTC
3482108 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:3482095 original size:13 final size:13
Alignment explanation
Indices: 3482065--3482110 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
3482055 TTTTCTTTCT
3482065 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
3482077 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
3482089 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
3482102 TTCTTCTTC
1 TTCTTCTTC
3482111 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:3482201 original size:10 final size:10
Alignment explanation
Indices: 3482166--3482218 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
3482156 ACGCCGGTAC
3482166 TCTT-TCTTT
1 TCTTCTCTTT
* *
3482175 TCTTCTCCTC
1 TCTTCTCTTT
3482185 T-TTCTCTTT
1 TCTTCTCTTT
3482194 TCTTCTCTTT
1 TCTTCTCTTT
*
3482204 TCTTCTTTTT
1 TCTTCTCTTT
3482214 TCTTC
1 TCTTC
3482219 GAAAAATCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
9 11 0.30
10 26 0.70
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:3482218 original size:20 final size:19
Alignment explanation
Indices: 3482170--3482216 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
3482160 CGGTACTCTT
3482170 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
3482189 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
3482206 TTCTTTT-TTCT
1 -TCTTTTCTTCT
3482217 TCGAAAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 11 0.41
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:3482489 original size:29 final size:29
Alignment explanation
Indices: 3482456--3482572 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
3482446 TGTAATTTTT
*
3482456 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
3482485 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
3482515 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
3482544 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
3482573 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:3482511 original size:30 final size:30
Alignment explanation
Indices: 3482471--3482572 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
3482461 ATTTAGGATT
*
3482471 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
3482501 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
3482531 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
3482561 AAAATGCAATTT
1 AAAATGAAATTT
3482573 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:3482596 original size:17 final size:17
Alignment explanation
Indices: 3482570--3482606 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
3482560 CAAAATGCAA
3482570 TTTTTATTTTTTTAAAT
1 TTTTTATTTTTTTAAAT
*
3482587 TTTTTTTTTTTTTAAAT
1 TTTTTATTTTTTTAAAT
3482604 TTT
1 TTT
3482607 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTATTTTTTTAAAT
Found at i:3484106 original size:15 final size:16
Alignment explanation
Indices: 3484086--3484115 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3484076 TAACAAAAAG
3484086 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
3484101 AACCCAATAACCCAC
1 AACCCAATAACCCAC
3484116 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:3485642 original size:8 final size:8
Alignment explanation
Indices: 3485629--3485662 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
3485619 CATAATATAT
3485629 ATATTTTC
1 ATATTTTC
3485637 ATATTTTC
1 ATATTTTC
3485645 ATATTTT-
1 ATATTTTC
3485652 ATGATTTTC
1 AT-ATTTTC
3485661 AT
1 AT
3485663 CTATTTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 2 0.08
8 20 0.83
9 2 0.08
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (8 bp):
ATATTTTC
Found at i:3486116 original size:109 final size:108
Alignment explanation
Indices: 3485870--3486190 Score: 527
Period size: 109 Copynumber: 3.0 Consensus size: 108
3485860 AAATATTTCT
* *
3485870 AAATGAGGCAATGTTTTGCGTTTGGAAGTTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA-T
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
3485934 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAATTTTTA
*
3485977 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTTGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
3486042 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTT-AAATTTTTA
* * *
3486086 AAATAAGGCAATGTTTTACGTTTGAAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * * *
3486151 TTTCTCGTTCAACCAAATAGCTAAACATCCTCTTGAATTT
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAATTT
3486191 AAATTCATGC
Statistics
Matches: 199, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
107 60 0.30
108 39 0.20
109 100 0.50
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (108 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAATTTTTA
Found at i:3489025 original size:26 final size:27
Alignment explanation
Indices: 3488970--3489018 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
3488960 ATAAAATACA
*
3488970 TCTTTGCATTCCTTTTTGAGCTAATAT
1 TCTTTGCATTCCTTTTTGAGATAATAT
3488997 TCTTT-CATT-CTTTTTGA-ATAAT
1 TCTTTGCATTCCTTTTTGAGATAAT
3489019 TATTTCTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 4 0.19
27 5 0.24
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (27 bp):
TCTTTGCATTCCTTTTTGAGATAATAT
Found at i:3489699 original size:6 final size:6
Alignment explanation
Indices: 3489690--3489761 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
3489680 AAGAAAAAGA
* * * * * *
3489690 AAAATC AAAATC AAAGTC AAAATG AAAATG AAAATG AAAATG AAAATGAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT--C
3489740 AAAATC AAAAATC AAAAT- AAAA
1 AAAATC -AAAATC AAAATC AAAA
3489762 AAAACAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
5 4 0.07
6 43 0.74
7 6 0.10
8 5 0.09
ACGTcount: A:0.69, C:0.07, G:0.08, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:3489699 original size:12 final size:12
Alignment explanation
Indices: 3489690--3489741 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
3489680 AAGAAAAAGA
*
3489690 AAAATCAAAATC
1 AAAATCAAAATG
*
3489702 AAAGTCAAAATG
1 AAAATCAAAATG
*
3489714 AAAATGAAAATG
1 AAAATCAAAATG
*
3489726 AAAATGAAAATG
1 AAAATCAAAATG
3489738 AAAA
1 AAAA
3489742 AATCAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.67, C:0.06, G:0.12, T:0.15
Consensus pattern (12 bp):
AAAATCAAAATG
Found at i:3489756 original size:21 final size:21
Alignment explanation
Indices: 3489726--3489771 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
3489716 AATGAAAATG
* * *
3489726 AAAATGAAAATGAAAAAATCA
1 AAAATCAAAATAAAAAAAACA
3489747 AAAATCAAAATAAAAAAAACA
1 AAAATCAAAATAAAAAAAACA
3489768 AAAA
1 AAAA
3489772 GAAGAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (21 bp):
AAAATCAAAATAAAAAAAACA
Found at i:3489822 original size:51 final size:53
Alignment explanation
Indices: 3489740--3489839 Score: 134
Period size: 51 Copynumber: 1.9 Consensus size: 53
3489730 TGAAAATGAA
3489740 AAAATCAAAAATCAAAATAAAAAAAACAAAAAG-AAGAAAGAA-GAAAAAAATC
1 AAAATCAAAAATCAAAATAAAAAAAACAAAAAGAAAG-AAGAATGAAAAAAATC
* ** *
3489792 AAAATC-AAGATCAAAATAAAAATGAGAAAAAGAAAGAAGAATGAAAAA
1 AAAATCAAAAATCAAAATAAAAAAAACAAAAAGAAAGAAGAATGAAAAA
3489840 GGAGAAATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 27 0.64
52 15 0.36
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (53 bp):
AAAATCAAAAATCAAAATAAAAAAAACAAAAAGAAAGAAGAATGAAAAAAATC
Found at i:3490302 original size:20 final size:20
Alignment explanation
Indices: 3490277--3490316 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3490267 CGTAAAATGA
*
3490277 TTTCTGGAAAATGGTTTACT
1 TTTCTGGAAAATGATTTACT
*
3490297 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
3490317 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:3490332 original size:14 final size:15
Alignment explanation
Indices: 3490256--3490332 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
3490246 GATTGCCAGT
* *
3490256 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
3490270 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
3490284 AAAATGGTTTACTTTTCTGT
1 AAAAT-G---A-TTTTCTGG
*
3490304 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
3490319 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
3490333 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
19 1 0.02
20 11 0.22
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:3491385 original size:12 final size:13
Alignment explanation
Indices: 3491368--3491398 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3491358 CTAAGTCAAA
3491368 AAAAATGA-AATG
1 AAAAATGAGAATG
3491380 AAAAATGAGAATG
1 AAAAATGAGAATG
3491393 AAAAAT
1 AAAAAT
3491399 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAAATGAGAATG
Found at i:3492873 original size:84 final size:86
Alignment explanation
Indices: 3492647--3492992 Score: 529
Period size: 86 Copynumber: 4.1 Consensus size: 86
3492637 ATCAGTGAAC
* *
3492647 ATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAAAAGCAGATCTTGCCTT
1 ATCGAAAACAAATCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
*
3492712 CC-AGCATTAACAGCGAAGCAG
66 CCTA-CATTAACAACGAAGCAG
* *
3492733 ATCGAAAACAAATCATTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCATT
1 ATCGAAAACAAATCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
* *
3492798 CCTGCGTTAACAACGAAGCAG
66 CCTACATTAACAACGAAGCAG
3492819 ATCGAAAAC-AATCCTTG-CTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
1 ATCGAAAACAAATCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
*
3492882 CCTACGTTAACAACGAAGCAG
66 CCTACATTAACAACGAAGCAG
* * **
3492903 ATCGAAAACAAA-CCTTCCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTATCTT
1 ATCGAAAACAAATCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
* *
3492967 CCTACATTGACAACGAAGTAG
66 CCTACATTAACAACGAAGCAG
3492988 ATCGA
1 ATCGA
3492993 GGACACAAGC
Statistics
Matches: 240, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
84 78 0.32
85 75 0.31
86 87 0.36
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (86 bp):
ATCGAAAACAAATCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
CCTACATTAACAACGAAGCAG
Found at i:3493306 original size:87 final size:88
Alignment explanation
Indices: 3493215--3494459 Score: 553
Period size: 87 Copynumber: 14.3 Consensus size: 88
3493205 TAAAATAAAG
* * * * *
3493215 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC-GCA-T-CAGGTCTTATTTCCCTGAGGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCAGAATTGCAGATCTTATCTCCCTGAGGTTA
* *
3493277 CAGCGGAGTAGACCGAAGAATTTCA
66 CAGCGGAGCAGACCGAAG-ATAT-A
* **
3493302 GATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGGT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACC--AGAATTGCAGATCTTATCTCCCTGAGGT
*
3493367 TACAGCGGAGCAGATCGAAGATATA
64 TACAGCGGAGCAGACCGAAGATATA
* * ** ** * ** * *
3493392 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTA-AAATAAAGGATCTTATCTCTCTGAAGTT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCAGAATTGCA-GATCTTATCTCCCTGAGGTT
** * *
3493455 ACAGTAGAGTAGATC---G-TATCA
65 ACAGCGGAGCAGACCGAAGATAT-A
* * * ** *
3493476 GGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAAATCTTATCTCCCTGAGGT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACC--AGAATTGCAGATCTTATCTCCCTGAGGT
* *
3493541 TACAGCGGAGCAGATCGAAGACATA
64 TACAGCGGAGCAGACCGAAGATATA
* * * ** * ** * * *
3493566 -ATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTA-AAATAAAGGATCTTATCTCTCTAAAGTT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCAGAATTGCA-GATCTTATCTCCCTGAGGTT
** * * * *
3493629 ACAGTAGAGTAGATCG--CAT-CA
65 ACAGCGGAGCAGACCGAAGATATA
* * * ** *
3493650 GGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAAATCTTATCTCCCTGAGGT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACC--AGAATTGCAGATCTTATCTCCCTGAGGT
* * *
3493715 TACAGCGGAGCAGATCAAAGACATA
64 TACAGCGGAGCAGACCGAAGATATA
* * * ** ** * ** * *
3493740 -ATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTA-AAATAAAGGATCTTATCTCTCTGAAGTT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCAGAATTGCA-GATCTTATCTCCCTGAGGTT
** * * * *
3493803 ACAGTAGAGTAGATCG--CAT-CA
65 ACAGCGGAGCAGACCGAAGATATA
* * * *
3493824 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACC--AGAATTGCAGATCTTATCTCCCTGAGGT
* *
3493889 TACAGCGGAGCAGATCGAAGACATA
64 TACAGCGGAGCAGACCGAAGATATA
* * ** ** * ** * *
3493914 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTA-AAATAAAGGATCTTATCTCTCTGAAGTT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCAGAATTGCA-GATCTTATCTCCCTGAGGTT
** * * * *
3493977 ACAGTAGAGTAGATCG--CAT-CA
65 ACAGCGGAGCAGACCGAAGATATA
* * * **
3493998 GGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGGT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACC--AGAATTGCAGATCTTATCTCCCTGAGGT
*** *
3494063 TACAGCGGAGCAGATTAAAGACATA
64 TACAGCGGAGCAGACCGAAGATATA
* * ** ** * ** * *
3494088 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTA-AAATAAAGGATCTTATCTCTCTGAAGTT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCAGAATTGCA-GATCTTATCTCCCTGAGGTT
** * * * *
3494151 ACAGTAGAGTAGATCG--CAT-CA
65 ACAGCGGAGCAGACCGAAGATATA
* * * ** *
3494172 GGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACTGGAGAATTGCAGATCTTATCTCCCTGAGGT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGAC--CAGAATTGCAGATCTTATCTCCCTGAGGT
*** *
3494237 TACAGCGGAGCAGATTAAAGACA-A
64 TACAGCGGAGCAGACCGAAGATATA
* * * ** ** * ** * *
3494261 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTA-AAATAAAGGATCTTATCTCTCTGAAGTT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCAGAATTGCA-GATCTTATCTCCCTGAGGTT
** * * * *
3494325 ACAGTAGAGTAGATCG--CAT-CA
65 ACAGCGGAGCAGACCGAAGATATA
* * * **
3494346 GGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGGT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACC--AGAATTGCAGATCTTATCTCCCTGAGGT
*** *
3494411 TACAGCGGAGCAGATTAAAGACATA
64 TACAGCGGAGCAGACCGAAGATATA
*
3494436 -ATCCTATCTCCCTGAAGTTACAGT
1 GATCTTATCTCCCTGAAGTTACAGT
3494460 GGAGCGGATT
Statistics
Matches: 840, Mismatches: 263, Indels: 108
0.69 0.22 0.09
Matches are distributed among these distances:
83 3 0.00
84 6 0.01
85 158 0.19
86 24 0.03
87 394 0.47
88 24 0.03
89 179 0.21
90 9 0.01
91 6 0.01
92 37 0.04
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (88 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGTAGACCAGAATTGCAGATCTTATCTCCCTGAGGTTA
CAGCGGAGCAGACCGAAGATATA
Found at i:3493491 original size:174 final size:174
Alignment explanation
Indices: 3493299--3494512 Score: 2205
Period size: 174 Copynumber: 7.0 Consensus size: 174
3493289 CCGAAGAATT
* *
3493299 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
1 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
* *
3493364 GGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
66 GGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
*
3493429 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
*
3493473 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAAATCTTATCTCCCTGA
1 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
* *
3493538 GGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
66 GGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
*
3493603 ATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCA
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
*
3493647 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAAATCTTATCTCCCTGA
1 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
*
3493712 GGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAA
66 GGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
3493777 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
* * *
3493821 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
1 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
*
3493886 GGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
66 GGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
3493951 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
3493995 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
1 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
*
3494060 GGTTACAGCGGAGCAGATTAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
66 GGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
3494125 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
* *
3494169 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACTGGAGAATTGCAGATCTTATCTCCCTGA
1 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
* *
3494234 GGTTACAGCGGAGCAGATTAAAGACAAAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
66 GGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
3494299 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
3494343 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
1 TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
*
3494408 GGTTACAGCGGAGCAGATTAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
66 GGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
* *
3494473 ATAAAGAATCTTATCTCTCTGAA-TTGGCAGTAGAGTAGAT
131 ATAAAGGATCTTATCTCTCTGAAGTT-ACAGTAGAGTAGAT
3494513 TACGTCCAAG
Statistics
Matches: 1009, Mismatches: 30, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
173 2 0.00
174 1007 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (174 bp):
TCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGA
GGTTACAGCGGAGCAGATCAAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
Found at i:3494849 original size:15 final size:16
Alignment explanation
Indices: 3494829--3494858 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3494819 TAACAAAAAG
3494829 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
3494844 AACCCAATAACCCAC
1 AACCCAATAACCCAC
3494859 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:3496384 original size:8 final size:8
Alignment explanation
Indices: 3496373--3496406 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
3496363 ATATATATAT
3496373 ATATTTTC
1 ATATTTTC
3496381 ATATTTTC
1 ATATTTTC
3496389 ATATTTT-
1 ATATTTTC
3496396 ATGATTTTC
1 AT-ATTTTC
3496405 AT
1 AT
3496407 CTATTTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 2 0.08
8 20 0.83
9 2 0.08
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (8 bp):
ATATTTTC
Found at i:3496468 original size:23 final size:23
Alignment explanation
Indices: 3496437--3496481 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3496427 TGTAATTTTC
* *
3496437 ATGTGTATTTGTTTATTTTTTAT
1 ATGTCTATTTGTTTATGTTTTAT
*
3496460 ATGTCTATTTTTTTATGTTTTA
1 ATGTCTATTTGTTTATGTTTTA
3496482 GTTTTTTTTT
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:0.18, C:0.02, G:0.11, T:0.69
Consensus pattern (23 bp):
ATGTCTATTTGTTTATGTTTTAT
Found at i:3496815 original size:108 final size:109
Alignment explanation
Indices: 3496619--3496931 Score: 511
Period size: 109 Copynumber: 2.9 Consensus size: 109
3496609 AAATATTTCT
* ** * *
3496619 AAATGAGGCAATGTTTTGCGTTTGGAAGGTCGAGAAAACATGCCCTAAAGTGTTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
3496684 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTT-AAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAATTTTTA
* *
3496727 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATATGCCCTAAGGTGCTGGGTGTTGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
3496792 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTTA
66 TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAATTTTTA
* *
3496836 AAATAAGGCAATGTTTTACGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* *
3496901 TTTCTCGTTCAACCAAATAGCTAAACATCCT
66 TTTCTCGTTCAACCAAATAGCTTAATATCCT
3496932 CTTGAATTTA
Statistics
Matches: 189, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
108 91 0.48
109 98 0.52
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATAGCTTAATATCCTTTTAAAATTTTTA
Found at i:3498010 original size:6 final size:6
Alignment explanation
Indices: 3497995--3498027 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
3497985 AGTTCTATTT
3497995 AATT-A AATTCA AATTCA AATTCA AATTCA AATT
1 AATTCA AATTCA AATTCA AATTCA AATTCA AATT
3498028 TTAAATTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (6 bp):
AATTCA
Found at i:3510895 original size:26 final size:28
Alignment explanation
Indices: 3510866--3510931 Score: 73
Period size: 32 Copynumber: 2.3 Consensus size: 28
3510856 ATCAATAGTT
*
3510866 ATTTATGT-TTA-GTTTTTGGATATTGA
1 ATTTATGTATTATGCTTTTGGATATTGA
3510892 ATTTATGTGCGAATTATGCTTTTGGATATTGA
1 ATTTATGT----ATTATGCTTTTGGATATTGA
3510924 ATTTATGT
1 ATTTATGT
3510932 GTAATCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 8 0.24
31 3 0.09
32 22 0.67
ACGTcount: A:0.24, C:0.03, G:0.20, T:0.53
Consensus pattern (28 bp):
ATTTATGTATTATGCTTTTGGATATTGA
Found at i:3521654 original size:24 final size:23
Alignment explanation
Indices: 3521616--3521673 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
3521606 ATCACTTAAA
*
3521616 AATTAAATATATATAAATATTTT-T
1 AATTAAAT-TTTATAAAT-TTTTGT
*
3521640 AATTAATATTTTATATATTTTTGT
1 AATTAA-ATTTTATAAATTTTTGT
3521664 AATTAAATTT
1 AATTAAATTT
3521674 AAATTTAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 8 0.27
24 20 0.67
25 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AATTAAATTTTATAAATTTTTGT
Found at i:3521679 original size:20 final size:21
Alignment explanation
Indices: 3521629--3521679 Score: 52
Period size: 24 Copynumber: 2.3 Consensus size: 21
3521619 TAAATATATA
3521629 TAAATATTTTTAATTAATATTT
1 TAAAT-TTTTTAATTAATATTT
3521651 TATATATTTTTGTAATTAA-A-TT
1 TA-A-ATTTTT-TAATTAATATTT
3521673 TAAATTT
1 TAAATTT
3521680 AGAAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 4 0.15
21 1 0.04
22 6 0.23
23 6 0.23
24 9 0.35
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TAAATTTTTTAATTAATATTT
Found at i:3524315 original size:15 final size:15
Alignment explanation
Indices: 3524291--3524324 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3524281 AACAATTATG
* *
3524291 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
3524306 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
3524321 ATAA
1 ATAA
3524325 CAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:3525005 original size:30 final size:31
Alignment explanation
Indices: 3524952--3525015 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
3524942 AATTAAAAAT
**
3524952 ATGTACGTATGTATATATTTATAT-AACAAA
1 ATGTACGTATGTATATACATATATAAACAAA
* *
3524982 ATGTATGTATGTATGTACATATATACAACAAA
1 ATGTACGTATGTATATACATATATA-AACAAA
3525014 AT
1 AT
3525016 TTGAAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 20 0.71
32 8 0.29
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (31 bp):
ATGTACGTATGTATATACATATATAAACAAA
Found at i:3526857 original size:128 final size:129
Alignment explanation
Indices: 3526545--3526859 Score: 431
Period size: 129 Copynumber: 2.5 Consensus size: 129
3526535 TATGAGAATG
* * * * * * *
3526545 AGATTTGTAGTTTTAG-TCCG-TTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTTCGTCT
1 AGATCTGTGGTTTTAGATCCGCTT-CACTGCCAGTACAGGAAGATAGGATTGATTTTTTTCGTCT
*
3526608 GCTCCACTACTGCTTAGGGAGATAAGATTGGATGCGATCTGCTCTACTACAACTTCAGAGAGATA
65 GCTCCACTACTGCTTAGGGAGATAAGATTGGATGCGATCTGCTCCACTACAACTTCAGAGAGATA
* * * *
3526673 AGATCTGTGATTTTCGATCCGCTTCACTGCCAGTACAGGAAAATAGGATTGTTTTTTTTCGTCTG
1 AGATCTGTGGTTTTAGATCCGCTTCACTGCCAGTACAGGAAGATAGGATTGATTTTTTTCGTCTG
* ** *
3526738 CTCCACTACTGCTTAGGGAGATAAGACTT-GATGTGATCTGCTCCACTACTGCTT-AGGGAGATA
66 CTCCACTACTGCTTAGGGAGATAAGA-TTGGATGCGATCTGCTCCACTACAACTTCAGAGAGATA
*
3526801 AGATCTGTGGTTTTAGATCCGCTTCACTGCCAGTACAGGAAGATAGGATTGGTTTTTTT
1 AGATCTGTGGTTTTAGATCCGCTTCACTGCCAGTACAGGAAGATAGGATTGATTTTTTT
3526860 GTTTTTTGTT
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
128 75 0.46
129 85 0.52
130 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (129 bp):
AGATCTGTGGTTTTAGATCCGCTTCACTGCCAGTACAGGAAGATAGGATTGATTTTTTTCGTCTG
CTCCACTACTGCTTAGGGAGATAAGATTGGATGCGATCTGCTCCACTACAACTTCAGAGAGATA
Found at i:3530845 original size:3 final size:3
Alignment explanation
Indices: 3530839--3530867 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3530829 TTATCTTCTT
3530839 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3530868 TTTCTATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3531301 original size:15 final size:17
Alignment explanation
Indices: 3531264--3531303 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
3531254 TGTGTAAATA
3531264 ATTTTTA-TGTGTTTAT
1 ATTTTTATTGTGTTTAT
*
3531280 ATATTTATTGT-TTTAT
1 ATTTTTATTGTGTTTAT
3531296 -TTTTTATT
1 ATTTTTATT
3531304 TAAAAAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 7 0.33
16 11 0.52
17 3 0.14
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (17 bp):
ATTTTTATTGTGTTTAT
Found at i:3536481 original size:54 final size:54
Alignment explanation
Indices: 3536422--3536525 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
3536412 GACACAACAG
*
3536422 CATAGATGACGAAGATGTGAACAATCCCATTAAGCTCGGTAATGGAACGAGCAA
1 CATAGATGACGAAGATGTGAACAATCCCATTAAGCTCAGTAATGGAACGAGCAA
3536476 CATAGATGACGAAGATGTGAACAATCCCATTAAGCTCAGTAATGGAACGA
1 CATAGATGACGAAGATGTGAACAATCCCATTAAGCTCAGTAATGGAACGA
3536526 ATGAACCACC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (54 bp):
CATAGATGACGAAGATGTGAACAATCCCATTAAGCTCAGTAATGGAACGAGCAA
Found at i:3558501 original size:20 final size:19
Alignment explanation
Indices: 3558463--3558502 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
3558453 AAGATTGGAT
* *
3558463 TGTTAAAAAAAGTTTAAAA
1 TGTTAAAAAAAATTGAAAA
3558482 TGTTAAAAAAAAATTGAAAA
1 TGTT-AAAAAAAATTGAAAA
3558502 T
1 T
3558503 TTTGATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (19 bp):
TGTTAAAAAAAATTGAAAA
Found at i:3563173 original size:19 final size:19
Alignment explanation
Indices: 3563151--3563206 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
3563141 TTTAGTCTCA
3563151 TTTTTTTATTTTTTATTTG
1 TTTTTTTATTTTTTATTTG
**
3563170 TTTTTTGT-TTTAATATTTG
1 TTTTTT-TATTTTTTATTTG
***
3563189 TTTTAAAATTTTTTATTT
1 TTTTTTTATTTTTTATTT
3563207 AATGAAATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (19 bp):
TTTTTTTATTTTTTATTTG
Found at i:3563824 original size:27 final size:27
Alignment explanation
Indices: 3563760--3563825 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
3563750 CGAATATAAT
* *
3563760 AAATATATATTTTATTTTTTTAATTTTA
1 AAATAAAT-TTTTAATTTTTTAATTTTA
*
3563788 AAAT-ACTTTTTAATTTTTT-ATTTTCA
1 AAATAAATTTTTAATTTTTTAATTTT-A
3563814 AAATAAATTTTT
1 AAATAAATTTTT
3563826 GGTGTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 5 0.16
26 16 0.50
27 7 0.22
28 4 0.12
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (27 bp):
AAATAAATTTTTAATTTTTTAATTTTA
Found at i:3564894 original size:16 final size:16
Alignment explanation
Indices: 3564863--3564895 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3564853 TAAATAATTA
3564863 AATATGTATGTTTAAT
1 AATATGTATGTTTAAT
3564879 AATAT-TATGTTATAAT
1 AATATGTATGTT-TAAT
3564895 A
1 A
3564896 TTTATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (16 bp):
AATATGTATGTTTAAT
Found at i:3565435 original size:22 final size:22
Alignment explanation
Indices: 3565410--3565454 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
3565400 TTTACTTTCT
3565410 CAAGCTCCTTCAATTCTTTGGA
1 CAAGCTCCTTCAATTCTTTGGA
3565432 CAAGCTCCTTCAATTCTTTGGA
1 CAAGCTCCTTCAATTCTTTGGA
3565454 C
1 C
3565455 GTTAGTGAGT
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:0.22, C:0.29, G:0.13, T:0.36
Consensus pattern (22 bp):
CAAGCTCCTTCAATTCTTTGGA
Found at i:3565864 original size:17 final size:17
Alignment explanation
Indices: 3565844--3565876 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3565834 ATTTAATATA
*
3565844 TATATTTGATTAAAAAG
1 TATATTTAATTAAAAAG
3565861 TATATTTAATTAAAAA
1 TATATTTAATTAAAAA
3565877 TAAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
TATATTTAATTAAAAAG
Found at i:3568594 original size:5 final size:5
Alignment explanation
Indices: 3568584--3568614 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
3568574 GTAAGCTAAA
3568584 TGCAC TGCAC TGCAC TGCAC TGCAC TGCAC T
1 TGCAC TGCAC TGCAC TGCAC TGCAC TGCAC T
3568615 ATACTTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.39, G:0.19, T:0.23
Consensus pattern (5 bp):
TGCAC
Found at i:3569297 original size:30 final size:30
Alignment explanation
Indices: 3569258--3569320 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
3569248 ACTTATTTTA
3569258 TTGTGAATTTTGTTATTATTTTAAAAACAT
1 TTGTGAATTTTGTTATTATTTTAAAAACAT
* * * *
3569288 TTGTTAATTTTGTTATTGTTTTAGAGACAT
1 TTGTGAATTTTGTTATTATTTTAAAAACAT
3569318 TTG
1 TTG
3569321 CTTATTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTGAATTTTGTTATTATTTTAAAAACAT
Found at i:3570663 original size:28 final size:28
Alignment explanation
Indices: 3570623--3570748 Score: 180
Period size: 28 Copynumber: 4.5 Consensus size: 28
3570613 TGATTTTCGA
* *
3570623 CACTACGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
3570651 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
3570679 CACTAAGTGTGCGAGTTTAATGGAAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
3570707 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
3570735 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
3570749 ACTTATTAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 88 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:3571959 original size:23 final size:23
Alignment explanation
Indices: 3571874--3571985 Score: 84
Period size: 23 Copynumber: 4.8 Consensus size: 23
3571864 GCAGGCCCTA
* * *
3571874 TATATATGCTGCCCAAATTGTTG
1 TATATATGCTGTCCAATTTGATG
* * * *
3571897 CACATATGCTGTCAAATTTTTATG
1 TATATATGCTGTCCAA-TTTGATG
*
3571921 CTA-AAATGCTGTCCAATTTGATG
1 -TATATATGCTGTCCAATTTGATG
* *
3571944 TATATATGCTGCCCAAATTT-TTG
1 TATATATGCTGTCC-AATTTGATG
*
3571967 TATATATACTGTCCAATTT
1 TATATATGCTGTCCAATTT
3571986 TTGGTGTGAA
Statistics
Matches: 69, Mismatches: 16, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
22 7 0.10
23 41 0.59
24 20 0.29
25 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (23 bp):
TATATATGCTGTCCAATTTGATG
Found at i:3572032 original size:71 final size:69
Alignment explanation
Indices: 3571874--3572034 Score: 182
Period size: 70 Copynumber: 2.3 Consensus size: 69
3571864 GCAGGCCCTA
*
3571874 TATATATGCTGCCCAAATTGTTGCACATATGCTGTCAAATTTTTATGCTAAAATGCTGTCCAATT
1 TATATATGCTGCCCAAATTGTTGCACATATACTGTCAAATTTTTATGCTAAAATGCTGTCCAATT
3571939 TGATG
66 TGA-G
* * * * * * *
3571944 TATATATGCTGCCCAAATTTTTGTATATATACTGTCCAATTTTTGGTG-TGAAAATGCTGTCTAG
1 TATATATGCTGCCCAAATTGTTGCACATATACTGTCAAATTTTT-ATGCT-AAAATGCTGTCCAA
3572008 TTTG-G
64 TTTGAG
*
3572013 TATATGAATGCTGTCCAAATTG
1 TATAT--ATGCTGCCCAAATTG
3572035 ATGTAAAAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
69 6 0.08
70 40 0.52
71 31 0.40
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (69 bp):
TATATATGCTGCCCAAATTGTTGCACATATACTGTCAAATTTTTATGCTAAAATGCTGTCCAATT
TGAG
Found at i:3573298 original size:3 final size:3
Alignment explanation
Indices: 3573290--3573320 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
3573280 CTTCACCATC
3573290 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3573321 AACATTGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3576931 original size:18 final size:18
Alignment explanation
Indices: 3576816--3576926 Score: 150
Period size: 18 Copynumber: 6.2 Consensus size: 18
3576806 CCCAACTACT
*
3576816 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
3576834 GTATACGTGAATAGTATA
1 GTATACGTGAATAGTACC
*
3576852 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
3576870 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
3576888 GCATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
3576906 GTATACGGGAATAGTACC
1 GTATACGTGAATAGTACC
3576924 GTA
1 GTA
3576927 AACGGTCGTA
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 79 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:3583351 original size:10 final size:11
Alignment explanation
Indices: 3583315--3583351 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
3583305 AAAAAAATAA
3583315 AAAAAGTATTTT
1 AAAAA-TATTTT
3583327 AAAAATATTTT
1 AAAAATATTTT
3583338 -AAAAT-TTTT
1 AAAAATATTTT
3583347 AAAAA
1 AAAAA
3583352 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.17
10 9 0.38
11 6 0.25
12 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:3584627 original size:16 final size:16
Alignment explanation
Indices: 3584596--3584628 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3584586 TAAATAATTA
3584596 AATATGTATGTTTAAT
1 AATATGTATGTTTAAT
3584612 AATAT-TATGTTATAAT
1 AATATGTATGTT-TAAT
3584628 A
1 A
3584629 TTTATTACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (16 bp):
AATATGTATGTTTAAT
Found at i:3585564 original size:17 final size:17
Alignment explanation
Indices: 3585544--3585576 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3585534 ATTTAATATA
*
3585544 TATATTTGATTAAAAAG
1 TATATTTAATTAAAAAG
3585561 TATATTTAATTAAAAA
1 TATATTTAATTAAAAA
3585577 TAAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
TATATTTAATTAAAAAG
Found at i:3589322 original size:30 final size:30
Alignment explanation
Indices: 3589288--3589350 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
3589278 ACTTATTTTA
3589288 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
3589318 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
3589348 TTG
1 TTG
3589351 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:3590302 original size:3 final size:3
Alignment explanation
Indices: 3590294--3590344 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
3590284 AAGCTTCACC
3590294 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3590342 ATA
1 ATA
3590345 CATTGCTACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3591111 original size:16 final size:15
Alignment explanation
Indices: 3591083--3591112 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
3591073 ATATTAAAAT
3591083 TTAAATTATTATTAC
1 TTAAATTATTATTAC
3591098 TTAAATTAATTATTA
1 TTAAATT-ATTATTA
3591113 AAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAAATTATTATTAC
Found at i:3592040 original size:17 final size:18
Alignment explanation
Indices: 3592010--3592050 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
3592000 AAGTTGGTGG
3592010 TTTTTTATTCTAATCTTAT
1 TTTTTTATTCTAAT-TTAT
*
3592029 TTTTTTA-T-TAATTTCT
1 TTTTTTATTCTAATTTAT
3592045 TTTTTT
1 TTTTTT
3592051 TATAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 4 0.19
18 1 0.05
19 7 0.33
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTATTCTAATTTAT
Found at i:3595316 original size:19 final size:20
Alignment explanation
Indices: 3595284--3595321 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3595274 TAAATTACTC
*
3595284 ATCTTAGATTAATTGAGTTA
1 ATCTTAGATTAATTAAGTTA
3595304 ATCTTAG-TTAATTAAGTT
1 ATCTTAGATTAATTAAGTT
3595322 GTTGGAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (20 bp):
ATCTTAGATTAATTAAGTTA
Found at i:3596760 original size:17 final size:17
Alignment explanation
Indices: 3596738--3596771 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3596728 ATCCACTAAT
*
3596738 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3596755 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3596772 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3601400 original size:17 final size:17
Alignment explanation
Indices: 3601378--3601411 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3601368 ATCCACTAAT
*
3601378 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3601395 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3601412 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3602632 original size:16 final size:15
Alignment explanation
Indices: 3602603--3602637 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
3602593 TATTTAAAAT
3602603 TTAAAATTATTATTA
1 TTAAAATTATTATTA
3602618 TTAAAATTA--ATTA
1 TTAAAATTATTATTA
3602631 TTAAAAT
1 TTAAAAT
3602638 AAAAATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.55
15 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAAAATTATTATTA
Found at i:3602652 original size:35 final size:35
Alignment explanation
Indices: 3602576--3602652 Score: 81
Period size: 35 Copynumber: 2.2 Consensus size: 35
3602566 TATTTTTCAA
*
3602576 TAATA-TATTAAGAATATTATTTAAAATTTAAAAT
1 TAATATTATTAAGAATATTATTTAAAATTAAAAAT
*
3602610 TATTATTATTAA-AATTAATTA-TTAAAA-TAAAAAT
1 TAATATTATTAAGAA-T-ATTATTTAAAATTAAAAAT
3602644 GTAATATTA
1 -TAATATTA
3602653 AATAATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
34 12 0.33
35 20 0.56
36 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (35 bp):
TAATATTATTAAGAATATTATTTAAAATTAAAAAT
Found at i:3602787 original size:17 final size:17
Alignment explanation
Indices: 3602755--3602790 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3602745 ATAATATTTT
**
3602755 TTATTAATATTTTAATA
1 TTATTAATATAATAATA
3602772 TTATTAATATAATAATA
1 TTATTAATATAATAATA
3602789 TT
1 TT
3602791 GGACTTGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATTAATATAATAATA
Found at i:3602947 original size:18 final size:21
Alignment explanation
Indices: 3602907--3602953 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
3602897 AAAAATAAAC
3602907 TTATTTTCTGTTAATCTATAA
1 TTATTTTCTGTTAATCTATAA
*
3602928 TT-TTTTTTGTTAATC-A-AA
1 TTATTTTCTGTTAATCTATAA
3602946 TTATTTTC
1 TTATTTTC
3602954 ATGAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.17
19 5 0.22
20 12 0.52
21 2 0.09
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.62
Consensus pattern (21 bp):
TTATTTTCTGTTAATCTATAA
Found at i:3606442 original size:29 final size:28
Alignment explanation
Indices: 3606388--3606451 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
3606378 TAGCAAACAC
*
3606388 ATTAAAA-TGAAATAATATAAAATATAT
1 ATTAAAAGTGAAATAATATAAAATATAA
*
3606415 ATTAAAAGTGATAAT-ATATATATATATAA
1 ATTAAAAGTGA-AATAATATA-AAATATAA
*
3606444 ATTTAAAG
1 ATTAAAAG
3606452 ATAGTGGGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 7 0.23
28 8 0.26
29 16 0.52
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (28 bp):
ATTAAAAGTGAAATAATATAAAATATAA
Found at i:3614421 original size:37 final size:37
Alignment explanation
Indices: 3614371--3614444 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
3614361 TCTTCCTTTA
3614371 GACTTGGGTAAGCAAATATTCCTCCAACTAACCCTTG
1 GACTTGGGTAAGCAAATATTCCTCCAACTAACCCTTG
3614408 GACTTGGGTAAGCAAATATTCCTCCAACTAACCCTTG
1 GACTTGGGTAAGCAAATATTCCTCCAACTAACCCTTG
3614445 CACCAGTAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (37 bp):
GACTTGGGTAAGCAAATATTCCTCCAACTAACCCTTG
Found at i:3616393 original size:18 final size:16
Alignment explanation
Indices: 3616361--3616396 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
3616351 ATGGGATGAG
3616361 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
3616377 AATAAATTTAATTAATTA
1 AATAAATTT--TTAATTA
3616395 AA
1 AA
3616397 AATTTTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:3617230 original size:18 final size:16
Alignment explanation
Indices: 3617207--3617242 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
3617197 GTTTAAAATT
3617207 TTTAATTAATTAAATTTA
1 TTTAATTAA--AAATTTA
3617225 TTTAATTAAAAATTTA
1 TTTAATTAAAAATTTA
3617241 TT
1 TT
3617243 CTTATCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAATTAAAAATTTA
Found at i:3628349 original size:25 final size:24
Alignment explanation
Indices: 3628304--3628350 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
3628294 AAAACTTGGC
*
3628304 ATTTTTCTAATTTGACTTTTAATT
1 ATTTTTCTAATTTGAATTTTAATT
3628328 ATTTTATCTAATTT-AATATTTAA
1 ATTTT-TCTAATTTGAAT-TTTAA
3628351 ACTCAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTTCTAATTTGAATTTTAATT
Found at i:3632371 original size:98 final size:98
Alignment explanation
Indices: 3632192--3632388 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
3632182 GTACAATAAA
* *
3632192 ACTTTAAAGGAACACCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACGATT
1 ACTTTAAAAGAACACCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
* *
3632257 CCTTTAGAATCTCAAACTCAGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
* *
3632290 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACACCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
*
3632355 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
3632388 A
1 A
3632389 TTGTTTTTAG
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACACCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:3633865 original size:19 final size:19
Alignment explanation
Indices: 3633841--3633953 Score: 190
Period size: 19 Copynumber: 5.8 Consensus size: 19
3633831 AATCATATAT
3633841 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
3633860 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
3633879 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
3633898 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
3633919 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
3633938 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
3633954 CTCAAAAATT
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
19 69 0.78
21 19 0.22
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:3633924 original size:40 final size:40
Alignment explanation
Indices: 3633841--3633952 Score: 210
Period size: 40 Copynumber: 2.9 Consensus size: 40
3633831 AATCATATAT
3633841 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
3633879 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
3633919 TCTAAGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
3633953 CCTCAAAAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
38 28 0.39
40 44 0.61
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:3633925 original size:59 final size:56
Alignment explanation
Indices: 3633834--3633953 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 56
3633824 ATTACAAAAT
*
3633834 CATAT-ATTCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
*
3633889 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTG
3633948 CATATC
1 CATATC
3633954 CTCAAAAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
55 5 0.08
56 2 0.03
57 11 0.19
59 41 0.69
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (56 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:3634606 original size:13 final size:13
Alignment explanation
Indices: 3634588--3634619 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3634578 TTTCCAGCAA
3634588 TTATGAATTTATT
1 TTATGAATTTATT
3634601 TTATGAATTTATT
1 TTATGAATTTATT
*
3634614 TGATGA
1 TTATGA
3634620 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:3634827 original size:50 final size:50
Alignment explanation
Indices: 3634714--3634955 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
3634704 ATTTGGGTAA
* * *
3634714 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
3634770 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3634820 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
3634870 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
3634920 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
3634956 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:3634903 original size:100 final size:103
Alignment explanation
Indices: 3634714--3634963 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
3634704 ATTTGGGTAA
3634714 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
3634779 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
3634820 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
3634882 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
3634920 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
3634964 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:3636514 original size:45 final size:44
Alignment explanation
Indices: 3636463--3636565 Score: 115
Period size: 44 Copynumber: 2.3 Consensus size: 44
3636453 CTAGTGCTTT
*
3636463 AATCTATTCCACTGCGACTGC-AGGGAGATAAGACT-T-ACAATCTTC
1 AATCTATTCCACT--GAATGCTAGGGAGATAAGA-TATGA-AATCTTC
*
3636508 AATCTATTCCACT-AATGCTTAGGGAGATAATATATGAAATCTTC
1 AATCTATTCCACTGAATGC-TAGGGAGATAAGATATGAAATCTTC
3636552 AATCTATTCCACTG
1 AATCTATTCCACTG
3636566 TTGTCCAGGG
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
42 4 0.08
43 1 0.02
44 32 0.63
45 14 0.27
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (44 bp):
AATCTATTCCACTGAATGCTAGGGAGATAAGATATGAAATCTTC
Found at i:3636707 original size:132 final size:132
Alignment explanation
Indices: 3636515--3637311 Score: 1371
Period size: 132 Copynumber: 6.0 Consensus size: 132
3636505 TTCAATCTAT
* * *
3636515 TCCACTAATGCTTAGGGAGATAATATATGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
3636580 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
3636645 GC
131 GC
* *
3636647 TCCACTACTGTTTAGGGAGATAAGATCTGGAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* * *
3636712 AGAATTGCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTTGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
3636777 GC
131 GC
* * * *
3636779 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTTAATATATTCCACTGTTGTCCAAGGAAAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
*
3636844 AGAATTACTGGCCTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
3636909 GC
131 GC
* *
3636911 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTTTCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* *
3636976 AGAATTACTGGCTTCAATGTACTCCACTATAACCATAGGGAGGTAAAATCTGCCATCTTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
3637041 GC
131 GC
*
3637043 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCC-CTGTTGCCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
*
3637107 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTTGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
3637172 GC
131 GC
* * *
3637174 TCCAGTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGAGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* *
3637239 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGAGAGGTAAAATCCGCCATATTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
3637304 GC
131 GC
3637306 TCCACT
1 TCCACT
3637312 GTCAATGCAG
Statistics
Matches: 625, Mismatches: 39, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
131 124 0.20
132 501 0.80
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
GC
Found at i:3636708 original size:44 final size:44
Alignment explanation
Indices: 3636483--3637103 Score: 144
Period size: 44 Copynumber: 14.1 Consensus size: 44
3636473 ACTGCGACTG
* *
3636483 CAGGGAGATAAGA-CTTACAATCTTCAATCTATTCCACTAATG-C
1 CAGGGAGATAAGATC-TGCAATCTTCAATCTATTCCACTATTGTC
* * * * *
3636526 TTAGGGAGATAATATATGAAATCTTCAATCTATTCCACTGTTGTC
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
* *** * * ***
3636571 CAGGGA-AGT-AGAAT-TACTGGCTTCAATGTACTCCACTATAACC
1 CAGGGAGA-TAAG-ATCTGCAATCTTCAATCTATTCCACTATTGTC
* * * * * ** * *
3636614 ACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGTT
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
* * *
3636659 TAGGGAGATAAGATCTGGAATCTTCAATCTATTCCACTGTTGTC
1 CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
*** * * ***
3636703 CAGGGA-AGT-AGAAT-TGCTGGCTTCAATGTACTCCACTATAACC
1 CAGGGAGA-TAAG-ATCTGCAATCTTCAATCTATTCCACTATTGTC
* * * ** ** *
3636746 ACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTG-C
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
* * * * *
3636790 TTAGGGAGATAAGATCTGAAATCTTTAATATATTCCACTGTTGTC
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
* * * *** * * * ***
3636835 CAAGGAAAT-AGAAT-TACTGGCCTCAATGTACTCCACTATAACC
1 CAGGGAGATAAG-ATCTGCAATCTTCAATCTATTCCACTATTGTC
* * * * * ** *
3636878 ACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG-C
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
* * *
3636922 TTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTTTC
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
* *** * * **
3636967 CAGGGA-AGT-AGAAT-TACTGGCTTCAATGTACTCCACTA-TAAC
1 CAGGGAGA-TAAG-ATCTGCAATCTTCAATCTATTCCACTATTGTC
* * * * ** *
3637009 CATAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTG-C
1 C--AGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
* * * *
3637054 TTAGGGAGATAAGATCTGAAATCTTCAATCTATTCC-CTGTTGCC
1 -CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
3637098 CAGGGA
1 CAGGGA
3637104 AGTAGAATTA
Statistics
Matches: 390, Mismatches: 157, Indels: 61
0.64 0.26 0.10
Matches are distributed among these distances:
42 3 0.01
43 89 0.23
44 224 0.57
45 73 0.19
46 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (44 bp):
CAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTATTGTC
Found at i:3642367 original size:98 final size:98
Alignment explanation
Indices: 3642188--3642384 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
3642178 GTACAATAAA
* *
3642188 ACTTTAAAGGAACACCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACACCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* * *
3642253 CCTTTAGAATCTCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
*
3642286 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACACCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
3642351 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
3642384 A
1 A
3642385 TTGTTTTTAG
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACACCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
Found at i:3643290 original size:25 final size:22
Alignment explanation
Indices: 3643233--3643282 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
3643223 ATATATAGCT
**
3643233 AAAATAATAATAATTACATATG
1 AAAATAATAATAATTACATAAC
3643255 AAAATAATAATAATTACATTAAC
1 AAAATAATAATAATTACA-TAAC
3643278 AAAAT
1 AAAAT
3643283 TAACTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATAATAATAATTACATAAC
Found at i:3643614 original size:72 final size:71
Alignment explanation
Indices: 3643434--3643631 Score: 208
Period size: 72 Copynumber: 2.8 Consensus size: 71
3643424 AAAATAAGCA
* * *
3643434 TTAGCGGCGTTTTACTG-AAAGCGCCGC--AAAAACCAAAGACAAACGATGCCGTTTCTGAGTTT
1 TTAGCGGCGTTTT--TGAAAAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTTCGGAGTTT
3643496 TTGGGGAT
64 TTGGGGAT
* * ****
3643504 TTAGCGACGTTTTT-AATCAAGCGCCACTAATTTTCCTAAGACAAACGGTGCCGTTTCGGTAGTT
1 TTAGCGGCGTTTTTGAA--AAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTTCGG-AGTT
3643568 TTT-GGGAT
63 TTTGGGGAT
* *
3643576 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAAAACCTAAGCCAAACGGTGTCGTTT
1 TTAGCGGCGTTTTT-GAAAAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTT
3643632 TCCAAGCTTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
68 2 0.02
70 20 0.19
72 72 0.70
73 7 0.07
74 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (71 bp):
TTAGCGGCGTTTTTGAAAAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTTCGGAGTTTTT
GGGGAT
Found at i:3644474 original size:13 final size:13
Alignment explanation
Indices: 3644452--3644493 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
3644442 TGAGTTTGGG
* *
3644452 GTTTAAGGTTTGA
1 GTTTAGGGTTTTA
3644465 GTTTAGGGTTTTA
1 GTTTAGGGTTTTA
*
3644478 G-CTAGGGTTTTA
1 GTTTAGGGTTTTA
3644490 GTTT
1 GTTT
3644494 GGAAATTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.50
Consensus pattern (13 bp):
GTTTAGGGTTTTA
Found at i:3644649 original size:14 final size:14
Alignment explanation
Indices: 3644621--3644709 Score: 58
Period size: 14 Copynumber: 6.4 Consensus size: 14
3644611 ATTCCCAAAA
3644621 TATGGTTTA-GGTT
1 TATGGTTTAGGGTT
3644634 TATGGTTTAGGGTT
1 TATGGTTTAGGGTT
** *
3644648 TACAGTTTAGAGTT
1 TATGGTTTAGGGTT
3644662 TA-GAGTTTTA-GGTT
1 TATG-G-TTTAGGGTT
** *
3644676 TGGGGTTTAGGATT
1 TATGGTTTAGGGTT
* * *
3644690 TAAGATTTAAGGTT
1 TATGGTTTAGGGTT
3644704 TATGGT
1 TATGGT
3644710 ATATATATTG
Statistics
Matches: 57, Mismatches: 14, Indels: 9
0.71 0.17 0.11
Matches are distributed among these distances:
13 13 0.23
14 39 0.68
15 5 0.09
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.47
Consensus pattern (14 bp):
TATGGTTTAGGGTT
Found at i:3644676 original size:21 final size:19
Alignment explanation
Indices: 3644624--3644705 Score: 56
Period size: 21 Copynumber: 3.9 Consensus size: 19
3644614 CCCAAAATAT
3644624 GGTTTAGGTTTATGGTTTAG
1 GGTTTAGGTTTA-GGTTTAG
*
3644644 GGTTTACAGTTTAGAGTTTAG
1 GGTTTA-GGTTTAG-GTTTAG
* *
3644665 AGTTTTAGGTTTGGGGTTTAG
1 -GGTTTAGGTTT-AGGTTTAG
* *
3644686 GATTTAAGATTTAAGGTTTA
1 GGTTT-AGGTTT-AGGTTTA
3644706 TGGTATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
20 11 0.22
21 32 0.65
22 6 0.12
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.46
Consensus pattern (19 bp):
GGTTTAGGTTTAGGTTTAG
Found at i:3645345 original size:115 final size:116
Alignment explanation
Indices: 3645143--3645382 Score: 378
Period size: 115 Copynumber: 2.1 Consensus size: 116
3645133 GGCGCTTCAG
* * **
3645143 AAAAAACGTCGCTAAAGGTCATATATTACCGGCGTTTTGTGAAGAAACGCCACAAAATTCCTTTA
1 AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAAATTCCTTTA
*
3645208 ACTGTGACAAAGACGATGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATT-T
66 ACTGTGACAAAGACGATGCCGTTTTGTTGTTTTCTTTTAGTGGCACATTAT
* *
3645258 AAAAAATGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCCAC-AAATTGCCTTT
1 AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAAATT-CCTTT
*
3645322 AACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCACATTAT
65 AACTGTGACAAAGACGATGCCGTTTTGTTGTTTTCTTTTAGTGGCACATTAT
3645374 -AAAAACGCC
1 AAAAAACGCC
3645383 ACAAATTCGC
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
114 5 0.04
115 108 0.95
116 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (116 bp):
AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAAATTCCTTTA
ACTGTGACAAAGACGATGCCGTTTTGTTGTTTTCTTTTAGTGGCACATTAT
Found at i:3645786 original size:261 final size:261
Alignment explanation
Indices: 3645244--3645953 Score: 1142
Period size: 261 Copynumber: 2.7 Consensus size: 261
3645234 TTGTTTTCTT
*
3645244 TTAGTGGCGCATTTAAAAAAT-GCCGCTAAAA-GTGATATATTACCGGCGTTTTACGAAGAAACG
1 TTAGTGGCGCATTT-GAAAATCGCCGC-AAAAGGTGATATATTACCGGCGTTTTACGAAGAAACG
* * * *
3645307 CCACAAATTGCCTTTAACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCACATT
64 CCACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATT
* * * * * *
3645372 ATAAAAACGCCACAAAT-TCGCAAATCACGAGCTGAGGAAACGGTGTCGTTTCCTTTTTTTATTA
129 ATAAAAACGCCACAAATATTG---TTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTA
* *
3645436 GTGGCGCTTTAGCTAAAGCGCCGCAACAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCC
191 GTGGCGCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCC
*
3645501 TTGTTA
256 TTGATA
* *
3645507 TTAGTGGCGCAGTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTATGAAGAAACGCC
1 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
* *
3645572 AGAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTT
66 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
3645637 AAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAGTGGC
131 AAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAGTGGC
3645702 GCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGAT
196 GCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGAT
3645767 A
261 A
3645768 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
1 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
3645833 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
66 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
** *
3645898 -AAAACGCCACAAATATT-TATTAATAGCTGAGGAAACGGCGCCGTTTCCTATTTTTA
131 AAAAACGCCACAAATATTGT-TTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTA
3645954 TTAGCTGAAG
Statistics
Matches: 418, Mismatches: 25, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
259 1 0.00
260 51 0.12
261 230 0.55
262 9 0.02
263 125 0.30
264 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (261 bp):
TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
AAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAGTGGC
GCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGAT
A
Found at i:3646560 original size:34 final size:34
Alignment explanation
Indices: 3646510--3646587 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 34
3646500 CGTAAAAAAT
* * *
3646510 GATTTTCCATCTGTAAAAATTGATTTTGCATTTA
1 GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
3646544 GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
1 GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
3646578 GATTTTGCAT
1 GATTTTGCAT
3646588 GCTGGAAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (34 bp):
GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
Found at i:3647011 original size:73 final size:74
Alignment explanation
Indices: 3646924--3647080 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 74
3646914 TAAAAGATAA
3646924 AATAA-TATATAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTA
1 AATAATTATATAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTA
3646988 AATATTATT
66 AATATTATT
3646997 AATAATTATA-AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTA
1 AATAATTATATAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTA
3647061 AATATTATT
66 AATATTATT
3647070 AATAATTATAT
1 AATAATTATAT
3647081 TAGTAATGTT
Statistics
Matches: 82, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
73 78 0.95
74 4 0.05
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.41
Consensus pattern (74 bp):
AATAATTATATAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTA
AATATTATT
Found at i:3647144 original size:19 final size:19
Alignment explanation
Indices: 3647120--3647346 Score: 100
Period size: 19 Copynumber: 12.5 Consensus size: 19
3647110 TATTAAATAA
3647120 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
3647139 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
*
3647157 TACAT--T-ACTTACATA-A
1 TACATAATAACTTACA-ACT
3647173 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
3647192 TACATAATACATTTAACTTACAACT
1 TAC---ATA-A--TAACTTACAACT
**
3647217 TACATAAT-ACATT-TGACT
1 TACATAATAAC-TTACAACT
* *
3647235 GACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* *
3647253 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
3647267 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* *
3647286 TACATAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
* *
3647305 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
3647319 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
3647338 TACATAATA
1 TACATAATA
3647347 CATAATAACT
Statistics
Matches: 161, Mismatches: 19, Indels: 56
0.68 0.08 0.24
Matches are distributed among these distances:
14 8 0.05
15 10 0.06
16 14 0.09
17 11 0.07
18 43 0.27
19 52 0.32
21 1 0.01
22 6 0.04
23 1 0.01
25 15 0.09
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.33
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Done.