Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 22 of 25
Found at i:3515673 original size:20 final size:20
Alignment explanation
Indices: 3515626--3515700 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
3515616 AAAAAGACAT
*
3515626 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
3515645 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
3515666 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
3515686 AATGTATCGATACAT
1 AATGTATCGATACAT
3515701 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:3515694 original size:40 final size:39
Alignment explanation
Indices: 3515623--3515700 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
3515613 GGTAAAAAGA
* *
3515623 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
3515662 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
3515701 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:3516363 original size:20 final size:21
Alignment explanation
Indices: 3516324--3516382 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
3516314 TACCCTTCAC
3516324 ATTATTTT-T-AAATTTATTT
1 ATTATTTTATAAAATTTATTT
3516343 AATT-TTTTATAAAATTT-TTT
1 -ATTATTTTATAAAATTTATTT
*
3516363 ATTATTTTAT-TAATTTATTT
1 ATTATTTTATAAAATTTATTT
3516383 TTAATATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 12 0.35
20 16 0.47
21 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTATTTTATAAAATTTATTT
Found at i:3516401 original size:31 final size:31
Alignment explanation
Indices: 3516366--3516527 Score: 118
Period size: 31 Copynumber: 5.1 Consensus size: 31
3516356 ATTTTTTATT
3516366 ATTTTATTAATTTATTTTTAATATAAATATA
1 ATTTTATTAATTTATTTTTAATATAAATATA
* *
3516397 ATTTTAATAATTTATTTTGTAATATAAATCT-
1 ATTTTATTAATTTATTTT-TAATATAAATATA
* * * * * *
3516428 ACTTTAATAATTTAATATGTAACATTAATATA
1 ATTTTATTAATTT-ATTTTTAATATAAATATA
* *
3516460 A-ATT-TTAA-TTATTATTTAACATAAATATA
1 ATTTTATTAATTTATT-TTTAATATAAATATA
*
3516489 ATTTATATTTATATTTTATTATTTGATAT-AATATA
1 ATTT-TA-TTA-A-TTTATT-TTTAATATAAATATA
3516524 ATTT
1 ATTT
3516528 AAAAAAATTT
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
28 2 0.02
29 16 0.15
30 4 0.04
31 41 0.39
32 15 0.14
33 3 0.03
34 1 0.01
35 10 0.10
36 12 0.12
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (31 bp):
ATTTTATTAATTTATTTTTAATATAAATATA
Found at i:3516423 original size:17 final size:16
Alignment explanation
Indices: 3516360--3516423 Score: 53
Period size: 17 Copynumber: 4.0 Consensus size: 16
3516350 TATAAAATTT
*
3516360 TTTATTATTTTAT-TAA
1 TTTATT-TTTAATATAA
3516376 TTTATTTTTAATATAAA
1 TTTATTTTTAATAT-AA
* *
3516393 TATAATTTT-A-ATAA
1 TTTATTTTTAATATAA
3516407 TTTATTTTGTAATATAA
1 TTTATTTT-TAATATAA
3516424 ATCTACTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
14 8 0.21
15 8 0.21
16 9 0.24
17 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTATTTTTAATATAA
Found at i:3521043 original size:15 final size:15
Alignment explanation
Indices: 3521025--3521056 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3521015 AATATTATTA
3521025 ATAATAAAAACATTT
1 ATAATAAAAACATTT
*
3521040 ATAATAAAAATATTT
1 ATAATAAAAACATTT
3521055 AT
1 AT
3521057 GATGGTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATAAAAACATTT
Found at i:3521844 original size:39 final size:40
Alignment explanation
Indices: 3521790--3521880 Score: 116
Period size: 39 Copynumber: 2.3 Consensus size: 40
3521780 GGATAAAAAT
* *
3521790 TAAAAAAAATATTATTTTAAT-TTTA-TAATATATAATATAA
1 TAAATAAAATATTATTTTAATAATTATTAA-A-ATAATATAA
3521830 T-AATAAAATATTATTTTAATAATTATTAAAATAATATAA
1 TAAATAAAATATTATTTTAATAATTATTAAAATAATATAA
3521869 TAAATAATAATA
1 TAAATAA-AATA
3521881 GATATTATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
39 28 0.62
40 10 0.22
41 7 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (40 bp):
TAAATAAAATATTATTTTAATAATTATTAAAATAATATAA
Found at i:3521877 original size:7 final size:8
Alignment explanation
Indices: 3521814--3521880 Score: 50
Period size: 8 Copynumber: 8.8 Consensus size: 8
3521804 TTTTAATTTT
3521814 ATAATAT-
1 ATAATATA
3521821 ATAATATA
1 ATAATATA
*
3521829 ATAATAAA
1 ATAATATA
* *
3521837 ATATTATT
1 ATAATATA
*
3521845 TTAATA-A
1 ATAATATA
* * *
3521852 TTATTAAA
1 ATAATATA
3521860 ATAATATA
1 ATAATATA
3521868 ATAA-ATA
1 ATAATATA
3521875 ATAATA
1 ATAATA
3521881 GATATTATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
7 19 0.41
8 27 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATATA
Found at i:3521890 original size:15 final size:14
Alignment explanation
Indices: 3521807--3521880 Score: 55
Period size: 15 Copynumber: 5.4 Consensus size: 14
3521797 AATATTATTT
*
3521807 TAATTTTATAATATA
1 TAATATTATAATA-A
*
3521822 TAATATAATAATAA
1 TAATATTATAATAA
**
3521836 -AATATTATTTTAA
1 TAATATTATAATAA
*
3521849 TAATTATTAAAATAA
1 TAA-TATTATAATAA
*
3521864 T-ATAATA-AATAA
1 TAATATTATAATAA
3521876 TAATA
1 TAATA
3521881 GATATTATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
12 6 0.13
13 17 0.36
14 4 0.09
15 20 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATATTATAATAA
Found at i:3522061 original size:20 final size:20
Alignment explanation
Indices: 3522038--3522075 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3522028 ATTCATATTT
* *
3522038 TTATATATATATATTATAAA
1 TTATAAATATAAATTATAAA
3522058 TTATAAATATAAATTATA
1 TTATAAATATAAATTATA
3522076 GAGTAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTATAAATATAAATTATAAA
Found at i:3522639 original size:18 final size:20
Alignment explanation
Indices: 3522605--3522642 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
3522595 ATTTAAAATA
3522605 TTATATATTTATATAATTTT
1 TTATATATTTATATAATTTT
3522625 TTATATA-TTAT-TAATTTT
1 TTATATATTTATATAATTTT
3522643 ATTTTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATATATTTATATAATTTT
Found at i:3522685 original size:19 final size:20
Alignment explanation
Indices: 3522653--3522692 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3522643 ATTTTATAAA
*
3522653 TTTTAATATATATATTGTAT
1 TTTTAATATATATATTATAT
*
3522673 TTTTTATAT-TATATTATAT
1 TTTTAATATATATATTATAT
3522692 T
1 T
3522693 ATAATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTTAATATATATATTATAT
Found at i:3522696 original size:45 final size:46
Alignment explanation
Indices: 3522641--3522731 Score: 107
Period size: 47 Copynumber: 2.0 Consensus size: 46
3522631 ATTATTAATT
* *
3522641 TTATTTTATAA-ATTTTAATATATATATTGTAT-TT-TTTATATTATA
1 TTATATTATAATATTTTAATA-ATAT-TTGTATGTTGTTTAAATTATA
*
3522686 TTATATTATAATTATTTTTATAATATTTGTATGTTGTTTAAATTAT
1 TTATATTATAA-TATTTTAATAATATTTGTATGTTGTTTAAATTAT
3522732 CATGAGAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
45 16 0.41
46 6 0.15
47 17 0.44
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (46 bp):
TTATATTATAATATTTTAATAATATTTGTATGTTGTTTAAATTATA
Found at i:3523207 original size:11 final size:11
Alignment explanation
Indices: 3523187--3523284 Score: 68
Period size: 11 Copynumber: 9.5 Consensus size: 11
3523177 ATTATGTATT
3523187 TTAT-ATTATA
1 TTATAATTATA
3523197 TTATAATTATA
1 TTATAATTATA
3523208 TT-TAA-TATA
1 TTATAATTATA
3523217 TTATATATT-TA
1 TTATA-ATTATA
*
3523228 -TATAA--ATT
1 TTATAATTATA
*
3523236 TTA-AAATATA
1 TTATAATTATA
3523246 TTAATAATTATA
1 TT-ATAATTATA
* *
3523258 TTTTATTTATA
1 TTATAATTATA
**
3523269 TTATTTTTATA
1 TTATAATTATA
3523280 TTATA
1 TTATA
3523285 TTTTTTATTT
Statistics
Matches: 70, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
8 3 0.04
9 9 0.13
10 17 0.24
11 32 0.46
12 9 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTATAATTATA
Found at i:3523275 original size:38 final size:38
Alignment explanation
Indices: 3523177--3523275 Score: 96
Period size: 39 Copynumber: 2.6 Consensus size: 38
3523167 GACATTACGA
* * *
3523177 ATTATGTATTTTATATTATATTATAATTATATTTAATAT
1 ATTATATA-TTTATATTATTTTATAAATATATTTAATAT
*
3523216 ATTATATATTTATATAAATTTTA-AAATATA-TTAATA-
1 ATTATATATTTATAT-TATTTTATAAATATATTTAATAT
3523252 ATTATATTTTATTTATATTATTTT
1 ATTATA---TATTTATATTATTTT
3523276 TATATTATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
36 6 0.12
37 6 0.12
38 18 0.35
39 21 0.41
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (38 bp):
ATTATATATTTATATTATTTTATAAATATATTTAATAT
Found at i:3523291 original size:29 final size:28
Alignment explanation
Indices: 3523258--3523312 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
3523248 AATAATTATA
3523258 TTTTA-TTTATATTATTTTTATATTATATT
1 TTTTATTTTA-ATTATTTTTAT-TTATATT
3523287 TTTTATTTTAATTATTTTTATTTATA
1 TTTTATTTTAATTATTTTTATTTATA
3523313 ATGTATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 5 0.20
29 16 0.64
30 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (28 bp):
TTTTATTTTAATTATTTTTATTTATATT
Found at i:3523314 original size:16 final size:16
Alignment explanation
Indices: 3523244--3523314 Score: 80
Period size: 15 Copynumber: 4.6 Consensus size: 16
3523234 TTTTAAAATA
*
3523244 TATTAATAATTATATTT
1 TATTTATAATTAT-TTT
3523261 TATTTAT-ATTATTTT
1 TATTTATAATTATTTT
3523276 TATATTAT-A-T-TTTT
1 TAT-TTATAATTATTTT
3523290 TATTT-TAATTATTTT
1 TATTTATAATTATTTT
3523305 TATTTATAAT
1 TATTTATAAT
3523315 GTATAATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
12 1 0.02
13 3 0.06
14 8 0.17
15 16 0.33
16 14 0.29
17 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTATAATTATTTT
Found at i:3523323 original size:29 final size:30
Alignment explanation
Indices: 3523263--3523326 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
3523253 TTATATTTTA
* * *
3523263 TTTATATTATTTTTATATTATATTTTTTAT
1 TTTATATTATTTTTATATTATATGTATAAT
3523293 TTTA-ATTATTTTTAT-TTATAATGTATAAT
1 TTTATATTATTTTTATATTAT-ATGTATAAT
3523322 TTTAT
1 TTTAT
3523327 TGTATTCAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 4 0.14
29 21 0.72
30 4 0.14
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (30 bp):
TTTATATTATTTTTATATTATATGTATAAT
Found at i:3524851 original size:11 final size:11
Alignment explanation
Indices: 3524835--3524867 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
3524825 TATTTTAAAC
3524835 ACATAAACATA
1 ACATAAACATA
3524846 ACATAAACATA
1 ACATAAACATA
*
3524857 ACACAAACATA
1 ACATAAACATA
3524868 CAATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.64, C:0.21, G:0.00, T:0.15
Consensus pattern (11 bp):
ACATAAACATA
Found at i:3524857 original size:17 final size:17
Alignment explanation
Indices: 3524835--3524867 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3524825 TATTTTAAAC
3524835 ACATAA-ACATAACATAA
1 ACATAACACA-AACATAA
3524852 ACATAACACAAACATA
1 ACATAACACAAACATA
3524868 CAATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.64, C:0.21, G:0.00, T:0.15
Consensus pattern (17 bp):
ACATAACACAAACATAA
Found at i:3525055 original size:12 final size:12
Alignment explanation
Indices: 3525024--3525058 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
3525014 TATAACATGG
3525024 AAAAAATAAT-T
1 AAAAAATAATAT
*
3525035 AAAATATAATAT
1 AAAAAATAATAT
3525047 AAAAAATAATAT
1 AAAAAATAATAT
3525059 GAACACGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAAAATAATAT
Found at i:3525340 original size:54 final size:54
Alignment explanation
Indices: 3525225--3525340 Score: 144
Period size: 54 Copynumber: 2.2 Consensus size: 54
3525215 ACAAATTTAC
* * * * *
3525225 ATAAAATAAATTATTAATATATAAAAATTTATAATACTTTAAATCTATCAAAAT
1 ATAAAAAAAACTATTAATATATAAAAATTTATAATACTTTAAAACTATAAAAAA
* * *
3525279 CTAAAAAAAACTATTGATATATAAAAATTTATAATATTTTAAAAC-ATAAAAAA
1 ATAAAAAAAACTATTAATATATAAAAATTTATAATACTTTAAAACTATAAAAAA
*
3525332 ATACAAAAA
1 ATAAAAAAA
3525341 CAAAATCAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
53 13 0.25
54 39 0.75
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (54 bp):
ATAAAAAAAACTATTAATATATAAAAATTTATAATACTTTAAAACTATAAAAAA
Found at i:3531473 original size:14 final size:14
Alignment explanation
Indices: 3531436--3531473 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
3531426 TAAGTCGAAG
3531436 ATTTAAATTTTTTT
1 ATTTAAATTTTTTT
3531450 ATTTATAA-TTTTTT
1 ATTTA-AATTTTTTT
3531464 ATTTTAAATT
1 A-TTTAAATT
3531474 GTGATCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTAAATTTTTTT
Found at i:3533031 original size:13 final size:13
Alignment explanation
Indices: 3532991--3533039 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
3532981 CATTACAAGC
3532991 CAATGTATCGATA
1 CAATGTATCGATA
3533004 C-AT-T-T-GAT-
1 CAATGTATCGATA
3533012 C-ATGTATCGATA
1 CAATGTATCGATA
3533024 CAATGTATCGATA
1 CAATGTATCGATA
3533037 CAA
1 CAA
3533040 ATAGTTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 3 0.10
9 4 0.13
10 2 0.06
11 4 0.13
12 3 0.10
13 15 0.48
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3533126 original size:19 final size:20
Alignment explanation
Indices: 3533102--3533151 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
3533092 ATCTTTGCAA
*
3533102 GTATCGATACAGTG-GTCAT
1 GTATCGATACAGTGCATCAT
* *
3533121 GTATCGATACTGTGCATTAT
1 GTATCGATACAGTGCATCAT
3533141 GTATCGATACA
1 GTATCGATACA
3533152 TCTGAAGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (20 bp):
GTATCGATACAGTGCATCAT
Found at i:3533758 original size:12 final size:12
Alignment explanation
Indices: 3533741--3533765 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3533731 TTTCCTTTAA
3533741 TCACATGTTTCT
1 TCACATGTTTCT
3533753 TCACATGTTTCT
1 TCACATGTTTCT
3533765 T
1 T
3533766 TCTCCCCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (12 bp):
TCACATGTTTCT
Found at i:3541625 original size:104 final size:104
Alignment explanation
Indices: 3541445--3541654 Score: 402
Period size: 104 Copynumber: 2.0 Consensus size: 104
3541435 AGAGAATTAC
3541445 AACAATGAAAACAAAAAGCTCTTAAAAATGAGAAAATCAATAAAACTTGAAAGCCTTGATCTCTT
1 AACAATGAAAACAAAAAGCTCTTAAAAATGAGAAAATCAATAAAACTTGAAAGCCTTGATCTCTT
3541510 GATGTTTCTTGGTTGGTTCTTCTTGTGTTTTGCTGCTGG
66 GATGTTTCTTGGTTGGTTCTTCTTGTGTTTTGCTGCTGG
* *
3541549 AACAATGAAAACAAAAAGCTCTTAAAAATGAGAAAATGAATAAAACTTGAAAGCTTTGATCTCTT
1 AACAATGAAAACAAAAAGCTCTTAAAAATGAGAAAATCAATAAAACTTGAAAGCCTTGATCTCTT
3541614 GATGTTTCTTGGTTGGTTCTTCTTGTGTTTTGCTGCTGG
66 GATGTTTCTTGGTTGGTTCTTCTTGTGTTTTGCTGCTGG
3541653 AA
1 AA
3541655 GCTCTTATTT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (104 bp):
AACAATGAAAACAAAAAGCTCTTAAAAATGAGAAAATCAATAAAACTTGAAAGCCTTGATCTCTT
GATGTTTCTTGGTTGGTTCTTCTTGTGTTTTGCTGCTGG
Found at i:3541946 original size:13 final size:13
Alignment explanation
Indices: 3541928--3541952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3541918 TACAGTGGTC
3541928 ATGTATCGATACA
1 ATGTATCGATACA
3541941 ATGTATCGATAC
1 ATGTATCGATAC
3541953 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3541970 original size:33 final size:32
Alignment explanation
Indices: 3541911--3541973 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
3541901 ATCTTTGTAA
*
3541911 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
3541943 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
3541974 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:3541985 original size:20 final size:20
Alignment explanation
Indices: 3541962--3542002 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
3541952 CTGTGCATTA
3541962 TGTATCGATACATCTGAAGG
1 TGTATCGATACATCTGAAGG
*
3541982 TGTATCGATACATTTGAAGG
1 TGTATCGATACATCTGAAGG
3542002 T
1 T
3542003 TTTGACCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATCTGAAGG
Found at i:3543909 original size:58 final size:58
Alignment explanation
Indices: 3543847--3543994 Score: 197
Period size: 58 Copynumber: 2.6 Consensus size: 58
3543837 AAAGTCCCCG
* * * * *
3543847 ATCATGGAAAATAACTTAAATGGCATCAAAATTCACAAAATTACATCAAATTCTCTCA
1 ATCATGGAAAATAACCTAAATGACATCAAAATTCAAAAAATTACATCAAAGTCTCTAA
* * * * *
3543905 ATCATAGTAAATGACCTAAATGATATCAAAATTTAAAAAATTACATCAAAGTCTCTAA
1 ATCATGGAAAATAACCTAAATGACATCAAAATTCAAAAAATTACATCAAAGTCTCTAA
*
3543963 ATCATGCAAAATAACCTAAATGACATCAAAAT
1 ATCATGGAAAATAACCTAAATGACATCAAAAT
3543995 GCATTGTTGG
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 75 1.00
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (58 bp):
ATCATGGAAAATAACCTAAATGACATCAAAATTCAAAAAATTACATCAAAGTCTCTAA
Found at i:3544428 original size:20 final size:20
Alignment explanation
Indices: 3544403--3544456 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
3544393 TTACAACTAT
*
3544403 TTGTATCGATACATAGGACA
1 TTGTATCGATACATAGGAAA
*
3544423 TTGTATCGATACATAGTAAA
1 TTGTATCGATACATAGGAAA
*
3544443 ATGTATCGATACAT
1 TTGTATCGATACAT
3544457 TGTGCCTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATAGGAAA
Found at i:3549895 original size:13 final size:13
Alignment explanation
Indices: 3549877--3549913 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
3549867 AGGATCTTAG
*
3549877 TATCGATACATTA
1 TATCGATACAATA
*
3549890 TATCGATACAATG
1 TATCGATACAATA
3549903 TATCGATACAA
1 TATCGATACAA
3549914 GGGGTACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:3551674 original size:40 final size:40
Alignment explanation
Indices: 3551606--3551689 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
3551596 TGACTATATA
* * * *
3551606 AATGCAATATATCTTGTTGATTGATAAAAACATGTTATTG
1 AATGCAATATATCCTGTTAATTGATAAAAACAAGTCATTG
* *
3551646 AATGTAATATATCCTGTTAATTGGTAAAAACAAGTCATTG
1 AATGCAATATATCCTGTTAATTGATAAAAACAAGTCATTG
3551686 AATG
1 AATG
3551690 GTTTTCTACA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (40 bp):
AATGCAATATATCCTGTTAATTGATAAAAACAAGTCATTG
Found at i:3554216 original size:54 final size:54
Alignment explanation
Indices: 3554153--3554259 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
3554143 CGTCAAAGAA
*
3554153 AACATAAACATAGCATTTAAAGATCATTGTTTAAAATTTGACCATAAATATAGT
1 AACATAAACATAACATTTAAAGATCATTGTTTAAAATTTGACCATAAATATAGT
* *
3554207 AACATAAACATAACATTTAAATATCATTGTTTAAAATTTGGCCATAAATATAG
1 AACATAAACATAACATTTAAAGATCATTGTTTAAAATTTGACCATAAATATAG
3554260 GTTTTGCACC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (54 bp):
AACATAAACATAACATTTAAAGATCATTGTTTAAAATTTGACCATAAATATAGT
Found at i:3554418 original size:12 final size:12
Alignment explanation
Indices: 3554394--3554434 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
3554384 TATCTTTTTA
*
3554394 TTTTTCTCT-TT
1 TTTTTCTTTCTT
3554405 TTTTTCTTTCTT
1 TTTTTCTTTCTT
3554417 TTTTTCTTTCTCT
1 TTTTTCTTTCT-T
3554430 TTTTT
1 TTTTT
3554435 TCTCTAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 8 0.30
12 13 0.48
13 6 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTCTTTCTT
Found at i:3554436 original size:14 final size:14
Alignment explanation
Indices: 3554380--3554437 Score: 68
Period size: 14 Copynumber: 4.2 Consensus size: 14
3554370 CTTGAAGAAA
*
3554380 TCTTTATCTTTTTAT
1 TCTTTCTCTTTTT-T
3554395 T-TTTCTCTTTTTT
1 TCTTTCTCTTTTTT
3554408 T-TCTT-TCTTTTTT
1 TCT-TTCTCTTTTTT
3554421 TCTTTCTCTTTTTT
1 TCTTTCTCTTTTTT
3554435 TCT
1 TCT
3554438 CTAGTTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
13 14 0.36
14 24 0.62
15 1 0.03
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTCTCTTTTTT
Found at i:3558064 original size:20 final size:20
Alignment explanation
Indices: 3558020--3558070 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3558010 TATTTAATAC
*
3558020 TTATTTACTATTAAAATTAT
1 TTATTTAATATTAAAATTAT
* * *
3558040 ATATTTAATATTTAAATTCT
1 TTATTTAATATTAAAATTAT
3558060 TTATTTAATAT
1 TTATTTAATAT
3558071 AATTAATCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATTTAATATTAAAATTAT
Found at i:3558105 original size:9 final size:9
Alignment explanation
Indices: 3558093--3558117 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3558083 CAATCAATCC
3558093 AATTAATTA
1 AATTAATTA
3558102 AATTAATTA
1 AATTAATTA
3558111 AATTAAT
1 AATTAAT
3558118 AATAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTAATTA
Found at i:3560419 original size:22 final size:22
Alignment explanation
Indices: 3560378--3560419 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3560368 AAATTTAAAA
*
3560378 ATATTTTTATATTAGTATTTTT
1 ATATTTTTATATTAGAATTTTT
3560400 ATATTTTTATAATTA-AATTT
1 ATATTTTTAT-ATTAGAATTT
3560420 AAATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
ATATTTTTATATTAGAATTTTT
Found at i:3562519 original size:15 final size:15
Alignment explanation
Indices: 3562496--3562529 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3562486 AGAAGCGTAA
3562496 GTAAGGTCAGGTCAG
1 GTAAGGTCAGGTCAG
* *
3562511 GTCAGGTCAGGTAAG
1 GTAAGGTCAGGTCAG
3562526 GTAA
1 GTAA
3562530 TGTAATGTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.12, G:0.38, T:0.21
Consensus pattern (15 bp):
GTAAGGTCAGGTCAG
Found at i:3564139 original size:2 final size:2
Alignment explanation
Indices: 3564132--3564162 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3564122 GGCAGATTTC
3564132 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3564163 ATAGACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3567123 original size:14 final size:15
Alignment explanation
Indices: 3567095--3567161 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 15
3567085 TAAGGTGGGG
*
3567095 TTATAATAATT-ATT
1 TTATAATTATTAATT
3567109 TTATAATT-TTAATT
1 TTATAATTATTAATT
*
3567123 TT-TTATTATTAATAT
1 TTATAATTATTAAT-T
* * *
3567138 TTATAGTTAATATTT
1 TTATAATTATTAATT
3567153 ATTATAATT
1 -TTATAATT
3567162 GAAAACAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
13 6 0.15
14 17 0.41
15 4 0.10
16 14 0.34
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (15 bp):
TTATAATTATTAATT
Found at i:3571689 original size:16 final size:17
Alignment explanation
Indices: 3571668--3571702 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
3571658 GGCCAAACTT
3571668 AAAGTCAAT-AAAATCA
1 AAAGTCAATCAAAATCA
*
3571684 AAAGTCAATCACAATCA
1 AAAGTCAATCAAAATCA
3571701 AA
1 AA
3571703 GTTAAAGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAGTCAATCAAAATCA
Found at i:3574885 original size:21 final size:21
Alignment explanation
Indices: 3574859--3574909 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
3574849 TTACAATTTG
3574859 TATCGATACAATAAGTAAATA
1 TATCGATACAATAAGTAAATA
* * *
3574880 TATCGATAC-TTGAGTGAATA
1 TATCGATACAATAAGTAAATA
3574900 TATCGATACA
1 TATCGATACA
3574910 GGACTATGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (21 bp):
TATCGATACAATAAGTAAATA
Found at i:3577558 original size:79 final size:78
Alignment explanation
Indices: 3577475--3577778 Score: 256
Period size: 79 Copynumber: 3.8 Consensus size: 78
3577465 ATCTCTGAGA
* **
3577475 GGATACTTCAACCCTGTTTTTATTTCTCAAACATCT-AATTTTTCATCCTAGGGATACTCCAACC
1 GGATACTCCAACCCCATTTTTATTTCTCAAACAT-TAAATTTTTCATCCTAGGGATACTCCAACC
3577539 CCATCACTTCTAAAG
65 CCATCA-TTCTAAAG
* * * * *
3577554 GGATACTCCAACCTCATTTTTATTT-TCCAAACATTGAATTTTTTTCATTC-GGGGATACTCTAA
1 GGATACTCCAACCCCATTTTTATTTCT-CAAACATT-AA-ATTTTTCATCCTAGGGATACTCCAA
* * * *
3577617 CCCTATCATTTTGAGG
63 CCCCATCATTCTAAAG
* ** * **
3577633 GGATACTCCAACCCCATTTTTATTTCTCAAATACCAAATTTTTCAT-CTCGAGGATACTTTAACC
1 GGATACTCCAACCCCATTTTTATTTCTCAAACATTAAATTTTTCATCCTAG-GGATACTCCAACC
**
3577697 CCATCAGTTCCCAAG
65 CCATCA-TTCTAAAG
** * * * * *
3577712 GGATACTTTAACCCCGTTTTTATTTCTAAAATATTAAATTTCTTCATCTTTAGGGATACTTCAAC
1 GGATACTCCAACCCCATTTTTATTTCTCAAACATTAAATTT-TTCATC-CTAGGGATACTCCAAC
3577777 CC
64 CC
3577779 TACCATTTTT
Statistics
Matches: 181, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
76 1 0.01
77 9 0.05
78 21 0.12
79 101 0.56
80 25 0.14
81 22 0.12
82 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (78 bp):
GGATACTCCAACCCCATTTTTATTTCTCAAACATTAAATTTTTCATCCTAGGGATACTCCAACCC
CATCATTCTAAAG
Found at i:3577807 original size:79 final size:79
Alignment explanation
Indices: 3577724--3577875 Score: 225
Period size: 79 Copynumber: 1.9 Consensus size: 79
3577714 ATACTTTAAC
* * * *
3577724 CCCGTTTTTATTTCTAAAATATTAAATTTCTTCATCTTTAGGGATACTTCAA-CCCTACCATTTT
1 CCCGTTTTCACTTCTAAAACATTAAATTTCTTCATCTTTAGGGATACTCCAATCCC-ACCATTTT
*
3577788 TGAGAGGATCTCTAA
65 CGAGAGGATCTCTAA
* *
3577803 CCCGTTTTCACTTCTAAAACCTTAAATTTCTTCATCTTTGGGGATACTCCAATCCCACCATTTTC
1 CCCGTTTTCACTTCTAAAACATTAAATTTCTTCATCTTTAGGGATACTCCAATCCCACCATTTTC
3577868 GAGAGGAT
66 GAGAGGAT
3577876 ACTCCAATTG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
79 62 0.95
80 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (79 bp):
CCCGTTTTCACTTCTAAAACATTAAATTTCTTCATCTTTAGGGATACTCCAATCCCACCATTTTC
GAGAGGATCTCTAA
Found at i:3578667 original size:79 final size:79
Alignment explanation
Indices: 3578584--3578735 Score: 225
Period size: 79 Copynumber: 1.9 Consensus size: 79
3578574 ATACTTTAAC
* * * *
3578584 CCCGTTTTTATTTCTAAAATATTAAATTTCTTCATCTTTAGGGATACTTCAA-CCCTACCATTTT
1 CCCGTTTTCACTTCTAAAACATTAAATTTCTTCATCTTTAGGGATACTCCAATCCC-ACCATTTT
*
3578648 TGAGAGGATCTCTAA
65 CGAGAGGATCTCTAA
* *
3578663 CCCGTTTTCACTTCTAAAACCTTAAATTTCTTCATCTTTGGGGATACTCCAATCCCACCATTTTC
1 CCCGTTTTCACTTCTAAAACATTAAATTTCTTCATCTTTAGGGATACTCCAATCCCACCATTTTC
3578728 GAGAGGAT
66 GAGAGGAT
3578736 ACTCCAATTG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
79 62 0.95
80 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (79 bp):
CCCGTTTTCACTTCTAAAACATTAAATTTCTTCATCTTTAGGGATACTCCAATCCCACCATTTTC
GAGAGGATCTCTAA
Found at i:3583410 original size:13 final size:13
Alignment explanation
Indices: 3583392--3583416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3583382 CATAAAGTGT
3583392 TGTATCGATACAA
1 TGTATCGATACAA
3583405 TGTATCGATACA
1 TGTATCGATACA
3583417 TTTTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3583567 original size:52 final size:52
Alignment explanation
Indices: 3583511--3583639 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
3583501 CACTGATCTT
*
3583511 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
3583563 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3583615 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3583640 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3597495 original size:9 final size:9
Alignment explanation
Indices: 3597481--3597565 Score: 116
Period size: 9 Copynumber: 8.9 Consensus size: 9
3597471 TCCTCCACAA
3597481 AAAAAAAAC
1 AAAAAAAAC
3597490 AAAAAAAAC
1 AAAAAAAAC
3597499 AAAAAAAAC
1 AAAAAAAAC
3597508 AAAACAAAAC
1 AAAA-AAAAC
3597518 AAAAAAAAAC
1 -AAAAAAAAC
*
3597528 AAAACAAAAA
1 AAAA-AAAAC
3597538 AAACAAAAAC
1 AAA-AAAAAC
3597548 AAAAAAAAC
1 AAAAAAAAC
3597557 AAACAAAAA
1 AAA-AAAAA
3597566 AAATAAGAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 9
0.86 0.03 0.11
Matches are distributed among these distances:
9 35 0.51
10 29 0.42
11 5 0.07
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:3597500 original size:20 final size:21
Alignment explanation
Indices: 3597477--3597567 Score: 122
Period size: 20 Copynumber: 4.6 Consensus size: 21
3597467 GGCGTCCTCC
3597477 ACAAAAAAAAAACAAAA-AAA
1 ACAAAAAAAAAACAAAACAAA
3597497 AC--AAAAAAAACAAAACAAA
1 ACAAAAAAAAAACAAAACAAA
3597516 AC-AAAAAAAAACAAAACAAA
1 ACAAAAAAAAAACAAAACAAA
*
3597536 A-AAAACAAAAACAAAA-AAA
1 ACAAAAAAAAAACAAAACAAA
3597555 ACAAACAAAAAAA
1 ACAAA-AAAAAAA
3597568 ATAAGAAAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
18 13 0.20
19 9 0.14
20 36 0.56
21 6 0.09
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (21 bp):
ACAAAAAAAAAACAAAACAAA
Found at i:3597502 original size:15 final size:15
Alignment explanation
Indices: 3597479--3597568 Score: 120
Period size: 15 Copynumber: 6.3 Consensus size: 15
3597469 CGTCCTCCAC
3597479 AAAAA-AAAAACAAA
1 AAAAACAAAAACAAA
3597493 AAAAACAAAAA-AAA
1 AAAAACAAAAACAAA
*
3597507 CAAAAC-AAAACAAA
1 AAAAACAAAAACAAA
3597521 AAAAA-ACAAAACAAA
1 AAAAACA-AAAACAAA
3597536 AAAAACAAAAACAAA
1 AAAAACAAAAACAAA
3597551 AAAAAC--AAACAAA
1 AAAAACAAAAACAAA
3597564 AAAAA
1 AAAAA
3597569 TAAGAAAAAG
Statistics
Matches: 69, Mismatches: 2, Indels: 11
0.84 0.02 0.13
Matches are distributed among these distances:
13 16 0.23
14 20 0.29
15 32 0.46
16 1 0.01
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACAAAAACAAA
Found at i:3597566 original size:29 final size:28
Alignment explanation
Indices: 3597479--3597568 Score: 130
Period size: 29 Copynumber: 3.2 Consensus size: 28
3597469 CGTCCTCCAC
3597479 AAAAA-AAAAACAAAAAAAACAAAAAAA
1 AAAAACAAAAACAAAAAAAACAAAAAAA
3597506 ACAAAAC-AAAACAAAAAAAAACAAAACAAA
1 A-AAAACAAAAAC-AAAAAAAACAAAA-AAA
*
3597536 AAAAACAAAAACAAAAAAAACAAACAAA
1 AAAAACAAAAACAAAAAAAACAAAAAAA
3597564 AAAAA
1 AAAAA
3597569 TAAGAAAAAG
Statistics
Matches: 57, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
27 1 0.02
28 17 0.30
29 30 0.53
30 9 0.16
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (28 bp):
AAAAACAAAAACAAAAAAAACAAAAAAA
Found at i:3597577 original size:1 final size:1
Alignment explanation
Indices: 3597479--3597568 Score: 81
Period size: 1 Copynumber: 90.0 Consensus size: 1
3597469 CGTCCTCCAC
* * * * * * * *
3597479 AAAAAAAAAACAAAAAAAACAAAAAAAACAAAACAAAACAAAAAAAAACAAAACAAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
3597544 AAACAAAAAAAACAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
3597569 TAAGAAAAAG
Statistics
Matches: 67, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3599072 original size:30 final size:29
Alignment explanation
Indices: 3599015--3599486 Score: 326
Period size: 30 Copynumber: 15.8 Consensus size: 29
3599005 TCACCCTTCA
*
3599015 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCAACTTTTTC
*
3599044 AAAGCCCACAAGTCAGTGGCATATTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-ACTTTTTC
* * *
3599074 AAAAGCCCACAAGTTAGTGGCACCCTTTTC
1 -AAAGCCCACAAGTCAGTGGCAACTTTTTC
* * *
3599104 AAAAGCCCACAAATCGGTGGCAAC--CTTC
1 -AAAGCCCACAAGTCAGTGGCAACTTTTTC
* * *
3599132 AAAGCCCATAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-ACTTTTTC
* * *
3599162 GAAGCCCACAAGTCGGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCAACTTTTTC
* * * * *
3599191 AAAGCTCACAAATCAGTAGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCAACTTTTTC
* * * *
3599220 TGAAGCCCACAAGTCGGTGGCATCTTTTCC
1 -AAAGCCCACAAGTCAGTGGCAACTTTTTC
* * * *
3599250 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-ACTTTTTC
* * * * *
3599280 TTTTGTAAGCTCACAACTCTA-TAGCACTCTTTTTCC
1 -----AAAGCCCACAAGTC-AGTGGCA-ACTTTTT-C
* * * *
3599316 TTTTAAGCCCACAAGTTAGTGGCACCCTTTTC
1 ---AAAGCCCACAAGTCAGTGGCAACTTTTTC
* *
3599348 AAAAGCCCACAAGTTAGTGGCATCTCTTTTC
1 -AAAGCCCACAAGTCAGTGGCAACT-TTTTC
* *
3599379 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCAACTTTTTC
* *
3599408 AAAGCCCACAAGTCAGTGGCAA-TATTTA
1 AAAGCCCACAAGTCAGTGGCAACTTTTTC
* *
3599436 AAAGCCCACAAGTCAGTGGCAA-TCTTTA
1 AAAGCCCACAAGTCAGTGGCAACTTTTTC
3599464 AAAGCCCACAAGTCAGTGGCAAC
1 AAAGCCCACAAGTCAGTGGCAAC
3599487 CTTCAAAAGC
Statistics
Matches: 363, Mismatches: 62, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
27 19 0.05
28 79 0.22
29 70 0.19
30 100 0.28
31 47 0.13
32 1 0.00
33 6 0.02
34 17 0.05
35 23 0.06
36 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCAACTTTTTC
Found at i:3599216 original size:59 final size:60
Alignment explanation
Indices: 3599015--3599484 Score: 340
Period size: 59 Copynumber: 7.9 Consensus size: 60
3599005 TCACCCTTCA
* * * *
3599015 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC-AAAGCCCACAAGTCAGTGGCATATTTTTTC
1 AAAGCCCACAAATCAGTGGCACCCTTTTTCAAAAGCCCACAAGTCGGTGGCAT-CTTTTTC
* * * * *
3599074 AAAAGCCCACAAGTTAGTGGCACCC-TTTTCAAAAGCCCACAAATCGGTGGCAAC--CTTC
1 -AAAGCCCACAAATCAGTGGCACCCTTTTTCAAAAGCCCACAAGTCGGTGGCATCTTTTTC
* *
3599132 AAAGCCCATAAATCAGTGGCACCCTTTTTC-GAAGCCCACAAGTCGGTGGCATCTTTTTC
1 AAAGCCCACAAATCAGTGGCACCCTTTTTCAAAAGCCCACAAGTCGGTGGCATCTTTTTC
* * ** *
3599191 AAAGCTCACAAATCAGTAGCACCC-TTTTCTGAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAATCAGTGGCACCCTTTTTCAAAAGCCCACAAGTCGGTGGCATCTTTTTC
* * * * ** * * ** *
3599250 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCACAACTCTATAGCACTCTTTTTC
1 AAAGCCCACAAATCAGTGGCACCCTTTTTC----AAAAGCCCACAAGTCGGTGGCA-TCTTTTT-
3599315 C
60 C
* * * **
3599316 TTTTAAGCCCACAAGTTAGTGGCACCC-TTTTCAAAAGCCCACAAGTTAGTGGCATCTCTTTTC
1 ---AAAGCCCACAAATCAGTGGCACCCTTTTTCAAAAGCCCACAAGTCGGTGGCATCT-TTTTC
* * * * * *
3599379 AAAAGCCCACAAGTCAGTGGCAACC--TTT-AAAAGCCCACAAGTCAGTGGCA-ATATTTA
1 -AAAGCCCACAAATCAGTGGCACCCTTTTTCAAAAGCCCACAAGTCGGTGGCATCTTTTTC
* * * *
3599436 AAAGCCCACAAGTCAGTGGCA--ATCTTT-AAAAGCCCACAAGTCAGTGGCA
1 AAAGCCCACAAATCAGTGGCACCCTTTTTCAAAAGCCCACAAGTCGGTGGCA
3599485 ACCTTCAAAA
Statistics
Matches: 336, Mismatches: 55, Indels: 42
0.78 0.13 0.10
Matches are distributed among these distances:
56 46 0.14
57 44 0.13
58 14 0.04
59 91 0.27
60 33 0.10
61 41 0.12
63 4 0.01
64 33 0.10
65 6 0.02
66 1 0.00
68 5 0.01
69 18 0.05
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (60 bp):
AAAGCCCACAAATCAGTGGCACCCTTTTTCAAAAGCCCACAAGTCGGTGGCATCTTTTTC
Found at i:3599296 original size:35 final size:34
Alignment explanation
Indices: 3599255--3599329 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 34
3599245 TTTCCAAAGT
* * *
3599255 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCATAGCACTCTTTTTCCTTT-TAAGC
* *
3599290 TCACAACTCTATAGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCATAGCACTCTTTTTCCTTTTAAGC
3599324 CCACAA
1 CCACAA
3599330 GTTAGTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 10 0.29
35 24 0.71
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (34 bp):
CCACAACTCCATAGCACTCTTTTTCCTTTTAAGC
Found at i:3599419 original size:28 final size:28
Alignment explanation
Indices: 3599320--3599504 Score: 244
Period size: 28 Copynumber: 6.4 Consensus size: 28
3599310 TTTTCCTTTT
* *
3599320 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
* *
3599350 AAGCCCACAAGTTAGTGGCATCTCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAAC-C-TTT-AA
3599381 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
**
3599409 AAGCCCACAAGTCAGTGGCAATATTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
3599437 AAGCCCACAAGTCAGTGGCAATCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
3599465 AAGCCCACAAGTCAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
3599493 AAGCACACAAGT
1 AAGCCCACAAGT
3599505 TGATGCAATC
Statistics
Matches: 145, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
28 92 0.63
29 3 0.02
30 22 0.15
31 28 0.19
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:3599481 original size:84 final size:88
Alignment explanation
Indices: 3599011--3599504 Score: 316
Period size: 87 Copynumber: 5.5 Consensus size: 88
3599001 TTCCTCACCC
* * *
3599011 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTC-AAAGCCCACAAGTCAGTGGCATATTTTTTCA
1 TTCAAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAAGCCCACAAGTCAGTGGCACA--TTTTCA
* **
3599075 AAAGCCCACAAGTTAGTGGCA-CCCTT
62 AAAGCCCACAAGTCAGTGGCATATCTT
* * * * * *
3599101 TTCAAAAGCCCACAAATCGGTGGCAACCTTC-AAAGCCCATAAATCAGTGGCACCCTTTTTC-GA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCA--CATTTTCAAA
* *
3599164 AGCCCACAAGTCGGTGGCATCT-TT
64 AGCCCACAAGTCAGTGGCATATCTT
* * * * ** * *
3599188 TTC-AAAGCTCACAAATCAGTAGCACCCTTTTCTGAAGCCCACAAGTCGGTGGCATC-TTTTCCA
1 TTCAAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTCAGTGGCA-CATTTTCAA
* * * *
3599251 AAGTCCACAACTCCGTGGCA-CTCTTT
63 AAGCCCACAAGTCAGTGGCATATC-TT
** * * * ** *
3599277 TTCTTTTGTAAGCTCACAACTCTA-TAGC-ACTCTTTTTCCTTTTAAGCCCACAAGTTAGTGGCA
1 TTC----AAAAGCCCACAAGTC-AGTGGCAAC-C---TT-C--AAAAGCCCACAAGTCAGTGGCA
* * *
3599340 CCCTTTTCAAAAGCCCACAAGTTAGTGGCATCTCTT
54 -CATTTTCAAAAGCCCACAAGTCAGTGGCATATCTT
*
3599376 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCA-ATATTT-AAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACAT-TTTCAAAA
3599439 GCCCACAAGTCAGTGGCA-ATC-T
65 GCCCACAAGTCAGTGGCATATCTT
*
3599461 TT-AAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGT
3599505 TGATGCAATC
Statistics
Matches: 328, Mismatches: 51, Indels: 56
0.75 0.12 0.13
Matches are distributed among these distances:
84 40 0.12
85 3 0.01
86 22 0.07
87 52 0.16
88 52 0.16
89 41 0.12
90 24 0.07
92 2 0.01
93 1 0.00
94 18 0.05
95 20 0.06
96 3 0.01
98 20 0.06
99 27 0.08
100 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (88 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACATTTTCAAAAG
CCCACAAGTCAGTGGCATATCTT
Found at i:3599621 original size:52 final size:50
Alignment explanation
Indices: 3599552--3599741 Score: 223
Period size: 52 Copynumber: 3.9 Consensus size: 50
3599542 CGTCTTCTTC
* *
3599552 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-GTACC-T
* *
3599604 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
* *
3599648 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
**
3599699 TAAGTCGTATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
3599742 CATCTTTAAC
Statistics
Matches: 117, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
43 36 0.31
46 2 0.02
47 2 0.02
50 2 0.02
52 75 0.64
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (50 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
Found at i:3599666 original size:43 final size:44
Alignment explanation
Indices: 3599604--3599740 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 44
3599594 TTGGTACCTT
* *
3599604 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCC
* *
3599648 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGC-AC-----C-TCC
**
3599698 TTAAGTCGTATATCGCTGGCCTTGAATCAGCACATTGGCACCT
1 -TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
3599741 TCATCTTTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
43 34 0.45
44 1 0.01
45 1 0.01
46 1 0.01
49 1 0.01
50 3 0.04
51 1 0.01
52 34 0.45
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (44 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:3599716 original size:95 final size:95
Alignment explanation
Indices: 3599553--3599740 Score: 308
Period size: 95 Copynumber: 2.0 Consensus size: 95
3599543 GTCTTCTTCT
*
3599553 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATGTAG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATATAG
3599618 CTGGCCTTGAATCAGCACATTGGCACCTCC
66 CTGGCCTTGAATCAGCACATTGGCACCTCC
**
3599648 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT-GTCATCC-TTAAGTCGTATAT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGT-A-CCTTTAAGTCCAATAT
*
3599711 CGCTGGCCTTGAATCAGCACATTGGCACCT
64 AGCTGGCCTTGAATCAGCACATTGGCACCT
3599741 TCATCTTTAA
Statistics
Matches: 87, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
94 2 0.02
95 83 0.95
96 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (95 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATATAG
CTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:3600552 original size:13 final size:13
Alignment explanation
Indices: 3600534--3600558 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3600524 CATAAAGTGT
3600534 TGTATCGATACAA
1 TGTATCGATACAA
3600547 TGTATCGATACA
1 TGTATCGATACA
3600559 TTTTTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3600708 original size:52 final size:52
Alignment explanation
Indices: 3600652--3600780 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
3600642 CACTGATCTT
* *
3600652 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
3600704 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3600756 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3600781 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3603988 original size:19 final size:19
Alignment explanation
Indices: 3603944--3603999 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
3603934 CTGCCAGTTT
**
3603944 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
3603964 CATGTATCAATACAATGAA
1 CATGTATCGATACAATGAA
3603983 CATGTATCGATACAATG
1 CATGTATCGATACAATG
3604000 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:3604002 original size:13 final size:13
Alignment explanation
Indices: 3603984--3604009 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3603974 TACAATGAAC
3603984 ATGTATCGATACA
1 ATGTATCGATACA
3603997 ATGTATCGATACA
1 ATGTATCGATACA
3604010 TCTGGGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3604574 original size:26 final size:26
Alignment explanation
Indices: 3604522--3604576 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
3604512 GATATCAAAG
* ** *
3604522 TTTTCGTTTTTCTCACCCTTTATAAA
1 TTTTCGTTTTGCTCACCCTAAAAAAA
*
3604548 TTTTCGTTTTGCTCCCCCTAAAAAAA
1 TTTTCGTTTTGCTCACCCTAAAAAAA
3604574 TTT
1 TTT
3604577 CTGAATTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.05, T:0.49
Consensus pattern (26 bp):
TTTTCGTTTTGCTCACCCTAAAAAAA
Found at i:3604683 original size:38 final size:37
Alignment explanation
Indices: 3604629--3604711 Score: 102
Period size: 36 Copynumber: 2.3 Consensus size: 37
3604619 ATAAAATATT
*
3604629 TTCTCCCCC-TAT-AAAAAATTTA-TTTCAAAACAAAAC
1 TTCTCCCCCTTATGTAAAAATTTATTTTC--AACAAAAC
*
3604665 TTC-CCCCCTTATGTAAAAATTTATTTTCAACAATAC
1 TTCTCCCCCTTATGTAAAAATTTATTTTCAACAAAAC
3604701 TTCTCCCCCTT
1 TTCTCCCCCTT
3604712 TTTGTTATAG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
35 5 0.12
36 16 0.39
37 16 0.39
38 4 0.10
ACGTcount: A:0.34, C:0.29, G:0.01, T:0.36
Consensus pattern (37 bp):
TTCTCCCCCTTATGTAAAAATTTATTTTCAACAAAAC
Found at i:3606580 original size:13 final size:13
Alignment explanation
Indices: 3606547--3606586 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
3606537 ATAATACCCT
*
3606547 ATGTATCAATACA
1 ATGTATCGATACA
3606560 ATGTATCGATACA
1 ATGTATCGATACA
* *
3606573 GTGTATCGACACA
1 ATGTATCGATACA
3606586 A
1 A
3606587 GGAATATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3612678 original size:33 final size:33
Alignment explanation
Indices: 3612638--3612706 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
3612628 CCGTTACAAG
*
3612638 CAATGTATCGATACATT-TCATCATGTATCGATA
1 CAATGTATCGATACATTAT-ACCATGTATCGATA
3612671 CAATGTATCGATACATTATACCATGTATCGATA
1 CAATGTATCGATACATTATACCATGTATCGATA
3612704 CAA
1 CAA
3612707 ATAGTGATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTATACCATGTATCGATA
Found at i:3612691 original size:20 final size:20
Alignment explanation
Indices: 3612668--3612705 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3612658 TCATGTATCG
3612668 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
3612688 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
3612706 AATAGTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:3612704 original size:13 final size:13
Alignment explanation
Indices: 3612638--3612685 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
3612628 CCGTTACAAG
3612638 CAATGTATCGATA
1 CAATGTATCGATA
3612651 C-AT-T-TC-AT-
1 CAATGTATCGATA
3612659 C-ATGTATCGATA
1 CAATGTATCGATA
3612671 CAATGTATCGATA
1 CAATGTATCGATA
3612684 CA
1 CA
3612686 TTATACCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
8 3 0.10
9 3 0.10
10 4 0.13
11 3 0.10
12 3 0.10
13 14 0.47
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3612779 original size:19 final size:20
Alignment explanation
Indices: 3612735--3612807 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
3612725 CTGCCAGTTT
* *
3612735 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGATA
*
3612755 CATGTATTGATACAATGA-A
1 CATGTATCGATACAATGATA
*
3612774 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-ATA
3612795 -ATGTATCGATACA
1 CATGTATCGATACA
3612808 TCTGGGTGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 15 0.33
20 30 0.65
21 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:3613846 original size:22 final size:20
Alignment explanation
Indices: 3613798--3613853 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
3613788 AAAAACTCAG
*
3613798 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAC
*
3613818 AATGTATCGATACAATTTAAGC
1 AATGTATCGATACAA-TGAA-C
*
3613840 AATGTATCAATACA
1 AATGTATCGATACA
3613854 TTCACTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 15 0.48
21 3 0.10
22 13 0.42
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:3613925 original size:21 final size:21
Alignment explanation
Indices: 3613901--3613956 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
3613891 AAGGTGATTT
**
3613901 TGTATTGATACATTTCAGGCA
1 TGTATTGATACATTTCACACA
* *
3613922 TGTATCGATACA-TTCACATA
1 TGTATTGATACATTTCACACA
3613942 TGTATTGATACATTT
1 TGTATTGATACATTT
3613957 ACTATTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (21 bp):
TGTATTGATACATTTCACACA
Found at i:3613944 original size:20 final size:21
Alignment explanation
Indices: 3613921--3613974 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
3613911 CATTTCAGGC
3613921 ATGTATCGATACATTCAC-AT
1 ATGTATCGATACATTCACTAT
* *
3613941 ATGTATTGATACATTTACTAT
1 ATGTATCGATACATTCACTAT
* *
3613962 TTATATCGATACA
1 ATGTATCGATACA
3613975 AATTGTAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:3617552 original size:69 final size:66
Alignment explanation
Indices: 3617441--3617575 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 66
3617431 CATAAACAAT
* *
3617441 TAAGCACAATTTGGTTTATATATGAAGAAGACATATCAAGTGTTATTAGAAAAAATATTCCAATT
1 TAAGCACAATTTGGTTTATATA-GAAAAAGACATATCAAGTGTCATTA-AAAAAA-ATTCCAATT
3617506 GTTG
63 GTTG
* * *
3617510 TAAGCACAATTTGGTTTGTGAGTA-AAAAAGACATATCAAGTGTCATTAAAATAAATTCCAGTTG
1 TAAGCACAATTTGGTTTAT-A-TAGAAAAAGACATATCAAGTGTCATTAAAAAAAATTCCAATTG
3617574 TT
64 TT
3617576 CTCTGCATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
67 11 0.19
68 5 0.08
69 40 0.68
70 1 0.02
71 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (66 bp):
TAAGCACAATTTGGTTTATATAGAAAAAGACATATCAAGTGTCATTAAAAAAAATTCCAATTGTT
G
Found at i:3618275 original size:23 final size:23
Alignment explanation
Indices: 3618231--3618276 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3618221 ATCCTACTAG
**
3618231 TCTTGAATGGTCACCATTAAATA
1 TCTTGAATGGTCACCACGAAATA
3618254 TCTTGAATGGTCACCACGAAATA
1 TCTTGAATGGTCACCACGAAATA
3618277 ACCATGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (23 bp):
TCTTGAATGGTCACCACGAAATA
Found at i:3619195 original size:79 final size:79
Alignment explanation
Indices: 3619088--3619317 Score: 307
Period size: 79 Copynumber: 2.9 Consensus size: 79
3619078 TTTTGGAGAT
* * * * *
3619088 AAAAACGGGGTTGGAGTATCTCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGAGTTGG
1 AAAAACGAGATTGAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGGGTTGG
*
3619153 AGTATCCCCTCGAA
66 AGTATCCCCTAGAA
* * *
3619167 AAAAATGAGATTGAAGTATCCCCAATGGTGAAAAATCGATATTTTGGAAATAAAAATGGGGTTGG
1 AAAAACGAGATTGAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGGGTTGG
3619232 AGTATCCCCTAGAA
66 AGTATCCCCTAGAA
* * * * * * * *
3619246 AATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAACTGGGGTTAG
1 AAAAACGAGATTGAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGGGTTGG
3619311 AGTATCC
66 AGTATCC
3619318 TCGATGGTAA
Statistics
Matches: 131, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 131 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (79 bp):
AAAAACGAGATTGAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGGGTTGG
AGTATCCCCTAGAA
Found at i:3619315 original size:130 final size:130
Alignment explanation
Indices: 3619181--3619448 Score: 367
Period size: 130 Copynumber: 2.1 Consensus size: 130
3619171 ATGAGATTGA
* ** * *
3619181 AGTATCCCCAATGGTGAAAAATCGATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCC-TAGA
1 AGTATCCCCAATGGTAAAAAATCGATATTTTAAAAATAAAAATAGGATTGGAGTATCCCCTTAG-
* * *
3619245 AAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAACTGGGGTTA
65 AAATAACAGGGTTGGAGTATCCCCGATAGTGAAAAATCGAAATTTTAAAAATAGAACTGGGGTTA
3619310 G
130 G
* * * * *
3619311 AGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCCCCTTAGA
1 AGTATCCCCAATGGTAAAAAATCGATATTTTAAAAATAAAAATAGGATTGGAGTATCCCCTTAGA
* * * *
3619376 AATAATAGGGTTTGAGTATCCCCGATAGTGGAAAATCGAAATTTTAAAAATAGAACTGGGGTTGG
66 AATAACAGGGTTGGAGTATCCCCGATAGTGAAAAATCGAAATTTTAAAAATAGAACTGGGGTTAG
3619441 AGTATCCC
1 AGTATCCC
3619449 TTCAAAAATA
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
130 116 0.97
131 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (130 bp):
AGTATCCCCAATGGTAAAAAATCGATATTTTAAAAATAAAAATAGGATTGGAGTATCCCCTTAGA
AATAACAGGGTTGGAGTATCCCCGATAGTGAAAAATCGAAATTTTAAAAATAGAACTGGGGTTAG
Found at i:3619317 original size:51 final size:51
Alignment explanation
Indices: 3619252--3619370 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
3619242 AGAAAATAAC
*
3619252 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAACT
1 GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATATTTTAAAAATAGAACT
* * *
3619303 GGGGTTAGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACT
1 GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATATTTTAAAAATAGAACT
* *
3619354 AGGATTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
3619371 TTAGAAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATATTTTAAAAATAGAACT
Found at i:3619387 original size:79 final size:79
Alignment explanation
Indices: 3619304--3619841 Score: 566
Period size: 79 Copynumber: 6.8 Consensus size: 79
3619294 AATAGAACTG
* * * *
3619304 GGGTTAGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCC
1 GGGTTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTATCC
* *
3619369 CCTTAGAAATAATA
66 CCTCAAAAATAATA
* * * * *
3619383 GGGTTTGAGTATCCCCGATAGTGGAAAATCGAAATTTTAAAAATAGAACTGGGGTTGGAGTATCC
1 GGGTTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTATCC
* *
3619448 CTTCAAAAATAACA
66 CCTCAAAAATAATA
* * * *
3619462 GGGTTTGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACCGGGATTGGAGTATCT
1 GGGTTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTATCC
*
3619527 TCTCAAAAATAATA
66 CCTCAAAAATAATA
* * *
3619541 GGGTTTGAGAATCCCCG-GGGTGAAAAATTGATATTTTAAAAATAGAACTGGGGTTGGAGTATCC
1 GGGTTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTATCC
3619605 CCTCAAAAA-AA-A
66 CCTCAAAAATAATA
* * *
3619617 GGGGATTGGAGTATCCCCGATGGTGAGAAATTGATATTTTAAAAATAGAACTGGAATTGGAGTAT
1 -GGG-TTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTAT
* * *
3619682 CCTCTCAGAAATAA-C
64 CCCCTCAAAAATAATA
* ** * * * * *
3619697 GAGGTTGGAGTATCCCTAATGGCGAAAAATCGATATTTTAAAAATAAAATTGGGGTTGGAGTATC
1 G-GGTTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTATC
* *
3619762 CCCTCGAAAATAA-C
65 CCCTCAAAAATAATA
* * * ** ** * * *
3619776 GGGATTGAAGTTTCCCTGATGGCAAAAAATCAATATTTTGAAAATA-AAATCGGAGTTGGAGTAT
1 GGGTTTG-AGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGA-TTGGAGTAT
3619840 CC
64 CC
3619842 TCTTGAAAAT
Statistics
Matches: 388, Mismatches: 64, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
76 1 0.00
77 5 0.01
78 71 0.18
79 307 0.79
80 4 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (79 bp):
GGGTTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTATCC
CCTCAAAAATAATA
Found at i:3619438 original size:209 final size:210
Alignment explanation
Indices: 3619093--3619525 Score: 554
Period size: 209 Copynumber: 2.1 Consensus size: 210
3619083 GAGATAAAAA
* *
3619093 CGGGGTTGGAGTAT-CTCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGAGTTGGAGTA
1 CGGGGTTGGAGTATCCTCCGATGGTAAAAAATCGATATTTTAAAAATAAAAATGGAGTTGGAGTA
* * * **
3619157 TCCCCTCGAAAAAAATGAGATTGAAGTATCCCCAATGGTGAAAAATCGATATTTTGGAAATAAAA
66 TCCCCTAGAAAAAAATGAGATTGAAGTATCCCCAATAGTGAAAAATCGAAATTTTAAAAATAAAA
* *
3619222 ATGGGGTTGGAGTATCCCCT-AGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGAT
131 ATGGGGTTGGAGTATCCCCTCA-AAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAAATCGAT
3619286 ATTTTAAAAATAGAAC
195 ATTTTAAAAATAGAAC
* * * * *
3619302 TGGGGTTAGAGTATCCT-CGATGGTAAAAAATTGATATTTTAAAAATAGAACTAGGA-TTGGAGT
1 CGGGGTTGGAGTATCCTCCGATGGTAAAAAATCGATATTTTAAAAATAAAAAT-GGAGTTGGAGT
* * * * *
3619365 ATCCCCTTAG-AAATAATAGGGTTTG-AGTATCCCCGATAGTGGAAAATCGAAATTTTAAAAATA
65 ATCCCC-TAGAAAAAAAT-GAGATTGAAGTATCCCCAATAGTGAAAAATCGAAATTTTAAAAATA
* * * * * *
3619428 GAACTGGGGTTGGAGTATCCCTTCAAAAATAACAGGGTTTGAGTATCCTCGATGGTAAAAAATTG
128 AAAATGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAAATCG
3619493 ATATTTTAAAAATAGAAC
193 ATATTTTAAAAATAGAAC
*
3619511 CGGGATTGGAGTATC
1 CGGGGTTGGAGTATC
3619526 TTCTCAAAAA
Statistics
Matches: 191, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
209 178 0.93
210 13 0.07
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (210 bp):
CGGGGTTGGAGTATCCTCCGATGGTAAAAAATCGATATTTTAAAAATAAAAATGGAGTTGGAGTA
TCCCCTAGAAAAAAATGAGATTGAAGTATCCCCAATAGTGAAAAATCGAAATTTTAAAAATAAAA
ATGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAAATCGATA
TTTTAAAAATAGAAC
Found at i:3619472 original size:158 final size:157
Alignment explanation
Indices: 3619304--3619844 Score: 655
Period size: 158 Copynumber: 3.4 Consensus size: 157
3619294 AATAGAACTG
*
3619304 GGGTTAGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCC
1 GGGTTTGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACT-GGATTGGAGTATCC
* * * * *
3619369 CCTTAGAAATAATAGGGTTTGAGTATCCCCGATAGTGGAAAATCGAAATTTTAAAAATAGAACTG
65 TCTCAGAAATAATAGGGTTTGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAACTG
*
3619434 GGGTTGGAGTATCCCTTCAAAAATAACA
130 GGGTTGGAGTATCCCCTCAAAAATAACA
* *
3619462 GGGTTTGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACCGGGATTGGAGTATCT
1 GGGTTTGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAA-CTGGATTGGAGTATCC
* * * *
3619527 TCTCAAAAATAATAGGGTTTGAGAATCCCCG-GGGTGAAAAATTGATATTTTAAAAATAGAACTG
65 TCTCAGAAATAATAGGGTTTGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAACTG
3619591 GGGTTGGAGTATCCCCTCAAAAA-AA-A
130 GGGTTGGAGTATCCCCTCAAAAATAACA
* * * *
3619617 GGGGATTGGAGTATCCCCGATGGTGAGAAATTGATATTTTAAAAATAGAACTGGAATTGGAGTAT
1 -GGG-TTTGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACTGG-ATTGGAGTAT
* * ** * *
3619682 CCTCTCAGAAATAA-CGAGGTTGGAGTATCCCTAATGGCGAAAAATCGATATTTTAAAAATAAAA
63 CCTCTCAGAAATAATAG-GGTTTGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAA
* *
3619746 TTGGGGTTGGAGTATCCCCTCGAAAATAAC-
127 CTGGGGTTGGAGTATCCCCTCAAAAATAACA
* * * ** * *
3619776 GGGATTGAAGTTTCC-CTGATGGCAAAAAATCAATATTTTGAAAATA-AAATCGGAGTTGGAGTA
1 GGGTTTG-AGTATCCTC-GATGGTAAAAAATTGATATTTTAAAAATAGAACT-GGA-TTGGAGTA
3619839 TCCTCT
62 TCCTCT
3619845 TGAAAATAAC
Statistics
Matches: 330, Mismatches: 41, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
155 1 0.00
156 9 0.03
157 132 0.40
158 185 0.56
159 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (157 bp):
GGGTTTGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACTGGATTGGAGTATCCT
CTCAGAAATAATAGGGTTTGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAACTGG
GGTTGGAGTATCCCCTCAAAAATAACA
Found at i:3619631 original size:236 final size:236
Alignment explanation
Indices: 3619327--3619761 Score: 594
Period size: 236 Copynumber: 1.8 Consensus size: 236
3619317 CTCGATGGTA
* * *
3619327 AAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCCCCTTAGAAATAATAGGGTTTGAG
1 AAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCCCCTCAGAAATAAAAGGGTTGGAG
**
3619392 TATCCCCGATAGTG-GAAAATCGAAATTTTAAAAATAGAACTGGGGTTGGAGTATCC-CTTCAAA
66 TATCCCCGATAGTGAG-AAATCGAAATTTTAAAAATAGAACTGGAATTGGAGTATCCTC-TCAAA
* * * * *
3619455 AATAAC-AGGGTTTGAGTAT-CCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACCGGGATT
129 AATAACGA-GGTTGGAGTATCCCT-AATGGCAAAAAATCGATATTTTAAAAATAAAACCGGGATT
3619518 GGAGTATCTTCTCAAAAATAATAGGGTTTGAGAATCCCCGGGGTG
192 GGAGTATCTTCTCAAAAATAATAGGGTTTGAGAATCCCCGGGGTG
* *
3619563 AAAAATTGATATTTTAAAAATAGAACTGGGGTTGGAGTATCCCCTCA-AAA-AAAAGGGGATTGG
1 AAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCCCCTCAGAAATAAAA-GGG-TTGG
* * * *
3619626 AGTATCCCCGATGGTGAGAAATTGATATTTTAAAAATAGAACTGGAATTGGAGTATCCTCTCAGA
64 AGTATCCCCGATAGTGAGAAATCGAAATTTTAAAAATAGAACTGGAATTGGAGTATCCTCTCAAA
* ** *
3619691 AATAACGAGGTTGGAGTATCCCTAATGGCGAAAAATCGATATTTTAAAAATAAAATTGGGGTTGG
129 AATAACGAGGTTGGAGTATCCCTAATGGCAAAAAATCGATATTTTAAAAATAAAACCGGGATTGG
3619756 AGTATC
194 AGTATC
3619762 CCCTCGAAAA
Statistics
Matches: 173, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
234 3 0.02
235 6 0.03
236 158 0.91
237 6 0.03
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (236 bp):
AAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCCCCTCAGAAATAAAAGGGTTGGAG
TATCCCCGATAGTGAGAAATCGAAATTTTAAAAATAGAACTGGAATTGGAGTATCCTCTCAAAAA
TAACGAGGTTGGAGTATCCCTAATGGCAAAAAATCGATATTTTAAAAATAAAACCGGGATTGGAG
TATCTTCTCAAAAATAATAGGGTTTGAGAATCCCCGGGGTG
Found at i:3622280 original size:24 final size:22
Alignment explanation
Indices: 3622248--3622309 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
3622238 AATTGCCTAC
*
3622248 ATGTATCGATACATTTTTCAATAT
1 ATGTATCGATACATTTAT-AA-AT
* *
3622272 ATGTATCGATACAATTATAAGT
1 ATGTATCGATACATTTATAAAT
*
3622294 ATGTATCAATACATTT
1 ATGTATCGATACATTT
3622310 CCATGGCAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 15 0.45
23 2 0.06
24 16 0.48
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (22 bp):
ATGTATCGATACATTTATAAAT
Found at i:3622421 original size:15 final size:16
Alignment explanation
Indices: 3622403--3622435 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3622393 AAAAATTTTA
*
3622403 ATTTTG-ATCGTTAGG
1 ATTTTGTATCGATAGG
3622418 ATTTTGTATCGATAGG
1 ATTTTGTATCGATAGG
3622434 AT
1 AT
3622436 GAAAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.45
Consensus pattern (16 bp):
ATTTTGTATCGATAGG
Found at i:3622568 original size:13 final size:13
Alignment explanation
Indices: 3622550--3622574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3622540 CATAAAGTGT
3622550 TGTATCGATACAA
1 TGTATCGATACAA
3622563 TGTATCGATACA
1 TGTATCGATACA
3622575 TTTTTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3622724 original size:52 final size:52
Alignment explanation
Indices: 3622668--3622796 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
3622658 CACTGATCTT
*
3622668 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
3622720 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3622772 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3622797 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3624992 original size:1 final size:1
Alignment explanation
Indices: 3624986--3625014 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
3624976 ATCTTCACGG
3624986 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3625015 CCCCTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3625988 original size:30 final size:31
Alignment explanation
Indices: 3625952--3626033 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
3625942 ATACCTTTTT
3625952 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
3625982 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
3626013 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
3626034 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:3626129 original size:62 final size:61
Alignment explanation
Indices: 3626010--3627376 Score: 1414
Period size: 62 Copynumber: 20.9 Consensus size: 61
3626000 GCATTTTTTC
* *
3626010 TTTAAAGCCCACAACTCCGTGGCACCTTGTTC-CTTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC-TTTAAGTCCACAACTCCGTGGCACCCT
*
3626071 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCT
*
3626133 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCT
*
3626195 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCT
*
3626257 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCT
*
3626319 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCT
*
3626381 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCT
*
3626443 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCT
*
3626505 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCT
* * *
3626567 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TCTTTAAGTCCACAACTCCGTGGCACCCT
* * *
3626629 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT-AAGTCCACAACTCCGTGGCACC-----
3626693 CT
60 CT
* * *
3626695 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGTCCACAACTCCGTGGCACC--
3626760 TTTCT
60 ---CT
* *
3626765 GTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCT
1 -TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGTCCACAACTCCGTGGCACC-
3626830 TTTTCT
60 ----CT
* * *
3626836 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGTCCACAACTCCGTGGCACC--
3626901 TTTCT
60 ---CT
* *
3626906 GTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACCT
1 -TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGTCCACAACTCCGTGGCACC-
3626971 TTTTCT
60 ----CT
* *
3626977 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAG-CCTACGACTCCGTGGCACT
1 -TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGTCC-ACAACTCCGTGGCACC
3627041 C-
60 CT
* * * * *
3627042 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-TTTTTTCTCTTT-AAGTCCACAACTCCGTGGCA------
3627107 TTCCCT
58 --CCCT
* * * *
3627113 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTT
1 TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT-AAGTCCACAACTCCGTGGCA------
3627178 TTCCCT
58 --CCCT
* * * *
3627184 TTTCAAAGCCCACAACTCCGTGGCACTCTTTTC-CTTTAAAGCCCACAACTACGTGGCACTCTTT
1 TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTT-AAGTCCACAACTCCGTGGCAC-C-CT
* * *
3627248 TCCTTCTAAGCCCACAACTCTGTGGCACTATTTTTC-CTTCTAAGCCCACAACTCCGTGGCACTT
1 T--TT-AAAGCCCACAACTCCGTGGCACT-TTTTTCTCTT-TAAGTCCACAACTCCGTGGCAC--
*
3627312 TTTTCT
59 ---CCT
*
3627318 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTTAAGTCCACAACTCCGTGGCA
3627377 TCTTTTTTCC
Statistics
Matches: 1223, Mismatches: 44, Indels: 71
0.91 0.03 0.05
Matches are distributed among these distances:
60 4 0.00
61 75 0.06
62 541 0.44
63 7 0.01
64 33 0.03
66 29 0.02
67 75 0.06
68 30 0.02
69 5 0.00
70 127 0.10
71 276 0.23
72 21 0.02
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (61 bp):
TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTCTTTAAGTCCACAACTCCGTGGCACCCT
Found at i:3626640 original size:27 final size:27
Alignment explanation
Indices: 3626602--3626653 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
3626592 TTTTTTCATC
*
3626602 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
3626629 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
3626654 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:3627048 original size:27 final size:27
Alignment explanation
Indices: 3627018--3627071 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
3627008 TTCTCTTTTC
* * *
3627018 AAAGCCTACGACTCCGTGGCACTCTTT
1 AAAGCCCACAACTCCGTGGCACACTTT
*
3627045 AAAGCCCACAACTCTGTGGCACACTTT
1 AAAGCCCACAACTCCGTGGCACACTTT
3627072 TTCTTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (27 bp):
AAAGCCCACAACTCCGTGGCACACTTT
Found at i:3627088 original size:35 final size:35
Alignment explanation
Indices: 3627042--3627383 Score: 425
Period size: 33 Copynumber: 9.9 Consensus size: 35
3627032 CGTGGCACTC
* *
3627042 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
*
3627077 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT--CTT
*
3627114 TTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
*
3627148 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT--CTT
* *
3627185 TTCAAAGCCCACAACTCCGTGGCACTC-TTTTC-C
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* *
3627218 TTTAAAGCCCACAACTACGTGGCACTC-TTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * * *
3627252 TCT-AAGCCCACAACTCTGTGGCACTATTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
*
3627286 TCT-AAGCCCACAACTCCGTGGCACT-TTTTTC-T
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
*
3627318 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CTT
*
3627354 TTT-AAGTCCACAACTCCGTGGCA-TCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
3627384 TCCTTCCCAA
Statistics
Matches: 278, Mismatches: 18, Indels: 23
0.87 0.06 0.07
Matches are distributed among these distances:
32 3 0.01
33 78 0.28
34 72 0.26
35 57 0.21
36 14 0.05
37 54 0.19
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (35 bp):
TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
Found at i:3627573 original size:49 final size:49
Alignment explanation
Indices: 3627455--3628491 Score: 847
Period size: 49 Copynumber: 20.8 Consensus size: 49
3627445 GCAACCCCTC
*
3627455 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * *
3627507 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
3627556 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * *
3627608 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3627657 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3627706 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3627755 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
3627804 GAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3627847 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3627896 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
3627939 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTT
* * ** *
3627991 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCATCTT
* * * * * *
3628046 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CT-TCA-TCTT
* * * * * * ** **
3628099 CTCA-TCATCATTTTTAAG-T--CC--AATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 -TAAGTC--CA-ATAT-AGCTGGCCTTGA-AT--C-AG-CAT--ATTGGCACCTT--CATCTT
* *
3628156 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 ------TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
3628211 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3628254 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
3628303 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
3628346 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTT
* * ** *
3628398 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCATCTT
* * * * *
3628453 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
3628492 TCTTTATCAC
Statistics
Matches: 800, Mismatches: 113, Indels: 141
0.76 0.11 0.13
Matches are distributed among these distances:
43 155 0.19
45 4 0.00
47 2 0.00
49 327 0.41
50 6 0.01
51 2 0.00
52 160 0.20
53 9 0.01
54 4 0.00
55 83 0.10
56 6 0.01
57 16 0.02
58 2 0.00
59 8 0.01
60 4 0.00
61 3 0.00
62 4 0.00
63 4 0.00
64 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:3627866 original size:43 final size:44
Alignment explanation
Indices: 3627800--3627978 Score: 236
Period size: 43 Copynumber: 4.0 Consensus size: 44
3627790 GGCATCTTCA
* * * *
3627800 TCTTGAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
*
3627844 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
* *
3627891 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
3627936 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
3627979 ATTTTCCATC
Statistics
Matches: 119, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
43 78 0.66
45 1 0.01
47 1 0.01
49 39 0.33
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:3627872 original size:92 final size:92
Alignment explanation
Indices: 3627752--3628022 Score: 470
Period size: 92 Copynumber: 2.9 Consensus size: 92
3627742 GCACCTTCAT
*
3627752 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
3627817 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
3627844 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
3627909 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
3627936 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
3628001 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
3628023 GTTGACATCC
Statistics
Matches: 171, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
92 129 0.75
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:3628065 original size:55 final size:52
Alignment explanation
Indices: 3627936--3628073 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
3627926 ACATTGGCAC
* *
3627936 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
3627988 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
3628043 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
3628074 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:3628316 original size:92 final size:92
Alignment explanation
Indices: 3628101--3628429 Score: 496
Period size: 92 Copynumber: 3.5 Consensus size: 92
3628091 TCACTCTTCT
* * * * *
3628101 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
1 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAG
3628166 TCCAATATCGCTGGCCTTGAATCAGCATATTGG
60 TCCAATATCGCTGGCCTTGAATCAGCATATTGG
*
3628199 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAAT
1 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
3628264 ATCGCTGGCCTTGAATCAGCATATTGG
66 ATCGCTGGCCTTGAATCAGCATATTGG
3628291 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
1 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
*
3628356 ATAGCTGGCCTTGAATCAGCATATTGG
66 ATCGCTGGCCTTGAATCAGCATATTGG
* *
3628383 CACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 --CATCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
3628430 GTTGACATCC
Statistics
Matches: 218, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
92 130 0.60
94 6 0.03
95 37 0.17
98 45 0.21
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (92 bp):
CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
ATCGCTGGCCTTGAATCAGCATATTGG
Found at i:3628459 original size:407 final size:407
Alignment explanation
Indices: 3627694--3629058 Score: 2544
Period size: 407 Copynumber: 3.4 Consensus size: 407
3627684 AGCATATTGG
* * * * * * *
3627694 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAG
1 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
*
3627759 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAGTCCAATGTAGCTGGCC
66 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCC
3627824 TTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCT
131 TTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCT
3627889 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
196 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
3627954 TGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCA
261 TGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCA
3628019 GCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGC
326 GCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGC
3628084 ATCTTTATCACTCTTCT
391 ATCTTTATCACTCTTCT
3628101 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
1 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
3628166 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCC
66 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCC
3628231 TTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCT
131 TTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCT
3628296 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
196 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
3628361 TGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCA
261 TGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCA
3628426 GCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGC
326 GCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGC
3628491 ATCTTTATCACTCTTCT
391 ATCTTTATCACTCTTCT
*
3628508 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTCATCTTTAAG
1 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
3628573 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCC
66 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCC
3628638 TTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCT
131 TTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCT
3628703 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
196 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
3628768 TGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCA
261 TGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCA
3628833 GCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGC
326 GCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGC
3628898 ATCTTTATCACTCTTCT
391 ATCTTTATCACTCTTCT
3628915 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
1 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
* * * * *
3628980 TCCAATGTAGTTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCC
66 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCC
* *
3629039 TTGAATCAGCATATTGGCAC
131 TTGACTCAGCACATTGGCAC
3629059 ATTTTCCATC
Statistics
Matches: 941, Mismatches: 17, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
401 40 0.04
403 1 0.00
407 900 0.96
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (407 bp):
CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAG
TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCC
TTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCT
TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGC
TGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCA
GCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGC
ATCTTTATCACTCTTCT
Found at i:3628472 original size:55 final size:52
Alignment explanation
Indices: 3628343--3628480 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
3628333 ACATTGGCAC
* *
3628343 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
3628395 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
3628450 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
3628481 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:3628590 original size:49 final size:49
Alignment explanation
Indices: 3628508--3628902 Score: 427
Period size: 49 Copynumber: 8.1 Consensus size: 49
3628498 TCACTCTTCT
* * * *
3628508 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
*
3628557 CATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* * *
3628606 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
*
3628655 CA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* *
3628698 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
3628747 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* * * ** *
3628790 CACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGA
1 --CATCTT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* * * * *
3628842 CATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGG
1 CAT-C----T-TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
3628897 CATCTT
1 CATCTT
3628903 TATCACTCTT
Statistics
Matches: 293, Mismatches: 32, Indels: 42
0.80 0.09 0.11
Matches are distributed among these distances:
43 76 0.26
45 4 0.01
47 1 0.00
49 133 0.45
50 5 0.02
52 35 0.12
54 1 0.00
55 37 0.13
56 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (49 bp):
CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
Found at i:3628723 original size:92 final size:92
Alignment explanation
Indices: 3628508--3628836 Score: 487
Period size: 92 Copynumber: 3.5 Consensus size: 92
3628498 TCACTCTTCT
* * * * * *
3628508 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTCATCTTTAAG
1 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAG
3628573 TCCAATATCGCTGGCCTTGAATCAGCATATTGG
60 TCCAATATCGCTGGCCTTGAATCAGCATATTGG
*
3628606 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAAT
1 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
3628671 ATCGCTGGCCTTGAATCAGCATATTGG
66 ATCGCTGGCCTTGAATCAGCATATTGG
3628698 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
1 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
*
3628763 ATAGCTGGCCTTGAATCAGCATATTGG
66 ATCGCTGGCCTTGAATCAGCATATTGG
* *
3628790 CACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 --CATCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
3628837 GTTGACATCC
Statistics
Matches: 217, Mismatches: 11, Indels: 9
0.92 0.05 0.04
Matches are distributed among these distances:
92 130 0.60
94 6 0.03
95 37 0.17
98 44 0.20
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (92 bp):
CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAAT
ATCGCTGGCCTTGAATCAGCATATTGG
Found at i:3628879 original size:55 final size:52
Alignment explanation
Indices: 3628750--3628887 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
3628740 ACATTGGCAC
* *
3628750 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
3628802 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
3628857 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
3628888 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:3628995 original size:49 final size:49
Alignment explanation
Indices: 3628915--3629101 Score: 224
Period size: 49 Copynumber: 3.9 Consensus size: 49
3628905 TCACTCTTCT
* * *
3628915 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* * *
3628964 CATCTTCATCTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
3629013 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* * *
3629056 CACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 --CATCTT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
3629102 CGTTGACATC
Statistics
Matches: 118, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
43 37 0.31
45 3 0.03
49 45 0.38
50 1 0.01
52 32 0.27
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (49 bp):
CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
Found at i:3629038 original size:43 final size:44
Alignment explanation
Indices: 3628925--3629059 Score: 182
Period size: 43 Copynumber: 3.0 Consensus size: 44
3628915 CATCATCATT
*
3628925 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* * *
3628974 TTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
3629017 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
3629060 TTTTCCATCT
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
43 40 0.51
45 1 0.01
49 37 0.47
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
Found at i:3630065 original size:33 final size:33
Alignment explanation
Indices: 3630028--3630094 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3630018 TTCAACGATT
3630028 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
3630061 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
3630094 T
1 T
3630095 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:3630066 original size:13 final size:13
Alignment explanation
Indices: 3630048--3630072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3630038 CATAAAATGT
3630048 TGTATCGATACAA
1 TGTATCGATACAA
3630061 TGTATCGATACA
1 TGTATCGATACA
3630073 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3630155 original size:13 final size:13
Alignment explanation
Indices: 3630137--3630161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3630127 ATTACTCACA
3630137 TGTATCGATACAT
1 TGTATCGATACAT
3630150 TGTATCGATACA
1 TGTATCGATACA
3630162 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3630298 original size:52 final size:52
Alignment explanation
Indices: 3630170--3630290 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
3630160 CACTGATCTT
*
3630170 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3630222 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3630274 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
3630291 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3633377 original size:79 final size:79
Alignment explanation
Indices: 3633285--3633564 Score: 303
Period size: 79 Copynumber: 3.5 Consensus size: 79
3633275 TCCCCGGGGT
* *
3633285 GAAAAATTGATATTTTAAAAATAGAACTGGGGTTGGAGTATCCCCTCAAAAAAAAGGGGATTGGA
1 GAAAAATCGATATTTTAAAAATAGAACTGGAGTTGGAGTATCCCCTCAAAAAAAAGGGGATTGGA
*
3633350 GTATCCCCGATGGT
66 GTATCCCCGATGGC
* * * * * * *
3633364 GAGAAATTGATATTTTAAAAATAGAACTGGAATTGGAGTATCCTCTCAGAAATAACGAGG-TTGG
1 GAAAAATCGATATTTTAAAAATAGAACTGGAGTTGGAGTATCCCCTCA-AAAAAAAGGGGATTGG
**
3633428 AGTATCCCTAATGGC
65 AGTATCCCCGATGGC
* * * * * * *
3633443 GAAAAATCGATATTTTAAAAATAAAATTGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGAA
1 GAAAAATCGATATTTTAAAAATAGAACTGGAGTTGGAGTATCCCCTCAAAAAAAAGGGGATTGGA
* *
3633508 GTTTCCCTGATGGC
66 GTATCCCCGATGGC
* * * *
3633522 AAAAAATCAATATTTTGAAAATA-AAATCGGAGTTGGAGTATCC
1 GAAAAATCGATATTTTAAAAATAGAACT-GGAGTTGGAGTATCC
3633565 TCTTGAAAAT
Statistics
Matches: 167, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
78 9 0.05
79 150 0.90
80 8 0.05
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (79 bp):
GAAAAATCGATATTTTAAAAATAGAACTGGAGTTGGAGTATCCCCTCAAAAAAAAGGGGATTGGA
GTATCCCCGATGGC
Found at i:3636143 original size:15 final size:16
Alignment explanation
Indices: 3636125--3636157 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3636115 AAAAATTTTA
*
3636125 ATTTTG-ATCGTTAGG
1 ATTTTGTATCGATAGG
3636140 ATTTTGTATCGATAGG
1 ATTTTGTATCGATAGG
3636156 AT
1 AT
3636158 GAAAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.45
Consensus pattern (16 bp):
ATTTTGTATCGATAGG
Found at i:3636290 original size:13 final size:13
Alignment explanation
Indices: 3636272--3636296 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3636262 CATAAAGTGT
3636272 TGTATCGATACAA
1 TGTATCGATACAA
3636285 TGTATCGATACA
1 TGTATCGATACA
3636297 TTTTTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3636446 original size:52 final size:52
Alignment explanation
Indices: 3636390--3636518 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
3636380 CACTGATCTT
*
3636390 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
3636442 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3636494 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3636519 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3639728 original size:19 final size:19
Alignment explanation
Indices: 3639684--3639739 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
3639674 CTGCCAGTTT
**
3639684 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
3639704 CATGTATCAATACAATGAA
1 CATGTATCGATACAATGAA
3639723 CATGTATCGATACAATG
1 CATGTATCGATACAATG
3639740 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:3639742 original size:13 final size:13
Alignment explanation
Indices: 3639724--3639749 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3639714 TACAATGAAC
3639724 ATGTATCGATACA
1 ATGTATCGATACA
3639737 ATGTATCGATACA
1 ATGTATCGATACA
3639750 TCTGGGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3640314 original size:26 final size:26
Alignment explanation
Indices: 3640262--3640316 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
3640252 GATATCAAAG
* ** *
3640262 TTTTCGTTTTTCTCACCCTTTATAAA
1 TTTTCGTTTTGCTCACCCTAAAAAAA
*
3640288 TTTTCGTTTTGCTCCCCCTAAAAAAA
1 TTTTCGTTTTGCTCACCCTAAAAAAA
3640314 TTT
1 TTT
3640317 CTGAATTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.05, T:0.49
Consensus pattern (26 bp):
TTTTCGTTTTGCTCACCCTAAAAAAA
Found at i:3642320 original size:13 final size:13
Alignment explanation
Indices: 3642287--3642326 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
3642277 ATAATACCCT
*
3642287 ATGTATCAATACA
1 ATGTATCGATACA
3642300 ATGTATCGATACA
1 ATGTATCGATACA
*
3642313 ATGTATCGACACA
1 ATGTATCGATACA
3642326 A
1 A
3642327 GGAATATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.28
Consensus pattern (13 bp):
ATGTATCGATACA
Done.