Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 188 of 295
Found at i:59605611 original size:17 final size:17
Alignment explanation
Indices: 59605591--59605624 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59605581 TTAATATTAA
*
59605591 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
59605608 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
59605625 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:59605767 original size:93 final size:92
Alignment explanation
Indices: 59605657--59605858 Score: 291
Period size: 93 Copynumber: 2.2 Consensus size: 92
59605647 GATTATAGTT
* * *
59605657 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATAAAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
59605720 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
59605750 TATGAATTTATAAAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATAAAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
59605815 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
59605842 TATGAATTTACTAAAAT
1 TATGAATTTA-TAAAAT
59605859 CAATATATAA
Statistics
Matches: 99, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
92 21 0.21
93 74 0.75
94 4 0.04
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (92 bp):
TATGAATTTATAAAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:59608273 original size:12 final size:12
Alignment explanation
Indices: 59608256--59608283 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
59608246 CATACAAAAA
59608256 ACAGAAGCTGCT
1 ACAGAAGCTGCT
59608268 ACAGAAGCTGCT
1 ACAGAAGCTGCT
59608280 ACAG
1 ACAG
59608284 CAATAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:59609761 original size:24 final size:24
Alignment explanation
Indices: 59609734--59609784 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
59609724 TTGGGAAAAC
59609734 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
59609758 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
59609782 ATT
1 ATT
59609785 TAAAACTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (24 bp):
ATTGGCAGATTAATTTAGGTCAGA
Found at i:59616191 original size:17 final size:17
Alignment explanation
Indices: 59616169--59616202 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59616159 ACACATGCCA
59616169 ACCTCTTAGCATGTTAT
1 ACCTCTTAGCATGTTAT
59616186 ACCTCTTAGCATGTTAT
1 ACCTCTTAGCATGTTAT
59616203 TTGACAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (17 bp):
ACCTCTTAGCATGTTAT
Found at i:59616407 original size:24 final size:24
Alignment explanation
Indices: 59616380--59616450 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
59616370 TGAGGTTATT
*
59616380 TATATTATTATAAAATTAAATATA
1 TATATTATTAAAAAATTAAATATA
**
59616404 TATAAAATTAAAAAATTTAAAATATA
1 TATATTATTAAAAAA-TT-AAATATA
* *
59616430 TAAATTAATAAAAAATATAAA
1 TATATTATTAAAAAAT-TAAA
59616451 AAAAAGTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
24 12 0.32
25 6 0.16
26 19 0.51
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TATATTATTAAAAAATTAAATATA
Found at i:59632315 original size:31 final size:31
Alignment explanation
Indices: 59632277--59632340 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
59632267 TATGAACCTT
59632277 AACTTAAATTATTGCTAGCATAAGCTTTATC
1 AACTTAAATTATTGCTAGCATAAGCTTTATC
59632308 AACTTAAATTATTGCTAGCATAAGCTTTATC
1 AACTTAAATTATTGCTAGCATAAGCTTTATC
59632339 AA
1 AA
59632341 GCTACCGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (31 bp):
AACTTAAATTATTGCTAGCATAAGCTTTATC
Found at i:59636481 original size:11 final size:11
Alignment explanation
Indices: 59636448--59636481 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
59636438 CCAAAAATGA
59636448 AAATTATTTATT
1 AAATTATTT-TT
*
59636460 AAATTAATTTT
1 AAATTATTTTT
59636471 AAATTATTTTT
1 AAATTATTTTT
59636482 CCCATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 12 0.60
12 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
AAATTATTTTT
Found at i:59645748 original size:22 final size:23
Alignment explanation
Indices: 59645723--59645768 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
59645713 CAACCAAACC
59645723 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
59645745 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
59645768 A
1 A
59645769 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:59645774 original size:23 final size:23
Alignment explanation
Indices: 59645730--59645774 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
59645720 ACCAATTCAA
*
59645730 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
59645753 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
59645775 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:59662961 original size:14 final size:14
Alignment explanation
Indices: 59662940--59662980 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
59662930 TTGCAACTTG
59662940 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
59662954 TGCAACTTGCAAAT
1 CACAACTTGCACAT
59662968 CACAACTTGCACA
1 CACAACTTGCACA
59662981 ATTAGATAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:59664639 original size:27 final size:27
Alignment explanation
Indices: 59664601--59664657 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
59664591 TTATTGACGC
59664601 TTACTAAAGTTAGTAAAATCTTAATCT
1 TTACTAAAGTTAGTAAAATCTTAATCT
* *
59664628 TTACTAAGGTTAGTAAAATCTTGATCT
1 TTACTAAAGTTAGTAAAATCTTAATCT
59664655 TTA
1 TTA
59664658 ATATCACAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (27 bp):
TTACTAAAGTTAGTAAAATCTTAATCT
Found at i:59666212 original size:16 final size:16
Alignment explanation
Indices: 59666191--59666243 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
59666181 GTCATTGTCG
59666191 TCTTTTGTTTTCC-TTT
1 TCTTTT-TTTTCCTTTT
**
59666207 TCTTTTTTCCCCTTTT
1 TCTTTTTTTTCCTTTT
*
59666223 TCCTTTTTTTCCTTTT
1 TCTTTTTTTTCCTTTT
59666239 TCTTT
1 TCTTT
59666244 CCCAATTTCC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.74
Consensus pattern (16 bp):
TCTTTTTTTTCCTTTT
Found at i:59667864 original size:22 final size:23
Alignment explanation
Indices: 59667839--59667884 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
59667829 CCTCACCTTT
59667839 ACCAAAAAACACCCTAGTC-ACC
1 ACCAAAAAACACCCTAGTCGACC
59667861 ACCAAAAAACACCCTAGTCGACC
1 ACCAAAAAACACCCTAGTCGACC
59667884 A
1 A
59667885 TACACCCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.46, C:0.39, G:0.07, T:0.09
Consensus pattern (23 bp):
ACCAAAAAACACCCTAGTCGACC
Found at i:59671284 original size:52 final size:51
Alignment explanation
Indices: 59671227--59671358 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
59671217 ATGAACAAAT
* *
59671227 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAACTAACATGA
* * *
59671279 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAACTTAACTTACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
* *
59671329 GAGTTACATAATGCATGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
59671359 CAGAACACAT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 33 0.47
51 14 0.20
52 23 0.33
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
Found at i:59671425 original size:39 final size:39
Alignment explanation
Indices: 59671363--59671451 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
59671353 TAAATGCAGA
*
59671363 ACACATATTAATGATGTTCAAACTATGACATAATTAAAG
1 ACACATACTAATGATGTTCAAACTATGACATAATTAAAG
*
59671402 ACTCATACTAATGATGTTCAAACTATGACATAATTAAAG
1 ACACATACTAATGATGTTCAAACTATGACATAATTAAAG
*
59671441 ACACAAACTAA
1 ACACATACTAA
59671452 AATAACTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (39 bp):
ACACATACTAATGATGTTCAAACTATGACATAATTAAAG
Found at i:59675735 original size:53 final size:51
Alignment explanation
Indices: 59675646--59675766 Score: 154
Period size: 54 Copynumber: 2.3 Consensus size: 51
59675636 TGAACAAATT
* * * * *
59675646 GAGTTACTTAATACATGACTTAATTTAATGATGCAAACTTTAACTGACATGG
1 GAGTTACATAATGCATGTCATAATTTAATGATGCAAAC-TTAACTGACATGA
*
59675698 GAGTTTTACATAATGCATGTCATAATTT-ATGATGCAAACTTAACTTACATGA
1 GAG--TTACATAATGCATGTCATAATTTAATGATGCAAACTTAACTGACATGA
59675750 GAGTTACATAATGCATG
1 GAGTTACATAATGCATG
59675767 ACTTTGTTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
50 14 0.23
52 17 0.28
53 11 0.18
54 19 0.31
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (51 bp):
GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTAACTGACATGA
Found at i:59676917 original size:43 final size:43
Alignment explanation
Indices: 59676863--59677019 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 43
59676853 AACATATACA
*
59676863 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAAAATTG
* * * * * * *
59676906 ATGCCACTGTCCCAGACAG-GGTATTGCATGAAATCAGATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAAAATTG
* * * * **
59676948 ATGCCAATATCCCAGGCATGGTCTTACACGTAAAAAAAAATTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAAAATT-G
*
59676992 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
59677020 CGAAATCACA
Statistics
Matches: 86, Mismatches: 24, Indels: 7
0.74 0.21 0.06
Matches are distributed among these distances:
42 28 0.33
43 32 0.37
44 26 0.30
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAAAATTG
Found at i:59678375 original size:15 final size:17
Alignment explanation
Indices: 59678336--59678375 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
59678326 ATATACTTTG
59678336 AAACTATAGAATTGTGA
1 AAACTATAGAATTGTGA
59678353 AAACTATAG-ATTGT-A
1 AAACTATAGAATTGTGA
*
59678368 ACACTATA
1 AAACTATA
59678376 AGAGACTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 5 0.23
17 9 0.41
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (17 bp):
AAACTATAGAATTGTGA
Found at i:59680018 original size:38 final size:38
Alignment explanation
Indices: 59679967--59680040 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 38
59679957 CCCTACTAAG
59679967 TACATGTTAAGCATATCT-ACTGCTAGTGTTGAATTGAA
1 TACATGTTAAGCATAT-TGACTGCTAGTGTTGAATTGAA
* *
59680005 TACATGTTAAGCATGTTGACTTCTAGTGTTGAATTG
1 TACATGTTAAGCATATTGACTGCTAGTGTTGAATTG
59680041 TTCTATTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (38 bp):
TACATGTTAAGCATATTGACTGCTAGTGTTGAATTGAA
Found at i:59681645 original size:20 final size:21
Alignment explanation
Indices: 59681622--59681680 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
59681612 TCTCTCTCTC
*
59681622 TTTTTGGTATTCTCTT-ATAT
1 TTTTTTGTATTCTCTTCATAT
* *
59681642 TTTTTTGTA-ACTCTTCATTT
1 TTTTTTGTATTCTCTTCATAT
59681662 TTTTTTGTATTC-CTTCATA
1 TTTTTTGTATTCTCTTCATA
59681681 ACTTTGTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 5 0.16
20 26 0.81
21 1 0.03
ACGTcount: A:0.15, C:0.14, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTTTTGTATTCTCTTCATAT
Found at i:59681688 original size:18 final size:19
Alignment explanation
Indices: 59681665--59681700 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59681655 TTCATTTTTT
*
59681665 TTTGTA-TTCCTTCATAAC
1 TTTGTATTTCCCTCATAAC
59681683 TTTGTATTTCCCTCATAA
1 TTTGTATTTCCCTCATAA
59681701 TTTTTTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (19 bp):
TTTGTATTTCCCTCATAAC
Found at i:59681718 original size:43 final size:42
Alignment explanation
Indices: 59681658--59681750 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 42
59681648 GTAACTCTTC
* *
59681658 ATTTTTTTTTGTATTCCTTCATA-ACTTT-GTATTTCCCTCATA
1 ATTTTTTTTGGTATTCC-TCAGAGACTTTGGTATTT-CCTCATA
**
59681700 ATTTTTTTTGGTACTTCCTCAGAGTTTTTGGTATTTCCTCATA
1 ATTTTTTTTGGTA-TTCCTCAGAGACTTTGGTATTTCCTCATA
59681743 ATTTTTTT
1 ATTTTTTT
59681751 ATTCATCCTC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
42 16 0.36
43 22 0.50
44 6 0.14
ACGTcount: A:0.17, C:0.16, G:0.09, T:0.58
Consensus pattern (42 bp):
ATTTTTTTTGGTATTCCTCAGAGACTTTGGTATTTCCTCATA
Found at i:59681753 original size:19 final size:19
Alignment explanation
Indices: 59681662--59681917 Score: 145
Period size: 20 Copynumber: 13.0 Consensus size: 19
59681652 CTCTTCATTT
59681662 TTTTTTGTA-TTCCTTCATA
1 TTTTTTGTATTTCC-TCATA
**
59681681 -ACTTTGTATTTCCCTCATAA
1 TTTTTTGTATTT-CCTCAT-A
* *
59681701 TTTTTTTTGGTACTTCCTCAGA
1 --TTTTTT-GTATTTCCTCATA
*
59681723 GTTTTTGGTATTTCCTCATAA
1 -TTTTTTGTATTTCCTCAT-A
59681744 TTTTTT-TATTCATCCTCATA
1 TTTTTTGTATT--TCCTCATA
* *
59681764 TTTTTTGGTATTTCAT--TG
1 TTTTTT-GTATTTCCTCATA
59681782 TCTTTTTGATATTTCCTC-TGA
1 T-TTTTTG-TATTTCCTCAT-A
*
59681803 TTTTTTGGTATTTTCTCATA
1 TTTTTT-GTATTTCCTCATA
* **
59681823 ATTTTAATATTTCCTCATA
1 TTTTTTGTATTTCCTCATA
59681842 -TTTTT-TATTTCCTC-TGA
1 TTTTTTGTATTTCCTCAT-A
59681859 TTTTTTGGTATTTCCTCATA
1 TTTTTT-GTATTTCCTCATA
* *
59681879 TTTTTTATACCTT-CTCATA
1 TTTTTTGTA-TTTCCTCATA
*
59681898 TTTTTTGGTACTTCCTCATA
1 TTTTTT-GTATTTCCTCATA
59681918 ATTCTTGATA
Statistics
Matches: 187, Mismatches: 24, Indels: 51
0.71 0.09 0.19
Matches are distributed among these distances:
16 1 0.01
17 10 0.05
18 18 0.10
19 50 0.27
20 73 0.39
21 17 0.09
22 5 0.03
23 8 0.04
24 5 0.03
ACGTcount: A:0.18, C:0.17, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTTTTGTATTTCCTCATA
Found at i:59681760 original size:41 final size:42
Alignment explanation
Indices: 59681686--59681777 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 42
59681676 TCATAACTTT
*
59681686 GTATTTCCCTCATAATTTTTTTTGGTACTTCCTCAGAGTTTTTG
1 GTATTT-CCTCATAATTTTTTTT-GTACATCCTCAGAGTTTTTG
* *
59681730 GTATTTCCTCATAATTTTTTTAT-T-CATCCTCATATTTTTTG
1 GTATTTCCTCATAATTTTTTT-TGTACATCCTCAGAGTTTTTG
59681771 GTATTTC
1 GTATTTC
59681778 ATTGTCTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
41 21 0.48
42 1 0.02
43 15 0.34
44 7 0.16
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.55
Consensus pattern (42 bp):
GTATTTCCTCATAATTTTTTTTGTACATCCTCAGAGTTTTTG
Found at i:59681799 original size:39 final size:37
Alignment explanation
Indices: 59681756--59681884 Score: 113
Period size: 39 Copynumber: 3.4 Consensus size: 37
59681746 TTTTTATTCA
59681756 TCCTCATATTTTTTGGTATTTCATTGTCTTTTTGATATT
1 TCCTCATATTTTTTGGTATTTC-TTGT-TTTTTGATATT
** * *
59681795 TCCTC-TGATTTTTTGGTATTTTCTCATAATTTTAATATT
1 TCCTCAT-ATTTTTTGGTA-TTTCTTGT-TTTTTGATATT
*
59681834 TCCTCATA-TTTTT--TATTTCCTCTGATTTTTTGGTATT
1 TCCTCATATTTTTTGGTATTT-CT-TG-TTTTTTGATATT
59681871 TCCTCATATTTTTT
1 TCCTCATATTTTTT
59681885 ATACCTTCTC
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
35 3 0.04
36 4 0.05
37 16 0.22
38 12 0.16
39 33 0.45
40 5 0.07
ACGTcount: A:0.16, C:0.15, G:0.08, T:0.61
Consensus pattern (37 bp):
TCCTCATATTTTTTGGTATTTCTTGTTTTTTGATATT
Found at i:59681864 original size:56 final size:56
Alignment explanation
Indices: 59681791--59681903 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
59681781 GTCTTTTTGA
* *
59681791 TATTTCCTCTGATTTTTTGGTATTTTCTCATAATTTTAATA-TTTCCTCATATTTTT
1 TATTTCCTCTGATTTTTTGGTATTTCCTCATAATTTTAATACCTT-CTCATATTTTT
* *
59681847 TATTTCCTCTGATTTTTTGGTATTTCCTCATATTTTTTATACCTTCTCATATTTTT
1 TATTTCCTCTGATTTTTTGGTATTTCCTCATAATTTTAATACCTTCTCATATTTTT
59681903 T
1 T
59681904 GGTACTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 50 0.96
57 2 0.04
ACGTcount: A:0.18, C:0.16, G:0.05, T:0.61
Consensus pattern (56 bp):
TATTTCCTCTGATTTTTTGGTATTTCCTCATAATTTTAATACCTTCTCATATTTTT
Found at i:59681877 original size:37 final size:37
Alignment explanation
Indices: 59681830--59681917 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 37
59681820 ATAATTTTAA
59681830 TATTTCCTCATATTTTTTAT-TTCCTC-TGATTTTTTGG
1 TATTTCCTCATATTTTTTATCTT-CTCAT-ATTTTTTGG
59681867 TATTTCCTCATATTTTTTATACCTTCTCATATTTTTTGG
1 TATTTCCTCATATTTTTTAT--CTTCTCATATTTTTTGG
*
59681906 TACTTCCTCATA
1 TATTTCCTCATA
59681918 ATTCTTGATA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
37 20 0.43
39 23 0.50
40 3 0.07
ACGTcount: A:0.17, C:0.19, G:0.06, T:0.58
Consensus pattern (37 bp):
TATTTCCTCATATTTTTTATCTTCTCATATTTTTTGG
Found at i:59682133 original size:16 final size:16
Alignment explanation
Indices: 59682112--59682169 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 16
59682102 TAAAAAATAG
59682112 GAAAAATTAAATAAAT
1 GAAAAATTAAATAAAT
*
59682128 GAAAAA-AATAATAAAAT
1 GAAAAATTA-AAT-AAAT
59682145 AGGAAAAATTAAATAAAT
1 --GAAAAATTAAATAAAT
59682163 GAAAAAT
1 GAAAAAT
59682170 ACTAAGATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 1 0.03
16 16 0.46
17 4 0.11
18 4 0.11
19 9 0.26
20 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
GAAAAATTAAATAAAT
Found at i:59682133 original size:17 final size:17
Alignment explanation
Indices: 59682113--59682168 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
59682103 AAAAAATAGG
59682113 AAAAATTAAATAAATGA
1 AAAAATTAAATAAATGA
* *
59682130 AAAAAAT-AATAAAATAGG
1 AAAAATTAAAT-AAAT-GA
59682148 AAAAATTAAATAAATGA
1 AAAAATTAAATAAATGA
59682165 AAAA
1 AAAA
59682169 TACTAAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 3 0.09
17 15 0.47
18 11 0.34
19 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (17 bp):
AAAAATTAAATAAATGA
Found at i:59682323 original size:20 final size:20
Alignment explanation
Indices: 59682234--59682331 Score: 85
Period size: 20 Copynumber: 4.8 Consensus size: 20
59682224 TGGCATCCTT
*
59682234 TCATAATTTTTT-GTACTTCC
1 TCAT-ATTTTTTGGTATTTCC
* *
59682254 AT-ATATTTTTTAGTATTCCC
1 -TCATATTTTTTGGTATTTCC
* *
59682274 TCATAATTTTTGGTATTTCT
1 TCATATTTTTTGGTATTTCC
*
59682294 TCGGGT-TTTTTTGGTATTTCC
1 TC--ATATTTTTTGGTATTTCC
59682315 TCATATTTTTTGGTATT
1 TCATATTTTTTGGTATT
59682332 CCCTTGTAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
19 9 0.15
20 36 0.58
21 16 0.26
22 1 0.02
ACGTcount: A:0.17, C:0.13, G:0.11, T:0.58
Consensus pattern (20 bp):
TCATATTTTTTGGTATTTCC
Found at i:59682345 original size:41 final size:41
Alignment explanation
Indices: 59682258--59682353 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
59682248 ACTTCCATAT
* * * *
59682258 ATTTTTTAGTATTCCCTCATAATTTTTGGTATTTCTTCGGG
1 ATTTTTTGGTATTTCCTCATAATTTTTGGTATTCCTTCGGA
* * *
59682299 TTTTTTTGGTATTTCCTCATATTTTTTGGTATTCCCTT-GTA
1 ATTTTTTGGTATTTCCTCATAATTTTTGGTATT-CCTTCGGA
*
59682340 ATTTTTTGTTATTT
1 ATTTTTTGGTATTT
59682354 TCATAGAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.93
42 3 0.07
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.60
Consensus pattern (41 bp):
ATTTTTTGGTATTTCCTCATAATTTTTGGTATTCCTTCGGA
Found at i:59682412 original size:21 final size:20
Alignment explanation
Indices: 59682234--59682412 Score: 79
Period size: 20 Copynumber: 8.9 Consensus size: 20
59682224 TGGCATCCTT
59682234 TCATAATTTTTTGTACTTCCA
1 TCATAATTTTTTGTA-TTCCA
*
59682255 T-AT-ATTTTTTAGTATTCCC
1 TCATAATTTTTT-GTATTCCA
* * *
59682274 TCATAATTTTTGGTATTTCT
1 TCATAATTTTTTGTATTCCA
****
59682294 TCGGGTTTTTTTGGTATTTCC-
1 TCATAATTTTTT-GTA-TTCCA
*
59682315 TCAT-ATTTTTTGGTATTCCC
1 TCATAATTTTTT-GTATTCCA
** *
59682335 TTGTAATTTTTTGTTATTTTCA
1 TCATAATTTTTTG-TA-TTCCA
* * *
59682357 T-AGAATATTTAGTACTTCC-
1 TCATAATTTTTTGTA-TTCCA
59682376 TCAT--TTTTTT-TATTCCA
1 TCATAATTTTTTGTATTCCA
59682393 TCATAATTTTTTGTACTTCC
1 TCATAATTTTTTGTA-TTCC
59682413 TCGTATGTTT
Statistics
Matches: 117, Mismatches: 26, Indels: 30
0.68 0.15 0.17
Matches are distributed among these distances:
16 4 0.03
17 6 0.05
18 4 0.03
19 23 0.20
20 41 0.35
21 32 0.27
22 7 0.06
ACGTcount: A:0.19, C:0.15, G:0.09, T:0.57
Consensus pattern (20 bp):
TCATAATTTTTTGTATTCCA
Found at i:59686144 original size:43 final size:43
Alignment explanation
Indices: 59686078--59686211 Score: 151
Period size: 43 Copynumber: 3.1 Consensus size: 43
59686068 AAAAATTTGT
* * * *
59686078 GGCGTTTATTGAAAAAAACGCCGCTAAAAGTGATGCCTTTCAGC
1 GGCGTTTGTT-AAAAAAGCGCCGCTAAAAGTGATGGCTTTTAGC
* *
59686122 GGCGTTTGTTAAAAAAGCGCCGCCAAAAGTGATGGCTTTTAGT
1 GGCGTTTGTTAAAAAAGCGCCGCTAAAAGTGATGGCTTTTAGC
* *** * *
59686165 GGCATTTGTGGGAAAAGTGCCGCTAAAAGTCATGGCTTTTAGC
1 GGCGTTTGTTAAAAAAGCGCCGCTAAAAGTGATGGCTTTTAGC
59686208 GGCG
1 GGCG
59686212 CCTTTCCCAC
Statistics
Matches: 75, Mismatches: 15, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
43 66 0.88
44 9 0.12
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTTAAAAAAGCGCCGCTAAAAGTGATGGCTTTTAGC
Found at i:59690237 original size:29 final size:28
Alignment explanation
Indices: 59690194--59690271 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
59690184 TCATGAGATT
59690194 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
59690224 -GCACTAAGTGTGCGAGTTTACAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
59690251 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
59690272 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:59690525 original size:174 final size:174
Alignment explanation
Indices: 59690226--59690551 Score: 510
Period size: 174 Copynumber: 1.9 Consensus size: 174
59690216 ATTGTACAGC
* * * *
59690226 ACTAAGTGTGCGAGTTTACAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTATGTG
* ** *
59690291 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
66 TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
59690356 TTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
131 TTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
* * * * *
59690401 ACTAAGTGTGTGAGTTTAAAGTGCATGGCACTGAGTGTGCGTGGGTGATTACTAAACATTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTATGTG
*
59690466 TGC-AACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGGCTTTACCGAGTCAATT
66 TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
59690530 TTGGACAGCGGAAAAGGTAAGT
131 TTGGACAGCGGAAAAGGTAAGT
59690552 ACCTTGAGTT
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
173 11 0.08
174 67 0.49
175 59 0.43
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTATGTG
TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
Found at i:59692613 original size:27 final size:27
Alignment explanation
Indices: 59692583--59692758 Score: 210
Period size: 27 Copynumber: 6.5 Consensus size: 27
59692573 AATTGTACAA
*
59692583 CACTAAGTGTGCGATTTGACTATGTTG
1 CACTAAGTGTGCGATTTGACTATGTAG
** *
59692610 CACTAAGTGTGCGAAATGAATATG-ATG
1 CACTAAGTGTGCGATTTGACTATGTA-G
* * **
59692637 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATGTAG
59692664 CACTAAGTGTGCGAGTTTGACTATGTAG
1 CACTAAGTGTGCGA-TTTGACTATGTAG
*
59692692 CACTAAGTGTGCGATTTGATTATGTAG
1 CACTAAGTGTGCGATTTGACTATGTAG
* * *
59692719 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGATTTGACTATGTAG
*
59692746 CACTGAGTGTGCG
1 CACTAAGTGTGCG
59692759 GACTCGATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
CACTAAGTGTGCGATTTGACTATGTAG
Found at i:59692695 original size:82 final size:81
Alignment explanation
Indices: 59692583--59692737 Score: 240
Period size: 82 Copynumber: 1.9 Consensus size: 81
59692573 AATTGTACAA
*
59692583 CACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGT
1 CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTGT
59692647 GCGAATTGACCATGCGG
65 GCGAATTGACCATGCGG
** *
59692664 CACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGT
1 CACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
*
59692729 GCGAGTTGA
65 GCGAATTGA
59692738 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 14 0.21
82 52 0.78
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGTG
CGAATTGACCATGCGG
Found at i:59692749 original size:82 final size:81
Alignment explanation
Indices: 59692578--59692758 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
59692568 GATTAAATTG
* *
59692578 TACAACACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
59692643 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
59692659 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
59692723 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59692741 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59692759 GACTCGATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 17 0.20
82 67 0.80
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59701470 original size:29 final size:28
Alignment explanation
Indices: 59701427--59701504 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
59701417 TCATGAGATT
59701427 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
59701457 -GCACTAAGTGTGCGAGTTTACAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
59701484 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
59701505 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:59701758 original size:174 final size:174
Alignment explanation
Indices: 59701459--59701784 Score: 510
Period size: 174 Copynumber: 1.9 Consensus size: 174
59701449 ATTGTACAGC
* * * *
59701459 ACTAAGTGTGCGAGTTTACAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTATGTG
* ** *
59701524 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
66 TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
59701589 TTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
131 TTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
* * * * *
59701634 ACTAAGTGTGTGAGTTTAAAGTGCATGGCACTGAGTGTGCGTGGGTGATTACTAAACATTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTATGTG
*
59701699 TGC-AACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGGCTTTACCGAGTCAATT
66 TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
59701763 TTGGACAGCGGAAAAGGTAAGT
131 TTGGACAGCGGAAAAGGTAAGT
59701785 ACCTTGAGTT
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
173 11 0.08
174 67 0.49
175 59 0.43
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTATGTG
TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
Found at i:59704849 original size:12 final size:12
Alignment explanation
Indices: 59704834--59704859 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59704824 ATCATCCTCT
59704834 TCATCAGATTCA
1 TCATCAGATTCA
59704846 TCATCAGATTCA
1 TCATCAGATTCA
59704858 TC
1 TC
59704860 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:59706593 original size:9 final size:9
Alignment explanation
Indices: 59706576--59706861 Score: 82
Period size: 9 Copynumber: 31.7 Consensus size: 9
59706566 TAAGTATAAT
*
59706576 TAAGCTATG
1 TAAGTTATG
59706585 TAAGTTATG
1 TAAGTTATG
* * *
59706594 ATATGATATA
1 -TAAGTTATG
*
59706604 T-ATTTATG
1 TAAGTTATG
59706612 T-A-TTATG
1 TAAGTTATG
59706619 TAAGTTATG
1 TAAGTTATG
* *
59706628 TAAATTGTG
1 TAAGTTATG
59706637 TAAGTTATCCG
1 TAAGTTAT--G
59706648 -AA-TTATG
1 TAAGTTATG
*
59706655 TAAATTATG
1 TAAGTTATG
* *
59706664 TACGATATGATA
1 TAAG-T-T-ATG
*
59706676 TATATTTATG
1 TA-AGTTATG
59706686 TATTA-TATATG
1 TA--AGT-TATG
59706697 TAAGTTATG
1 TAAGTTATG
*
59706706 TAAATTATG
1 TAAGTTATG
59706715 TAAGTTATCCG
1 TAAGTTAT--G
59706726 -AA-TTATG
1 TAAGTTATG
*
59706733 TAAATTATG
1 TAAGTTATG
*
59706742 TACGATATAATG
1 TAAG-T-T-ATG
*
59706754 TATACTTATG
1 TA-AGTTATG
*
59706764 T--GTTACG
1 TAAGTTATG
59706771 TAAGTTATG
1 TAAGTTATG
*
59706780 TAAATTATG
1 TAAGTTATG
* *
59706789 TAAGTTGTT
1 TAAGTTATG
**
59706798 TATCTTATG
1 TAAGTTATG
*
59706807 TAATTTATG
1 TAAGTTATG
59706816 TAA--TA--
1 TAAGTTATG
* *
59706821 TAAGATATA
1 TAAGTTATG
*
59706830 TATATTTATG
1 TA-AGTTATG
59706840 T-A-TTATG
1 TAAGTTATG
59706847 TAAGTTATG
1 TAAGTTATG
59706856 TAAGTT
1 TAAGTT
59706862 GTTGATGGGA
Statistics
Matches: 206, Mismatches: 40, Indels: 62
0.67 0.13 0.20
Matches are distributed among these distances:
5 3 0.01
7 23 0.11
8 12 0.06
9 116 0.56
10 27 0.13
11 14 0.07
12 11 0.05
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:59706640 original size:18 final size:18
Alignment explanation
Indices: 59706613--59706818 Score: 110
Period size: 18 Copynumber: 11.0 Consensus size: 18
59706603 ATATTTATGT
59706613 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* ***
59706631 ATTGTGTAAGTTATCCGA
1 ATTATGTAAGTTATGTAA
*
59706649 ATTATGTAAATTATGTACGA
1 ATTATGTAAGTTATGTA--A
* * * *
59706669 TATGATATATATTTATGTATT
1 -ATTATGTA-AGTTATGTA-A
59706690 ATATATGTAAGTTATGTAA
1 AT-TATGTAAGTTATGTAA
***
59706709 ATTATGTAAGTTATCCGA
1 ATTATGTAAGTTATGTAA
*
59706727 ATTATGTAAATTATGTACGA
1 ATTATGTAAGTTATGTA--A
* *
59706747 TATAATGTATACTTATGT--
1 -ATTATGTA-AGTTATGTAA
* *
59706765 GTTACGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * *
59706783 ATTATGTAAGTTGTTTAT
1 ATTATGTAAGTTATGTAA
* *
59706801 CTTATGTAATTTATGTAA
1 ATTATGTAAGTTATGTAA
59706819 TATAAGATAT
Statistics
Matches: 136, Mismatches: 41, Indels: 22
0.68 0.21 0.11
Matches are distributed among these distances:
16 7 0.05
17 5 0.04
18 78 0.57
19 2 0.01
20 12 0.09
21 17 0.12
22 15 0.11
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:59706644 original size:27 final size:26
Alignment explanation
Indices: 59706623--59706743 Score: 92
Period size: 27 Copynumber: 4.6 Consensus size: 26
59706613 ATTATGTAAG
*
59706623 TTATGTAAATTGTGTAAGTTATCCGAA
1 TTATGTAAATTATGTAAGTTAT-CGAA
* *
59706650 TTATGTAAATTATGTACGATAT-G-A
1 TTATGTAAATTATGTAAGTTATCGAA
* *
59706674 -TATAT-ATTTATGTATTA-TATAT-GTAA
1 TTATGTAAATTATGTA--AGT-TATCG-AA
59706700 GTTATGTAAATTATGTAAGTTATCCGAA
1 -TTATGTAAATTATGTAAGTTAT-CGAA
59706728 TTATGTAAATTATGTA
1 TTATGTAAATTATGTA
59706744 CGATATAATG
Statistics
Matches: 74, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
22 8 0.11
23 4 0.05
24 5 0.07
25 1 0.01
26 1 0.01
27 39 0.53
28 7 0.09
29 9 0.12
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (26 bp):
TTATGTAAATTATGTAAGTTATCGAA
Found at i:59706680 original size:74 final size:74
Alignment explanation
Indices: 59706593--59706858 Score: 336
Period size: 78 Copynumber: 3.5 Consensus size: 74
59706583 TGTAAGTTAT
*
59706593 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTGTGTAAGTTATCCGAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTATGTAA
59706658 ATTATGTAC
66 ATTATGTAC
59706667 GATATGATATATATTTATGTATTATATATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTAT
1 GATATGATATATATTTATG---TAT-TATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTAT
59706732 GTAAATTATGTAC
62 GTAAATTATGTAC
* * * * * * ** *
59706745 GATATAATGTATACTTATGTGTTACGTAAGTTATGTAAATTATGTAAGTTGT-TTATCTTATGTA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGA-ATTATGTA
* *
59706809 ATTTATGTAA
65 AATTATGTAC
* *
59706819 TATAAGATATATATATTTATGTATTATGTAAGTTATGTAA
1 GATATG--ATATATATTTATGTATTATGTAAGTTATGTAA
59706859 GTTGTTGATG
Statistics
Matches: 166, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
73 1 0.01
74 65 0.39
75 2 0.01
76 28 0.17
77 3 0.02
78 67 0.40
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (74 bp):
GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATCCGAATTATGTAA
ATTATGTAC
Found at i:59707110 original size:105 final size:105
Alignment explanation
Indices: 59706964--59707502 Score: 815
Period size: 105 Copynumber: 5.2 Consensus size: 105
59706954 AAAATAAAAT
59706964 ATTTAAAAATAAAAT-AAAGTAGAC--AATATTTTTAGTGATTAAATTAAAATCAAGTAAAATAT
1 ATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATAT
* *
59707026 TTAAAATAAAACTTTAAATAAAAATTAATTTAATTAGGTA
66 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
59707066 ATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATAT
1 ATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATAT
* * *
59707131 TTAAAATAAAACTTTAAAGACATTTTAATTTAGTTAGGTA
66 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
* *
59707171 ATTTAAAAAATAAAATAAAAGTAGAAAAAATATTTTTTGTGATTAAATTAAAATCTAA-TAAAAT
1 ATTT-AAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATC-AAGTAAAAT
59707235 ATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
64 ATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
* *
59707277 ATTTAAAAATTAAAA-AAAAGTAGAAAAAATATTTTTAGTGAGTAAATTAAAATCAAGTAAAATA
1 ATTTAAAAA-TAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATA
* *
59707341 TTTAAAATAAAACTTTAAAGACAATTAAATTTAATTAGGTA
65 TTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
* ** *
59707382 ATTT-AAAA-AAAATAAAAATAGACAAAATATTTTCCGTGATTAAATTAAAATCAAATAAAATA-
1 ATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATAT
* * * *
59707444 TTCAAATAAAACTTTAAATACATTTTAATTTAATTCGATA
66 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
*
59707484 ATTTCAAAATAAAATAAAA
1 ATTTAAAAATAAAATAAAA
59707503 ATTTTAAAAT
Statistics
Matches: 401, Mismatches: 26, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
102 57 0.14
103 56 0.14
104 15 0.04
105 169 0.42
106 102 0.25
107 2 0.00
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (105 bp):
ATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATAT
TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTA
Found at i:59707352 original size:211 final size:208
Alignment explanation
Indices: 59706964--59707503 Score: 804
Period size: 211 Copynumber: 2.6 Consensus size: 208
59706954 AAAATAAAAT
*
59706964 ATTTAAAAATAAAAT-AAAGTAG-ACAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATATT
1 ATTTAAAAATAAAATAAAAGTAGAAAAATATTTTTAGTGATTAAATTAAAATCAA-TAAAATATT
* * *
59707027 TAAAATAAAACTTTAAATAAAAATTAATTTAATTAGGTAATTTAAAAA-TAAAATAAAAGTAGAC
65 TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAA-AAAAGTAGAA
* *
59707091 AAAATATTTTTAGTGATTAAATTAAAATCAAGTAAAATATTTAAAATAAAACTTTAAAGACATTT
129 AAAATATTTTTAGTGAGTAAATTAAAATCAAGTAAAATATTTAAAATAAAACTTTAAAGACAATT
* *
59707156 TAATTTAGTTAGGTA
194 AAATTTAATTAGGTA
*
59707171 ATTTAAAAAATAAAATAAAAGTAGAAAAAATATTTTTTGTGATTAAATTAAAATCTAATAAAATA
1 ATTT-AAAAATAAAATAAAAGTAG-AAAAATATTTTTAGTGATTAAATTAAAATC-AATAAAATA
59707236 TTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAAAAAAGTAGA
63 TTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAAAAAAGTAGA
59707301 AAAAATATTTTTAGTGAGTAAATTAAAATCAAGTAAAATATTTAAAATAAAACTTTAAAGACAAT
128 AAAAATATTTTTAGTGAGTAAATTAAAATCAAGTAAAATATTTAAAATAAAACTTTAAAGACAAT
59707366 TAAATTTAATTAGGTA
193 TAAATTTAATTAGGTA
* **
59707382 ATTT-AAAA-AAAATAAAAATAGACAAAATATTTTCCGTGATTAAATTAAAATCAAATAAAATA-
1 ATTTAAAAATAAAATAAAAGTAGA-AAAATATTTTTAGTGATTAAATTAAAATC-AATAAAATAT
* * * * * *
59707444 TTCAAATAAAACTTTAAATACATTTTAATTTAATTCGATAATTTCAAAATAAAATAAAAA
64 TTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAA-AAAAA
59707504 TTTTAAAATA
Statistics
Matches: 306, Mismatches: 19, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
207 53 0.17
208 64 0.21
209 11 0.04
211 171 0.56
212 7 0.02
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (208 bp):
ATTTAAAAATAAAATAAAAGTAGAAAAATATTTTTAGTGATTAAATTAAAATCAATAAAATATTT
AAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAAAAAAGTAGAAAA
AATATTTTTAGTGAGTAAATTAAAATCAAGTAAAATATTTAAAATAAAACTTTAAAGACAATTAA
ATTTAATTAGGTA
Found at i:59707902 original size:60 final size:61
Alignment explanation
Indices: 59707829--59707956 Score: 231
Period size: 62 Copynumber: 2.1 Consensus size: 61
59707819 CTTGTTCATT
*
59707829 AATAAACTATATC-TATATATATTACCTTGTTCATAACTAATTTGTACAAAAGAACATGGA
1 AATAAACTATATCATATATATATTACCTTGTTCATAACTAATTTCTACAAAAGAACATGGA
59707889 AATAAACTATATCTATATATATATTACCTTGTTCATAACTAATTTCTACAAAAGAACATGGA
1 AATAAACTATATC-ATATATATATTACCTTGTTCATAACTAATTTCTACAAAAGAACATGGA
59707951 AATAAA
1 AATAAA
59707957 ATTAGGCCCA
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
60 13 0.20
62 52 0.80
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.34
Consensus pattern (61 bp):
AATAAACTATATCATATATATATTACCTTGTTCATAACTAATTTCTACAAAAGAACATGGA
Found at i:59709458 original size:39 final size:39
Alignment explanation
Indices: 59709404--59709483 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
59709394 ACATTGACAG
* *
59709404 GAGCAGATCTCAAATAGTCATGCAGAATAACAAATTTAA
1 GAGCAGATCTCAAATAATCATGCAAAATAACAAATTTAA
59709443 GAGCAGATCTCAAATAATCATGCAAAATAACAAATTTAA
1 GAGCAGATCTCAAATAATCATGCAAAATAACAAATTTAA
59709482 GA
1 GA
59709484 TAGTCATATC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.23
Consensus pattern (39 bp):
GAGCAGATCTCAAATAATCATGCAAAATAACAAATTTAA
Found at i:59711468 original size:37 final size:37
Alignment explanation
Indices: 59711421--59711494 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
59711411 ATATTATTTA
59711421 AAAATAATAATTTATATATATTTATCTTATTTATATT
1 AAAATAATAATTTATATATATTTATCTTATTTATATT
59711458 AAAATAATAATTTATATATATTTATCTTATTTATATT
1 AAAATAATAATTTATATATATTTATCTTATTTATATT
59711495 TATCTTCTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (37 bp):
AAAATAATAATTTATATATATTTATCTTATTTATATT
Found at i:59711492 original size:15 final size:15
Alignment explanation
Indices: 59711469--59711500 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
59711459 AAATAATAAT
59711469 TTATATATATTTATC
1 TTATATATATTTATC
*
59711484 TTATTTATATTTATC
1 TTATATATATTTATC
59711499 TT
1 TT
59711501 CTAAATTAAA
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:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:59712039 original size:20 final size:21
Alignment explanation
Indices: 59712011--59712053 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
59712001 TTAATTTTTT
* *
59712011 ATCATTAAT-CATAACCTCTA
1 ATCACTAATACATAACCCCTA
59712031 ATCACTAATAACATAACCCCTA
1 ATCACTAAT-ACATAACCCCTA
59712053 A
1 A
59712054 AACCATGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (21 bp):
ATCACTAATACATAACCCCTA
Found at i:59713662 original size:18 final size:17
Alignment explanation
Indices: 59713630--59713663 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
59713620 ATGATTATTT
59713630 TAAAAAAATTAAATAAA
1 TAAAAAAATTAAATAAA
*
59713647 TAAAACAAATTTAATAA
1 TAAAA-AAATTAAATAA
59713664 GACCAACCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAAATTAAATAAA
Found at i:59713928 original size:19 final size:19
Alignment explanation
Indices: 59713906--59713945 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59713896 AGGGCATGCC
59713906 AAAAATACAAGAGAATACA
1 AAAAATACAAGAGAATACA
** *
59713925 AAAAATTTAAGAGATTACA
1 AAAAATACAAGAGAATACA
59713944 AA
1 AA
59713946 TAATTATGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.07, G:0.10, T:0.17
Consensus pattern (19 bp):
AAAAATACAAGAGAATACA
Found at i:59714054 original size:20 final size:20
Alignment explanation
Indices: 59713914--59714056 Score: 114
Period size: 20 Copynumber: 7.2 Consensus size: 20
59713904 CCAAAAATAC
59713914 AAGAGAATACAAAAAATT-T
1 AAGAGAATACAAAAAATTAT
* *
59713933 AAGAGATTACAAATAATTAT
1 AAGAGAATACAAAAAATTAT
*
59713953 GAA-ATAATACAAAAAATTAT
1 -AAGAGAATACAAAAAATTAT
* * *
59713973 GAGAGGATACCAAAAATTAT
1 AAGAGAATACAAAAAATTAT
**
59713993 --GATGAAGTACTAAAAAAACAT
1 AAGA-GAA-TAC-AAAAAATTAT
* * *
59714014 GAGAGAGTACCAAAAATTAT
1 AAGAGAATACAAAAAATTAT
*
59714034 AAGAGAATATAAAAAATTAT
1 AAGAGAATACAAAAAATTAT
59714054 AAG
1 AAG
59714057 GTGAGTACCA
Statistics
Matches: 95, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.02
19 19 0.20
20 58 0.61
21 12 0.13
22 2 0.02
23 2 0.02
ACGTcount: A:0.58, C:0.06, G:0.13, T:0.22
Consensus pattern (20 bp):
AAGAGAATACAAAAAATTAT
Found at i:59714063 original size:41 final size:40
Alignment explanation
Indices: 59713904--59714071 Score: 134
Period size: 41 Copynumber: 4.2 Consensus size: 40
59713894 TGAGGGCATG
* *
59713904 CCAAAAA-TACAAGAGAATACAAAAAATT-TAAGAGATTA
1 CCAAAAATTATAAGAGAATACAAAAAATTATAAGAGAGTA
* *
59713942 -CAAATAATTATGAA-ATAATACAAAAAATTATGAGAG-GATA
1 CCAAA-AATTAT-AAGAGAATACAAAAAATTATAAGAGAG-TA
** *
59713982 CCAAAAATTAT--GATGAAGTACTAAAAAAACATGAGAGAGTA
1 CCAAAAATTATAAGA-GAA-TAC-AAAAAATTATAAGAGAGTA
* *
59714023 CCAAAAATTATAAGAGAATATAAAAAATTATAAGGTGAGTA
1 CCAAAAATTATAAGAGAATACAAAAAATTATAA-GAGAGTA
59714064 CCAGAAAA
1 CCA-AAAA
59714072 ACATGAGGGA
Statistics
Matches: 103, Mismatches: 12, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
37 4 0.04
38 3 0.03
39 18 0.17
40 27 0.26
41 41 0.40
42 8 0.08
43 2 0.02
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.21
Consensus pattern (40 bp):
CCAAAAATTATAAGAGAATACAAAAAATTATAAGAGAGTA
Found at i:59717844 original size:15 final size:17
Alignment explanation
Indices: 59717826--59717857 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
59717816 TAGCATGTTT
59717826 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
59717841 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
59717858 CAAGTGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:59722788 original size:17 final size:17
Alignment explanation
Indices: 59722766--59722807 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
59722756 ATTTACCCAT
59722766 GTGGGGCCTACGAGCTC
1 GTGGGGCCTACGAGCTC
59722783 GTGGGGCCTACGAGCTC
1 GTGGGGCCTACGAGCTC
*
59722800 ATGGGGCC
1 GTGGGGCC
59722808 CACACGACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.12, C:0.29, G:0.43, T:0.17
Consensus pattern (17 bp):
GTGGGGCCTACGAGCTC
Found at i:59732981 original size:16 final size:16
Alignment explanation
Indices: 59732962--59733004 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
59732952 CTTTAGCCAT
59732962 ATTTACTTTTAGTACA
1 ATTTACTTTTAGTACA
* **
59732978 ATTTATTTTTAGTTTA
1 ATTTACTTTTAGTACA
59732994 ATTTCACTTTT
1 ATTT-ACTTTT
59733005 TTAACTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.26, C:0.09, G:0.05, T:0.60
Consensus pattern (16 bp):
ATTTACTTTTAGTACA
Found at i:59752239 original size:26 final size:25
Alignment explanation
Indices: 59752209--59752257 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
59752199 GCCATGCATA
59752209 ATTAAATTAAATAATAAAATATAATG
1 ATTAAATTAAATAAT-AAATATAATG
*
59752235 ATTAAATTAAATAGTAAATATAA
1 ATTAAATTAAATAATAAATATAA
59752258 AATTATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATTAAATTAAATAATAAATATAATG
Found at i:59760730 original size:27 final size:27
Alignment explanation
Indices: 59760700--59760753 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
59760690 TCATACAACC
* *
59760700 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
59760727 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
59760754 TCACATGACA
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:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:59763236 original size:15 final size:15
Alignment explanation
Indices: 59763218--59763261 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
59763208 GAAGCCCAGA
59763218 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
59763233 ATAAAGAAATCGATG
1 ATAAAGAAATCCAAG
*
59763248 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
59763262 ATTACAATAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.11, G:0.16, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59773817 original size:50 final size:50
Alignment explanation
Indices: 59773702--59773872 Score: 200
Period size: 50 Copynumber: 3.4 Consensus size: 50
59773692 TGAGAACACA
* * * *** *
59773702 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATAGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCTGAT-G-GTTAGGTCACG
59773754 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCTGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCTGATGGTTAGGTCACG
* * * * *
59773804 TGTGTAGTACTAAGTGCAGGCTGCTACATGTA-CTAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCT-GATGGTTAGGTCACG
59773854 TGTGTAGTACTAAGTGCAG
1 TGTGTAGTACTAAGTGCAG
59773873 CCAACTATGC
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 2 0.02
50 71 0.67
51 1 0.01
52 32 0.30
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCTGATGGTTAGGTCACG
Found at i:59776418 original size:30 final size:29
Alignment explanation
Indices: 59776374--59776431 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
59776364 TTCGAGCCTT
59776374 GGGGAAAAAGTGTAAATATGTAAAAGTTTA
1 GGGGAAAAAGTGT-AATATGTAAAAGTTTA
* *
59776404 GGGGCAAAAA-TGTAATTTTTAAAAGTTT
1 GGGG-AAAAAGTGTAATATGTAAAAGTTT
59776432 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.52
30 7 0.28
31 5 0.20
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.31
Consensus pattern (29 bp):
GGGGAAAAAGTGTAATATGTAAAAGTTTA
Found at i:59778981 original size:20 final size:20
Alignment explanation
Indices: 59778956--59778997 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 20
59778946 ATCCAACTAA
59778956 GGACTGACTGAATTTAGGCT
1 GGACTGACTGAATTTAGGCT
59778976 -G---GACTGAATTTAGGCT
1 GGACTGACTGAATTTAGGCT
59778992 GGACTG
1 GGACTG
59778998 GTAATTCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 8
0.69 0.00 0.31
Matches are distributed among these distances:
16 15 0.83
17 1 0.06
19 1 0.06
20 1 0.06
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (20 bp):
GGACTGACTGAATTTAGGCT
Found at i:59778982 original size:16 final size:16
Alignment explanation
Indices: 59778961--59778997 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
59778951 ACTAAGGACT
59778961 GACTGAATTTAGGCTG
1 GACTGAATTTAGGCTG
59778977 GACTGAATTTAGGCTG
1 GACTGAATTTAGGCTG
59778993 GACTG
1 GACTG
59778998 GTAATTCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (16 bp):
GACTGAATTTAGGCTG
Found at i:59785245 original size:39 final size:40
Alignment explanation
Indices: 59785150--59785372 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
59785140 TTGAATGATG
59785150 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAG-TGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGAT-ACTAAT
*
59785188 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGATACTAAT
*
59785229 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGATACTAAT
* *
59785268 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGATACTAAT
* * *
59785307 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAA-TTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGATACTAAT
* *
59785346 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
59785373 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 93 0.57
40 58 0.36
41 11 0.07
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGATACTAAT
Found at i:59785344 original size:79 final size:81
Alignment explanation
Indices: 59785150--59785372 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
59785140 TTGAATGATG
* * * *
59785150 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
59785212 TTGTGCAAGATACTAAT
65 TTGTGCAAGATACTAAA
59785229 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
59785290 TTGTGCGAGATACTAAA
65 TTGTGCAAGATACTAAA
* * * * *
59785307 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
59785371 TG
66 TG
59785373 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.37
79 54 0.43
80 24 0.19
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGATACTAAA
Found at i:59793211 original size:39 final size:40
Alignment explanation
Indices: 59793116--59793336 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
59793106 TTGAATGATG
*
59793116 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
59793154 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
59793195 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
59793234 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
59793273 TCCGGGTTAAGTCCC-AAGGCATTTGTGC-A-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
59793310 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
59793337 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 9, Indels: 20
0.85 0.05 0.10
Matches are distributed among these distances:
37 2 0.01
38 17 0.10
39 116 0.71
40 16 0.10
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:59800876 original size:39 final size:40
Alignment explanation
Indices: 59800781--59801003 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
59800771 TTGAATGATG
*
59800781 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
59800819 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
59800860 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59800899 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
59800938 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
59800977 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
59801004 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:59800967 original size:79 final size:81
Alignment explanation
Indices: 59800781--59801003 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
59800771 TTGAATGATG
* * *
59800781 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
59800843 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
59800860 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
59800921 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
59800938 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
59801002 TG
66 TG
59801004 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:59801025 original size:79 final size:79
Alignment explanation
Indices: 59800781--59801036 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
59800771 TTGAATGATG
* * * *
59800781 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
59800842 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
59800860 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
59800924 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
59800938 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
59801001 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
59801018 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59801037 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:59817455 original size:27 final size:27
Alignment explanation
Indices: 59817389--59817469 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
59817379 GAGGAAGCGT
* *
59817389 TCTGGTGGCTCTGCCACAAATATCTATT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
59817417 TCTTGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* *
59817444 TCTGGTGACTCTGTCACAATATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGT
59817470 TCTAGCAGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 31 0.66
28 16 0.34
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:59828613 original size:38 final size:38
Alignment explanation
Indices: 59828562--59828641 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
59828552 ATTTGATGTG
* * * *
59828562 TATTCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATTCGGGATAAATCCCGCAGGCCTAGTCCTGGTATTA
59828600 TATTCGGGATAAATCCCGCAGGCCTAGTCCTGGTATTA
1 TATTCGGGATAAATCCCGCAGGCCTAGTCCTGGTATTA
59828638 TATT
1 TATT
59828642 TGGGCTTTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (38 bp):
TATTCGGGATAAATCCCGCAGGCCTAGTCCTGGTATTA
Found at i:59828708 original size:43 final size:43
Alignment explanation
Indices: 59828638--59828847 Score: 323
Period size: 43 Copynumber: 4.9 Consensus size: 43
59828628 CCTGGTATTA
* * *
59828638 TATTTGGGCTTTCGTG-CTAGTAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
59828680 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
59828723 TATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
59828766 TATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
59828809 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
59828848 AATGATATGT
Statistics
Matches: 156, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
42 14 0.09
43 142 0.91
ACGTcount: A:0.11, C:0.21, G:0.35, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:59845099 original size:28 final size:27
Alignment explanation
Indices: 59845027--59845109 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
59845017 TGGCTGCTAG
* *
59845027 AACAGATATTGTGACAGAGTCACCAGA
1 AACAGATATTGTGGCAGAGCCACCAGA
* *
59845054 TACAGATATTGTGGCAGAGCCACAAGA
1 AACAGATATTGTGGCAGAGCCACCAGA
*
59845081 AATAGATATTTGTGGCAGAGCCACCAGA
1 AACAGATA-TTGTGGCAGAGCCACCAGA
59845109 A
1 A
59845110 CGCTTCCTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 29 0.60
28 19 0.40
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (27 bp):
AACAGATATTGTGGCAGAGCCACCAGA
Found at i:59845273 original size:27 final size:26
Alignment explanation
Indices: 59845214--59845273 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
59845204 AAGTAACCCT
59845214 AGGGTATAATGGTAATTTTGCACATA
1 AGGGTATAATGGTAATTTTGCACATA
*
59845240 GGGGTATAATGGTAATTTT-CATACATA
1 AGGGTATAATGGTAATTTTGC--ACATA
59845267 AGGGTAT
1 AGGGTAT
59845274 TTTAGTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 1 0.03
26 18 0.60
27 11 0.37
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
AGGGTATAATGGTAATTTTGCACATA
Found at i:59853055 original size:26 final size:27
Alignment explanation
Indices: 59853026--59853088 Score: 85
Period size: 25 Copynumber: 2.4 Consensus size: 27
59853016 CAAAATTATC
* *
59853026 CCTAGGGGTATAATGGTAATTTT-GTA
1 CCTAGGGGTATAAAGGTAATTTTCATA
59853052 CCTA-GGGTATAAAGGTAATTTTCATA
1 CCTAGGGGTATAAAGGTAATTTTCATA
*
59853078 CTTAGGGGTAT
1 CCTAGGGGTAT
59853089 TTTAGTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.53
26 9 0.28
27 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATAAAGGTAATTTTCATA
Found at i:59855996 original size:22 final size:22
Alignment explanation
Indices: 59855967--59856015 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
59855957 TAAAATTATA
59855967 GTAT-TCCACCAACGATAAGCT
1 GTATCTCCACCAACGATAAGCT
59855988 GTATCTCCACCAACGATAAGCT
1 GTATCTCCACCAACGATAAGCT
59856010 GTATCT
1 GTATCT
59856016 TTCAGTAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (22 bp):
GTATCTCCACCAACGATAAGCT
Found at i:59878855 original size:46 final size:48
Alignment explanation
Indices: 59878750--59878974 Score: 200
Period size: 46 Copynumber: 4.8 Consensus size: 48
59878740 GCCACATTAT
* * *
59878750 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA-CCTCGAGAC
*
59878798 GAGAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGACCTCGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACCTCGAGAC
* *
59878844 GTA-AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCG-GCTACGAGAT
1 G-AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACCT-CGAGAC
* * * * * *
59878890 GATAGTCACTGTAAGACCATGTCT-GAGACATGGCATTGA-TTTGAGA-
1 GAGAGCCAGTGTAAGACCATGTCTAG-GACATGGCATCGACCTCGAGAC
* * *
59878936 TATGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCG
1 GA-GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
59878975 GCAACTTACC
Statistics
Matches: 149, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
45 3 0.02
46 64 0.43
47 60 0.40
48 22 0.15
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACCTCGAGAC
Found at i:59890763 original size:17 final size:17
Alignment explanation
Indices: 59890741--59890776 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
59890731 AACTGGAGGC
* *
59890741 TTGCTTACTTGGATTGG
1 TTGCTTACTCGCATTGG
59890758 TTGCTTACTCGCATTGG
1 TTGCTTACTCGCATTGG
59890775 TT
1 TT
59890777 CCAAACCCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (17 bp):
TTGCTTACTCGCATTGG
Found at i:59894001 original size:25 final size:25
Alignment explanation
Indices: 59893973--59894042 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
59893963 CTCTTTTAAT
59893973 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
59893998 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
59894023 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
59894043 AGCACTTCCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:59894146 original size:10 final size:11
Alignment explanation
Indices: 59894076--59894150 Score: 66
Period size: 10 Copynumber: 7.1 Consensus size: 11
59894066 ACCCAACCCA
*
59894076 TGCATATAATG
1 TGCATATCATG
* *
59894087 AGTATATCAT-
1 TGCATATCATG
*
59894097 AGCATATCATG
1 TGCATATCATG
59894108 TGCATATCAT-
1 TGCATATCATG
**
59894118 AACATATCATG
1 TGCATATCATG
59894129 TGCATATCATG
1 TGCATATCATG
*
59894140 T-CCTATCATG
1 TGCATATCATG
59894150 T
1 T
59894151 ATAACAATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
10 26 0.50
11 26 0.50
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (11 bp):
TGCATATCATG
Found at i:59894150 original size:21 final size:21
Alignment explanation
Indices: 59894090--59894138 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
59894080 TATAATGAGT
*
59894090 ATATCATAGCATATCATGTGC
1 ATATCATAACATATCATGTGC
59894111 ATATCATAACATATCATGTGC
1 ATATCATAACATATCATGTGC
59894132 ATATCAT
1 ATATCAT
59894139 GTCCTATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:59894538 original size:27 final size:27
Alignment explanation
Indices: 59894263--59894530 Score: 353
Period size: 27 Copynumber: 9.9 Consensus size: 27
59894253 GTGCAAAATG
* * * *
59894263 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
59894290 GTAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
59894316 GATATTTCTACCTTATAAGGGTATTTCCA
1 G-TAATTCTACCCTACAGGGGTATTT-CA
59894345 -TAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
59894371 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
59894398 GTAATTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
59894425 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
59894451 GATAATTCTACCTTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
59894479 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
59894506 GTAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
59894531 TGGTAATTTT
Statistics
Matches: 216, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
26 4 0.02
27 210 0.97
28 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:59894577 original size:27 final size:27
Alignment explanation
Indices: 59894523--59894581 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
59894513 TACCCTACAG
**
59894523 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
**
59894550 GGGTATTTTGGTAATTTTACAAGTCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
59894577 GGGTA
1 GGGTA
59894582 AAACGGTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:59894581 original size:81 final size:81
Alignment explanation
Indices: 59894321--59894565 Score: 266
Period size: 81 Copynumber: 3.0 Consensus size: 81
59894311 ATTTCGATAT
* * * **
59894321 TTCTACCTTATAAGGGTATTTCCA-TAATTCTACCCTACAGGGGTATTTCAGTAA--TTCTACCC
1 TTCTACCCTACAAGGGTATTT-CAGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTCTAAAC
59894383 TACAAGGGTATTTTAGTAA
65 --CAAGGGTATTTTAGTAA
** * * *
59894402 TTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCT-TA
1 TTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATT-T-TCTAAA
* *
59894466 -CAGGGGTATTTCAGTAA
64 CCAAGGGTATTTTAGTAA
* * *
59894483 TTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTGTAAACC
1 TTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTCTAAACC
*
59894548 AAGGGTATTTTGGTAA
66 AAGGGTATTTTAGTAA
59894564 TT
1 TT
59894566 TTACAAGTCA
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
79 1 0.01
80 2 0.01
81 129 0.96
84 1 0.01
85 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (81 bp):
TTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTCTAAACC
AAGGGTATTTTAGTAA
Found at i:59894633 original size:53 final size:54
Alignment explanation
Indices: 59894558--59894688 Score: 183
Period size: 53 Copynumber: 2.4 Consensus size: 54
59894548 AAGGGTATTT
* * * * *
59894558 TGGTAATTTTACAAGTCAAGGGTAAAACGGTAATTCTATAAATCGA-GGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
*
59894611 TGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
* *
59894665 TAGTAATTCTGTAAATCGAGGGTA
1 TGGTAATTCTATAAATCGAGGGTA
59894689 CTTTGGTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
53 40 0.58
54 29 0.42
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.30
Consensus pattern (54 bp):
TGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
Found at i:59894699 original size:27 final size:27
Alignment explanation
Indices: 59894558--59894688 Score: 183
Period size: 27 Copynumber: 4.9 Consensus size: 27
59894548 AAGGGTATTT
* * * *
59894558 TGGTAATTTTACAAGTCAAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
*
59894585 CGGTAATTCTATAAATCGA-GGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
59894611 TGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
*
59894638 TAGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
* *
59894665 TAGTAATTCTGTAAATCGAGGGTA
1 TGGTAATTCTATAAATCGAGGGTA
59894689 CTTTGGTAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 25 0.26
27 70 0.74
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
TGGTAATTCTATAAATCGAGGGTAAAA
Found at i:59897592 original size:57 final size:56
Alignment explanation
Indices: 59897531--59897646 Score: 135
Period size: 57 Copynumber: 2.0 Consensus size: 56
59897521 CATACATGCA
* * * *
59897531 TATGGCCTACTAGGCCCAATAT-CATTCATATGGCCCATTAGGCCTAAATCATATTCG
1 TATGGCCCACTAGGCCCAA-ATCCATTCATAGGGCCCATTAGGCCCAAA-CACATTCG
* * *
59897588 TATGGCCCATTAGGCCCAAATGCCATTTATAGGGCCCATTCGGCCCAAACACATTCG
1 TATGGCCCACTAGGCCCAAAT-CCATTCATAGGGCCCATTAGGCCCAAACACATTCG
59897645 TA
1 TA
59897647 GTCATGCAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 2 0.04
57 26 0.52
58 22 0.44
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (56 bp):
TATGGCCCACTAGGCCCAAATCCATTCATAGGGCCCATTAGGCCCAAACACATTCG
Found at i:59897623 original size:29 final size:27
Alignment explanation
Indices: 59897530--59897636 Score: 106
Period size: 29 Copynumber: 3.8 Consensus size: 27
59897520 ACATACATGC
* * *
59897530 ATATGGCCTACTAGGCCCAATATCATTC
1 ATATGGCCCATTAGGCCCAA-ATCATTT
*
59897558 ATATGGCCCATTAGGCCTAAATCATATT
1 ATATGGCCCATTAGGCCCAAATCAT-TT
*
59897586 CGTATGGCCCATTAGGCCCAAATGCCATTT
1 -ATATGGCCCATTAGGCCCAAAT--CATTT
* *
59897616 ATAGGGCCCATTCGGCCCAAA
1 ATATGGCCCATTAGGCCCAAA
59897637 CACATTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 5 0.08
28 18 0.27
29 38 0.58
30 2 0.03
31 3 0.05
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (27 bp):
ATATGGCCCATTAGGCCCAAATCATTT
Found at i:59902826 original size:39 final size:39
Alignment explanation
Indices: 59902768--59903032 Score: 467
Period size: 39 Copynumber: 6.8 Consensus size: 39
59902758 AAGACACTGA
*
59902768 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
59902807 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
59902846 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
59902885 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGTTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
59902924 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
59902963 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
59903002 AAATGTATCCGGGTTAAAGTCCCGCAGGCTT
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTT
59903033 TGTCCTGATA
Statistics
Matches: 214, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 214 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:59903322 original size:31 final size:31
Alignment explanation
Indices: 59903287--59903349 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
59903277 AAATATGTGA
*
59903287 AGTTATGTGAAGTGATTCTGTGTTTATATTC
1 AGTTATGTGAAGTGATTCTATGTTTATATTC
59903318 AGTTATGTGAAGTGATTCTATGTTTATATTC
1 AGTTATGTGAAGTGATTCTATGTTTATATTC
59903349 A
1 A
59903350 AATATAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.06, G:0.21, T:0.48
Consensus pattern (31 bp):
AGTTATGTGAAGTGATTCTATGTTTATATTC
Found at i:59905700 original size:27 final size:27
Alignment explanation
Indices: 59905652--59905703 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
59905642 ATTCAACACA
* *
59905652 TAGGGGTATTTTGGTCATTTTCTCTCG
1 TAGGGGCATTTTGGTCAATTTCTCTCG
59905679 TAGGGGCATTTTGGGT-AATTTCTCT
1 TAGGGGCATTTT-GGTCAATTTCTCT
59905704 TGTTATGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.46
Consensus pattern (27 bp):
TAGGGGCATTTTGGTCAATTTCTCTCG
Found at i:59911262 original size:22 final size:22
Alignment explanation
Indices: 59911234--59911276 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
59911224 TTCTAAGTGT
59911234 TGAGCTTGAATATGTGGCCTAC
1 TGAGCTTGAATATGTGGCCTAC
59911256 TGAGCTTGAATATGTGGCCTA
1 TGAGCTTGAATATGTGGCCTA
59911277 ACAATTCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (22 bp):
TGAGCTTGAATATGTGGCCTAC
Found at i:59923950 original size:148 final size:148
Alignment explanation
Indices: 59923682--59924141 Score: 812
Period size: 148 Copynumber: 3.1 Consensus size: 148
59923672 TTTGGAGAGT
59923682 CACACGCCCGTGTCCTCAGCTTGTGTAACTCTCTGACTATGACGTTATCAAGCAAATAAGGCCAC
1 CACACGCCCGTGTCCTCAGCTTGTGTAACTCTCTGACTATGACGTTATCAAGCAAATAAGGCCAC
* * *
59923747 ATGGCCAAGTCAAACGCCCGTGTGCTTAGGTAGTGTGGCGAATTAAATTCCAAAAATTAAGTGCA
66 ACGGCCAAGTCACACGCCCGTGTGCTTAGGCAGTGTGGCGAATTAAATTCCAAAAATTAAGTGCA
59923812 GACTTCACACGGCTTGGG
131 GACTTCACACGGCTTGGG
*
59923830 CACACGCCTGTGTCCTCAGCTTGTGTAACTCTCTGACTATGACGTTATCAAGCAAATAAGGCCAC
1 CACACGCCCGTGTCCTCAGCTTGTGTAACTCTCTGACTATGACGTTATCAAGCAAATAAGGCCAC
* * *
59923895 ACGGCCAAGTCACATGCCCGTGTGCTTAGGCAGTGTGGCAAATTAAATTCCAAAAATTAAGTGTA
66 ACGGCCAAGTCACACGCCCGTGTGCTTAGGCAGTGTGGCGAATTAAATTCCAAAAATTAAGTGCA
59923960 GACTTCACACGGCTTGGG
131 GACTTCACACGGCTTGGG
* *
59923978 TACACGCCCGTGTCCTCAGCTTGTGTAACTCTTTGACTATGACGTTATCAAGCAAATAAGGCCAC
1 CACACGCCCGTGTCCTCAGCTTGTGTAACTCTCTGACTATGACGTTATCAAGCAAATAAGGCCAC
*
59924043 ACGGCCAAGTCACACGCCCGTGTGCTTAGGCAGTGTGGCGAATTAAATTCCAAAAATTAAGTACA
66 ACGGCCAAGTCACACGCCCGTGTGCTTAGGCAGTGTGGCGAATTAAATTCCAAAAATTAAGTGCA
59924108 GACTTCACACGGCTTGGG
131 GACTTCACACGGCTTGGG
* *
59924126 CACACGTCCATGTCCT
1 CACACGCCCGTGTCCT
59924142 AAGGCCGTGT
Statistics
Matches: 295, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
148 295 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (148 bp):
CACACGCCCGTGTCCTCAGCTTGTGTAACTCTCTGACTATGACGTTATCAAGCAAATAAGGCCAC
ACGGCCAAGTCACACGCCCGTGTGCTTAGGCAGTGTGGCGAATTAAATTCCAAAAATTAAGTGCA
GACTTCACACGGCTTGGG
Found at i:59924807 original size:23 final size:23
Alignment explanation
Indices: 59924779--59924827 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
59924769 TTCGATGTAC
*
59924779 ATACCTGTGCCGACTTATACATA
1 ATACCTATGCCGACTTATACATA
59924802 ATACCTATGCCGACTTATACATA
1 ATACCTATGCCGACTTATACATA
59924825 ATA
1 ATA
59924828 ACTTAATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (23 bp):
ATACCTATGCCGACTTATACATA
Found at i:59928155 original size:16 final size:16
Alignment explanation
Indices: 59928134--59928179 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
59928124 ATGTAACGCC
59928134 CCAAAAATCCCGAAA-T
1 CCAAAAATCCC-AAAGT
*
59928150 CCAAAAATCTCAAAGT
1 CCAAAAATCCCAAAGT
*
59928166 CCAAAAATCTCAAA
1 CCAAAAATCCCAAA
59928180 ATCCCAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 3 0.11
16 25 0.89
ACGTcount: A:0.52, C:0.28, G:0.04, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCAAAGT
Found at i:59930404 original size:40 final size:40
Alignment explanation
Indices: 59930334--59930498 Score: 228
Period size: 40 Copynumber: 4.2 Consensus size: 40
59930324 CGGATGATAA
* *
59930334 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
59930374 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
59930414 CGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * *
59930454 CGAAGGCATTTGAGCG-GGTAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
59930493 CGAAGG
1 CGAAGG
59930499 TACTTGGTTT
Statistics
Matches: 116, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 17 0.15
40 98 0.84
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:59932919 original size:8 final size:8
Alignment explanation
Indices: 59932902--59932936 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
59932892 ATGCATCAGC
59932902 AAAAGCCG
1 AAAAGCCG
*
59932910 AAATGCCG
1 AAAAGCCG
*
59932918 AAAAGCCA
1 AAAAGCCG
59932926 AAAAGCCG
1 AAAAGCCG
59932934 AAA
1 AAA
59932937 GTTAGGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.54, C:0.23, G:0.20, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:59933197 original size:29 final size:29
Alignment explanation
Indices: 59933160--59933261 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
59933150 TGAATGTAAC
*
59933160 TGGGCCTAATAGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
59933189 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
59933218 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
59933246 TGGGCTTAGTGGGCCA
1 TGGGCCTAATGGGCCA
59933262 GATACAGGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 15 0.23
29 49 0.77
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:59933233 original size:58 final size:57
Alignment explanation
Indices: 59933160--59933270 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
59933150 TGAATGTAAC
* *
59933160 TGGGCCTAATAGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATAGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
59933218 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAGTGGGCCAGATACAGGT
1 TGGGCCTAATAGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGT
59933271 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (57 bp):
TGGGCCTAATAGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:59937608 original size:29 final size:28
Alignment explanation
Indices: 59937565--59937674 Score: 123
Period size: 29 Copynumber: 3.9 Consensus size: 28
59937555 TGATAGTATG
* *
59937565 AATGTGACTGGGCCTAACGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
59937593 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* *
59937622 CA-GATGATTTGGGCCTAATGGGCCATATG
1 AATG-TGA-TTGGGCCTAATGGGCCATATA
* * *
59937651 AATATGATTGGGCTTAGTGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
59937675 GATGTAGGTA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 23 0.32
29 48 0.68
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:59957594 original size:42 final size:42
Alignment explanation
Indices: 59957535--59957656 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
59957525 TTAGGGTTAC
59957535 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* ** * *
59957577 TGAGACTT-CGTGTAAGACCATACCTAGGCTTTTGGCATTGATA
1 TGAGA-TTACGTGTAAGACCATATCT-GGGATATGGCATCGATA
* *
59957620 TGAGATTACATGTAAGACCATATATGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
59957657 TGGTACGATA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:59960996 original size:43 final size:43
Alignment explanation
Indices: 59960946--59961096 Score: 166
Period size: 43 Copynumber: 3.5 Consensus size: 43
59960936 GATTAATGAG
**
59960946 ATGTGATTATGTGTAAGACCATGTCTGGGACATTAGCATCATT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCATT
* *
59960989 ATGTGATTACATGTAAAACCATGTCTGGGACATTGGCAT-AGTT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCA-TT
* * *
59961032 ATTTGATTTCATGTAAGACCATAGT-TGGG-CTATCAGCATCGA-T
1 ATGTGATTACATGTAAGACCAT-GTCTGGGAC-ATTAGCATC-ATT
*
59961075 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
59961097 ATTTGGGATA
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
42 2 0.02
43 86 0.95
44 2 0.02
45 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCATT
Found at i:59962161 original size:19 final size:19
Alignment explanation
Indices: 59962125--59962163 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
59962115 TTTTCATCAT
* *
59962125 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
59962144 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
59962163 A
1 A
59962164 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:59962667 original size:55 final size:56
Alignment explanation
Indices: 59962602--59962716 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
59962592 AGCATGGCTG
* *
59962602 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
59962658 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
59962713 CCAG
1 CCAG
59962717 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:59962679 original size:27 final size:27
Alignment explanation
Indices: 59962627--59962716 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
59962617 GTGACAGAGT
59962627 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
59962656 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
59962683 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
59962711 CACCAG
1 CACCAG
59962717 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:59962868 original size:28 final size:28
Alignment explanation
Indices: 59962821--59962885 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
59962811 AAATTAACCC
*
59962821 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
59962849 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
59962877 TAGGGGTAT
1 TAGGGGTAT
59962886 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:59976184 original size:40 final size:40
Alignment explanation
Indices: 59976138--59976362 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
59976128 CTTGCGCAAG
* * *
59976138 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
59976178 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
59976218 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
59976258 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGGACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
59976298 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
59976339 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
59976363 CATTCGAATA
Statistics
Matches: 157, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 128 0.82
41 28 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:59976233 original size:80 final size:80
Alignment explanation
Indices: 59976102--59976362 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
59976092 CTCAAGTAAT
* * * * * * * *
59976102 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
59976165 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* *
59976180 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
59976244 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * * *
59976260 CTTCGGGTCTTAGCCCGGATATAGCAACTCGGACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
59976325 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
59976341 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
59976363 CATTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:59984310 original size:40 final size:40
Alignment explanation
Indices: 59984264--59984488 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
59984254 CTTGCGCAAG
* * *
59984264 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
59984304 GCCTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
59984344 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
59984384 GCCTTCGAGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
59984424 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* * *
59984465 GACTTCGGGACTTAGCTCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
59984489 CATTCGAATA
Statistics
Matches: 153, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 125 0.82
41 27 0.18
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:59984449 original size:120 final size:120
Alignment explanation
Indices: 59984228--59984488 Score: 287
Period size: 120 Copynumber: 2.2 Consensus size: 120
59984218 CTCAAGTAAT
* * * * * *
59984228 CTTCGGGATTTAG-CCGGATATAATTACTTGCGCAAGGCCTTCGGGTCTTAGCCCGGATGTGGTC
1 CTTCGGGATTTAGCCCGGATATAATCACTAGCACAAGGCCTTCGAGTCTTAGCCCGGATATAGTC
* * * *
59984292 ACTAGCATAAATGCCTTCGGGACTTAGCCCAGATATAGTC-GCTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCAGATATAGTCACCTAGCACAAAAGA
* * *
59984346 CTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGAGTCTTAGCCCGGATATAG-
1 CTTCGGGATTTAGCCCGGATATAATCACTAGCAC-AAGGCCTTCGAGTCTTAGCCCGGATATAGT
* * * * *
59984410 CAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGA
65 C-ACTAGCACAAATGCCTTCGGGA-CTTAGCCCAGATATAGTCACCTAGCACAAAAGA
* *
59984467 CTTCGGGACTTAGCTCGGATAT
1 CTTCGGGATTTAGCCCGGATAT
59984489 CATTCGAATA
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
118 12 0.10
119 20 0.17
120 55 0.47
121 30 0.26
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (120 bp):
CTTCGGGATTTAGCCCGGATATAATCACTAGCACAAGGCCTTCGAGTCTTAGCCCGGATATAGTC
ACTAGCACAAATGCCTTCGGGACTTAGCCCAGATATAGTCACCTAGCACAAAAGA
Found at i:59987083 original size:49 final size:51
Alignment explanation
Indices: 59986958--59987092 Score: 159
Period size: 49 Copynumber: 2.7 Consensus size: 51
59986948 TCTATTGTGA
* *
59986958 GGTCGCATGTGTAGTACTAAGTGCA-GCTACTATGCATACCCTATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCACACCCGATAACTTC
* * * * ** *
59987008 GATCACGTGAGTAGTACTAAGTGCAGGCTACTATGTGCACCGGATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCACACCCGATAACTTC
*
59987057 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
59987093 GTACCAGATA
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
49 30 0.43
50 23 0.33
51 16 0.23
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCACACCCGATAACTTC
Found at i:60003502 original size:40 final size:40
Alignment explanation
Indices: 60003447--60003683 Score: 393
Period size: 40 Copynumber: 5.9 Consensus size: 40
60003437 GCATGAGCAT
60003447 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
60003487 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
60003527 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
60003567 TTGATATATCCGGGCTAAGATCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
60003607 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
60003647 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
60003684 TTGCGGTTAT
Statistics
Matches: 183, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:60005871 original size:14 final size:14
Alignment explanation
Indices: 60005852--60005879 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60005842 TAAAATCTAG
60005852 ACTTGTAACAGATT
1 ACTTGTAACAGATT
60005866 ACTTGTAACAGATT
1 ACTTGTAACAGATT
60005880 TTTGAAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
ACTTGTAACAGATT
Found at i:60007955 original size:28 final size:29
Alignment explanation
Indices: 60007923--60007983 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
60007913 CACATACCTG
* *
60007923 TATATGGCCCACTAGG-CCTAATCACATT
1 TATATGACCCACTAGGCCCAAATCACATT
*
60007951 TATATGACCCATTAGGCCCAAATCACATT
1 TATATGACCCACTAGGCCCAAATCACATT
60007980 TATA
1 TATA
60007984 GTCATGCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (29 bp):
TATATGACCCACTAGGCCCAAATCACATT
Found at i:60013978 original size:11 final size:11
Alignment explanation
Indices: 60013964--60014039 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
60013954 CAATATTGAT
60013964 ATGATATGCAC
1 ATGATATGCAC
*
60013975 ATGATATG--T
1 ATGATATGCAC
60013984 ATGATATGCAC
1 ATGATATGCAC
*
60013995 ATGATAT--AT
1 ATGATATGCAC
*
60014004 ACGATATGCAC
1 ATGATATGCAC
*
60014015 ATGATATG--T
1 ATGATATGCAC
60014024 ATGATATGCAC
1 ATGATATGCAC
60014035 ATGAT
1 ATGAT
60014040 GTATTCATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:60013988 original size:20 final size:20
Alignment explanation
Indices: 60013963--60014039 Score: 136
Period size: 20 Copynumber: 3.9 Consensus size: 20
60013953 ACAATATTGA
60013963 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
60013983 TATGATATGCACATGATATA
1 TATGATATGCACATGATATG
*
60014003 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
60014023 TATGATATGCACATGAT
1 TATGATATGCACATGAT
60014040 GTATTCATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Done.