Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 160 of 168
Found at i:47840026 original size:18 final size:16
Alignment explanation
Indices: 47840003--47840051 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 16
47839993 TAAAATTAAA
47840003 ATTATTTTATATATATAT
1 ATTATTTTATATA-AT-T
47840021 ATTATTTTATATAATT
1 ATTATTTTATATAATT
*
47840037 AATATTTTA-ATAATT
1 ATTATTTTATATAATT
47840052 TAGTCCTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 6 0.20
16 9 0.30
17 2 0.07
18 13 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTTTATATAATT
Found at i:47864432 original size:2 final size:2
Alignment explanation
Indices: 47864427--47864453 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47864417 AGCAGTGTTT
47864427 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
47864454 TGATTGGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47866560 original size:48 final size:47
Alignment explanation
Indices: 47866508--47867211 Score: 612
Period size: 48 Copynumber: 14.7 Consensus size: 47
47866498 GGATGGAGGA
* * * *
47866508 GGTGGGGACTTGTAATAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
* * * * *
47866556 GGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGA-TGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAT-G-GACTGGTGGT
* * *
47866604 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
* * * * * *
47866652 GGTGGAGATTTGTAGTAGTAAGGAGGAGGAGGAGATGG-CGATGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGAC--TGGTGGT
* * * * * * *
47866700 GGAGGAGACTTGTAGTAATATGGTGGTGGTGGTGATGGAGATGGAGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
*
47866748 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGTGA-TGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAT-G-GACTGGTGGT
47866796 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTAGG-CTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-T-GGACTGGTGGT
47866844 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
* * * * * * * *
47866892 GGTGGGGACTTGTAGTAGTAAGGAGGAGGCGGAGATGAAGAC-GGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATG--GACTGGTGGT
* * * * * *
47866940 GGAGGGGATTTGTAGTAGTATGGAGGTGGTGGTGATGGAGATGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
* * * * * *
47866988 GGTGGGGATTTGTAGTAGTAAGGAGGAGGAGGAGATGGTGA-TGGTGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAT-G-GACTGGTGGT
* * * * * * * ** *
47867036 GGCGGGGAGTTGTAGTGGTA-GGTTGGTGCTGGGGCCTTCACTGGAGGT
1 GGTGGAGATTTGTAGTAGTATGG-TGGTGGTGGAG-ATGGACTGGTGGT
* *
47867084 GGTGGTGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
* * * *
47867132 GGTGGAGACTTGTAGTAATATGGTGGGGGTGGAGAGTGGACTGGTGGG
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
47867180 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGG
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGG
47867212 TGGTGACTTA
Statistics
Matches: 539, Mismatches: 93, Indels: 48
0.79 0.14 0.07
Matches are distributed among these distances:
46 4 0.01
47 9 0.02
48 510 0.95
49 12 0.02
50 4 0.01
ACGTcount: A:0.19, C:0.03, G:0.51, T:0.27
Consensus pattern (47 bp):
GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGACTGGTGGT
Found at i:47866787 original size:15 final size:15
Alignment explanation
Indices: 47866767--47866796 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47866757 TTGTAGTAGT
*
47866767 ATGGTGGTGGTGGTG
1 ATGGTGATGGTGGTG
47866782 ATGGTGATGGTGGTG
1 ATGGTGATGGTGGTG
47866797 GTGGAGATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.57, T:0.33
Consensus pattern (15 bp):
ATGGTGATGGTGGTG
Found at i:47866833 original size:21 final size:21
Alignment explanation
Indices: 47866761--47866896 Score: 87
Period size: 21 Copynumber: 5.9 Consensus size: 21
47866751 GGAGATTTGT
*
47866761 AGTAGTATGGTGGTGGTGGTG
1 AGTAGTATGGTGGTGGTGGAG
*
47866782 A-TGGTGATGGTGGTGGTGGAGATTTG
1 AGTAGT-ATGGTGGTGGT-G-GA---G
47866808 TAGTAGTATGGTGGTGGTGGAG
1 -AGTAGTATGGTGGTGGTGGAG
**
47866830 AGTAGGCTGGTGGTGGTGGAGATTTG
1 AGTAGTATGGTGGTGGT-G-GA---G
47866856 TAGTAGTATGGTGGTGGTGGAG
1 -AGTAGTATGGTGGTGGTGGAG
*
47866878 AGT-GGACTGGTGGTGGTGG
1 AGTAGTA-TGGTGGTGGTGG
47866897 GGACTTGTAG
Statistics
Matches: 92, Mismatches: 8, Indels: 30
0.71 0.06 0.23
Matches are distributed among these distances:
20 5 0.05
21 42 0.46
22 4 0.04
23 3 0.03
25 4 0.04
26 4 0.04
27 27 0.29
28 3 0.03
ACGTcount: A:0.15, C:0.01, G:0.51, T:0.32
Consensus pattern (21 bp):
AGTAGTATGGTGGTGGTGGAG
Found at i:47866895 original size:240 final size:237
Alignment explanation
Indices: 47866472--47867213 Score: 846
Period size: 240 Copynumber: 3.1 Consensus size: 237
47866462 AGGTGAGTGA
* * * * * * * *
47866472 TAGTAGTATGGGGGAGGGGGTGAAGGGGATGGAGGAGGTGGGGACTTGTAATAGTAGGGTGGTGG
1 TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGATTTGTAGTAGTAAGGTGGTGG
* * * *
47866537 TGGAGA--GTGGACTGGTGGTGGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGATGG
66 TGGAGATGGT-GA-TGGTGGTGGTGGAGATTTGTAGTAGTA-GGTGGTGGTGGAGATAG-GCTGG
* * * * * *
47866600 GGGAGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGA-TGGAGATGGAGGTGGTGGAGATTTG
127 AGGTGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGA-CTGGTGGTGGTGGAGACTTG
*
47866664 TAGTAGTAAGGAGGAGGAGGAGATGGCGATGGGGGAGGAGGAGACTTG
191 TAGTAGTAAGGAGGAGGAGGAGATGG-GATGGGGGAGGAGGAGATTTG
* * *
47866712 TAGTAATATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGAGATTTGTAGTAGTATGGTGGTGG
1 TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGATTTGTAGTAGTAAGGTGGTGG
* *
47866777 TGGTGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTAGGCTGGTG
66 TGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTA-GGTGGTGGTGGAGA-TAGGCTGGAG
*
47866842 GTGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGGGACTTGTAG
129 GTGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAG
* * * *
47866907 TAGTAAGGAGGAGGCGGAGATGAAGACGGGGGAGGAGGGGATTTG
194 TAGTAAGGAGGAGGAGGAGATG-GGATGGGGGAGGAGGAGATTTG
* * * *
47866952 TAGTAGTATGGAGGTGGTGGTGATGGAGATGGAGGTGGTGGGGATTTGTAGTAGTAAGGAGGAGG
1 TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGATTTGTAGTAGTAAGGTGGTGG
* * * * * * * * * ***
47867017 AGGAGATGGTGATGGTGGAGGCGGGGAGTTGTAGTGGTAGGTTGGTGCTGGGGCCTTCACTGGAG
66 TGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTAGG-TGGTGGTGGAG-ATAGGCTGGAG
* *
47867082 GTGGTGGTGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAG
129 GTGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAG
* * * * * *
47867147 TAATATGGTGGGGGTGGAGA-GTGGACTGGTGGG-GGTGGAGATTTG
194 TAGTAAGGAGGAGGAGGAGATG-GGA-TGG-GGGAGGAGGAGATTTG
47867192 TAGTAGTATGGTGGTGGTGGTG
1 TAGTAGTATGGTGGTGGTGGTG
47867214 GTGACTTATA
Statistics
Matches: 430, Mismatches: 63, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
239 5 0.01
240 412 0.96
241 11 0.03
242 2 0.00
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.26
Consensus pattern (237 bp):
TAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGAGGTGGGGATTTGTAGTAGTAAGGTGGTGG
TGGAGATGGTGATGGTGGTGGTGGAGATTTGTAGTAGTAGGTGGTGGTGGAGATAGGCTGGAGGT
GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAGTA
GTAAGGAGGAGGAGGAGATGGGATGGGGGAGGAGGAGATTTG
Found at i:47867128 original size:21 final size:21
Alignment explanation
Indices: 47867104--47867187 Score: 87
Period size: 21 Copynumber: 3.7 Consensus size: 21
47867094 TGTAGTAGTA
47867104 TGGTGGGGGTGGAGAGTGGAC
1 TGGTGGGGGTGGAGAGTGGAC
* * *
47867125 TGGTGGTGGTGGAGACTTGTAGTAATA
1 TGGTGGGGGTGGAGA---GT-G-GA-C
47867152 TGGTGGGGGTGGAGAGTGGAC
1 TGGTGGGGGTGGAGAGTGGAC
47867173 TGGTGGGGGTGGAGA
1 TGGTGGGGGTGGAGA
47867188 TTTGTAGTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
21 29 0.57
22 1 0.02
23 1 0.02
24 4 0.08
25 1 0.02
26 1 0.02
27 14 0.27
ACGTcount: A:0.17, C:0.04, G:0.56, T:0.24
Consensus pattern (21 bp):
TGGTGGGGGTGGAGAGTGGAC
Found at i:47867309 original size:66 final size:66
Alignment explanation
Indices: 47867173--47867331 Score: 176
Period size: 66 Copynumber: 2.4 Consensus size: 66
47867163 GAGAGTGGAC
* * * * * * *
47867173 TGGTGGGGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGGTGACTTATAAACATAGGTAGGGC
1 TGGTGGTGGCGGAGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTAGGGC
*
47867238 T
66 A
* * *
47867239 TGGTGGTGGCGGGGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTGTAAGCATAAGTA-GGC
1 TGGTGGTGGCGGAGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTAGGGC
47867303 GA
66 -A
* **
47867305 TGGTGGTGGTGGAGAGGTGTAATAGTA
1 TGGTGGTGGCGGAGACTTGTAATAGTA
47867332 AGGAGATGGA
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
65 3 0.04
66 74 0.96
ACGTcount: A:0.21, C:0.05, G:0.45, T:0.29
Consensus pattern (66 bp):
TGGTGGTGGCGGAGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTAGGGC
A
Found at i:47867316 original size:36 final size:33
Alignment explanation
Indices: 47867196--47867316 Score: 95
Period size: 36 Copynumber: 3.6 Consensus size: 33
47867186 GATTTGTAGT
* *
47867196 AGTATGGTGGTGGTGGTGGTGACTTATAAACATA
1 AGTAGGGTGGTGGTGGTGGTGACTTGT-AACATA
* * *
47867230 GGTAGGGCTTGGTGGTGGCGGGGACTTGT-A-AT-
1 AGTAGGG--TGGTGGTGGTGGTGACTTGTAACATA
* * *
47867262 AGTATGGTGGAGGAGGTGGTGACTTGTAAGCATA
1 AGTAGGGTGGTGGTGGTGGTGACTTGTAA-CATA
47867296 AGTAGGCGATGGTGGTGGTGG
1 AGTAGG-G-TGGTGGTGGTGG
47867317 AGAGGTGTAA
Statistics
Matches: 65, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
30 16 0.25
31 1 0.02
32 5 0.08
33 4 0.06
34 11 0.17
35 1 0.02
36 27 0.42
ACGTcount: A:0.21, C:0.07, G:0.45, T:0.28
Consensus pattern (33 bp):
AGTAGGGTGGTGGTGGTGGTGACTTGTAACATA
Found at i:47868531 original size:48 final size:48
Alignment explanation
Indices: 47868479--47869333 Score: 484
Period size: 48 Copynumber: 17.8 Consensus size: 48
47868469 ATGCGGAGGA
* * *
47868479 GGTGGCGGAGACGTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGT
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * *
47868527 GGTGGTGGAGACTTGTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGT
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* *
47868575 GGTGGGGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGT
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * *
47868623 GGTGGTGGAGATTTGTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGT
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * *
47868671 GGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAA-GT
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * * * * *
47868718 GGGGGGGGAGACTTGTAGTAGTAAGGTGGTGGTGGGGAAGGAGATGGA
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * * * * * *
47868766 GGTGGCGGGGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGT
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * * * * * *
47868814 GGTGGTGGAGATTTGTAGTAATATGGAGGAGGTGGAGATGGAGATGGA
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * * * * * * * *
47868862 GGAGGTGGGGACTTGTAGTAGTATGGAGGAGGTGGGGAAGGAGATGGA
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * * * * * * * *
47868910 GGTGGTGGGGATTTGTAGTAATAAGGAGGAGGTGGTGACGGGGACGGA
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * * * *
47868958 GGTGGTGGAGACTTATAGTAATATGGAGGAGGTAGG-GATGGGGATGGA
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGT-GGAGATGGTGAAGGT
* * * * * * *
47869006 GGTGGTGGAGACTTGTAGTAGTACGGGGGAGGTGGTGATGGGGATGGT
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * * * * * *
47869054 GGCGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGACGGGGATGGT
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * * * * * *
47869102 GGTGGAGGAGACTTATAATAGTATGGAGGAGGAGGTGATGGAGACGGT
1 GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * ** ** * *
47869150 GGTGGTGGAGATTTATAGTGGTATGGAGGGTTCACTTCATGTTTCGGTGGAGGT
1 GGTGGTGGAGACTTATAGTAGTAAGG-TGG-T-GGTGGA-G-AT-GGTGAAGGT
* * * *
47869204 GGTGGT---GACTTGTACTCA-TAAGGTGGTGGTGGAGAAGGTGAAGGA
1 GGTGGTGGAGACTTATAGT-AGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * *
47869249 GGTGGTGGAGATTTATA-CACGTATGGTGGTGGGGGAGATGGAGAAGGT
1 GGTGGTGGAGACTTATAGTA-GTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * *
47869297 GGTGGAGGTGACTTATACTCA-TAAGGTGGTGGAGGAG
1 GGTGGTGGAGACTTATAGT-AGTAAGGTGGTGGTGGAG
47869334 GTGAAGAGTA
Statistics
Matches: 658, Mismatches: 132, Indels: 34
0.80 0.16 0.04
Matches are distributed among these distances:
45 13 0.02
46 1 0.00
47 43 0.07
48 568 0.86
49 5 0.01
50 3 0.00
51 11 0.02
52 1 0.00
53 1 0.00
54 12 0.02
ACGTcount: A:0.23, C:0.04, G:0.49, T:0.24
Consensus pattern (48 bp):
GGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
Found at i:47868633 original size:144 final size:144
Alignment explanation
Indices: 47868476--47869160 Score: 719
Period size: 144 Copynumber: 4.8 Consensus size: 144
47868466 GTAATGCGGA
* ** * * * * * * *
47868476 GGAGGTGGCGGAGACGTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGTGGTGGTGGAGACTT
1 GGAGGTGGTGGAGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAGACTT
* * * * * *
47868541 GTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGTGGTGGGGGAGACTTATAGTAGTAAGGTGGTG
66 ATAGTAGTATGGAGGAGGTGGAGATGGAGATGGTGGTGGGGGAGACTTGTAGTAGTAAGGTGGAG
* * * *
47868606 GTGGAGATGGTGAG
131 GTGGGGAAGGAGAT
* * * * *
47868620 GGTGGTGGTGGAGATTTGTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGTGGTGGTGGAGACTT
1 GGAGGTGGTGGAGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAGACTT
* * * * * * * * *
47868685 ATAATAGTAAGGTGGGGGTGGTGAAGGAGA-AGTGGGGGGGGAGACTTGTAGTAGTAAGGTGGTG
66 ATAGTAGTATGGAGGAGGTGGAGATGGAGATGGTGGTGGGGGAGACTTGTAGTAGTAAGGTGGAG
47868749 GTGGGGAAGGAGAT
131 GTGGGGAAGGAGAT
* * *
47868763 GGAGGTGGCGGGGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAGATTT
1 GGAGGTGGTGGAGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAGACTT
* * * * * *
47868828 GTAGTAATATGGAGGAGGTGGAGATGGAGATGGAGGAGGTGGG-GACTTGTAGTAGTATGGAGGA
66 ATAGTAGTATGGAGGAGGTGGAGATGGAGATGGTGGTGG-GGGAGACTTGTAGTAGTAAGGTGGA
47868892 GGTGGGGAAGGAGAT
130 GGTGGGGAAGGAGAT
* * * *
47868907 GGAGGTGGTGGGGATTTGTAGTAATAAGGAGGAGGTGGTGACGGGGACGGAGGTGGTGGAGACTT
1 GGAGGTGGTGGAGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAGACTT
* * * * * *
47868972 ATAGTAATATGGAGGAGGTAGG-GATGGGGATGGAGGTGGTGGAGACTTGTAGTAGTACGGGGGA
66 ATAGTAGTATGGAGGAGGT-GGAGATGGAGATGGTGGTGGGGGAGACTTGTAGTAGTAAGGTGGA
* * *
47869036 GGTGGTGATGGGGAT
130 GGTGGGGAAGGAGAT
* * * * * * *
47869051 GGTGGCGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGACGGGGATGGTGGTGGAGGAGACTT
1 GGAGGTGGTGGAGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAGACTT
* * * * *
47869116 ATAATAGTATGGAGGAGGAGGTGATGGAGACGGTGGTGGTGGAGA
66 ATAGTAGTATGGAGGAGGTGGAGATGGAGATGGTGGTGGGGGAGA
47869161 TTTATAGTGG
Statistics
Matches: 463, Mismatches: 73, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
143 124 0.27
144 334 0.72
145 5 0.01
ACGTcount: A:0.23, C:0.03, G:0.51, T:0.23
Consensus pattern (144 bp):
GGAGGTGGTGGAGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAGACTT
ATAGTAGTATGGAGGAGGTGGAGATGGAGATGGTGGTGGGGGAGACTTGTAGTAGTAAGGTGGAG
GTGGGGAAGGAGAT
Found at i:47868860 original size:21 final size:21
Alignment explanation
Indices: 47868836--47868921 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 21
47868826 TTGTAGTAAT
*
47868836 ATGGAGGAGGTGGAGATGGAG
1 ATGGAGGAGGTGGGGATGGAG
47868857 ATGGAGGAGGTGGGGACTTGTAGTAG
1 ATGGAGGAGGTGGGGA--TG--G-AG
*
47868883 TATGGAGGAGGTGGGGAAGGAG
1 -ATGGAGGAGGTGGGGATGGAG
*
47868905 ATGGAGGTGGTGGGGAT
1 ATGGAGGAGGTGGGGAT
47868922 TTGTAGTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
21 30 0.55
22 2 0.04
23 3 0.05
25 2 0.04
26 2 0.04
27 16 0.29
ACGTcount: A:0.24, C:0.01, G:0.56, T:0.19
Consensus pattern (21 bp):
ATGGAGGAGGTGGGGATGGAG
Found at i:47869079 original size:96 final size:96
Alignment explanation
Indices: 47868479--47869178 Score: 675
Period size: 96 Copynumber: 7.3 Consensus size: 96
47868469 ATGCGGAGGA
* * * * * * * * *
47868479 GGTGGCGGAGACGTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGTGGTGGTGGAGACTTGTA
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTGTA
* *
47868544 GTAGTAAGGAGGTGGTGGAGATGGTGATGGT
66 GTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* * * * * * * *
47868575 GGTGGGGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGTGGTGGTGGAGATTTGTA
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTGTA
* *
47868640 GTAGTAAGGAGGTGGTGGAGATGGTGATGGT
66 GTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* * * * * * * * *
47868671 GGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGA-AGTGGGGGGGGAGACTTGTA
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTGTA
* * * * *
47868735 GTAGTAAGGTGGTGGTGGGGAAGGAGATGGA
66 GTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* * * * * * *
47868766 GGTGGCGGGGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAGATTTGTA
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTGTA
* * *
47868831 GTAATATGGAGGAGGTGGAGATGGAGATGGA
66 GTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* * * * * * * * *
47868862 GGAGGTGGGGACTTGTAGTAGTATGGAGGAGGTGGGGAAGGAGATGGAGGTGGTGGGGATTTGTA
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTGTA
* * * * * *
47868927 GTAATAAGGAGGAGGTGGTGACGGGGACGGA
66 GTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* *
47868958 GGTGGTGGAGACTTATAGTAATATGGAGGAGGTAGG-GATGGGGATGGAGGTGGTGGAGACTTGT
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGT-GGTGATGGGGATGGTGGTGGTGGAGACTTGT
* * * *
47869022 AGTAGTACGGGGGAGGTGGTGATGGGGATGGT
65 AGTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* * * * *
47869054 GGCGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGACGGGGATGGTGGTGGAGGAGACTTATA
1 GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTGTA
* * * * *
47869119 ATAGTATGGAGGAGGAGGTGATGGAGACGGT
66 GTAGTAAGGAGGAGGTGGAGATGGAGATGGT
* *
47869150 GGTGGTGGAGATTTATAGTGGTATGGAGG
1 GGTGGTGGAGACTTATAGTAGTATGGAGG
47869179 GTTCACTTCA
Statistics
Matches: 516, Mismatches: 85, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
95 79 0.15
96 435 0.84
97 2 0.00
ACGTcount: A:0.23, C:0.03, G:0.51, T:0.23
Consensus pattern (96 bp):
GGTGGTGGAGACTTATAGTAGTATGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTGTA
GTAGTAAGGAGGAGGTGGAGATGGAGATGGT
Found at i:47888195 original size:15 final size:16
Alignment explanation
Indices: 47888175--47888207 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47888165 GGTGATATAA
*
47888175 ACCTTC-ATTTTTCTT
1 ACCTTCAATTTTTATT
47888190 ACCTTCAATTTTTATT
1 ACCTTCAATTTTTATT
47888206 AC
1 AC
47888208 ATCTTGCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (16 bp):
ACCTTCAATTTTTATT
Found at i:47895765 original size:29 final size:29
Alignment explanation
Indices: 47895719--47895830 Score: 138
Period size: 29 Copynumber: 3.9 Consensus size: 29
47895709 AAAAAATAAA
47895719 AAATTACA-TTTAACCCCTAAACTTTTTG
1 AAATTACATTTTAACCCCTAAACTTTTTG
* * *
47895747 AAATTTCATTTTAACCCCTAAA-TTTCATA
1 AAATTACATTTTAACCCCTAAACTTT-TTG
* *
47895776 AAATTACATTTTGACCCATAAACTTTTTG
1 AAATTACATTTTAACCCCTAAACTTTTTG
* *
47895805 AAATTACGTTTTGACCCCTAAACTTT
1 AAATTACATTTTAACCCCTAAACTTT
47895831 CTCAGAATTT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
28 10 0.14
29 58 0.82
30 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (29 bp):
AAATTACATTTTAACCCCTAAACTTTTTG
Found at i:47895805 original size:58 final size:58
Alignment explanation
Indices: 47895718--47895831 Score: 167
Period size: 58 Copynumber: 2.0 Consensus size: 58
47895708 CAAAAAATAA
* *
47895718 AAAATTACATTTAACCCCTAAACTTTTTGAAATTTCATTTTAACCCCTAAA-TTTCAT
1 AAAATTACATTTAACCCATAAACTTTTTGAAATTACATTTTAACCCCTAAACTTTCAT
* * *
47895775 AAAATTACATTTTGACCCATAAACTTTTTGAAATTACGTTTTGACCCCTAAACTTTC
1 AAAATTACA-TTTAACCCATAAACTTTTTGAAATTACATTTTAACCCCTAAACTTTC
47895832 TCAGAATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
57 9 0.18
58 37 0.74
59 4 0.08
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.39
Consensus pattern (58 bp):
AAAATTACATTTAACCCATAAACTTTTTGAAATTACATTTTAACCCCTAAACTTTCAT
Found at i:47896195 original size:13 final size:13
Alignment explanation
Indices: 47896173--47896259 Score: 64
Period size: 13 Copynumber: 7.0 Consensus size: 13
47896163 GAGGCCGAAC
47896173 GGAG-AAGAAGAA
1 GGAGAAAGAAGAA
47896185 GGAGAAAGAAGAA
1 GGAGAAAGAAGAA
*
47896198 -GAAAAAG-AGAA
1 GGAGAAAGAAGAA
*
47896209 --AGAAGGAAGGAA
1 GGAGAAAGAA-GAA
47896221 GGA-AGAAGAAGAA
1 GGAGA-AAGAAGAA
47896234 GGA-AGAAGAAGAA
1 GGAGA-AAGAAGAA
47896247 GGAAGAAA-AAGAA
1 GG-AGAAAGAAGAA
47896260 AAAAGAAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
10 4 0.06
11 5 0.08
12 13 0.21
13 32 0.51
14 8 0.13
15 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GGAGAAAGAAGAA
Found at i:47896217 original size:4 final size:3
Alignment explanation
Indices: 47896175--47896259 Score: 73
Period size: 3 Copynumber: 26.3 Consensus size: 3
47896165 GGCCGAACGG
* *
47896175 AGA AGA AGA AGG AGAA AGA AGA AGA AAA AG- AGAA AGA AGGA AGGA AGGA
1 AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AG-A AGA A-GA A-GA A-GA
*
47896224 AGA AGA AGA AGGA AGA AGA AGA AGGA AGA AAA AGA A
1 AGA AGA AGA A-GA AGA AGA AGA A-GA AGA AGA AGA A
47896260 AAAAGAAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
2 2 0.03
3 47 0.67
4 21 0.30
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:47896978 original size:17 final size:17
Alignment explanation
Indices: 47896945--47896978 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47896935 NNNNNNNNNC
*
47896945 TAAAATTCTCATTTTTT
1 TAAAATTCTCATGTTTT
*
47896962 TAAAATTCTCGTGTTTT
1 TAAAATTCTCATGTTTT
47896979 AATAGAATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (17 bp):
TAAAATTCTCATGTTTT
Found at i:47897122 original size:18 final size:18
Alignment explanation
Indices: 47897101--47897394 Score: 135
Period size: 17 Copynumber: 16.2 Consensus size: 18
47897091 AAAAATCGGG
47897101 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
* *
47897119 TTTCAAAAATTCTCATG-
1 TTTCAAAAATTTTCGTGT
*
47897136 TTTCAAAAATCTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
47897154 TTT-AAAAA-TTCCAGTG-
1 TTTCAAAAATTTTC-GTGT
47897170 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
47897188 TTTCAAAAAAAATTTCCCGTGT
1 TTTC---AAAAATTT-TCGTGT
* * *
47897210 TTTTAAAAATTCTCGT-A
1 TTTCAAAAATTTTCGTGT
* * *
47897227 TATCGAAAATTTTCTTGT
1 TTTCAAAAATTTTCGTGT
* * *
47897245 TTTCAAAAAAAAAAATTCCATG-
1 TTTC-----AAAAATTTTCGTGT
* *
47897267 TTTCATAAATTTCCGTGT
1 TTTCAAAAATTTTCGTGT
**
47897285 TTTCAAAAAAAAATTCGT-T
1 TTTC--AAAAATTTTCGTGT
47897304 TTTCAAAAATTTTCGT-T
1 TTTCAAAAATTTTCGTGT
* **
47897321 TTTAAAAAAATTGACCGTG-
1 TTT-CAAAAATT-TTCGTGT
* *
47897340 TTTCATAAATTTTCGT-A
1 TTTCAAAAATTTTCGTGT
* *
47897357 TTTCAAAAAAATCTCGTG-
1 TTTC-AAAAATTTTCGTGT
*
47897375 TTTC-AAAATTTTCGGGT
1 TTTCAAAAATTTTCGTGT
47897392 TTT
1 TTT
47897395 TTTAAAAACA
Statistics
Matches: 205, Mismatches: 46, Indels: 51
0.68 0.15 0.17
Matches are distributed among these distances:
16 14 0.07
17 75 0.37
18 61 0.30
19 18 0.09
20 8 0.04
21 8 0.04
22 12 0.06
23 9 0.04
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:47897172 original size:34 final size:35
Alignment explanation
Indices: 47897100--47897196 Score: 162
Period size: 34 Copynumber: 2.8 Consensus size: 35
47897090 AAAAAATCGG
47897100 GTTTCAAAAATTTTCGTGTTTTCAAAAATTCTCAT
1 GTTTCAAAAATTTTCGTGTTTTCAAAAATTCTCAT
*
47897135 GTTTCAAAAATCTTCGTGTTTT-AAAAATTC-CAGT
1 GTTTCAAAAATTTTCGTGTTTTCAAAAATTCTCA-T
47897169 GTTTCAAAAATTTTCGTGTTTTCAAAAA
1 GTTTCAAAAATTTTCGTGTTTTCAAAAA
47897197 AAATTTCCCG
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
33 2 0.03
34 30 0.52
35 26 0.45
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (35 bp):
GTTTCAAAAATTTTCGTGTTTTCAAAAATTCTCAT
Found at i:47897200 original size:21 final size:22
Alignment explanation
Indices: 47897174--47897218 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
47897164 CCAGTGTTTC
*
47897174 AAAAATTT-TCGTGTTTTCAAA
1 AAAAATTTCCCGTGTTTTCAAA
*
47897195 AAAAATTTCCCGTGTTTTTAAA
1 AAAAATTTCCCGTGTTTTCAAA
47897217 AA
1 AA
47897219 TTCTCGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (22 bp):
AAAAATTTCCCGTGTTTTCAAA
Found at i:47897236 original size:57 final size:56
Alignment explanation
Indices: 47897149--47897256 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 56
47897139 CAAAAATCTT
* *
47897149 CGTGTTTTAAAAATTCCAGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATTTCC
1 CGTGTTTTAAAAATTCCAGTATATCAAAAATTTTCGTGTTTTCAAAAAAAATTTCC
* *
47897205 CGTGTTTTTAAAAATTCTC-GTATATCGAAAATTTTCTTGTTTTCAAAAAAAA
1 CGTG-TTTTAAAAATTC-CAGTATATCAAAAATTTTCGTGTTTTCAAAAAAAA
47897257 AAATTCCATG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
56 4 0.09
57 41 0.89
58 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (56 bp):
CGTGTTTTAAAAATTCCAGTATATCAAAAATTTTCGTGTTTTCAAAAAAAATTTCC
Found at i:47897258 original size:40 final size:40
Alignment explanation
Indices: 47897214--47897297 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
47897204 CCGTGTTTTT
* * *
47897214 AAAAATTCTCGTATATCGA-AAATTTTCTTGTTTTCAAAAAA
1 AAAAATTC-CATATATC-ATAAATTTCCGTGTTTTCAAAAAA
* *
47897255 AAAAATTCCATGTTTCATAAATTTCCGTGTTTTCAAAAAA
1 AAAAATTCCATATATCATAAATTTCCGTGTTTTCAAAAAA
47897295 AAA
1 AAA
47897298 TTCGTTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.03
40 28 0.76
41 8 0.22
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (40 bp):
AAAAATTCCATATATCATAAATTTCCGTGTTTTCAAAAAA
Found at i:47897308 original size:37 final size:37
Alignment explanation
Indices: 47897233--47897439 Score: 155
Period size: 37 Copynumber: 5.6 Consensus size: 37
47897223 CGTATATCGA
* *
47897233 AAATTTTCTTGTTTTCAAAAAAAAAAATTCCATGTTTCAT
1 AAATTTTCGTGTTTTC--AAAAAAAAATT-CGTGTTTCAT
* * *
47897273 AAATTTCCGTGTTTTCAAAAAAAAATTCGTTTTTCAA
1 AAATTTTCGTGTTTTCAAAAAAAAATTCGTGTTTCAT
47897310 AAATTTTCGT-TTTT---AAAAAAATTGACCGTGTTTCAT
1 AAATTTTCGTGTTTTCAAAAAAAAATT---CGTGTTTCAT
*
47897346 AAATTTTCGT-ATTTC--AAAAAAATCTCGTGTTTCA-
1 AAATTTTCGTGTTTTCAAAAAAAAAT-TCGTGTTTCAT
* ** *
47897380 AAATTTTCGGGTTTTTTTAAAAACAATTCGTGTTTC-T
1 AAATTTTCGTG-TTTTCAAAAAAAAATTCGTGTTTCAT
* *
47897417 AAAATTCTCGTATTTT-AAAAAAA
1 -AAATTTTCGTGTTTTCAAAAAAA
47897440 TCATGTTTTC
Statistics
Matches: 138, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
33 9 0.07
34 9 0.07
35 9 0.07
36 33 0.24
37 37 0.27
38 27 0.20
40 14 0.10
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.43
Consensus pattern (37 bp):
AAATTTTCGTGTTTTCAAAAAAAAATTCGTGTTTCAT
Found at i:47897329 original size:36 final size:36
Alignment explanation
Indices: 47897232--47897439 Score: 145
Period size: 36 Copynumber: 5.6 Consensus size: 36
47897222 TCGTATATCG
* *
47897232 AAAATTTTCTTGTTTTCAAAAAAAAAAATTCCATGTTTCA
1 AAAATTTTC--GTTTT-TAAAAAAAAAATT-CGTGTTTCA
* * * *
47897272 TAAATTTCCGTGTTTTCAAAAAAAAATTCGTTTTTCA
1 AAAATTTTCGT-TTTTAAAAAAAAAATTCGTGTTTCA
** *
47897309 AAAATTTTCGTTTTTAAAAAAATTGA-CCGTGTTTCA
1 AAAATTTTCGTTTTTAAAAAAA-AAATTCGTGTTTCA
* * *
47897345 TAAATTTTCGTATTT--CAAAAAAATCTCGTGTTTC-
1 AAAATTTTCGTTTTTAAAAAAAAAAT-TCGTGTTTCA
** * *
47897379 AAAATTTTCGGGTTTTTTTAAAAACAATTCGTGTTTCT
1 AAAATTTTC--GTTTTTAAAAAAAAAATTCGTGTTTCA
*
47897417 AAAATTCTCGTATTTTAAAAAAA
1 AAAATTTTCGT-TTTTAAAAAAA
47897440 TCATGTTTTC
Statistics
Matches: 132, Mismatches: 26, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
33 1 0.01
34 12 0.09
35 8 0.06
36 38 0.29
37 35 0.27
38 28 0.21
39 3 0.02
40 7 0.05
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (36 bp):
AAAATTTTCGTTTTTAAAAAAAAAATTCGTGTTTCA
Found at i:47897412 original size:72 final size:67
Alignment explanation
Indices: 47897253--47897453 Score: 185
Period size: 72 Copynumber: 2.8 Consensus size: 67
47897243 GTTTTCAAAA
* * * *
47897253 AAAAAAATTCCATGTTTCATAAATTTCCGTGTTTTCAAAAAAAAAT-TCGTTTTTCAAAAATTTT
1 AAAAAAATTACGTGTTTCATAAATTTTCGT-ATTTC--AAAAAAATCTCG-TTTTC-AAAATTTT
47897317 CGTTTTT
61 CGTTTTT
47897324 AAAAAAATTGACCGTGTTTCATAAATTTTCGTATTTCAAAAAAATCTCGTGTTTCAAAATTTTCG
1 AAAAAAATT-A-CGTGTTTCATAAATTTTCGTATTTCAAAAAAATCTCGT-TTTCAAAATTTTC-
47897389 GGTTTTTTT
62 -G--TTTTT
* *
47897398 AAAAACAATT-CGTGTTTC-TAAAATTCTCGTATTTTAAAAAAATCAT-GTTTTCAAAA
1 AAAAA-AATTACGTGTTTCAT-AAATTTTCGTATTTCAAAAAAATC-TCGTTTTCAAAA
47897454 AAAGAAAAAG
Statistics
Matches: 113, Mismatches: 6, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
70 18 0.16
71 25 0.22
72 37 0.33
73 19 0.17
74 10 0.09
75 4 0.04
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (67 bp):
AAAAAAATTACGTGTTTCATAAATTTTCGTATTTCAAAAAAATCTCGTTTTCAAAATTTTCGTTT
TT
Found at i:47904344 original size:218 final size:218
Alignment explanation
Indices: 47903964--47904405 Score: 805
Period size: 218 Copynumber: 2.0 Consensus size: 218
47903954 TACTAGTGCA
* *
47903964 TTTCTTTTGGAGTTTTGAGGAAAAATCATTTACTAAATATATCAACAAAACTACTCATACTACAG
1 TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
47904029 TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
66 TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
*
47904094 GCCATCTTTGGCTTACTGTCTATATATTGCAGTTGGAGATTCCAAAACAGTTACTTGATCCAAAT
131 GCCATCTTTGGCTTACTGTCTATATATTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAAT
*
47904159 TTGTTCAATGCTTGGATGATGCT
196 TTGTTCAATGCTTGGATGATGCC
* *
47904182 TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATATATCGACAAAATTACTCATACTACAG
1 TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
*
47904247 TGTTTTTATGTCAACTGCAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
66 TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
47904312 GCCATCTTTGGCTTACTGTCTATACT-TTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAA
131 GCCATCTTTGGCTTACTGTCTATA-TATTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAA
47904376 TTTGTTCAATGCTTGGATGATGCC
195 TTTGTTCAATGCTTGGATGATGCC
47904400 TTTCTT
1 TTTCTT
47904406 AAATGTTTTG
Statistics
Matches: 216, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
218 215 1.00
219 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (218 bp):
TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
GCCATCTTTGGCTTACTGTCTATATATTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAAT
TTGTTCAATGCTTGGATGATGCC
Found at i:47924866 original size:31 final size:31
Alignment explanation
Indices: 47924786--47924866 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 31
47924776 TTTGATACAT
* *
47924786 AAACTTTAA-TTTGATGTAATTATATATATG
1 AAACTTTAATTTTGATTTAAATATATATATG
* * * * *
47924816 AAATTTTGATTGTGGTTTAAATGTATACT-TG
1 AAACTTTAATTTTGATTTAAATATATA-TATG
47924847 AAACTTTAATTTTGATTTAA
1 AAACTTTAATTTTGATTTAA
47924867 TCATACACAT
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
30 7 0.18
31 30 0.79
32 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (31 bp):
AAACTTTAATTTTGATTTAAATATATATATG
Found at i:47926068 original size:22 final size:21
Alignment explanation
Indices: 47926033--47926083 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
47926023 AAAATGGTAA
*
47926033 AATTAAA-AAATAT-TTTTAT
1 AATTAAATTAATATATTTTAT
47926052 -ATTAATATTAATATATTTTAT
1 AATTAA-ATTAATATATTTTAT
47926073 AATTAAATTAA
1 AATTAAATTAA
47926084 ATAAATAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 5 0.19
21 11 0.41
22 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTAAATTAATATATTTTAT
Found at i:47941154 original size:19 final size:18
Alignment explanation
Indices: 47941130--47941166 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
47941120 AGACATATGT
47941130 TTTTTAGTATTTTTATATA
1 TTTTTAGT-TTTTTATATA
*
47941149 TTTTTAGTTTTTTTTATA
1 TTTTTAGTTTTTTATATA
47941167 ACAAATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTTAGTTTTTTATATA
Found at i:47943145 original size:12 final size:12
Alignment explanation
Indices: 47943128--47943153 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47943118 TTAATTTAAA
47943128 ATTAAAATAATT
1 ATTAAAATAATT
47943140 ATTAAAATAATT
1 ATTAAAATAATT
47943152 AT
1 AT
47943154 GTGTTTGAGG
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTAAAATAATT
Found at i:47948251 original size:15 final size:15
Alignment explanation
Indices: 47948231--47948261 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47948221 TAAAATTATG
47948231 TACTTAAATTTTCAA
1 TACTTAAATTTTCAA
*
47948246 TACTTAATTTTTCAA
1 TACTTAAATTTTCAA
47948261 T
1 T
47948262 TTATCAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (15 bp):
TACTTAAATTTTCAA
Found at i:47948326 original size:12 final size:13
Alignment explanation
Indices: 47948299--47948331 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
47948289 GTTTAAACTA
*
47948299 ATAATTGTAGATT
1 ATAATTATAGATT
47948312 ATAATTATA-ATT
1 ATAATTATAGATT
47948324 ATAATTAT
1 ATAATTAT
47948332 CACAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (13 bp):
ATAATTATAGATT
Found at i:47951509 original size:22 final size:22
Alignment explanation
Indices: 47951464--47951505 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
47951454 ATGTGTTTCT
*
47951464 AAAAAGTTTGATTTATCTAATAA
1 AAAAAGTTTGATTTA-CAAATAA
47951487 AAAAAGTTTGATTTA-AAAT
1 AAAAAGTTTGATTTACAAAT
47951506 TAAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
23 15 0.83
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (22 bp):
AAAAAGTTTGATTTACAAATAA
Found at i:47957855 original size:41 final size:41
Alignment explanation
Indices: 47957790--47957870 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
47957780 ATTATTATAT
* *
47957790 TTTTGAGAAATCTTGCATAATTTAATATTATAATTGATTTG
1 TTTTGAGAAATCTTACATAATTTAATACTATAATTGATTTG
* * *
47957831 TTTTGA-AATATCTTACATATTTTAATGCTGTAATTGATTT
1 TTTTGAGAA-ATCTTACATAATTTAATACTATAATTGATTT
47957871 ATTAAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (41 bp):
TTTTGAGAAATCTTACATAATTTAATACTATAATTGATTTG
Found at i:47969772 original size:8 final size:8
Alignment explanation
Indices: 47969761--47969789 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
47969751 TTGCTCCTTA
47969761 TAAATTAT
1 TAAATTAT
47969769 TAAATTAT
1 TAAATTAT
47969777 TAAATTA-
1 TAAATTAT
47969784 TAAATT
1 TAAATT
47969790 TCCATATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TAAATTAT
Found at i:47978360 original size:58 final size:58
Alignment explanation
Indices: 47978233--47978421 Score: 281
Period size: 58 Copynumber: 3.3 Consensus size: 58
47978223 AACTACACTA
* * *
47978233 GTTTCCAGTTAAAACATTGTCTCATAGTGATCTCTGCCA-CACATCTTTATAGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
** * *
47978290 GTTTTGAGTTAAATCATAGTCTCATAGTGATCTCCGCCACCACATCTTTATCGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
* * *
47978348 GTTTCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTATTGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
47978406 GTTTCAAGTTAAAACA
1 GTTTCAAGTTAAAACA
47978422 CATCTTTTTC
Statistics
Matches: 118, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
57 34 0.29
58 84 0.71
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (58 bp):
GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
Found at i:47978436 original size:32 final size:32
Alignment explanation
Indices: 47978388--47978453 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
47978378 TCTCCGCCAC
47978388 CACATCTTTATTGAAACGGTTTCAAGTTAAAA
1 CACATCTTTATTGAAACGGTTTCAAGTTAAAA
*
47978420 CACATCTTT-TTCGAAACGGTTTCAATTTAAAA
1 CACATCTTTATT-GAAACGGTTTCAAGTTAAAA
47978452 CA
1 CA
47978454 TACTCATAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 2 0.06
32 30 0.94
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
CACATCTTTATTGAAACGGTTTCAAGTTAAAA
Found at i:47978479 original size:146 final size:147
Alignment explanation
Indices: 47978271--47978567 Score: 443
Period size: 146 Copynumber: 2.0 Consensus size: 147
47978261 GATCTCTGCC
** *
47978271 ACACATCTTTATAGAAACGGTTTTGAGTTAAATCATAGTCTCATAGTGATCTCCGCCACCACATC
1 ACACATCTTTATAGAAACGGTTTCAAGTTAAAACATAG-CTCATAGTGATCTCCGCCACCACATC
* * * **
47978336 TTTATCGAAACGGTTTCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTATTG
65 TTTATCAAAACGGTTTCAAGTTAAAACATAATCTCATAGTGATATCCGCCACCACATCTTTAGCG
47978401 AAACGGTTTCAAGTTAAA
130 AAACGGTTTCAAGTTAAA
* * *
47978419 ACACATCTTTTTCGAAACGGTTTCAATTTAAAACATA-CTCATAGTGATCTCCGCCACCACATCT
1 ACACATCTTTATAGAAACGGTTTCAAGTTAAAACATAGCTCATAGTGATCTCCGCCACCACATCT
* **
47978483 TTATCAAAATGGTTTCAAGTTAAAACATGGTCTCATAGTGATATCCGCCACCACATCTTTAGCGA
66 TTATCAAAACGGTTTCAAGTTAAAACATAATCTCATAGTGATATCCGCCACCACATCTTTAGCGA
*
47978548 AACGGTTTCAATTTAAA
131 AACGGTTTCAAGTTAAA
47978565 ACA
1 ACA
47978568 TACTCATAGT
Statistics
Matches: 134, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
146 103 0.77
148 31 0.23
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (147 bp):
ACACATCTTTATAGAAACGGTTTCAAGTTAAAACATAGCTCATAGTGATCTCCGCCACCACATCT
TTATCAAAACGGTTTCAAGTTAAAACATAATCTCATAGTGATATCCGCCACCACATCTTTAGCGA
AACGGTTTCAAGTTAAA
Found at i:47978497 original size:88 final size:90
Alignment explanation
Indices: 47978330--47978509 Score: 310
Period size: 88 Copynumber: 2.0 Consensus size: 90
47978320 TCTCCGCCAC
47978330 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCT
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCT
**
47978395 TTATTGAAACGGTTTCAAGTTAAAA
66 TTATCAAAACGGTTTCAAGTTAAAA
*
47978420 CACATCTTTTTCGAAACGGTTTCAATTTAAAACAT-A-CTCATAGTGATCTCCGCCACCACATCT
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCT
*
47978483 TTATCAAAATGGTTTCAAGTTAAAA
66 TTATCAAAACGGTTTCAAGTTAAAA
47978508 CA
1 CA
47978510 TGGTCTCATA
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
88 51 0.59
89 1 0.01
90 34 0.40
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (90 bp):
CACATCTTTATCGAAACGGTTTCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCT
TTATCAAAACGGTTTCAAGTTAAAA
Found at i:47978540 original size:58 final size:58
Alignment explanation
Indices: 47978420--47978844 Score: 446
Period size: 58 Copynumber: 7.4 Consensus size: 58
47978410 CAAGTTAAAA
* *
47978420 CACATCTTTTTCGAAACGGTTTCAATTTAAAACATA--CTCATAGTGATCTCCGCCAC
1 CACATCTTTATCAAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* * * *
47978476 CACATCTTTATCAAAATGGTTTCAAGTTAAAACATGGTCTCATAGTGATATCCGCCAC
1 CACATCTTTATCAAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* *
47978534 CACATCTTTAGCGAAACGGTTTCAATTTAAAACATA--CTCATAGTGATCTCCGGCTCCGCCAC
1 CACATCTTTATCAAAACGGTTTCAATTTAAAACATAGTCTCATAGTGA--T----CTCCGCCAC
* * * * * ** *
47978596 CGCATCTTTA-AAGAAACGGTTCCAAGTTAAAACAT-GGCTTCA-A-T--T-T---AAAA
1 CACATCTTTATCA-AAACGGTTTCAATTTAAAACATAGTC-TCATAGTGATCTCCGCCAC
* *
47978646 CAAATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCAAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* *
47978704 CACATCTTTATCGAAACAGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCAAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* * * * *
47978762 CATATCTTTATCAAAACGGTTTCAGTTTAAAATATAGTCTCATTGTGATCTCTGCCAC
1 CACATCTTTATCAAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
*
47978820 CACATCTTTATCAAAATGGTTTCAA
1 CACATCTTTATCAAAACGGTTTCAA
47978845 CCAGACGACA
Statistics
Matches: 305, Mismatches: 42, Indels: 42
0.78 0.11 0.11
Matches are distributed among these distances:
50 32 0.10
51 3 0.01
52 1 0.00
53 1 0.00
54 1 0.00
55 1 0.00
56 41 0.13
58 182 0.60
62 38 0.12
63 2 0.01
64 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (58 bp):
CACATCTTTATCAAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
Found at i:47985930 original size:32 final size:31
Alignment explanation
Indices: 47985894--47986002 Score: 96
Period size: 32 Copynumber: 3.4 Consensus size: 31
47985884 TAGAGGAATA
47985894 TTGTTATCATTTAACAAAATGCTAGTTGATAT
1 TTGTTATCATTTAACAAAATG-TAGTTGATAT
*
47985926 TTGTTATCATTTTACAAAAT-TAACGTTG-TAAT
1 TTGTTATCATTTAACAAAATGT-A-GTTGAT-AT
* * * * *
47985958 TTGTTATAATTTCACAAAATGAAAAGCTAATAT
1 TTGTTATCATTTAACAAAATG--TAGTTGATAT
47985991 TTGTTATCATTT
1 TTGTTATCATTT
47986003 CACAGAACCG
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
30 1 0.02
31 2 0.03
32 43 0.68
33 15 0.24
34 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (31 bp):
TTGTTATCATTTAACAAAATGTAGTTGATAT
Found at i:47999231 original size:19 final size:19
Alignment explanation
Indices: 47999207--47999247 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
47999197 ATCATATTGC
47999207 ATCTAGTTGGTGTGGAACT
1 ATCTAGTTGGTGTGGAACT
*
47999226 ATCTAGTTGGTGTGGAGCT
1 ATCTAGTTGGTGTGGAACT
47999245 ATC
1 ATC
47999248 CTTGAGATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.37
Consensus pattern (19 bp):
ATCTAGTTGGTGTGGAACT
Found at i:48015957 original size:24 final size:24
Alignment explanation
Indices: 48015925--48015971 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
48015915 ATGAGACACT
*
48015925 GACCTTTTCATTGCTATCCTTTTC
1 GACCTTTTCATTGATATCCTTTTC
*
48015949 GACCTTTTCATTGATATCTTTTT
1 GACCTTTTCATTGATATCCTTTT
48015972 TAGATAAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.09, T:0.53
Consensus pattern (24 bp):
GACCTTTTCATTGATATCCTTTTC
Found at i:48016019 original size:41 final size:39
Alignment explanation
Indices: 48015940--48016121 Score: 168
Period size: 41 Copynumber: 4.5 Consensus size: 39
48015930 TTTCATTGCT
* * **
48015940 ATCCTTTTCGACCTTTTCA-TTGATATCTTTTTTAGATA
1 ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATA
*
48015978 AGGTCATTTTCAACCTTTTCATTTGATATCCTTTTCGGATAA
1 A--TCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGAT-A
* * *
48016020 CACCCTTTTCAACCTTTTCATTTAATATCCCTTTTCGAATA
1 -ATCCTTTTCAACCTTTTCATTTGATAT-CCTTTTCGGATA
* * * * *
48016061 TATCCTTTTCAACATTTTCATGTGTTATCCCTTTCGGGTA
1 -ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATA
48016101 ACTCTCTTTTCAACCTTTTCA
1 A-TC-CTTTTCAACCTTTTCA
48016122 AGGATTCGGG
Statistics
Matches: 117, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 27 0.23
41 76 0.65
42 11 0.09
43 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.08, T:0.47
Consensus pattern (39 bp):
ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATA
Found at i:48030061 original size:11 final size:11
Alignment explanation
Indices: 48030047--48030089 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
48030037 TACAATATCT
*
48030047 AAATAACAACA
1 AAATAATAACA
*
48030058 AAATAATAACG
1 AAATAATAACA
*
48030069 ATATAATAACA
1 AAATAATAACA
*
48030080 AAATCATAAC
1 AAATAATAAC
48030090 CACAAAACAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.65, C:0.14, G:0.02, T:0.19
Consensus pattern (11 bp):
AAATAATAACA
Found at i:48030065 original size:22 final size:22
Alignment explanation
Indices: 48030047--48030089 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
48030037 TACAATATCT
48030047 AAATAACAACAAAATAATAACG
1 AAATAACAACAAAATAATAACG
* * *
48030069 ATATAATAACAAAATCATAAC
1 AAATAACAACAAAATAATAAC
48030090 CACAAAACAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.14, G:0.02, T:0.19
Consensus pattern (22 bp):
AAATAACAACAAAATAATAACG
Found at i:48034662 original size:29 final size:29
Alignment explanation
Indices: 48034620--48034676 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
48034610 TTTAATTCTT
* * *
48034620 TTTATTAATGAAGGGATTAAATTGATCCG
1 TTTAATAATCAAGGGACTAAATTGATCCG
*
48034649 TTTAATAATCAAGGGACTAACTTGATCC
1 TTTAATAATCAAGGGACTAAATTGATCC
48034677 AACTTCAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (29 bp):
TTTAATAATCAAGGGACTAAATTGATCCG
Found at i:48034739 original size:31 final size:30
Alignment explanation
Indices: 48034690--48034768 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 30
48034680 TTCAACATTT
*
48034690 TAAAATTTTAAAATATTTTAATTAAAACCTA
1 TAAAATTTTGAAA-ATTTTAATTAAAACCTA
* *
48034721 TAAAAGTTTTGAAAATTTTAATTAAACCCTT
1 TAAAA-TTTTGAAAATTTTAATTAAAACCTA
*
48034752 TAAAACTTATGAAAATT
1 TAAAA-TTTTGAAAATT
48034769 CTCATTAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 35 0.83
32 7 0.17
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.41
Consensus pattern (30 bp):
TAAAATTTTGAAAATTTTAATTAAAACCTA
Found at i:48034776 original size:31 final size:31
Alignment explanation
Indices: 48034708--48034776 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
48034698 TAAAATATTT
* * *
48034708 TAATTAAAACCTATAAAAGTTTTGAAAATTT
1 TAATTAAAACCTATAAAACTTATGAAAATTC
* *
48034739 TAATTAAACCCTTTAAAACTTATGAAAATTC
1 TAATTAAAACCTATAAAACTTATGAAAATTC
*
48034770 TCATTAA
1 TAATTAA
48034777 TTTCGTCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (31 bp):
TAATTAAAACCTATAAAACTTATGAAAATTC
Found at i:48037536 original size:27 final size:27
Alignment explanation
Indices: 48037498--48037551 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
48037488 TTGTATAAAA
48037498 CCTAGACCATGTATGATAAACCAAATT
1 CCTAGACCATGTATGATAAACCAAATT
*
48037525 CCTAGGCCATGTATGATAAACCAAATT
1 CCTAGACCATGTATGATAAACCAAATT
48037552 ATCTTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (27 bp):
CCTAGACCATGTATGATAAACCAAATT
Found at i:48042445 original size:44 final size:45
Alignment explanation
Indices: 48042360--48042453 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 45
48042350 TTGTTCACGA
* *
48042360 ATTTTGTTAAATTAAATTTTATAATACTGTAAATTAGTTCGAGCT
1 ATTTTGTTAAATTAAATTTTATAACACTGTAAATTAATTCGAGCT
* * *
48042405 GTTTTGTTAAATTAAA-TTTATAACATTGTAATTTAATTCGAGCT
1 ATTTTGTTAAATTAAATTTTATAACACTGTAAATTAATTCGAGCT
48042449 ATTTT
1 ATTTT
48042454 AAGATCATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 28 0.65
45 15 0.35
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (45 bp):
ATTTTGTTAAATTAAATTTTATAACACTGTAAATTAATTCGAGCT
Found at i:48044563 original size:28 final size:28
Alignment explanation
Indices: 48044531--48044587 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
48044521 ACTTAATATT
* * * *
48044531 AGAGGTTTTGATGTAAAATTATATTTTA
1 AGAGGATTTGACGAAAAATTACATTTTA
48044559 AGAGGATTTGACGAAAAATTACATTTTA
1 AGAGGATTTGACGAAAAATTACATTTTA
48044587 A
1 A
48044588 AAATTCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.39
Consensus pattern (28 bp):
AGAGGATTTGACGAAAAATTACATTTTA
Found at i:48051431 original size:18 final size:18
Alignment explanation
Indices: 48051387--48051434 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
48051377 AAATTCCAAA
*
48051387 AAAATTATAAAAATTATTT
1 AAAATTA-AAAAAATATTT
48051406 AAACATTAAAAAAATA-TT
1 AAA-ATTAAAAAAATATTT
48051424 ATAAATTAAAA
1 A-AAATTAAAA
48051435 TTTTTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.38
19 12 0.46
20 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTAAAAAAATATTT
Found at i:48054779 original size:28 final size:30
Alignment explanation
Indices: 48054747--48054802 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
48054737 TAACATTTAA
48054747 AAGATG-AATTTT-TTTTTC-TGTAAGACTG
1 AAGATGTAATTTTCTTTTTCAT-TAAGACTG
*
48054775 AAGATGTGATTTTCTTTTTCATTAAGAC
1 AAGATGTAATTTTCTTTTTCATTAAGAC
48054803 AGAATGCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.25
29 5 0.21
30 12 0.50
31 1 0.04
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (30 bp):
AAGATGTAATTTTCTTTTTCATTAAGACTG
Found at i:48061509 original size:77 final size:77
Alignment explanation
Indices: 48061418--48061563 Score: 247
Period size: 77 Copynumber: 1.9 Consensus size: 77
48061408 TCCCATCAGT
* * *
48061418 ACTACATGCACATAAGTGCATTCACTATTCCATGCAATATCTCATTTGTCACATGCATTACGAAC
1 ACTACATGCACATAAATGCATTCACTATTCCATGCAATATCTCATATGTCACAGGCATTACGAAC
48061483 CTGGTCCCCATC
66 CTGGTCCCCATC
* *
48061495 ACTACATGCACATAAATGCATTCATTATTCCATGCAATATCTCATATGTCACAGGCGTTACGAAC
1 ACTACATGCACATAAATGCATTCACTATTCCATGCAATATCTCATATGTCACAGGCATTACGAAC
48061560 CTGG
66 CTGG
48061564 ACCATCATCT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 64 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (77 bp):
ACTACATGCACATAAATGCATTCACTATTCCATGCAATATCTCATATGTCACAGGCATTACGAAC
CTGGTCCCCATC
Found at i:48068388 original size:56 final size:51
Alignment explanation
Indices: 48068327--48068491 Score: 172
Period size: 50 Copynumber: 3.2 Consensus size: 51
48068317 AGATCTCATA
** *
48068327 TAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCCCACG
1 TAAGACCATGTCTGGGACATGGCATTGGCA--ACCGA-G--ATAAGAGGTCCCACG
* *
48068383 TAAGACCATGTCTGGGACATGGCGTTGGC-ACCGAGATAAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATAAGAGGTCCCACG
* * * ** *
48068433 TAAGACCATGTCTGGGACATGGCATCGGC-ACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATAAGAGGTCCCACG
48068483 TAAGACCAT
1 TAAGACCAT
48068492 ACCATGAGAA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
50 64 0.67
52 1 0.01
53 3 0.03
56 28 0.29
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (51 bp):
TAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATAAGAGGTCCCACG
Found at i:48070205 original size:16 final size:16
Alignment explanation
Indices: 48070184--48070221 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
48070174 TTTGGTTCGC
48070184 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
48070200 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
48070216 CGTAAT
1 TGTAAT
48070222 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:48070290 original size:44 final size:46
Alignment explanation
Indices: 48070203--48070295 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
48070193 ATAGAGGTGT
*
48070203 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
*
48070249 AATGGAATAGAGGTGTAATA-GT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
48070293 AAT
1 AAT
48070296 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 24 0.53
45 2 0.04
46 19 0.42
ACGTcount: A:0.29, C:0.03, G:0.30, T:0.38
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:48070291 original size:39 final size:43
Alignment explanation
Indices: 48070203--48070308 Score: 139
Period size: 39 Copynumber: 2.5 Consensus size: 43
48070193 ATAGAGGTGT
* *
48070203 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGTGTAATA-GTAATTCTTGTGTTTGGTT--ATGG
48070249 AATGGAATAGAGGTGTAATAGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGTGTAATAGTAATTCTTGTGTTTGGTTATGG
48070288 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGTGTAATAG
48070309 CATAAGGAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
39 22 0.38
40 1 0.02
43 1 0.02
44 13 0.22
45 2 0.03
46 19 0.33
ACGTcount: A:0.30, C:0.03, G:0.31, T:0.36
Consensus pattern (43 bp):
AATGGAATAGAGGTGTAATAGTAATTCTTGTGTTTGGTTATGG
Found at i:48070745 original size:117 final size:119
Alignment explanation
Indices: 48070435--48070781 Score: 610
Period size: 120 Copynumber: 2.9 Consensus size: 119
48070425 TTAATCATAT
48070435 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAA-ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
48070500 AAATATTCTTATATGAATTTACTAAAATCGTAATATATAATAATATAAAATATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
48070555 TTTAAAATAATTATTATTAAAT-TATATTTAATAATAATATATAATTTAATAAAATTCTTAATAT
1 TTT-AAATAATTATTATTAAATATA-ATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
48070619 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
48070675 TTT-AA-AATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTTAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
*
48070738 AATATTCTTATATGAATTTACTAAAATCATAATGTATAATACTA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
48070782 AAATCATAAT
Statistics
Matches: 219, Mismatches: 5, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
117 97 0.44
118 4 0.02
119 2 0.01
120 114 0.52
121 2 0.01
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (119 bp):
TTTAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:48070778 original size:56 final size:55
Alignment explanation
Indices: 48070595--48070778 Score: 180
Period size: 56 Copynumber: 3.2 Consensus size: 55
48070585 ATAATAATAT
48070595 ATAATT-TAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATC
1 ATAATTATAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATC
* * * *
48070649 ATAATATATAATACTATAAAAT-ATAAT-TTAAAATTATTATTAAATAT-AATTTAATAAAAATA
1 ATAAT-TAT-A-A-TA-AAATTCTTAATATT-AAA-TATTCTT--ATATGAATTTACT-AAAAT-
*
48070711 T
55 C
48070712 ATAATT-TAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATC
1 ATAATTATAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATC
48070766 ATAATGTATAATA
1 ATAAT-TATAATA
48070779 CTAAAATCAT
Statistics
Matches: 103, Mismatches: 10, Indels: 32
0.71 0.07 0.22
Matches are distributed among these distances:
54 10 0.10
55 11 0.11
56 13 0.13
57 11 0.11
58 12 0.12
59 12 0.12
60 11 0.11
61 8 0.08
62 10 0.10
63 5 0.05
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (55 bp):
ATAATTATAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATC
Found at i:48070780 original size:21 final size:21
Alignment explanation
Indices: 48070756--48070796 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
48070746 TATATGAATT
*
48070756 TACTAAAATCATAATGTATAA
1 TACTAAAATCATAATATATAA
48070777 TACTAAAATCATAATATATA
1 TACTAAAATCATAATATATA
48070797 TAATTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (21 bp):
TACTAAAATCATAATATATAA
Found at i:48080602 original size:17 final size:19
Alignment explanation
Indices: 48080574--48080608 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
48080564 AGGGTATTTT
48080574 ATAAAAATAATA-TAAAAA
1 ATAAAAATAATATTAAAAA
48080592 ATAAAAA-AATATTAAAA
1 ATAAAAATAATATTAAAA
48080609 TAGTATAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
ATAAAAATAATATTAAAAA
Found at i:48081141 original size:13 final size:13
Alignment explanation
Indices: 48081108--48081159 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
48081098 TAATACATTT
* *
48081108 CAAATATAATGTA
1 CAAAAATAATATA
*
48081121 CTAAAATAATATA
1 CAAAAATAATATA
*
48081134 -AAATAATAAAATA
1 CAAA-AATAATATA
48081147 CAAAAATAATATA
1 CAAAAATAATATA
48081160 TTTATATTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
12 2 0.06
13 26 0.84
14 3 0.10
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (13 bp):
CAAAAATAATATA
Found at i:48081142 original size:26 final size:25
Alignment explanation
Indices: 48081109--48081159 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
48081099 AATACATTTC
** *
48081109 AAATATAATGTACTAAAATAATATA
1 AAATATAAAATACAAAAATAATATA
48081134 AAATAATAAAATACAAAAATAATATA
1 AAAT-ATAAAATACAAAAATAATATA
48081160 TTTATATTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATATAAAATACAAAAATAATATA
Found at i:48081290 original size:154 final size:150
Alignment explanation
Indices: 48080855--48081670 Score: 1066
Period size: 155 Copynumber: 5.3 Consensus size: 150
48080845 AGTGTGTGTT
** * * * *
48080855 TTTTATTGAAAGTAATAAAATCCGAAAAAAAATACAAATAAATGGTCGAAATAAG-GATTTTTTT
1 TTTT-TTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAAGAG-TTTTTTT
* *
48080919 AAATTTATTTAAAACACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
64 AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
* *
48080984 TAATAAAATTAGAAAGTAGTAAA
129 TAATAAAA-TAGAAAATAGTATA
* *
48081007 TTTTTTAAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGAAATAA-AGATTTTTTAC
1 TTTTTTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAAGAG-TTTTTT--
* * * *
48081071 TAAATTTATTTAAAAAACACAATTAATTAATACATTTCAAATATAATGTACTAAAATAATATAAA
63 TAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
* *
48081136 ATAATAAAATACAAAAATAATATA
128 ATAATAAAATA-GAAAATAGTATA
*
48081160 TTTATATTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAATGGCCGAAATAAGAGTTTTTTT
1 TTT-T-TTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTT
* *
48081225 TAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
64 AAATTTATTT-AAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
48081290 ATAATAAAATTAGAAAATAGTATA
128 ATAATAAAA-TAGAAAATAGTATA
* * *
48081314 TTTTTTTAAAGTAATAAACTCTTTGGGAAAAAATACGAACAAAGGGCCGAAATAATG-GTTTTTT
1 TTTTTTGAAAGTAATAAAATC--CGGGAAAAAATACGAACAAAGGGCCGAAATAA-GAGTTTTTT
* *
48081378 TAAAATTTATTTAAAAAAACACAGTAAATTAATACATTTCAAACATAATGTAATAAAATAATGTA
63 T-AAATTTATTT-AAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTA
*
48081443 AAATAATAAAATACGAAAATAATATA
126 AAATAATAAAATA-GAAAATAGTATA
* * * *
48081469 TTTTTATTGAAAATAATAAAATCTGGGAAAAAATACGAACAAAGTGCCGAAATAAGAATTTTTTT
1 -TTTT-TTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTT
* *
48081534 -AATTTATTT-AAAAACACACTAAATTAGTATATTTCAAACATAATGTACTAAAATAATGTAAAA
64 AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
* *
48081597 TAAAAAAATAGAAAATAGTACA
129 TAATAAAATAGAAAATAGTATA
* * * * *
48081619 TTTTTTAAAAGTAATCAAATCCGAGAAAAAATACGAAAAAAAGGCCGAAATA
1 TTTTTTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATA
48081671 GGAACAATTG
Statistics
Matches: 591, Mismatches: 56, Indels: 38
0.86 0.08 0.06
Matches are distributed among these distances:
148 40 0.07
149 4 0.01
150 10 0.02
151 110 0.19
152 21 0.04
153 99 0.17
154 113 0.19
155 174 0.29
156 6 0.01
157 14 0.02
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.30
Consensus pattern (150 bp):
TTTTTTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTTAA
ATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATA
ATAAAATAGAAAATAGTATA
Found at i:48081451 original size:309 final size:304
Alignment explanation
Indices: 48080858--48081670 Score: 1197
Period size: 309 Copynumber: 2.7 Consensus size: 304
48080848 GTGTGTTTTT
** * * * *
48080858 TATTGAAAGTAATAAAATCCGAAAAAAAATACAAATAAATGGTCGAAATAAG-GATTTTTTTAAA
1 TATTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAATGGCCGAAATAAGAG-TTTTTTTTAA
*
48080922 TTTATTTAAAACACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
65 TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* *
48080987 TAAAATTAGAAAGTAGTAAATTTTTTAAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGC
130 TAAAATTAGAAAATAGTAAATTTTTTAAAAGTAAT-AAATCCGGGAAAAAATACGAACAAAGGGC
* *
48081052 CGAAATAAAGATTTTTTACTAAATTTATTTAAAAAACACAATTAATTAATACATTTCAAATATAA
194 CGAAATAAAGATTTTTTAC-AAATTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAA
*
48081117 TGTACTAAAATAATATAAAATAATAAAATACAAAAATAATATATTTA
258 TGTAATAAAATAATATAAAATAATAAAATACAAAAATAATATATTTA
48081164 TATTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAATGGCCGAAATAAGAGTTTTTTTTAAT
1 TATTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAATGGCCGAAATAAGAGTTTTTTTTAAT
48081229 TTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
66 TTATTT-AAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* * *
48081294 TAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAACTCTTTGGGAAAAAATACGAACAAAGG
130 TAAAATTAGAAAATAGTAAATTTTTTAAAAGTAATAAA-TC--CGGGAAAAAATACGAACAAAGG
* * *
48081359 GCCGAAATAATGGTTTTTTTA-AAATTTATTTAAAAAAACACAGTAAATTAATACATTTCAAACA
192 GCCGAAATAA-AGATTTTTTACAAATTTATTT-AAAAAACACAATAAATTAATACATTTCAAACA
* * *
48081423 TAATGTAATAAAATAATGTAAAATAATAAAATACGAAAATAATATATTTT
255 TAATGTAATAAAATAATATAAAATAATAAAATACAAAAATAATATATTTA
* * *
48081473 TATTGAAAATAATAAAATCTGGGAAAAAATACGAACAAA-GTGCCGAAATAAGA-ATTTTTTTAA
1 TATTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAATG-GCCGAAATAAGAGTTTTTTTTAA
* * *
48081536 TTTATTT-AAAAACACACTAAATTAGTATATTTCAAACATAATGTACTAAAATAATGTAAAATAA
65 TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* * * * *
48081600 -AAAAATAGAAAATAGTACATTTTTTAAAAGTAATCAAATCCGAGAAAAAATACGAAAAAAAGGC
130 TAAAATTAGAAAATAGTAAATTTTTTAAAAGTAAT-AAATCCGGGAAAAAATACGAACAAAGGGC
48081664 CGAAATA
194 CGAAATA
48081671 GGAACAATTG
Statistics
Matches: 464, Mismatches: 34, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
303 27 0.06
305 33 0.07
306 123 0.27
307 92 0.20
308 27 0.06
309 154 0.33
310 8 0.02
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (304 bp):
TATTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAATGGCCGAAATAAGAGTTTTTTTTAAT
TTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
AAAATTAGAAAATAGTAAATTTTTTAAAAGTAATAAATCCGGGAAAAAATACGAACAAAGGGCCG
AAATAAAGATTTTTTACAAATTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGT
AATAAAATAATATAAAATAATAAAATACAAAAATAATATATTTA
Found at i:48083173 original size:16 final size:17
Alignment explanation
Indices: 48083141--48083173 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
48083131 AACATAGCAA
*
48083141 ATAATATGTTATTATTG
1 ATAATATGTTATCATTG
48083158 ATAATAT-TTATCATTG
1 ATAATATGTTATCATTG
48083174 CAACATCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
ATAATATGTTATCATTG
Found at i:48093666 original size:46 final size:45
Alignment explanation
Indices: 48093596--48093704 Score: 175
Period size: 46 Copynumber: 2.4 Consensus size: 45
48093586 AGTACTTCTG
*
48093596 ATCAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTA
1 ATCAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTA
*
48093641 ATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTG
1 ATC-AGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTA
*
48093687 ATCAGGGAC-AAGTGATAA
1 ATCAGTGACAAAGTGATAA
48093705 ATGATCATAC
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
44 9 0.15
45 8 0.13
46 43 0.72
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (45 bp):
ATCAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTA
Found at i:48097059 original size:24 final size:24
Alignment explanation
Indices: 48097024--48097098 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
48097014 ATAATTACGC
*
48097024 TTATTT-TCTTTTAACTTCATGAA
1 TTATTTATTTTTTAACTTCATGAA
48097047 TTATTTATTTTTT-A----AT-AA
1 TTATTTATTTTTTAACTTCATGAA
*
48097065 -TAGTTATTTTTTAACTTCATGAA
1 TTATTTATTTTTTAACTTCATGAA
48097088 TTATTTATTTT
1 TTATTTATTTT
48097099 ATTATTTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 15
0.69 0.05 0.25
Matches are distributed among these distances:
17 11 0.27
18 3 0.07
19 2 0.05
22 2 0.05
23 9 0.22
24 14 0.34
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (24 bp):
TTATTTATTTTTTAACTTCATGAA
Found at i:48097499 original size:26 final size:26
Alignment explanation
Indices: 48097466--48097535 Score: 97
Period size: 28 Copynumber: 2.7 Consensus size: 26
48097456 AGTAACATTT
*
48097466 AAAA-TTATATATAATAGATGTTGAA
1 AAAACTTATATATAATAGATGTTCAA
*
48097491 AAAACTTATATATATAATAGTTGTTCAA
1 AAAAC-T-TATATATAATAGATGTTCAA
48097519 AAAACTTATATATAATA
1 AAAACTTATATATAATA
48097536 AATGAATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.10
26 11 0.28
27 2 0.05
28 23 0.57
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.37
Consensus pattern (26 bp):
AAAACTTATATATAATAGATGTTCAA
Found at i:48097507 original size:28 final size:28
Alignment explanation
Indices: 48097471--48097532 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
48097461 CATTTAAAAT
*
48097471 TATATATAATAGATGTTGAAAAAACTTA
1 TATATATAATAGATGTTCAAAAAACTTA
*
48097499 TATATATAATAGTTGTTCAAAAAACTTA
1 TATATATAATAGATGTTCAAAAAACTTA
48097527 TATATA
1 TATATA
48097533 ATAAATGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (28 bp):
TATATATAATAGATGTTCAAAAAACTTA
Found at i:48097558 original size:16 final size:18
Alignment explanation
Indices: 48097527--48097560 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
48097517 AAAAAACTTA
48097527 TATATAATAAATGAATAT
1 TATATAATAAATGAATAT
48097545 TATAT-ATAAA-GAATAT
1 TATATAATAAATGAATAT
48097561 CTTTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TATATAATAAATGAATAT
Found at i:48107987 original size:27 final size:26
Alignment explanation
Indices: 48107957--48108015 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
48107947 TGTCTTACCG
48107957 TTTTAATGAT-TTTTTATATTTTTAAAT
1 TTTTAA-GATATTTTTATATTTTT-AAT
* * *
48107984 TTTTTAGATATTTTTCTATTTTTATT
1 TTTTAAGATATTTTTATATTTTTAAT
48108010 TTTTAA
1 TTTTAA
48108016 ATTATAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.69
Consensus pattern (26 bp):
TTTTAAGATATTTTTATATTTTTAAT
Found at i:48115765 original size:13 final size:13
Alignment explanation
Indices: 48115749--48115773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48115739 TAAATTCAAA
48115749 AAATAAAAATATC
1 AAATAAAAATATC
48115762 AAATAAAAATAT
1 AAATAAAAATAT
48115774 TATTACAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAAATATC
Found at i:48121120 original size:15 final size:15
Alignment explanation
Indices: 48121102--48121136 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
48121092 ACAGGGTCCA
48121102 TCTCCGAGGGTTGCC
1 TCTCCGAGGGTTGCC
* *
48121117 TCTCCTAGGGTTGCT
1 TCTCCGAGGGTTGCC
48121132 TCTCC
1 TCTCC
48121137 AAGAGCTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.34, G:0.26, T:0.34
Consensus pattern (15 bp):
TCTCCGAGGGTTGCC
Found at i:48121160 original size:18 final size:17
Alignment explanation
Indices: 48121133--48121181 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
48121123 AGGGTTGCTT
48121133 CTCCAAGAGCTGCTTCCC
1 CTCC-AGAGCTGCTTCCC
*
48121151 CTCCACGAGCTGCATCCC
1 CTCCA-GAGCTGCTTCCC
48121169 CT--AGAGCTGCTTC
1 CTCCAGAGCTGCTTC
48121182 ACCACCTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 9 0.32
16 1 0.04
17 1 0.04
18 17 0.61
ACGTcount: A:0.16, C:0.43, G:0.18, T:0.22
Consensus pattern (17 bp):
CTCCAGAGCTGCTTCCC
Found at i:48121222 original size:15 final size:15
Alignment explanation
Indices: 48121204--48121263 Score: 93
Period size: 15 Copynumber: 4.0 Consensus size: 15
48121194 TCCACCCCCT
*
48121204 CGAGCTGCTTCTCCA
1 CGAGTTGCTTCTCCA
48121219 CGAGTTGCTTCTCCA
1 CGAGTTGCTTCTCCA
48121234 CGAGTTGCTTCTCCA
1 CGAGTTGCTTCTCCA
* *
48121249 AGAGGTGCTTCTCCA
1 CGAGTTGCTTCTCCA
48121264 AAACCTGCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.15, C:0.33, G:0.22, T:0.30
Consensus pattern (15 bp):
CGAGTTGCTTCTCCA
Found at i:48137170 original size:4 final size:4
Alignment explanation
Indices: 48137163--48137188 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
48137153 ATAAATAACT
48137163 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
48137189 AAACATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:48141036 original size:22 final size:22
Alignment explanation
Indices: 48141011--48141071 Score: 59
Period size: 26 Copynumber: 2.6 Consensus size: 22
48141001 GTGAGGTATA
*
48141011 TAAAATAATAATGTGATTAAAT
1 TAAAATAATAATGTAATTAAAT
48141033 TAAAATGTTATATAATGTAATTAAAT
1 TAAAA---TA-ATAATGTAATTAAAT
**
48141059 TAAGTTAATAATG
1 TAAAATAATAATG
48141072 GATCCTAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 11 0.34
23 2 0.06
25 2 0.06
26 17 0.53
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (22 bp):
TAAAATAATAATGTAATTAAAT
Found at i:48154943 original size:13 final size:13
Alignment explanation
Indices: 48154927--48154951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48154917 TCTGGAAATG
48154927 TGATTTTGAAAAA
1 TGATTTTGAAAAA
48154940 TGATTTTGAAAA
1 TGATTTTGAAAA
48154952 TTTTAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
TGATTTTGAAAAA
Found at i:48155226 original size:33 final size:34
Alignment explanation
Indices: 48155130--48155226 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 34
48155120 TTAATATTTT
48155130 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-T-AATTTTAAATATTTAATTAAGC
* *
48155165 AATAAATATTAATTAATTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTAATTTTAAATATTTAATTAAGC
48155198 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTA-ATTTTAAATATTTAA
48155227 ATATAACCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
31 9 0.17
32 7 0.13
33 13 0.25
34 10 0.19
35 6 0.12
36 3 0.06
37 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (34 bp):
AATATATAAATTAATTTTAAATATTTAATTAAGC
Found at i:48155241 original size:21 final size:21
Alignment explanation
Indices: 48155215--48155266 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
48155205 AAATTATATT
48155215 TTAAATATTTAAATATAACCA
1 TTAAATATTTAAATATAACCA
48155236 TTAAATATTTAAATATAACCA
1 TTAAATATTTAAATATAACCA
48155257 TTAAATATTT
1 TTAAATATTT
48155267 GTAATTAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAATATTTAAATATAACCA
Found at i:48155466 original size:13 final size:13
Alignment explanation
Indices: 48155448--48155472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48155438 TCATAAGTGC
48155448 TTTAAGCTAAAAA
1 TTTAAGCTAAAAA
48155461 TTTAAGCTAAAA
1 TTTAAGCTAAAA
48155473 GCAGCTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
TTTAAGCTAAAAA
Found at i:48156257 original size:6 final size:6
Alignment explanation
Indices: 48156246--48156289 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
48156236 AGAAAACTCT
48156246 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AA
48156290 GTAGATAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:48166829 original size:149 final size:149
Alignment explanation
Indices: 48166559--48166860 Score: 586
Period size: 149 Copynumber: 2.0 Consensus size: 149
48166549 GTCACTCGCG
48166559 GAGTTTCCATTTGCCAGCTTTCTACATTCGGTATAATCTTGGCTTCTATTTTGATATGCTGATCA
1 GAGTTTCCATTTGCCAGCTTTCTACATTCGGTATAATCTTGGCTTCTATTTTGATATGCTGATCA
*
48166624 CATTGTTCTTTTATTGATGCAATGTCTGGATTATTTGAATGGTTCACTTGAAATAACCTGGTTTA
66 CATTGTTCTTTTATTGATGCAATGTCTGGATTAGTTGAATGGTTCACTTGAAATAACCTGGTTTA
48166689 CTATGTATTGGCATGATAA
131 CTATGTATTGGCATGATAA
48166708 GAGTTTCCATTTGCCAGCTTTCTACATTCGGTATAATCTTGGCTTCTATTTTGATATGCTGATCA
1 GAGTTTCCATTTGCCAGCTTTCTACATTCGGTATAATCTTGGCTTCTATTTTGATATGCTGATCA
*
48166773 CATTGTTCTTTTATTGATGCAATGTCTGGATTAGTTGAATGGTTCTCTTGAAATAACCTGGTTTA
66 CATTGTTCTTTTATTGATGCAATGTCTGGATTAGTTGAATGGTTCACTTGAAATAACCTGGTTTA
48166838 CTATGTATTGGCATGATAA
131 CTATGTATTGGCATGATAA
48166857 GAGT
1 GAGT
48166861 CTGCTACTAA
Statistics
Matches: 151, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (149 bp):
GAGTTTCCATTTGCCAGCTTTCTACATTCGGTATAATCTTGGCTTCTATTTTGATATGCTGATCA
CATTGTTCTTTTATTGATGCAATGTCTGGATTAGTTGAATGGTTCACTTGAAATAACCTGGTTTA
CTATGTATTGGCATGATAA
Found at i:48172594 original size:20 final size:19
Alignment explanation
Indices: 48172558--48172701 Score: 69
Period size: 20 Copynumber: 7.1 Consensus size: 19
48172548 GTGAGTATTA
*
48172558 TTTTATTATTTTCTTATAAT
1 TTTTAATATTTT-TTATAAT
48172578 TTTTAATATATTTTTATAAT
1 TTTTAATAT-TTTTTATAAT
** * *
48172598 TTCTT-ATAATTCATAATGAT
1 TT-TTAAT-ATTTTTTATAAT
48172618 TATCTATAAT-TTTTTTATAAT
1 T-T-T-TAATATTTTTTATAAT
* * * *
48172639 ACTTTAAAATATTTAATAATT
1 -TTTTAATATTTTTTATAA-T
48172660 ATCTTTAAT-TTTTTTATAAT
1 -T-TTTAATATTTTTTATAAT
*
48172680 TCTTAATATTTTTTTATAAT
1 TTTTAATA-TTTTTTATAAT
48172700 TT
1 TT
48172702 CGTATAACTT
Statistics
Matches: 93, Mismatches: 19, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
18 5 0.05
19 4 0.04
20 48 0.52
21 28 0.30
22 6 0.06
23 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTTAATATTTTTTATAAT
Found at i:48172634 original size:41 final size:40
Alignment explanation
Indices: 48172588--48172685 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 40
48172578 TTTTAATATA
* *
48172588 TTTTTATAATTTCTTATAAT-TCATAATGATTATCTATAATT
1 TTTTTATAA-TTCTTAAAATAT-ATAATAATTATCTATAATT
* * *
48172629 TTTTTATAATACTTTAAAATATTTAATAATTATCTTTAATT
1 TTTTTATAATTC-TTAAAATATATAATAATTATCTATAATT
48172670 TTTTTATAATTCTTAA
1 TTTTTATAATTCTTAA
48172686 TATTTTTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 6 0.12
41 42 0.86
42 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (40 bp):
TTTTTATAATTCTTAAAATATATAATAATTATCTATAATT
Found at i:48173081 original size:25 final size:27
Alignment explanation
Indices: 48173038--48173087 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
48173028 GCTATTTTAT
*
48173038 ATTTTTTTATAATTAAAATTTAATTAA
1 ATTTTTTTATAATTAAAATTAAATTAA
*
48173065 ATTTTTTT-T-ATTTAAATTAAATT
1 ATTTTTTTATAATTAAAATTAAATT
48173088 CGGACCAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 1 0.05
27 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
ATTTTTTTATAATTAAAATTAAATTAA
Found at i:48176059 original size:32 final size:31
Alignment explanation
Indices: 48176023--48176100 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 31
48176013 TATCCCACTC
48176023 GAAATATTAAAAGGAATTAGATTATATACTTT
1 GAAATATTAAAAGG-ATTAGATTATATACTTT
48176055 GAAATATTAAAAAGGATTAGATTATATACTTT
1 GAAATATT-AAAAGGATTAGATTATATACTTT
48176087 GAAATTATTTAAAA
1 GAAA-TA-TTAAAA
48176101 TGATCGAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
32 29 0.67
33 12 0.28
34 2 0.05
ACGTcount: A:0.49, C:0.03, G:0.12, T:0.37
Consensus pattern (31 bp):
GAAATATTAAAAGGATTAGATTATATACTTT
Found at i:48176481 original size:37 final size:37
Alignment explanation
Indices: 48176428--48176504 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
48176418 ACATATTCAC
*
48176428 AGGAATAATAATATTAATAAAATTAGAATTAGATAAA
1 AGGAATAATAACATTAATAAAATTAGAATTAGATAAA
*
48176465 AGGAATAATAACATTAATGAAATTAGAATTAGATAAA
1 AGGAATAATAACATTAATAAAATTAGAATTAGATAAA
48176502 AGG
1 AGG
48176505 CTAGAGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.57, C:0.01, G:0.14, T:0.27
Consensus pattern (37 bp):
AGGAATAATAACATTAATAAAATTAGAATTAGATAAA
Found at i:48180862 original size:16 final size:16
Alignment explanation
Indices: 48180841--48180892 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
48180831 TTTGGTTCGC
48180841 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48180857 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
48180873 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
48180889 TGTA
1 TGTA
48180893 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:48181138 original size:15 final size:16
Alignment explanation
Indices: 48181106--48181146 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
48181096 TTAATCATAT
48181106 TTAAATATA-ATTATA
1 TTAAATATATATTATA
*
48181121 TTAAATATATTTTA-A
1 TTAAATATATATTATA
48181136 TTAAA-ATATAT
1 TTAAATATATAT
48181147 AATTTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.22
15 15 0.65
16 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATATATATTATA
Found at i:48181152 original size:18 final size:18
Alignment explanation
Indices: 48181110--48181159 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 18
48181100 TCATATTTAA
48181110 ATATAA-TTATATT-AAAT
1 ATATAATTTA-ATTAAAAT
48181127 ATAT--TTTAATTAAAAT
1 ATATAATTTAATTAAAAT
48181143 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
48181160 TCTTAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 3 0.10
16 11 0.38
17 10 0.34
18 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:48181212 original size:155 final size:157
Alignment explanation
Indices: 48181022--48181338 Score: 566
Period size: 157 Copynumber: 2.0 Consensus size: 157
48181012 CCTTAGCATA
* *
48181022 AATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAATATTATTATTATC-AT
1 AATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAAT
* * *
48181086 AATAAATAATTTAATCATATTTAAATATAATTA-TATTAAATATATTTTAATTAAAATATATAAT
66 AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATAGTATAATTAAAATATATAAT
48181150 TTAATAAAATTCTTAATAATTAATATG
131 TTAATAAAATTCTTAATAATTAATATG
*
48181177 AATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAAT
1 AATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAAT
48181242 AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATAGTATAATTAAAATATATAAT
66 AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATAGTATAATTAAAATATATAAT
48181307 TTAATAAAATTCTTAATAATTAATATG
131 TTAATAAAATTCTTAATAATTAATATG
48181334 AATTT
1 AATTT
48181339 ACTTAAATCA
Statistics
Matches: 154, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
155 59 0.38
156 34 0.22
157 61 0.40
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (157 bp):
AATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAAT
AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATAGTATAATTAAAATATATAAT
TTAATAAAATTCTTAATAATTAATATG
Found at i:48181422 original size:14 final size:15
Alignment explanation
Indices: 48181373--48181424 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
48181363 GTAAAATATA
48181373 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
48181388 TATTAAATATATTAT
1 AATTAAATATATTAT
48181403 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
48181416 AATTTAATA
1 AATTAAATA
48181425 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:48181422 original size:157 final size:155
Alignment explanation
Indices: 48181058--48181393 Score: 403
Period size: 157 Copynumber: 2.1 Consensus size: 155
48181048 TATTGTTATT
* * * * *
48181058 TAAATTTTAATAATATTATTATTATC-ATAATAAATAATTTAATCATATTTAAATATAATTATAT
1 TAAATTTAAATAAGATTATTAATATCAATAATAAATAATATAATCATATTTAAACATAATTATAT
* * **
48181122 TAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATGAATTTGTTTT
66 TAAATATAGTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATGAATTTGTACT
* * * * *
48181187 GGTAAATTATTATTGTTATTGTTATT
131 -GTAAATTAATATTGATACTGTAATA
* *
48181213 TAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTA
1 TAAATTTAAATAAGATTATTAATATCAATAATAAATAATATAATCATATTTAAACATAATTA-TA
48181278 TTAAATATAGTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATGAA-TT-TAC
65 TTAAATATAGTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATGAATTTGTAC
48181341 T-TAAATCATAATATATGATACTGTAAAATA
130 TGTAAAT--TAATAT-TGATACTGT--AATA
*
48181371 TAAA-TTAACATAATTATTATTAA
1 TAAATTTAA-ATAA-GATTATTAA
48181394 ATATATTATA
Statistics
Matches: 158, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
153 5 0.03
155 31 0.20
156 43 0.27
157 61 0.39
158 10 0.06
159 8 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (155 bp):
TAAATTTAAATAAGATTATTAATATCAATAATAAATAATATAATCATATTTAAACATAATTATAT
TAAATATAGTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATGAATTTGTACT
GTAAATTAATATTGATACTGTAATA
Found at i:48181467 original size:120 final size:113
Alignment explanation
Indices: 48181260--48181549 Score: 406
Period size: 120 Copynumber: 2.5 Consensus size: 113
48181250 ATTTAATCAT
* *
48181260 ATTTAAACATAATTATTATTAAATATAGTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
48181325 ATTAATATGAATTTACTTAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
48181374 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
48181437 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 A-T--TA-----ATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* * *
48181493 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
48181550 TAAAATAATT
Statistics
Matches: 159, Mismatches: 7, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
112 60 0.38
113 3 0.02
114 1 0.01
115 2 0.01
119 3 0.02
120 88 0.55
121 2 0.01
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (113 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:48181619 original size:26 final size:28
Alignment explanation
Indices: 48181590--48181650 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
48181580 TATGAATTTG
*
48181590 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
48181616 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
48181644 TAAAATT
1 TATAATT
48181651 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:48188042 original size:18 final size:19
Alignment explanation
Indices: 48187994--48188042 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
48187984 TGAAAAAAAA
* *
48187994 TATT-TTTAAATTTCCTAT
1 TATTATTTAATTTTACTAT
*
48188012 TATTA-TTATTTTTACTAT
1 TATTATTTAATTTTACTAT
48188030 T-TTATTTAATTTT
1 TATTATTTAATTTT
48188043 TGTTTTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTATTTAATTTTACTAT
Found at i:48192478 original size:29 final size:30
Alignment explanation
Indices: 48192442--48192500 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
48192432 TGTAGTCTAA
*
48192442 TGTGTAATGTTATATATA-AATTTTAATTT
1 TGTGTAATGTTATACATACAATTTTAATTT
*
48192471 TGTGTAATTTTATACATACAATTTTAATTT
1 TGTGTAATGTTATACATACAATTTTAATTT
48192501 AATTCAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.54
Consensus pattern (30 bp):
TGTGTAATGTTATACATACAATTTTAATTT
Found at i:48192510 original size:30 final size:29
Alignment explanation
Indices: 48192444--48192511 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
48192434 TAGTCTAATG
* * **
48192444 TGTAATGTTATATATAAATTTTAATTTTG
1 TGTAATTTTATACATAAATTTTAATTTAA
48192473 TGTAATTTTATACATACAATTTTAATTTAA
1 TGTAATTTTATACATA-AATTTTAATTTAA
48192503 T-TCAATTTT
1 TGT-AATTTT
48192512 CATAAATTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.54
Consensus pattern (29 bp):
TGTAATTTTATACATAAATTTTAATTTAA
Found at i:48192859 original size:86 final size:86
Alignment explanation
Indices: 48192761--48192932 Score: 344
Period size: 86 Copynumber: 2.0 Consensus size: 86
48192751 TTATTTAAAT
48192761 CAAGAAAGATAGTTAAAAGAAAGAAAATAAATTTTATTTCAAAAAAATATAATAATAAATTTTAA
1 CAAGAAAGATAGTTAAAAGAAAGAAAATAAATTTTATTTCAAAAAAATATAATAATAAATTTTAA
48192826 AAGTTTTAAAAGTAAAAAGAC
66 AAGTTTTAAAAGTAAAAAGAC
48192847 CAAGAAAGATAGTTAAAAGAAAGAAAATAAATTTTATTTCAAAAAAATATAATAATAAATTTTAA
1 CAAGAAAGATAGTTAAAAGAAAGAAAATAAATTTTATTTCAAAAAAATATAATAATAAATTTTAA
48192912 AAGTTTTAAAAGTAAAAAGAC
66 AAGTTTTAAAAGTAAAAAGAC
48192933 TAGGAGCCAA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.28
Consensus pattern (86 bp):
CAAGAAAGATAGTTAAAAGAAAGAAAATAAATTTTATTTCAAAAAAATATAATAATAAATTTTAA
AAGTTTTAAAAGTAAAAAGAC
Found at i:48200418 original size:13 final size:11
Alignment explanation
Indices: 48200379--48200435 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 11
48200369 TTATTTAGCA
48200379 TTTTC-TTCTTC
1 TTTTCTTTC-TC
*
48200390 TTCTTCTTTTTC
1 TT-TTCTTTCTC
48200402 TTTTCATTGTCTC
1 TTTTC-TT-TCTC
48200415 TTTTCTTTCTC
1 TTTTCTTTCTC
48200426 TGTTTCTTTC
1 T-TTTCTTTC
48200436 ATGGCAGCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 10 0.26
12 19 0.49
13 10 0.26
ACGTcount: A:0.02, C:0.25, G:0.04, T:0.70
Consensus pattern (11 bp):
TTTTCTTTCTC
Found at i:48205235 original size:20 final size:20
Alignment explanation
Indices: 48205210--48205250 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
48205200 AATATATTAT
48205210 AAAATATAA-TATATAAATAA
1 AAAATA-AATTATATAAATAA
48205230 AAAATAAATTATATAAATAA
1 AAAATAAATTATATAAATAA
48205250 A
1 A
48205251 CGCGAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATAAATTATATAAATAA
Found at i:48210352 original size:12 final size:12
Alignment explanation
Indices: 48210335--48210360 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48210325 CTATGACTCC
48210335 AAGGTGTTTGTT
1 AAGGTGTTTGTT
48210347 AAGGTGTTTGTT
1 AAGGTGTTTGTT
48210359 AA
1 AA
48210361 AATGCTTGTG
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:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (12 bp):
AAGGTGTTTGTT
Found at i:48219531 original size:123 final size:123
Alignment explanation
Indices: 48219364--48219610 Score: 433
Period size: 123 Copynumber: 2.0 Consensus size: 123
48219354 CCAAATGCAT
48219364 CCAATAGAGGTCTATTATTTAGATGGGAATCATTTGGCCCGCAAGAACTGG-CTCGATTCAAGAA
1 CCAATAGAGGTCTATTATTTAGATGGGAATCATTTGGCCCGCAAGAACTGGCCT-GATTCAAGAA
* *
48219428 GCTGTTAGAGAAGCCTGTCAGATTGAAGCCTGGTTGGCCCGATAATGAAGATATGGCAA
65 GCTGTTAGAGAAGCCTGTCAAATTGAAGCCTGGTTGGCCCGATAATGAAGATATGACAA
* *
48219487 CCAATGGAGGTCTATTGTTTAGATGGGAATCATTTGGCCCGCAAGAACTGGCCTGATTCAAGAAG
1 CCAATAGAGGTCTATTATTTAGATGGGAATCATTTGGCCCGCAAGAACTGGCCTGATTCAAGAAG
*
48219552 CTGTTGGAGAAGCCTGTCAAATTGAAGCCTGGTTGGCCCGATAATGAAGATATGACAA
66 CTGTTAGAGAAGCCTGTCAAATTGAAGCCTGGTTGGCCCGATAATGAAGATATGACAA
48219610 C
1 C
48219611 TTAGGCTAAT
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
123 116 0.98
124 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (123 bp):
CCAATAGAGGTCTATTATTTAGATGGGAATCATTTGGCCCGCAAGAACTGGCCTGATTCAAGAAG
CTGTTAGAGAAGCCTGTCAAATTGAAGCCTGGTTGGCCCGATAATGAAGATATGACAA
Found at i:48220929 original size:21 final size:21
Alignment explanation
Indices: 48220888--48220929 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
48220878 CATCCCACTA
* *
48220888 TATATATTTTTAATATTTTAT
1 TATATATTTATAATATCTTAT
48220909 TATATA-TTATAATATACTTAT
1 TATATATTTATAATAT-CTTAT
48220930 CATCATCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATATTTATAATATCTTAT
Found at i:48223168 original size:30 final size:31
Alignment explanation
Indices: 48223108--48223169 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
48223098 TACAAAATGA
* * *
48223108 TCACTGAATTATTCGAAAGTTTACATTTAAG
1 TCACTGAACTATTCAAAAATTTACATTTAAG
*
48223139 TCACTGAACTATTCAAAAATTT-TATTTAAG
1 TCACTGAACTATTCAAAAATTTACATTTAAG
48223169 T
1 T
48223170 TGATCCAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (31 bp):
TCACTGAACTATTCAAAAATTTACATTTAAG
Found at i:48225311 original size:14 final size:14
Alignment explanation
Indices: 48225289--48225326 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
48225279 TTATCATACT
*
48225289 TATTTTTATTATTG
1 TATTATTATTATTG
48225303 TATTATTATTATTG
1 TATTATTATTATTG
48225317 T-TTATGTATT
1 TATTAT-TATT
48225327 TGTTTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (14 bp):
TATTATTATTATTG
Found at i:48225532 original size:31 final size:31
Alignment explanation
Indices: 48225494--48225575 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
48225484 AACCCATTTT
48225494 TATTTTAAAAAT-TTTTAAAAATTAAAAAAAG
1 TATTTTAAAAATATTTT-AAAATTAAAAAAAG
48225525 TATTTTAAAAATATTTTAAAATTAAAAAAA-
1 TATTTTAAAAATATTTTAAAATTAAAAAAAG
* *
48225555 CA-TTAAAAAAGTATTTTAAAA
1 TATTTTAAAAA-TATTTTAAAA
48225576 ATATTTTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
29 7 0.15
30 11 0.23
31 25 0.53
32 4 0.09
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (31 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAG
Found at i:48225563 original size:41 final size:41
Alignment explanation
Indices: 48225510--48225657 Score: 223
Period size: 41 Copynumber: 3.6 Consensus size: 41
48225500 AAAAATTTTT
48225510 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
48225551 AAAACATT-AAAAAAGTATTTTAAAAATATTTTAAAATT-AA
1 AAAA-ATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
48225591 AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATT-AAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
*
48225633 AAAGTATGT-AAAAAA-TATTTTAAAA
1 AAA-AAT-TAAAAAAAGTATTTTAAAA
48225658 TTTAAAAAAT
Statistics
Matches: 100, Mismatches: 1, Indels: 12
0.88 0.01 0.11
Matches are distributed among these distances:
39 3 0.03
40 6 0.06
41 74 0.74
42 14 0.14
43 2 0.02
44 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (41 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
Found at i:48225634 original size:30 final size:31
Alignment explanation
Indices: 48225600--48225666 Score: 109
Period size: 30 Copynumber: 2.2 Consensus size: 31
48225590 AAAAAATTAA
* *
48225600 AAAAAAGTATTTTAAAAATATTTTAAAA-TT
1 AAAAAAGTATGTAAAAAATATTTTAAAATTT
48225630 AAAAAAGTATGTAAAAAATATTTTAAAATTT
1 AAAAAAGTATGTAAAAAATATTTTAAAATTT
48225661 AAAAAA
1 AAAAAA
48225667 TAAATATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 26 0.76
31 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (31 bp):
AAAAAAGTATGTAAAAAATATTTTAAAATTT
Found at i:48225657 original size:11 final size:11
Alignment explanation
Indices: 48225494--48225627 Score: 67
Period size: 11 Copynumber: 12.9 Consensus size: 11
48225484 AACCCATTTT
48225494 TATTTTAAAAA
1 TATTTTAAAAA
48225505 T-TTTT-AAAA
1 TATTTTAAAAA
**
48225514 -ATTAAAAAAA
1 TATTTTAAAAA
48225524 GTATTTTAAAAA
1 -TATTTTAAAAA
48225536 TATTTT--AAA
1 TATTTTAAAAA
**
48225545 -ATTAAAAAAA
1 TATTTTAAAAA
* *
48225555 CA-TTAAAAAA
1 TATTTTAAAAA
48225565 GTATTTTAAAAA
1 -TATTTTAAAAA
48225577 TATTTT--AAA
1 TATTTTAAAAA
48225586 -A--TTAAAAA
1 TATTTTAAAAA
* **
48225594 AATTAAAAAAAA
1 TATT-TTAAAAA
48225606 GTATTTTAAAAA
1 -TATTTTAAAAA
48225618 TATTTTAAAA
1 TATTTTAAAA
48225628 TTAAAAAAGT
Statistics
Matches: 93, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
6 2 0.02
8 7 0.08
9 13 0.14
10 18 0.19
11 25 0.27
12 25 0.27
13 3 0.03
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:48255256 original size:16 final size:16
Alignment explanation
Indices: 48255235--48255273 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
48255225 TTGATTTGCT
*
48255235 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
48255251 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
48255267 ATTACAC
1 ATTACAC
48255274 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:48255274 original size:16 final size:16
Alignment explanation
Indices: 48255248--48255304 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
48255238 ACACAGCTTT
* *
48255248 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
48255264 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
48255280 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
48255296 TCCAATACA
1 TCCAATACA
48255305 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:48256174 original size:8 final size:8
Alignment explanation
Indices: 48256156--48256229 Score: 51
Period size: 8 Copynumber: 8.5 Consensus size: 8
48256146 CCTTTTGAAA
48256156 ATTTTTA-
1 ATTTTTAT
48256163 ATTTTTAT
1 ATTTTTAT
*
48256171 ATTTTAAAAT
1 ATTTT--TAT
48256181 ATTTTTAT
1 ATTTTTAT
*
48256189 AATTTTAT
1 ATTTTTAT
48256197 GGATTTTTATAAT
1 --A-TTTT-T-AT
48256210 ATTTTTAT
1 ATTTTTAT
*
48256218 ATTTTTAA
1 ATTTTTAT
48256226 ATTT
1 ATTT
48256230 AGAATCATGA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
7 7 0.13
8 27 0.50
9 1 0.02
10 12 0.22
11 4 0.07
12 1 0.02
13 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
ATTTTTAT
Found at i:48256536 original size:58 final size:59
Alignment explanation
Indices: 48256440--48256584 Score: 177
Period size: 58 Copynumber: 2.5 Consensus size: 59
48256430 AATGGAGTGA
* * * ** *
48256440 TTCTTAATTTGATACCTAAATTCTTTTTTGGTCTAATTTGGTATTTGAACTTGAC-ATTTT
1 TTCTTAATTTGGTACCTAAA--CTTTTTTAGTCCAATTTGACACTTGAACTTGACTATTTT
* *
48256500 TTCTTAATTTGGTACTTAAACTTTTTTAGTCCAATTTGACACTTGAACTTGACTCTTTT
1 TTCTTAATTTGGTACCTAAACTTTTTTAGTCCAATTTGACACTTGAACTTGACTATTTT
*
48256559 TTC-TAATTTGGTACCTAATCTTTTTT
1 TTCTTAATTTGGTACCTAAACTTTTTT
48256585 TTGTTCAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 49 0.66
59 7 0.09
60 18 0.24
ACGTcount: A:0.23, C:0.14, G:0.10, T:0.52
Consensus pattern (59 bp):
TTCTTAATTTGGTACCTAAACTTTTTTAGTCCAATTTGACACTTGAACTTGACTATTTT
Done.