Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 74 of 187
Found at i:21656031 original size:22 final size:22
Alignment explanation
Indices: 21655997--21656040 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
21655987 TAAATACGGT
*
21655997 AATAACAACAGTAATATTAAAA
1 AATAACAACAGTAATACTAAAA
* * *
21656019 AATAATAATAGTATTACTAAAA
1 AATAACAACAGTAATACTAAAA
21656041 TTAATTAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (22 bp):
AATAACAACAGTAATACTAAAA
Found at i:21657797 original size:132 final size:132
Alignment explanation
Indices: 21657552--21657833 Score: 397
Period size: 132 Copynumber: 2.1 Consensus size: 132
21657542 AGATTCGCCG
* * * * *
21657552 TCTTTGATCTGCTCCACTACTGCTTAGGGTAACAGAGTCTGTAATCTTCAATCTATTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGTAAAAGAGTCTGAAACCTTCAATCTATTCCACTACC
** * * * * *
21657617 GCCCATGGAGATAGAACTATTGGCTTCAATGTACTCCACTGTAGTCACAGGGAGGTAAAATCTGC
66 AACCAGGGAGATAGAACTATCGACTTCAATGTACTCCACTGTAATCACAGGAAGGTAAAATCTGC
21657682 CA
131 CA
*
21657684 TCTTCGATCTGCTCCACTACTGCTTAGGG-AGATAAGA-TCTGAAACCTTCAATCTATTCCACTG
1 TCTTCGATCTGCTCCACTACTGCTTAGGGTA-A-AAGAGTCTGAAACCTTCAATCTATTCCACTA
*
21657747 CCAACCAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTAATCACAGGAAGGTAAAATCT
64 CCAACCAGGGAGATAGAACTATCGACTTCAATGTACTCCACTGTAATCACAGGAAGGTAAAATCT
21657812 GCCA
129 GCCA
*
21657816 TCTTCAATCTGCTCCACT
1 TCTTCGATCTGCTCCACT
21657834 TTGGGAGATA
Statistics
Matches: 133, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
131 1 0.01
132 129 0.97
133 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (132 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGTAAAAGAGTCTGAAACCTTCAATCTATTCCACTACC
AACCAGGGAGATAGAACTATCGACTTCAATGTACTCCACTGTAATCACAGGAAGGTAAAATCTGC
CA
Found at i:21657983 original size:50 final size:50
Alignment explanation
Indices: 21657901--21657999 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
21657891 TTGGCTTCTG
* * *
21657901 CAATGTCAGGGAAGTAAGATTCACCATTGTAGCTTCAATTTGTTCCACTA
1 CAATGTCAGGGAAGCAAGATTCACCATCGTAGCTTCAATCTGTTCCACTA
* * *
21657951 CAATGTCGGGGAAGCGAGATTCGCCATCGTAGCTTCAATCTGTTCCACT
1 CAATGTCAGGGAAGCAAGATTCACCATCGTAGCTTCAATCTGTTCCACT
21658000 GTACCGCTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (50 bp):
CAATGTCAGGGAAGCAAGATTCACCATCGTAGCTTCAATCTGTTCCACTA
Found at i:21658093 original size:72 final size:72
Alignment explanation
Indices: 21657951--21658093 Score: 164
Period size: 72 Copynumber: 2.0 Consensus size: 72
21657941 TGTTCCACTA
* * * *
21657951 CAATGTCGGGGAAGCGAGATTCGCCATCGTAGCTTCAATCTGTTCCACTGTACCGCTAGGGAAAT
1 CAATGTCGGGGAAGCGAGATTCACCATCGTAGCTTCAATCTATTCCACTGCACCGCTAGAGAAAT
*
21658016 GAGATTG
66 AAGATTG
* * * *
21658023 CAATGTCGGGGAAG-GAAGATTCACCGTTGTAGCTTCAATCTATTCCATTGCATCGTCT-GAGAA
1 CAATGTCGGGGAAGCG-AGATTCACCATCGTAGCTTCAATCTATTCCACTGCACCG-CTAGAGAA
*
21658086 GTAAGATT
64 ATAAGATT
21658094 CGCCGTTGTG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
71 1 0.02
72 56 0.95
73 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (72 bp):
CAATGTCGGGGAAGCGAGATTCACCATCGTAGCTTCAATCTATTCCACTGCACCGCTAGAGAAAT
AAGATTG
Found at i:21658100 original size:50 final size:50
Alignment explanation
Indices: 21658033--21658292 Score: 222
Period size: 50 Copynumber: 5.2 Consensus size: 50
21658023 CAATGTCGGG
* *
21658033 GAAGGAAGATTCACCGTTGTAGCTTCAATCTATTCCATTGCATCGTCTGA
1 GAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCCATTGCATCGTCTGA
* ** * * *
21658083 GAAGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTAATTTCAAT-GTCGGG
1 GAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCCATTGC-ATCGTCTGA
* * ** * *
21658132 GAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCGCTACATCGCCTGA
1 GAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCCATTGCATCGTCTGA
* * ** * *
21658182 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAACGT-TGG
1 GAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCCATTGCATCGTCTGA
* ** * * * *
21658231 GAAAGTGAGATTCGCCGTCATAGCTTTAATCTGTTCCGTTGCATCGCCTG-
1 G-AAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCCATTGCATCGTCTGA
21658281 GAAGGTAAGATT
1 GAA-GTAAGATT
21658293 TGCTGTCTTC
Statistics
Matches: 161, Mismatches: 43, Indels: 12
0.75 0.20 0.06
Matches are distributed among these distances:
49 45 0.28
50 114 0.71
51 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (50 bp):
GAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCCATTGCATCGTCTGA
Found at i:21658194 original size:99 final size:100
Alignment explanation
Indices: 21658019--21658292 Score: 381
Period size: 99 Copynumber: 2.8 Consensus size: 100
21658009 GGGAAATGAG
* * * * *
21658019 ATTGCAATGTCGGGGAAGGAAGATTCACCGTTGTAGCTTCAATCTATTCCATTGCATCGTCTGAG
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCGTTGCATCGCCTGAG
21658084 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTT-A
66 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAA
* * *
21658118 ATTTCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCGCTACATCGCCTGAG
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCGTTGCATCGCCTGAG
21658183 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAA
66 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAA
* * * ** * * *
21658218 ATTGCAACGTTGGGAAAGTGAGATTCGCCGTCATAGCTTTAATCTGTTCCGTTGCATCGCCTG-G
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCGTTGCATCGCCTGAG
21658282 AAGGTAAGATT
66 AA-GTAAGATT
21658293 TGCTGTCTTC
Statistics
Matches: 154, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
99 93 0.60
100 61 0.40
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (100 bp):
ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCTATTCCGTTGCATCGCCTGAG
AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAA
Found at i:21658418 original size:44 final size:43
Alignment explanation
Indices: 21658280--21659709 Score: 424
Period size: 44 Copynumber: 32.5 Consensus size: 43
21658270 TGCATCGCCT
* * *
21658280 GGAAGGTAAGATTTGCTGTCTTCGATCTGCTCCGCTGTCAAC-A
1 GGAAGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTCAACGA
* * * * * * * * * *
21658323 GGAAGGCAAGATCTGTTGTATTCAACCAGCTCCACTAT-AACCA
1 GGAAGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTCAACGA
* * *
21658366 AGAGAGGCAAGGTTTGTGTCTTCGGTCTGCTTCGCTGTCAATGTA
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACG-A
* * * * * * *
21658411 GGAAGGCAAGATCTAT-TGTCTTCAACCAGCTCCACT-ACAACCGA
1 GGAAGGCAAGGT-T-TGTGTCTTCGATCTGCTTCGCTGTCAA-CGA
*
21658455 -GAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCA
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACG-A
* * * * * * * *
21658499 GGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACT-ACAACCGA
1 GGAAGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTCAA-CGA
* *
21658543 -GAGAGGCAAGGATTGTGTCTTCGATCTGCTTCGCTGTCAAGGCA
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACG-A
* * * * * *
21658587 GGAAGGCAAGATCTAT-TGTCCTT-AACCAGCTCCGCT-ACAACCGA
1 GGAAGGCAAGGT-T-TGTGT-CTTCGATCTGCTTCGCTGTCAA-CGA
* * *
21658631 -GAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGTTGTCAATGCA
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACG-A
* *** ** * * * *
21658675 GGAAGGTAAGACCTGTTGTCTTTAACCAGCTCCGCT-ACAACCGA
1 GGAAGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTCAA-CGA
21658719 -GAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATAC-A
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTC-A-ACGA
* * * * * * * *
21658763 TGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAACTGA
1 GGAAGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTCAAC-GA
* ** *
21658807 -GAGAGGCAAGGTTTGTGTCTTCGATCTACTTTACTGTCAATGCA
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACG-A
* * * * * ** * * *
21658851 GGAAGGCAAGATCTAT-TATCCTCAACCAACTCCACT-ACAATCGA
1 GGAAGGCAAGGT-T-TGTGTCTTCGATCTGCTTCGCTGTCAA-CGA
*
21658895 -GAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACG-A
* * * * * * *
21658939 GGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAACCGA
1 GGAAGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTCAA-CGA
* *
21658983 -GAGAGTCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATAC-A
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTC-A-ACGA
* * * * * * *
21659027 GGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAACCGA
1 GGAAGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTCAA-CGA
* * *
21659071 -GAGAGGCAAGGTTTGTGTCTTCGATCTGCTTTGCTATCAATGCA
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACG-A
* * ** * * * * *
21659115 GGAAGGCAAGATCTAT-TTTCTTTAACCAGCTCCACT-ACAACCGA
1 GGAAGGCAAGGT-T-TGTGTCTTCGATCTGCTTCGCTGTCAA-CGA
* *
21659159 -GAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGTTGTCAAGGCA
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACG-A
* * * * * * * *
21659203 GGAAGGTAAGATCTAT-TGTCTTCAACCAGCTCCACT-ACAACCGA
1 GGAAGGCAAGGT-T-TGTGTCTTCGATCTGCTTCGCTGTCAA-CGA
* * *
21659247 GGGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGTTGTCAAGGCA
1 GGAAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACG-A
* * * * * * * *
21659291 GGAAGGTAAGATCTAT-TGTCCTC-AGCCAGCTCCACT-ACAACCGA
1 GGAAGGCAAGGT-T-TGTGTCTTCGA-TCTGCTTCGCTGTCAA-CGA
* * *
21659335 -AAGAGGCAAGGTTTGTGTCTTCGATCTGTTTCGCTGTCAAGGTA
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACG-A
* * * * * * * * *
21659379 AGAAGGCAAGATCTAGTGTCCTCAACCAGCTTCACT-ACAACCGA
1 GGAAGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-CGA
* *
21659423 -GAGAGGTAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACG-A
* * * * * * *
21659467 GGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAACCGA
1 GGAAGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTCAA-CGA
21659511 -GAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATAC-A
1 GGA-AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTC-A-ACGA
* * * * * * * *
21659555 GGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACT-ACAACCGA
1 GGAAGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTCAA-CGA
* ** *
21659599 GAGAA-GTAAGGTTTGTGTCTTTAATCTGCTTCGCTGTCAATGCA
1 G-GAAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACG-A
* * * * * * *
21659643 GGAAGGCAAGATCTGTTGTCTTCAACCAGCTTTGCT-ACAACCGA
1 GGAAGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTCAA-CGA
21659687 -GAGAGGCAAGGTTTGTGTCTTCG
1 GGA-AGGCAAGGTTTGTGTCTTCG
21659710 CTGACCTGTT
Statistics
Matches: 975, Mismatches: 301, Indels: 222
0.65 0.20 0.15
Matches are distributed among these distances:
42 16 0.02
43 301 0.31
44 376 0.39
45 270 0.28
46 12 0.01
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (43 bp):
GGAAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACGA
Found at i:21658443 original size:88 final size:88
Alignment explanation
Indices: 21658291--21659709 Score: 2162
Period size: 88 Copynumber: 16.1 Consensus size: 88
21658281 GAAGGTAAGA
* *
21658291 TTTGCTGTCTTCGATCTGCTCCGCTGTCAA--CAGGAAGGCAAGATCTGTTGTATTCAACCAGCT
1 TTTG-TGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCT
* *
21658354 CCACTATAACCAAGAGAGGCAAGG
65 CCACTACAACCGAGAGAGGCAAGG
* * *
21658378 TTTGTGTCTTCGGTCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTATTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
21658443 CACTACAACCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
*
21658466 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
21658531 CACTACAACCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* * *
21658554 ATTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTATTGTCCTT-AACCAGCT
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGT-CTTCAACCAGCT
*
21658618 CCGCTACAACCGAGAGAGGCAAGG
65 CCACTACAACCGAGAGAGGCAAGG
* * * * *
21658642 TTTGTGTCTTCAATCTGCTTCGTTGTCAATGCAGGAAGGTAAGACCTGTTGTCTTTAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
*
21658707 CGCTACAACCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* *
21658730 TTTGTGTCTTCGATCTGCTTCGCTGTCAATACATGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
* *
21658795 CGCTACAACTGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* ** * * * *
21658818 TTTGTGTCTTCGATCTACTTTACTGTCAATGCAGGAAGGCAAGATCTATTATCCTCAACCAACTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
*
21658883 CACTACAATCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
21658906 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
* *
21658971 CGCTACAACCGAGAGAGTCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* *
21658994 TTTGTGTCTTCGATCTGCTTCACTGTCAATACAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
*
21659059 CGCTACAACCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* * * * *
21659082 TTTGTGTCTTCGATCTGCTTTGCTATCAATGCAGGAAGGCAAGATCTATTTTCTTTAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
21659147 CACTACAACCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* * * *
21659170 TTTGTGTCTTCGATCTGCTTCGTTGTCAAGGCAGGAAGGTAAGATCTATTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
*
21659235 CACTACAACCGAGGGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* * * * * *
21659258 TTTGTGTCTTCGATCTGCTTCGTTGTCAAGGCAGGAAGGTAAGATCTATTGTCCTCAGCCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
*
21659323 CACTACAACCGAAAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* * * * *
21659346 TTTGTGTCTTCGATCTGTTTCGCTGTCAAGGTAAGAAGGCAAGATCTAG-TGTCCTCAACCAGCT
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT-GTTGTCTTCAACCAGCT
* *
21659410 TCACTACAACCGAGAGAGGTAAGG
65 CCACTACAACCGAGAGAGGCAAGG
*
21659434 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
*
21659499 CGCTACAACCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
*
21659522 TTTGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
* *
21659587 CACTACAACCGAGAGAAGTAAGG
66 CACTACAACCGAGAGAGGCAAGG
** *
21659610 TTTGTGTCTTTAATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTT
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
**
21659675 TGCTACAACCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
21659698 TTTGTGTCTTCG
1 TTTGTGTCTTCG
21659710 CTGACCTGTT
Statistics
Matches: 1220, Mismatches: 106, Indels: 11
0.91 0.08 0.01
Matches are distributed among these distances:
86 23 0.02
87 8 0.01
88 1186 0.97
89 3 0.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (88 bp):
TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
CACTACAACCGAGAGAGGCAAGG
Found at i:21660804 original size:21 final size:21
Alignment explanation
Indices: 21660778--21660823 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
21660768 GGTATAGCAA
21660778 GATCACTAAATGCCCCAATCT
1 GATCACTAAATGCCCCAATCT
** *
21660799 GATCACTTTATGCCCCATTCT
1 GATCACTAAATGCCCCAATCT
21660820 GATC
1 GATC
21660824 CACAATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.33, G:0.11, T:0.30
Consensus pattern (21 bp):
GATCACTAAATGCCCCAATCT
Found at i:21660926 original size:11 final size:10
Alignment explanation
Indices: 21660912--21660952 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
21660902 GGCCTCTCCT
21660912 TTTTCTTTTTC
1 TTTT-TTTTTC
21660923 TTTTTTTTTC
1 TTTTTTTTTC
*
21660933 TCTTTTTTCTC
1 T-TTTTTTTTC
21660944 TTTTTTTTT
1 TTTTTTTTT
21660953 AGTTTTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 14 0.52
11 13 0.48
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:21660958 original size:27 final size:25
Alignment explanation
Indices: 21660906--21660952 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21660896 CGCCTTGGCC
21660906 TCTCCTTTTTCTTTTTCTTTTTTTT
1 TCTCCTTTTTCTTTTTCTTTTTTTT
* *
21660931 TCTCTTTTTTCTCTTT-TTTTTT
1 TCTCCTTTTTCTTTTTCTTTTTT
21660953 AGTTTTATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (25 bp):
TCTCCTTTTTCTTTTTCTTTTTTTT
Found at i:21664725 original size:109 final size:106
Alignment explanation
Indices: 21664526--21664737 Score: 298
Period size: 109 Copynumber: 2.0 Consensus size: 106
21664516 GAAATTCGAG
* * *
21664526 AGGATATTTGGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGTACGTTCCTCAAA
1 AGGATATTTAGCCATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCAAA
*
21664591 TTTCCAAACGCAAAACATTGGCTTATTTTGAAAATTTTAAA
66 TTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTTAAA
* * * * * *
21664632 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCTAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTC
*
21664697 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTT
63 AAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTT
21664738 CCTTTTGAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
106 24 0.26
108 24 0.26
109 44 0.48
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (106 bp):
AGGATATTTAGCCATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCAAA
TTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTTAAA
Found at i:21665045 original size:17 final size:18
Alignment explanation
Indices: 21665025--21665058 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21665015 TATATGTTTG
21665025 AAGGATAT-TAAATATAA
1 AAGGATATGTAAATATAA
*
21665042 AAGGTTATGTAAATATA
1 AAGGATATGTAAATATA
21665059 TATATACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (18 bp):
AAGGATATGTAAATATAA
Found at i:21666795 original size:21 final size:22
Alignment explanation
Indices: 21666752--21666809 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
21666742 AAAACAACGA
*
21666752 TAGCAGTGAGATTA-ATTACTG
1 TAGCAGTGAAATTAGATTACTG
*
21666773 TAGCAGTGAAATTAGA-TATTG
1 TAGCAGTGAAATTAGATTACTG
* *
21666794 TAGCGGTGATATTAGA
1 TAGCAGTGAAATTAGA
21666810 AACAATAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (22 bp):
TAGCAGTGAAATTAGATTACTG
Found at i:21667203 original size:2 final size:2
Alignment explanation
Indices: 21667198--21667256 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
21667188 TTACCAAAAG
*
21667198 TA TA TA AA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21667239 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
21667257 GANNNNNNNN
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:21685874 original size:18 final size:18
Alignment explanation
Indices: 21685842--21685913 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 18
21685832 TTGGAGAACA
*
21685842 CGCAGTCTTGAGTGAGCT
1 CGCAGTTTTGAGTGAGCT
* *
21685860 TGCAGTTTTGGGTGAGCT
1 CGCAGTTTTGAGTGAGCT
*
21685878 CGCAGCTTT--GTAGAGCT
1 CGCAGTTTTGAGT-GAGCT
*
21685895 CGCACTTTTG-GTGAGCT
1 CGCAGTTTTGAGTGAGCT
21685912 CG
1 CG
21685914 TAGTCTTGCA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.04
17 19 0.42
18 24 0.53
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.32
Consensus pattern (18 bp):
CGCAGTTTTGAGTGAGCT
Found at i:21685904 original size:17 final size:17
Alignment explanation
Indices: 21685811--21685913 Score: 70
Period size: 17 Copynumber: 5.9 Consensus size: 17
21685801 GAGACTTCGT
*
21685811 AGCTTTGATGAGCTCGC
1 AGCTTTGGTGAGCTCGC
* * *
21685828 A-CTATTGGAGAACACGC
1 AGCT-TTGGTGAGCTCGC
*
21685845 AG-TCTTGAGTGAGCTTGC
1 AGCT-TTG-GTGAGCTCGC
*
21685863 AGTTTTGGGTGAGCTCGC
1 AGCTTT-GGTGAGCTCGC
21685881 AGCTTT-GTAGAGCTCGC
1 AGCTTTGGT-GAGCTCGC
21685898 A-CTTTTGGTGAGCTCG
1 AGC-TTTGGTGAGCTCG
21685914 TAGTCTTGCA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
16 5 0.07
17 34 0.51
18 26 0.39
19 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.30
Consensus pattern (17 bp):
AGCTTTGGTGAGCTCGC
Found at i:21685913 original size:34 final size:34
Alignment explanation
Indices: 21685787--21685913 Score: 98
Period size: 34 Copynumber: 3.7 Consensus size: 34
21685777 TCACCTAACA
* *
21685787 AGCTTGCACTTTTGGAGA-CTTCGTAGCTTTG-ATG
1 AGCTCGCACTTTTGGAGAGC-TCGCAGCTTTGTA-G
* * * *
21685821 AGCTCGCACTATTGGAGAACACGCAGTCTTGAGT-G
1 AGCTCGCACTTTTGGAGAGCTCGCAG-CTT-TGTAG
* * *
21685856 AGCTTGCAGTTTTGGGTGAGCTCGCAGCTTTGTAG
1 AGCTCGCACTTTT-GGAGAGCTCGCAGCTTTGTAG
*
21685891 AGCTCGCACTTTTGGTGAGCTCG
1 AGCTCGCACTTTTGGAGAGCTCG
21685914 TAGTCTTGCA
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
34 32 0.44
35 30 0.41
36 11 0.15
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.31
Consensus pattern (34 bp):
AGCTCGCACTTTTGGAGAGCTCGCAGCTTTGTAG
Found at i:21693520 original size:22 final size:18
Alignment explanation
Indices: 21693508--21693546 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
21693498 TAAAATATGG
21693508 TAAAGTTTATAATTAAAAAT
1 TAAA-TTTATAA-TAAAAAT
21693528 TAAATTTATAATAATAAAT
1 TAAATTTATAATAA-AAAT
21693547 GATTGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 11 0.61
20 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
TAAATTTATAATAAAAAT
Found at i:21695446 original size:5 final size:5
Alignment explanation
Indices: 21695436--21695460 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21695426 AAAGCTGTAG
21695436 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
21695461 GCTTATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:21695681 original size:20 final size:21
Alignment explanation
Indices: 21695655--21695697 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21695645 CAAATTTTTA
21695655 AAAAAAAAGTATTTTAAAAAT
1 AAAAAAAAGTATTTTAAAAAT
21695676 AAAAAAAAGTATTTTAAAAAT
1 AAAAAAAAGTATTTTAAAAAT
21695697 A
1 A
21695698 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAAAAAAGTATTTTAAAAAT
Found at i:21695699 original size:11 final size:11
Alignment explanation
Indices: 21695658--21695708 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
21695648 ATTTTTAAAA
21695658 AAAAAGTATTTT
1 AAAAA-TATTTT
**
21695670 AAAAATA--AA
1 AAAAATATTTT
21695679 AAAAAGTATTTT
1 AAAAA-TATTTT
21695691 AAAAATATTTT
1 AAAAATATTTT
21695702 AAAAATA
1 AAAAATA
21695709 AAAAAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
9 5 0.16
10 2 0.06
11 15 0.47
12 10 0.31
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:21695731 original size:32 final size:32
Alignment explanation
Indices: 21695658--21695723 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
21695648 ATTTTTAAAA
*
21695658 AAAAAGTATTTTAAAAATAAAAAAAAGTATTTT
1 AAAAA-TATTTTAAAAATAAAAAAAAATATTTT
21695691 AAAAATATTTTAAAAATAAAAAAATAAATATTT
1 AAAAATATTTTAAAAAT-AAAAAA-AAATATTT
21695724 ATTATATTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.40
33 11 0.37
34 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (32 bp):
AAAAATATTTTAAAAATAAAAAAAAATATTTT
Found at i:21697911 original size:26 final size:26
Alignment explanation
Indices: 21697882--21697951 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 26
21697872 ATATTTAATA
*
21697882 CATGTTATTAATTGTGTTACTACCTT
1 CATGTTATTAATTGTGTTACTACCTC
* * *
21697908 CATGGTATTTTAATCGTGTTACTATCTC
1 CAT-GT-TATTAATTGTGTTACTACCTC
*
21697936 CATGATATTAATTGTG
1 CATGTTATTAATTGTG
21697952 CAGTTCATCT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
26 12 0.34
27 3 0.09
28 20 0.57
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.47
Consensus pattern (26 bp):
CATGTTATTAATTGTGTTACTACCTC
Found at i:21699104 original size:45 final size:45
Alignment explanation
Indices: 21699043--21699132 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
21699033 TTCCGGAAAA
*
21699043 AATTAACGGAGGTCAGATCGAGATGGGTTGGTTACGAGACACATT
1 AATTAACGGAGGTCAGATCGAGATGGGCTGGTTACGAGACACATT
* *
21699088 AATTAACGGAGGTCAGATTGAGATGGGCTGGTTACGAGGCACATT
1 AATTAACGGAGGTCAGATCGAGATGGGCTGGTTACGAGACACATT
21699133 CTCGGATTCG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.24
Consensus pattern (45 bp):
AATTAACGGAGGTCAGATCGAGATGGGCTGGTTACGAGACACATT
Found at i:21700358 original size:18 final size:18
Alignment explanation
Indices: 21700335--21700377 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
21700325 TGCCAGGTGC
* *
21700335 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
21700353 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
21700371 GTTTCCT
1 GTATCCT
21700378 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:21700941 original size:27 final size:27
Alignment explanation
Indices: 21700911--21701002 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 27
21700901 TTTAATTGAC
21700911 AAACCCTAACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTAACCCTTAACTTAA
*
21700938 AAACCCTAACCATAACCCTAACCATTAACTTAA
1 AAA--C---CC-TAACCCTAACCCTTAACTTAA
*
21700971 AAACTCTAACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTAACCCTTAACTTAA
21700998 AAACC
1 AAACC
21701003 GTTAACTTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
27 27 0.49
28 1 0.02
29 1 0.02
31 1 0.02
32 2 0.04
33 23 0.42
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (27 bp):
AAACCCTAACCCTAACCCTTAACTTAA
Found at i:21700959 original size:33 final size:33
Alignment explanation
Indices: 21700912--21701209 Score: 165
Period size: 33 Copynumber: 8.9 Consensus size: 33
21700902 TTAATTGACA
*
21700912 AACCCTAACCCTAACCCTTAACTTAAAAACCCT
1 AACCATAACCCTAACCCTTAACTTAAAAACCCT
*
21700945 AACCATAACCCTAACCATTAACTTAAAAA--CT
1 AACCATAACCCTAACCCTTAACTTAAAAACCCT
*
21700976 ---C-TAACCCTAACCCTTAACTTAAAAACCGTT
1 AACCATAACCCTAACCCTTAACTTAAAAACC-CT
* * *
21701006 AACTTAAAAACACCAAAACCC-TAAC--AAAAACCC-
1 AAC--CATAAC-CC-TAACCCTTAACTTAAAAACCCT
* ** * *
21701039 AAGCCCTATTCTTAACCCTTAATTTAAAAATCCTAACCAT
1 AA-CCATAACCCTAACCCTTAACTTAAAAA--C---CC-T
* *
21701079 AACCATAACCCCAACCTTTAACTTAAAAACCCTT
1 AACCATAACCCTAACCCTTAACTTAAAAACCC-T
** *
21701113 AAATTAATAACACTAAAACCC-TAAC--AAAAACCCT
1 -AA-CCATAACCCT--AACCCTTAACTTAAAAACCCT
* **
21701147 AGTCC-TAACCCTAACCCTTAACTTATTAACCCT
1 A-ACCATAACCCTAACCCTTAACTTAAAAACCCT
21701180 AACCATAACCCTAACCCTTAACTTAAAAAC
1 AACCATAACCCTAACCCTTAACTTAAAAAC
21701210 ACCAAAATCC
Statistics
Matches: 196, Mismatches: 38, Indels: 62
0.66 0.13 0.21
Matches are distributed among these distances:
27 23 0.12
28 1 0.01
30 11 0.06
31 10 0.05
32 9 0.05
33 66 0.34
34 5 0.03
35 18 0.09
36 9 0.05
37 11 0.06
38 11 0.06
39 20 0.10
40 2 0.01
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.23
Consensus pattern (33 bp):
AACCATAACCCTAACCCTTAACTTAAAAACCCT
Found at i:21701007 original size:15 final size:15
Alignment explanation
Indices: 21700984--21701016 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
21700974 CTCTAACCCT
21700984 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
21700999 AACCGTTAACTTAAA
1 AACCCTTAACTTAAA
21701014 AAC
1 AAC
21701017 ACCAAAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.24
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:21701046 original size:101 final size:103
Alignment explanation
Indices: 21700941--21701209 Score: 280
Period size: 107 Copynumber: 2.6 Consensus size: 103
21700931 AACTTAAAAA
* *
21700941 CCCTAACCATAACCC-TAACCATTAA-CTTAAAAACTC-TAACCCTAACCCTTAACTTAAAAACC
1 CCCTAACCATAACCCTTAACTATTAACCCTAAAAAC-CATAACCCTAACCCTTAACTTAAAAACC
* *
21701003 GTTAACTTAAAAACACCAAAACCCTAACAAAAACCCAAG
65 CTTAAATTAAAAACACCAAAACCCTAACAAAAACCCAAG
** * * ** * * *
21701042 CCCTATTCTTAACCCTTAATTTAAAAATCCTAACCATAACCATAACCCCAACCTTTAACTTAAAA
1 CCCTAACCATAACCCTTAA-CTATTAACCCTAA--A-AACCATAACCCTAACCCTTAACTTAAAA
* * *
21701107 ACCCTTAAATTAATAACACTAAAACCCTAACAAAAACCCTAG
62 ACCCTTAAATTAAAAACACCAAAACCCTAACAAAAACCCAAG
* *
21701149 TCCTAACCCTAACCCTTAACTTATTAACCCT---AACCATAACCCTAACCCTTAACTTAAAAAC
1 CCCTAACCATAACCCTTAAC-TATTAACCCTAAAAACCATAACCCTAACCCTTAACTTAAAAAC
21701210 ACCAAAATCC
Statistics
Matches: 135, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
101 40 0.30
102 3 0.02
103 3 0.02
104 4 0.03
106 2 0.01
107 83 0.61
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.23
Consensus pattern (103 bp):
CCCTAACCATAACCCTTAACTATTAACCCTAAAAACCATAACCCTAACCCTTAACTTAAAAACCC
TTAAATTAAAAACACCAAAACCCTAACAAAAACCCAAG
Found at i:21701107 original size:107 final size:107
Alignment explanation
Indices: 21700977--21701196 Score: 296
Period size: 107 Copynumber: 2.1 Consensus size: 107
21700967 TTAAAAACTC
* * *
21700977 TAACCCTAACCCTTAACTTAAAAACCGTTAACTTAAAAACACCAAAACCCTAACAAAAACCCAAG
1 TAACCCCAACCCTTAACTTAAAAACCCTTAAATTAAAAACACCAAAACCCTAACAAAAACCCAAG
** * * *
21701042 CCCTATTCTTAACCCTTAATTTAAAAATCCTAACCATAACCA
66 CCCTAACCCTAACCCTTAACTTAAAAACCCTAACCATAACCA
* * * *
21701084 TAACCCCAACCTTTAACTTAAAAACCCTTAAATTAATAACACTAAAACCCTAACAAAAACCCTAG
1 TAACCCCAACCCTTAACTTAAAAACCCTTAAATTAAAAACACCAAAACCCTAACAAAAACCCAAG
* ** *
21701149 TCCTAACCCTAACCCTTAACTTATTAACCCTAACCATAACCC
66 CCCTAACCCTAACCCTTAACTTAAAAACCCTAACCATAACCA
21701191 TAACCC
1 TAACCC
21701197 TTAACTTAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
107 97 1.00
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (107 bp):
TAACCCCAACCCTTAACTTAAAAACCCTTAAATTAAAAACACCAAAACCCTAACAAAAACCCAAG
CCCTAACCCTAACCCTTAACTTAAAAACCCTAACCATAACCA
Found at i:21701306 original size:35 final size:36
Alignment explanation
Indices: 21701267--21701429 Score: 102
Period size: 35 Copynumber: 4.4 Consensus size: 36
21701257 ATATAATTTG
21701267 ATAATTTTACTAACAATTAATATAATTA-ACAATTA
1 ATAATTTTACTAACAATTAATATAATTACACAATTA
* * * *
21701302 ATAATTTGACTAACAA--AATGTTAGATTTTACAAAATGTT
1 ATAATTTTACTAACAATTAAT-ATA-A--TTACACAAT-TA
* * ** * * * *
21701341 TTGACTGATACTAACAATTAATA-ATTTGATATAATTTG
1 AT-AATTTTACTAACAATTAATATAATT-ACACAA-TTA
*
21701379 ATAATTTTACTAACAATTAATACAATTA-ACAATTA
1 ATAATTTTACTAACAATTAATATAATTACACAATTA
21701414 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
21701430 AATGTTAGAT
Statistics
Matches: 95, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
33 3 0.03
34 2 0.02
35 34 0.36
36 3 0.03
37 23 0.24
38 13 0.14
39 3 0.03
40 11 0.12
42 3 0.03
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (36 bp):
ATAATTTTACTAACAATTAATATAATTACACAATTA
Found at i:21701315 original size:19 final size:19
Alignment explanation
Indices: 21701267--21701317 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 19
21701257 ATATAATTTG
*
21701267 ATAATTTTACTAACAATTA
1 ATAATTTAACTAACAATTA
*
21701286 AT-A--TAATTAACAATTA
1 ATAATTTAACTAACAATTA
*
21701302 ATAATTTGACTAACAA
1 ATAATTTAACTAACAA
21701318 AATGTTAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
16 13 0.52
17 1 0.04
18 1 0.04
19 10 0.40
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAATTTAACTAACAATTA
Found at i:21701452 original size:112 final size:111
Alignment explanation
Indices: 21701250--21701488 Score: 397
Period size: 112 Copynumber: 2.1 Consensus size: 111
21701240 ACCCTAACCC
* *
21701250 TAATCTGATATAATTTGATAATTTTACTAACAATTAATATAATTAACAATTAATAATTTGACTAA
1 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
* * *
21701315 CAAAATGTTAGATTTTACAAAATGTTTTGACTGATACTAACAATTAA
66 CAAAATGTTAGATTTTACAAAATGTTTTGACTGATACAAAAAAAT-A
*
21701362 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAA
1 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
* *
21701427 CAAAATGTTAGATTTTACAAAATGTTTTGATTGGTACAAAAAAATA
66 CAAAATGTTAGATTTTACAAAATGTTTTGACTGATACAAAAAAATA
21701473 TAATTTGATATAATTT
1 TAATTTGATATAATTT
21701489 TAATAAACCG
Statistics
Matches: 119, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
111 17 0.14
112 102 0.86
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.41
Consensus pattern (111 bp):
TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
CAAAATGTTAGATTTTACAAAATGTTTTGACTGATACAAAAAAATA
Found at i:21702043 original size:37 final size:40
Alignment explanation
Indices: 21701992--21702067 Score: 113
Period size: 37 Copynumber: 2.0 Consensus size: 40
21701982 TTTAATAAAT
21701992 AAATACATATTTTTATTTTTAATTTT-AAAAT-ATTTTTA
1 AAATACATATTTTTATTTTTAATTTTAAAAATAATTTTTA
* *
21702030 AAATAC-TTTTTTTATTTTTTATTTTAAAAATAATTTTT
1 AAATACATATTTTTATTTTTAATTTTAAAAATAATTTTT
21702068 CCGGTGTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 17 0.50
38 11 0.32
39 6 0.18
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (40 bp):
AAATACATATTTTTATTTTTAATTTTAAAAATAATTTTTA
Found at i:21702049 original size:38 final size:39
Alignment explanation
Indices: 21701992--21702067 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 39
21701982 TTTAATAAAT
21701992 AAATACATATTTTTATTTTTAATTTT-AAAAT-ATTTTTA
1 AAATACATATTTTTATTTTT-ATTTTAAAAATAATTTTTA
*
21702030 AAATAC-TTTTTTTATTTTTTATTTTAAAAATAATTTTT
1 AAATACATATTTTTA-TTTTTATTTTAAAAATAATTTTT
21702068 CCGGTGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
37 12 0.35
38 16 0.47
39 6 0.18
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (39 bp):
AAATACATATTTTTATTTTTATTTTAAAAATAATTTTTA
Found at i:21704092 original size:44 final size:44
Alignment explanation
Indices: 21704025--21704129 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
21704015 GATTTAATTT
* * * *
21704025 TTAAATTTTTAGTTT-AA-TAGATTTCTAGATCTTTTAGCTGAA
1 TTAAGTTTTAAGTTTAAATTAGATTTCTAAATCTTTTAGCTCAA
*
21704067 TTAAGTTTTAAGTTTAAATTAGATTTTTAAATCTTTTAGCTCAA
1 TTAAGTTTTAAGTTTAAATTAGATTTCTAAATCTTTTAGCTCAA
21704111 TTAGAG-TTTAAGTTTAAAT
1 TTA-AGTTTTAAGTTTAAAT
21704130 CTTTAATTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 13 0.24
43 2 0.04
44 38 0.69
45 2 0.04
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (44 bp):
TTAAGTTTTAAGTTTAAATTAGATTTCTAAATCTTTTAGCTCAA
Found at i:21705439 original size:24 final size:24
Alignment explanation
Indices: 21705410--21705457 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
21705400 TTTGAAATTT
* *
21705410 TCTCGACTCGAGTCGAGTGAAATG
1 TCTCGAATCAAGTCGAGTGAAATG
*
21705434 TCTCGAATCAAGTTGAGTGAAATG
1 TCTCGAATCAAGTCGAGTGAAATG
21705458 AAATTCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (24 bp):
TCTCGAATCAAGTCGAGTGAAATG
Found at i:21706057 original size:21 final size:21
Alignment explanation
Indices: 21706007--21706056 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
21705997 TTTTAAAATA
*
21706007 TTTTAAAATACTTTTTTTTAT
1 TTTTAAAATACTTTTTTTAAT
21706028 TTTTAAAATACTTTTTTTAAT
1 TTTTAAAATACTTTTTTTAAT
21706049 TTTCTAAA
1 TTT-TAAA
21706057 TTTTTTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAAAATACTTTTTTTAAT
Found at i:21706063 original size:21 final size:20
Alignment explanation
Indices: 21706007--21706065 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
21705997 TTTTAAAATA
21706007 TTTTAAAATACTTTTTTTTAT
1 TTTTAAAATA-TTTTTTTTAT
*
21706028 TTTTAAAATACTTTTTTTAAT
1 TTTTAAAATA-TTTTTTTTAT
21706049 TTTCT-AAAT-TTTTTTTT
1 TTT-TAAAATATTTTTTTT
21706066 GGTGTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.20
21 27 0.77
22 1 0.03
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTAAAATATTTTTTTTAT
Found at i:21710073 original size:13 final size:13
Alignment explanation
Indices: 21710055--21710080 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21710045 AAAGAGATTT
21710055 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
21710068 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
21710081 AATTGAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:21712061 original size:22 final size:22
Alignment explanation
Indices: 21712036--21712080 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
21712026 TGAGCAAATG
21712036 TTCTTTCATTCTTTACGATTTT
1 TTCTTTCATTCTTTACGATTTT
**
21712058 TTCTTTCATTCTTTTGGATTTT
1 TTCTTTCATTCTTTACGATTTT
21712080 T
1 T
21712081 CTGCCAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.16, G:0.07, T:0.67
Consensus pattern (22 bp):
TTCTTTCATTCTTTACGATTTT
Found at i:21713019 original size:7 final size:7
Alignment explanation
Indices: 21712997--21713044 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
21712987 TTGAGTCGTA
21712997 AAAAATG
1 AAAAATG
*
21713004 ACGAAATG
1 A-AAAATG
21713012 AAAAATG
1 AAAAATG
21713019 AAAAAGTG
1 AAAAA-TG
21713027 -AAAATG
1 AAAAATG
*
21713033 AAAACTG
1 AAAAATG
21713040 AAAAA
1 AAAAA
21713045 AGGAAAAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 2 0.06
7 24 0.71
8 8 0.24
ACGTcount: A:0.67, C:0.04, G:0.17, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:21715449 original size:527 final size:527
Alignment explanation
Indices: 21714379--21715942 Score: 2627
Period size: 527 Copynumber: 3.0 Consensus size: 527
21714369 TGGCATGAAG
* * *
21714379 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATC-AAGGATGGCGAATT
1 TAGATTGAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGGCGGATT
* *
21714443 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTTCCTGGGCAACAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTG
* * *
21714508 GAATAGATTGAAGATTACAGATCTTATCTCCCT-AGATAGTAGTGGAGTAGATCGAAGATGACAG
130 GAATAGATTGAAGATTACAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCAAAGATGACAG
* * * * *
21714572 ATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTTCCTGGGTAACA
194 ATTTTACCTCCCTGAGGTTGCAGCGGAGTATATTGAAGCCAGTAATTCTATCTTCCTGGGCAACA
* *
21714637 ATGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGTAGATTGAAGATGGC
259 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGTAGATCGAAGATGGC
21714702 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGCAGC
324 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGCAGC
21714767 AGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAGGATGG
389 AGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAGGATGG
*
21714832 CGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
454 CGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTACCTGGGCA
21714897 GCAGTGGAA
519 GCAGTGGAA
* *
21714906 TAGATTGAAGATTACAGATCTAATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGAGGATTT
1 TAGATTGAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
*
21714971 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGCAATTCTATCTCCCTGGGCAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGG
* * *
21715036 AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCATATTAAAGATGGCAGAT
131 AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGAT
* *
21715101 TTTACCTCCCCGAGGTTGCAGCGGAGTATATTGAAGCCATTAATTCTATCTTCCTGGGCAACAGT
196 TTTACCTCCCTGAGGTTGCAGCGGAGTATATTGAAGCCAGTAATTCTATCTTCCTGGGCAACAGT
21715166 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGTAGATCGAAGATGGCAG
261 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGTAGATCGAAGATGGCAG
21715231 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
326 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT-GGCAGCA
* * *
21715296 GTGGAATATATTGAAGATTATAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAGGATGGC
390 GTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAGGATGGC
* *
21715361 GGATTTGACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATGTACCTGGGCAG
455 GGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTACCTGGGCAG
21715426 CAGTGGAA
520 CAGTGGAA
21715434 TAGATTGAA-ATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TAGATTGAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
21715498 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGG
21715563 AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGAT
131 AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGAT
* *
21715628 TTTACCTCCCTGAGGTTGCAGCGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGT
196 TTTACCTCCCTGAGGTTGCAGCGGAGTATATTGAAGCCAGTAATTCTATCTTCCTGGGCAACAGT
* * * * *
21715693 GGAATAGATTGAAAATTACAGATCTTATCTCCTTA-AGCAGTAGTGGAGCAGATCAAAGATGGTA
261 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAGA-CAGTAGTGGAGTAGATCGAAGATGGCA
*
21715757 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAAC
325 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT-GGCAGC
* * * *
21715822 AGTGGAATAGATTAAATATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAA-GATG
389 AGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-AAGGATG
* * *
21715886 GCAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAACCCAGT-ATTCCTATCT
453 GCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATT-CTATCT
21715943 CCATGAAGTT
Statistics
Matches: 973, Mismatches: 58, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
526 4 0.00
527 815 0.84
528 154 0.16
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (527 bp):
TAGATTGAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGG
AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGAT
TTTACCTCCCTGAGGTTGCAGCGGAGTATATTGAAGCCAGTAATTCTATCTTCCTGGGCAACAGT
GGAATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGTAGATCGAAGATGGCAG
ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGCAGCAG
TGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAGGATGGCG
GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTACCTGGGCAGC
AGTGGAA
Found at i:21715637 original size:659 final size:659
Alignment explanation
Indices: 21714379--21715944 Score: 2588
Period size: 659 Copynumber: 2.4 Consensus size: 659
21714369 TGGCATGAAG
* *
21714379 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAGGATGGC-GAATT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAG-ATT
21714443 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTTCCTGGGCAACAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTTCCTGGGCAACAGTG
* *
21714508 GAATAGATTGAAGATTACAGATCTTATCTCCCTAGATAGTAGTGGAGTAGATCGAAGATGACAGA
130 GAATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGTAGATCGAAGATGGCAGA
* *
21714573 TTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTTCCTGGGTAACAA
195 TTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAA
* *
21714638 TGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGTAGATTGAAGATGGCA
260 TGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGCAGATTCAAGATGGCA
* *
21714703 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGCAGCA
325 GATTTGACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTACCTGGCAGCA
* *
21714768 GTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAGGATGGC
390 GTGGAATAGATTAAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGC
*
21714833 GGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
455 GGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAA
* *
21714898 CAGTGGAATAGATTGAAGATTACAGATCTAATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATG
520 CAGTGGAATAGATTGAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
* *
21714963 GAGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGCAATTCTATCTCCCTGGGC
585 GAAGATTTTACCTCCCTGAGGTTACAGCGGAGTACATTGAAGCCAGCAATTCTATCTCCCTGGGC
21715028 AACAGTGGAA
650 AACAGTGGAA
* *
21715038 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCATATTAAAGATGGCAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTT
* * * * *
21715103 TACCTCCCCGAGGTTGCAGCGGAGTATATTGAAGCCATTAATTCTATCTTCCTGGGCAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTTCCTGGGCAACAGTGG
21715168 AATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGTAGATCGAAGATGGCAGAT
131 AATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGTAGATCGAAGATGGCAGAT
* * *
21715233 TTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGT
196 TTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAAT
* * *
21715298 GGAATATATTGAAGATTATAGATCTTATCTCCCTA-AGTAGTAGTGGAGCAGA-TCAAGGATGGC
261 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAGA-CAGTAGTGGAGCAGATTCAA-GATGGC
* *
21715361 GGATTTGACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATGTACCTGGGCAG
324 AGATTTGACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTACCT-GGCAG
*
21715426 CAGTGGAATAGATTGAA-ATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GAT
388 CAGTGGAATAGATTAAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGGAT
21715489 GGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGG
452 GGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGG
*
21715554 CAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAG
517 CAACAGTGGAATAGATTGAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATCAAAG
* * *
21715619 AT-GACAGATTTTACCTCCCTGAGGTTGCAGCGGAGTATATTGAAGCCAGTAATTCTATCTCCCT
582 ATGGA-AGATTTTACCTCCCTGAGGTTACAGCGGAGTACATTGAAGCCAGCAATTCTATCTCCCT
*
21715683 GGGCAGCAGTGGAA
646 GGGCAACAGTGGAA
* * *
21715697 TAGATTGAAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCAAAGATGGTAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTT
* * *
21715762 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTTCCTGGGCAACAGTGG
* * *
21715827 AATAGATTAAATATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCAGAT
131 AATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGTAGATCGAAGATGGCAGAT
*
21715892 TTTACCTCCTTGAGGTTACAGTGGAGTACATTGAACCCAGT-ATTCCTATCTCC
196 TTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATT-CTATCTCC
21715945 ATGAAGTTGC
Statistics
Matches: 845, Mismatches: 55, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
658 9 0.01
659 812 0.96
660 24 0.03
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (659 bp):
TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTT
TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTTCCTGGGCAACAGTGG
AATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGTAGATCGAAGATGGCAGAT
TTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAAT
GGAATAGATTGAAGATTACAGATCTTATCTCCCTAGACAGTAGTGGAGCAGATTCAAGATGGCAG
ATTTGACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTACCTGGCAGCAG
TGGAATAGATTAAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCG
GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAAC
AGTGGAATAGATTGAAGATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
AAGATTTTACCTCCCTGAGGTTACAGCGGAGTACATTGAAGCCAGCAATTCTATCTCCCTGGGCA
ACAGTGGAA
Found at i:21715987 original size:132 final size:132
Alignment explanation
Indices: 21714379--21715944 Score: 2452
Period size: 132 Copynumber: 11.9 Consensus size: 132
21714369 TGGCATGAAG
*
21714379 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATC-AAGGATGGC-GAAT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGGCAG-AT
* *
21714442 TTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTTCCTGGGCAACAGT
64 TTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGT
21714507 GGAA
129 GGAA
* * *
21714511 TAGATTGAAGATTACAGATCTTATCTCCCT-AGATAGTAGTGGAGTAGATCGAAGATGACAGATT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAGATGGCAGATT
* * * *
21714575 TTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTTCCTGGGTAACAATG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTG
21714640 GAA
130 GAA
* *
21714643 TAGATTGAAGATTACAGATCTTATCTCCCT-AGACAGTAGTGGAGTAGATTGAAGATGGCAGATT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAGATGGCAGATT
*
21714707 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT-GGCAGCAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTG
21714771 GAA
130 GAA
* * *
21714774 TAGATTAAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-AAGGATGGCGGATT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGGCAGATT
*
21714838 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTG
21714903 GAA
130 GAA
* *
21714906 TAGATTGAAGATTACAGATCTAATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGG-AGGATT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCA-GATT
*
21714970 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGCAATTCTATCTCCCTGGGCAACAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTG
21715035 GAA
130 GAA
* **
21715038 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCATATTAAAGATGGCAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
* * * * * *
21715103 TACCTCCCCGAGGTTGCAGCGGAGTATATTGAAGCCATTAATTCTATCTTCCTGGGCAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGG
21715168 AA
131 AA
*
21715170 TAGATTGAAGATTACAGATCTTATCTCCCT-AGACAGTAGTGGAGTAGATCGAAGATGGCAGATT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAGATGGCAGATT
*
21715234 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTG
21715299 GAA
130 GAA
* * * *
21715302 TATATTGAAGATTATAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-AAGGATGGCGGATT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGGCAGATT
* * * *
21715366 TGACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATGTACCTGGGCAGCAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTG
21715431 GAA
130 GAA
* *
21715434 TAGATTGAA-ATTACAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
21715498 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGG
21715563 AA
131 AA
* *
21715565 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
* * * *
21715630 TACCTCCCTGAGGTTGCAGCGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGG
21715695 AA
131 AA
* * * *
21715697 TAGATTGAAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCAAAGATGGTAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
*
21715762 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGG
21715827 AA
131 AA
* * * *
21715829 TAGATTAAATATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
* *
21715894 TACCTCCTTGAGGTTACAGTGGAGTACATTGAACCCAGT-ATTCCTATCTCC
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATT-CTATCTCC
21715945 ATGAAGTTGC
Statistics
Matches: 1328, Mismatches: 91, Indels: 30
0.92 0.06 0.02
Matches are distributed among these distances:
130 2 0.00
131 247 0.19
132 1071 0.81
133 8 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGG
AA
Found at i:21717611 original size:14 final size:15
Alignment explanation
Indices: 21717592--21717620 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21717582 ATATACATAC
21717592 ATTTTC-ATTTTTTT
1 ATTTTCTATTTTTTT
21717606 ATTTTCTATTTTTTT
1 ATTTTCTATTTTTTT
21717621 TACTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTTTCTATTTTTTT
Found at i:21719645 original size:20 final size:21
Alignment explanation
Indices: 21719605--21719650 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
21719595 TATAAATACC
21719605 CCCCTTTTTATGTGTAATTTG
1 CCCCTTTTTATGTGTAATTTG
* *
21719626 CCCCTTTTTTTG-GTATTTTG
1 CCCCTTTTTATGTGTAATTTG
21719646 CCCCT
1 CCCCT
21719651 AATAATACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.09, C:0.26, G:0.13, T:0.52
Consensus pattern (21 bp):
CCCCTTTTTATGTGTAATTTG
Found at i:21720709 original size:18 final size:18
Alignment explanation
Indices: 21720683--21720741 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
21720673 AAGGGTTAAT
*
21720683 TTTATTTTTTA-AATATTA
1 TTTAATTTTTATAAT-TTA
21720701 TTTAATTTTTATAATTTAA
1 TTTAATTTTTATAATTT-A
*
21720720 TTAATATTTTTATAATTT-
1 TTTA-ATTTTTATAATTTA
21720738 TTTA
1 TTTA
21720742 TAATAGTCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 15 0.43
19 7 0.20
20 13 0.37
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTAATTTTTATAATTTA
Found at i:21723958 original size:25 final size:25
Alignment explanation
Indices: 21723921--21724032 Score: 113
Period size: 25 Copynumber: 4.5 Consensus size: 25
21723911 GACTCACCAT
*
21723921 AGCTCGTATGAGCTTACCGATT-TGC
1 AGCTCGTAAGAGCTTACCGATTAT-C
*
21723946 AGCTCGTAAGAGCTTACCGATTCTC
1 AGCTCGTAAGAGCTTACCGATTATC
* * *
21723971 AGCTCGTATGAGCTTATCGTATT-TT
1 AGCTCGTAAGAGCTTACCG-ATTATC
* *
21723996 AGCTCGGAGGAGCTTACCGATTAT-
1 AGCTCGTAAGAGCTTACCGATTATC
*
21724020 GGCTCGTAAGAGC
1 AGCTCGTAAGAGC
21724033 ATACAAGTAC
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
24 13 0.18
25 57 0.77
26 4 0.05
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (25 bp):
AGCTCGTAAGAGCTTACCGATTATC
Found at i:21724000 original size:50 final size:50
Alignment explanation
Indices: 21723921--21724017 Score: 142
Period size: 50 Copynumber: 1.9 Consensus size: 50
21723911 GACTCACCAT
*
21723921 AGCTCGTATGAGCTTACCGATTTGCAGCTCGTAAGAGCTTACCGATTCTC
1 AGCTCGTATGAGCTTACCGATTTGCAGCTCGGAAGAGCTTACCGATTCTC
* * *
21723971 AGCTCGTATGAGCTTATCGTATTT-TAGCTCGGAGGAGCTTACCGATT
1 AGCTCGTATGAGCTTACCG-ATTTGCAGCTCGGAAGAGCTTACCGATT
21724018 ATGGCTCGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 38 0.90
51 4 0.10
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.32
Consensus pattern (50 bp):
AGCTCGTATGAGCTTACCGATTTGCAGCTCGGAAGAGCTTACCGATTCTC
Found at i:21735550 original size:21 final size:21
Alignment explanation
Indices: 21735526--21735586 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
21735516 TGAGCTTCAT
*
21735526 TTCAACCCTTAAGGGTTTCCG
1 TTCAACCCTTATGGGTTTCCG
* *
21735547 TTCAACTCC-TATGAGCTTCCG
1 TTCAAC-CCTTATGGGTTTCCG
*
21735568 TTTAACCCTTATGGGTTTC
1 TTCAACCCTTATGGGTTTC
21735587 TATTTAGCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.38
Consensus pattern (21 bp):
TTCAACCCTTATGGGTTTCCG
Found at i:21735607 original size:42 final size:42
Alignment explanation
Indices: 21735474--21735607 Score: 126
Period size: 42 Copynumber: 3.2 Consensus size: 42
21735464 TTAACTCATA
* * * *
21735474 TGAGTTTCCGTTTAACCCTAATGGGTTTTTCTTTAGCTCTTT
1 TGAGCTTCCGTTTAACCCTTATGGGTTTCTATTTAGCTCTTT
* * ** * * * *
21735516 TGAGCTT-CATTTCAACCCTTAAGGGTTTCCGTTCAACTCCTA
1 TGAGCTTCCGTTT-AACCCTTATGGGTTTCTATTTAGCTCTTT
*
21735558 TGAGCTTCCGTTTAACCCTTATGGGTTTCTATTTAGCACTTT
1 TGAGCTTCCGTTTAACCCTTATGGGTTTCTATTTAGCTCTTT
*
21735600 TGTGCTTC
1 TGAGCTTC
21735608 TGTGCAACCT
Statistics
Matches: 69, Mismatches: 21, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
41 4 0.06
42 61 0.88
43 4 0.06
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.44
Consensus pattern (42 bp):
TGAGCTTCCGTTTAACCCTTATGGGTTTCTATTTAGCTCTTT
Found at i:21737395 original size:3 final size:3
Alignment explanation
Indices: 21737387--21737419 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
21737377 TAGATTGAGG
*
21737387 GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
21737420 ATTTGGAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21745246 original size:23 final size:23
Alignment explanation
Indices: 21745213--21745257 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
21745203 TCCTAAGTCA
*
21745213 GGTATTGGGGTATTACATTTAGT
1 GGTATTAGGGTATTACATTTAGT
21745236 GGTATTAGGGTATTACATTTAG
1 GGTATTAGGGTATTACATTTAG
21745258 GGGACCCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.04, G:0.29, T:0.42
Consensus pattern (23 bp):
GGTATTAGGGTATTACATTTAGT
Found at i:21749938 original size:16 final size:16
Alignment explanation
Indices: 21749917--21749947 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21749907 GAGTACACCA
21749917 CATCACTCTACTAGCT
1 CATCACTCTACTAGCT
21749933 CATCACTCTACTAGC
1 CATCACTCTACTAGC
21749948 AGGGTGGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.39, G:0.06, T:0.29
Consensus pattern (16 bp):
CATCACTCTACTAGCT
Found at i:21750029 original size:32 final size:32
Alignment explanation
Indices: 21749982--21750043 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
21749972 GAGCTAGAGA
*
21749982 GTGGCAAGTTGGCGAGGAGGCGAGATAGCAGT
1 GTGGCAAGTTAGCGAGGAGGCGAGATAGCAGT
* *
21750014 GTGGCGAGTTAGCGAGGAGGCGAGCTAGCA
1 GTGGCAAGTTAGCGAGGAGGCGAGATAGCA
21750044 AAATGGCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.47, T:0.15
Consensus pattern (32 bp):
GTGGCAAGTTAGCGAGGAGGCGAGATAGCAGT
Found at i:21750035 original size:16 final size:16
Alignment explanation
Indices: 21749988--21750042 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
21749978 GAGAGTGGCA
*
21749988 AGTTGGCGAGGAGGCG
1 AGTTAGCGAGGAGGCG
* *
21750004 AGATAGC-AGTGTGGCG
1 AGTTAGCGAG-GAGGCG
21750020 AGTTAGCGAGGAGGCG
1 AGTTAGCGAGGAGGCG
*
21750036 AGCTAGC
1 AGTTAGC
21750043 AAAATGGCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 2 0.06
16 27 0.87
17 2 0.06
ACGTcount: A:0.24, C:0.15, G:0.47, T:0.15
Consensus pattern (16 bp):
AGTTAGCGAGGAGGCG
Found at i:21750134 original size:16 final size:16
Alignment explanation
Indices: 21750102--21750205 Score: 86
Period size: 16 Copynumber: 6.5 Consensus size: 16
21750092 AAATGGTGAC
*
21750102 GAGCTAGC-AGAATGGT
1 GAGCTAGCGAGGA-GGT
*
21750118 GAGGTAGCGAGGAGGT
1 GAGCTAGCGAGGAGGT
* *
21750134 GAGCTAGC-AGAGTGGC
1 GAGCTAGCGAG-GAGGT
*
21750150 GAGCTAGCGAGGAGGC
1 GAGCTAGCGAGGAGGT
* *
21750166 GAGCTAGCAATGAGGT
1 GAGCTAGCGAGGAGGT
* * *
21750182 GAGCTAACAAGGAGGC
1 GAGCTAGCGAGGAGGT
21750198 GAGCTAGC
1 GAGCTAGC
21750206 AGAGAGTGGC
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
15 2 0.03
16 65 0.90
17 5 0.07
ACGTcount: A:0.29, C:0.15, G:0.43, T:0.12
Consensus pattern (16 bp):
GAGCTAGCGAGGAGGT
Found at i:21750142 original size:32 final size:32
Alignment explanation
Indices: 21749993--21750208 Score: 132
Period size: 32 Copynumber: 6.7 Consensus size: 32
21749983 TGGCAAGTTG
* ** * *
21749993 GCGAGGAGGCGAGATAGCAGTGTGGCGAGTTA
1 GCGAGGAGGCGAGCTAGCAGAATGGTGAGCTA
* **
21750025 GCGAGGAGGCGAGCTAGCAAAATGGCAAGCTA
1 GCGAGGAGGCGAGCTAGCAGAATGGTGAGCTA
* * * * * * *
21750057 G-AAAGTGGTGGGCTAGCAGATAGTGATTAGCTA
1 GCGAGGAGGCGAGCTAGCAGA-A-TGGTGAGCTA
** * * *
21750090 GTAAATGGTGACGAGCTAGCAGAATGGTGAGGTA
1 G-CGA-GGAGGCGAGCTAGCAGAATGGTGAGCTA
* * *
21750124 GCGAGGAGGTGAGCTAGCAGAGTGGCGAGCTA
1 GCGAGGAGGCGAGCTAGCAGAATGGTGAGCTA
21750156 GCGAGGAGGCGAGCTAGC--AATGAGGTGAGCTA
1 GCGAGGAGGCGAGCTAGCAGAAT--GGTGAGCTA
* *
21750188 ACAAGGAGGCGAGCTAGCAGA
1 GCGAGGAGGCGAGCTAGCAGA
21750209 GAGTGGCAAG
Statistics
Matches: 140, Mismatches: 35, Indels: 16
0.73 0.18 0.08
Matches are distributed among these distances:
30 2 0.01
31 13 0.09
32 91 0.65
33 9 0.06
34 9 0.06
35 3 0.02
36 13 0.09
ACGTcount: A:0.30, C:0.14, G:0.41, T:0.15
Consensus pattern (32 bp):
GCGAGGAGGCGAGCTAGCAGAATGGTGAGCTA
Found at i:21750154 original size:48 final size:47
Alignment explanation
Indices: 21750101--21750208 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 47
21750091 TAAATGGTGA
* * * * *
21750101 CGAGCTAGCAGAATGGTGAGGTAGCGAGGAGGTGAGCTAGC-AGAGTGG
1 CGAGCTAGCAGAA-GGCGAGCTAGCAAGGAGGTGAGCTAACAAG-GAGG
* *
21750149 CGAGCTAGCGAGGAGGCGAGCTAGCAATGAGGTGAGCTAACAAGGAGG
1 CGAGCTAGC-AGAAGGCGAGCTAGCAAGGAGGTGAGCTAACAAGGAGG
21750197 CGAGCTAGCAGA
1 CGAGCTAGCAGA
21750209 GAGTGGCAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
47 2 0.04
48 43 0.86
49 5 0.10
ACGTcount: A:0.30, C:0.16, G:0.43, T:0.12
Consensus pattern (47 bp):
CGAGCTAGCAGAAGGCGAGCTAGCAAGGAGGTGAGCTAACAAGGAGG
Found at i:21750229 original size:16 final size:16
Alignment explanation
Indices: 21750208--21750243 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21750198 GAGCTAGCAG
*
21750208 AGAGTGGCAAGCTAGT
1 AGAGTGGCAAGCTACT
*
21750224 AGAGTGGCGAGCTACT
1 AGAGTGGCAAGCTACT
21750240 AGAG
1 AGAG
21750244 AGTCGCGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.39, T:0.17
Consensus pattern (16 bp):
AGAGTGGCAAGCTACT
Found at i:21750245 original size:18 final size:18
Alignment explanation
Indices: 21750195--21750252 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
21750185 CTAACAAGGA
21750195 GGCGAGCTAGC-AGAGAGT
1 GGCGAGCTA-CTAGAGAGT
* *
21750213 GGCAAGCTAGT--AGAGT
1 GGCGAGCTACTAGAGAGT
21750229 GGCGAGCTACTAGAGAGT
1 GGCGAGCTACTAGAGAGT
*
21750247 CGCGAG
1 GGCGAG
21750253 GTGGTGTCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 14 0.44
18 18 0.56
ACGTcount: A:0.28, C:0.17, G:0.41, T:0.14
Consensus pattern (18 bp):
GGCGAGCTACTAGAGAGT
Found at i:21751627 original size:18 final size:18
Alignment explanation
Indices: 21751589--21751699 Score: 85
Period size: 18 Copynumber: 6.2 Consensus size: 18
21751579 AAATATTTAG
21751589 AAAATA-TAGAAA-TTGTA
1 AAAATATTA-AAATTTGTA
*
21751606 AAAATATTTAAATTAT-TA
1 AAAATATTAAAATT-TGTA
21751624 AAAATATTAAAATTTGTA
1 AAAATATTAAAATTTGTA
*
21751642 AAAATA--AATA-TTGTA
1 AAAATATTAAAATTTGTA
21751657 AATAATAATTAAATATTT-TA
1 AA-AAT-ATTAAA-ATTTGTA
21751677 AAAATATTTTAAAA-TTGTA
1 AAAATA--TTAAAATTTGTA
21751696 AAAA
1 AAAA
21751700 AGTTATTGAA
Statistics
Matches: 77, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
15 7 0.09
16 6 0.08
17 11 0.14
18 28 0.36
19 13 0.17
20 10 0.13
21 2 0.03
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATATTAAAATTTGTA
Found at i:21751628 original size:10 final size:9
Alignment explanation
Indices: 21751577--21751635 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
21751567 AATAATTAGA
21751577 AAAAATATTT
1 AAAAATA-TT
21751587 AGAAAATA-T
1 A-AAAATATT
*
21751596 AGAAAT-TGT
1 AAAAATAT-T
21751605 AAAAATATT
1 AAAAATATT
* *
21751614 TAAATTATT
1 AAAAATATT
21751623 AAAAATATT
1 AAAAATATT
21751632 AAAA
1 AAAA
21751636 TTTGTAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
8 4 0.10
9 27 0.69
10 2 0.05
11 6 0.15
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (9 bp):
AAAAATATT
Found at i:21751678 original size:53 final size:51
Alignment explanation
Indices: 21751600--21751717 Score: 141
Period size: 53 Copynumber: 2.3 Consensus size: 51
21751590 AAATATAGAA
*
21751600 ATTGTAAA-AATATTTAAATTATTAAAAATA-TTAAAATTTGTAAAAATAAAT
1 ATTGTAAATAATAATTAAATTATTAAAAATATTTAAAA-TTGTAAAAA-AAAT
* **
21751651 ATTGTAAATAATAATTAAATATTTTAAAAATATTTTAAAATTGTAAAAAAGTT
1 ATTGTAAATAATAATTAAAT-TATTAAAAATA-TTTAAAATTGTAAAAAAAAT
*
21751704 ATTGAAAATAATAA
1 ATTGTAAATAATAA
21751718 ATTTTTTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
51 8 0.14
52 10 0.17
53 25 0.43
54 9 0.16
55 6 0.10
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (51 bp):
ATTGTAAATAATAATTAAATTATTAAAAATATTTAAAATTGTAAAAAAAAT
Found at i:21751700 original size:20 final size:20
Alignment explanation
Indices: 21751646--21751700 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
21751636 TTTGTAAAAA
*
21751646 TAAATATTGTAAATAATAAT
1 TAAATATTGTAAAAAATAAT
* *
21751666 TAAATATT-TTAAAAATATTT
1 TAAATATTGTAAAAAATA-AT
21751686 TAAA-ATTGTAAAAAA
1 TAAATATTGTAAAAAA
21751701 GTTATTGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
TAAATATTGTAAAAAATAAT
Found at i:21752049 original size:22 final size:22
Alignment explanation
Indices: 21752005--21752051 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
21751995 TTTTAAATAA
*
21752005 TTTTTTAATAATCATTTGCAAT
1 TTTTTTAATAATCATTTACAAT
* *
21752027 TTTTTTAATAAT-TTTTACAAA
1 TTTTTTAATAATCATTTACAAT
21752048 TTTT
1 TTTT
21752052 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTTAATAATCATTTACAAT
Found at i:21752165 original size:18 final size:18
Alignment explanation
Indices: 21752139--21752196 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
21752129 CAATATTTAA
*
21752139 TTTTT-ATAATTTTTATT
1 TTTTTAATAATTTATATT
*
21752156 TTTTTAATAATTTAAATAT
1 TTTTTAATAATTTATAT-T
21752175 TTTTTACA-AATTTATATT
1 TTTTTA-ATAATTTATATT
21752193 TTTT
1 TTTT
21752197 AAAATATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 5 0.14
18 14 0.40
19 15 0.43
20 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTAATAATTTATATT
Found at i:21752179 original size:19 final size:16
Alignment explanation
Indices: 21752139--21752201 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 16
21752129 CAATATTTAA
* *
21752139 TTTTTATAATTTTTATT
1 TTTTTAAAATTTATA-T
21752156 TTTTTAATAATTTAAATAT
1 TTTTTAA-AATTT--ATAT
21752175 TTTTTACAAATTTATAT
1 TTTTTA-AAATTTATAT
21752192 TTTTTAAAAT
1 TTTTTAAAAT
21752202 ATTTTTTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
16 4 0.10
17 16 0.40
18 5 0.12
19 12 0.30
20 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTTAAAATTTATAT
Found at i:21758806 original size:40 final size:40
Alignment explanation
Indices: 21758749--21758959 Score: 219
Period size: 40 Copynumber: 5.3 Consensus size: 40
21758739 ATCTTGAATA
* * * *
21758749 GGTGCTCTTGACAGTACTTTTGTACTCCTGATAGCATTAC
1 GGTGCTCCTAACAGTACTTTCGTACTCCTGATAGCACTAC
* * *
21758789 GGTGTTCCTAAAAGTACTTTCATAC-CCTTGATAGCACTAC
1 GGTGCTCCTAACAGTACTTTCGTACTCC-TGATAGCACTAC
* * *
21758829 GGTGCTCCTAGCATTACTTTTCG-ACTCCTGATAACACTAC
1 GGTGCTCCTAACAGTAC-TTTCGTACTCCTGATAGCACTAC
* * *
21758869 GGTGCTCCTAACAGTACTTTCCTACTCCTGTTAGCACTAT
1 GGTGCTCCTAACAGTACTTTCGTACTCCTGATAGCACTAC
* * * * *
21758909 GGTGCTCCTGATAGTACTTTCGTACTCTTGTTAGCCCTAC
1 GGTGCTCCTAACAGTACTTTCGTACTCCTGATAGCACTAC
*
21758949 AGTGCTCCTAA
1 GGTGCTCCTAA
21758960 TAGCATATGC
Statistics
Matches: 140, Mismatches: 27, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 6 0.04
40 128 0.91
41 6 0.04
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (40 bp):
GGTGCTCCTAACAGTACTTTCGTACTCCTGATAGCACTAC
Found at i:21759009 original size:20 final size:19
Alignment explanation
Indices: 21758980--21759025 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
21758970 ATGCTTCTAT
* *
21758980 TTGCACTACGTTGTCCCTTA
1 TTGCACTACGGT-TCCCTGA
*
21759000 TTGCATTACGGTTCCCTGA
1 TTGCACTACGGTTCCCTGA
21759019 TTGCACT
1 TTGCACT
21759026 TTTGTGCCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.15, C:0.28, G:0.17, T:0.39
Consensus pattern (19 bp):
TTGCACTACGGTTCCCTGA
Found at i:21759038 original size:20 final size:20
Alignment explanation
Indices: 21759013--21759092 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
21759003 CATTACGGTT
*
21759013 CCCTGATTGCACTTTTGTGC
1 CCCTGATTGCACTTTAGTGC
* *
21759033 CCCTGATTGTACTTTAGTGT
1 CCCTGATTGCACTTTAGTGC
* *
21759053 CACTGATTGCACTTT-GTTC
1 CCCTGATTGCACTTTAGTGC
* * *
21759072 CCTTGATTTCTCTTTAGTGC
1 CCCTGATTGCACTTTAGTGC
21759092 C
1 C
21759093 TCCGTAAGCA
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
19 13 0.28
20 34 0.72
ACGTcount: A:0.12, C:0.26, G:0.17, T:0.44
Consensus pattern (20 bp):
CCCTGATTGCACTTTAGTGC
Found at i:21759961 original size:13 final size:13
Alignment explanation
Indices: 21759943--21759969 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21759933 TCCTTCGTAG
21759943 AAATCCCTAAATT
1 AAATCCCTAAATT
21759956 AAATCCCTAAATT
1 AAATCCCTAAATT
21759969 A
1 A
21759970 TGTTAATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATCCCTAAATT
Found at i:21767406 original size:65 final size:65
Alignment explanation
Indices: 21767302--21767447 Score: 274
Period size: 65 Copynumber: 2.2 Consensus size: 65
21767292 ATATAATGAA
* *
21767302 ATTAAGCATTGACACCCATAAACATTTATTAAGACAATGAAATTGTTCGCCCAAAGTTAACAATT
1 ATTAAGCTTTGACACCCATAAACATTTATTAAGACAATGAAATTGTTCACCCAAAGTTAACAATT
21767367 ATTAAGCTTTGACACCCATAAACATTTATTAAGACAATGAAATTGTTCACCCAAAGTTAACAATT
1 ATTAAGCTTTGACACCCATAAACATTTATTAAGACAATGAAATTGTTCACCCAAAGTTAACAATT
21767432 ATTAAGCTTTGACACC
1 ATTAAGCTTTGACACC
21767448 AAGCAAAATC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 79 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (65 bp):
ATTAAGCTTTGACACCCATAAACATTTATTAAGACAATGAAATTGTTCACCCAAAGTTAACAATT
Found at i:21779758 original size:13 final size:14
Alignment explanation
Indices: 21779740--21779791 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
21779730 TAAATTTAAA
21779740 GAAAAA-AAGAAGG
1 GAAAAAGAAGAAGG
*
21779753 GAAAAAGAAGAGGG
1 GAAAAAGAAGAAGG
21779767 AGAAGAAAGAAGAAGG
1 -GAA-AAAGAAGAAGG
21779783 GAAAAAGAA
1 GAAAAAGAA
21779792 TTCTTAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 6 0.18
14 12 0.35
15 6 0.18
16 10 0.29
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (14 bp):
GAAAAAGAAGAAGG
Found at i:21782620 original size:26 final size:26
Alignment explanation
Indices: 21782580--21782649 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
21782570 TTTTTTGAAT
**
21782580 TTTTACTAAGGGTAAAATCATCAAAA
1 TTTTACTGGGGGTAAAATCATCAAAA
* *
21782606 TTTTA-TCGGGTGTAAAATCGTCAAAA
1 TTTTACT-GGGGGTAAAATCATCAAAA
21782632 TTTTACTGGGGGTAAAAT
1 TTTTACTGGGGGTAAAAT
21782650 AGGGATGAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.03
26 35 0.95
27 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (26 bp):
TTTTACTGGGGGTAAAATCATCAAAA
Found at i:21784741 original size:13 final size:13
Alignment explanation
Indices: 21784723--21784753 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21784713 TTCCAGCAAC
21784723 TATGAATTTATTT
1 TATGAATTTATTT
21784736 TATGAATTTATTT
1 TATGAATTTATTT
*
21784749 GATGA
1 TATGA
21784754 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:21784999 original size:50 final size:50
Alignment explanation
Indices: 21784924--21785098 Score: 260
Period size: 50 Copynumber: 3.5 Consensus size: 50
21784914 NNNNNNNNNN
21784924 CATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGAC
1 CATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGAC
* **
21784974 CATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGAC
1 CATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGAC
* * * **
21785024 CATGTCTGGGACATGGCATGGGCACCAACATGAGAACATCCCATGTAAGAC
1 CATGTCTGGGACATGGCATTGGCACCGAGATGAG-AGGTCCCATGTAAGAC
*
21785075 CATGTCTGGGACATGGCTTTGGCA
1 CATGTCTGGGACATGGCATTGGCA
21785099 TGTTATTATC
Statistics
Matches: 111, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 77 0.69
51 34 0.31
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (50 bp):
CATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGAC
Found at i:21789642 original size:50 final size:50
Alignment explanation
Indices: 21789563--21789804 Score: 238
Period size: 50 Copynumber: 4.9 Consensus size: 50
21789553 CATTTGGGTA
*
21789563 AAGAGGTCCCATGTCAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
21789613 AAGAGGTCCAATGTAAGACCATGTATGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * *
21789663 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * * *
21789713 GAGAACTCCCATGTAAGGCCATATCTGGGATATGGCATTGGCA--GTACAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGAT
** * * *
21789762 GAA-ACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 -AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
21789805 TGTTATATTC
Statistics
Matches: 160, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.01
49 35 0.22
50 124 0.77
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:21790043 original size:21 final size:20
Alignment explanation
Indices: 21790009--21790059 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
21789999 TGAGTTATTT
21790009 AAGCAAGTAAGTAAGTAAAC
1 AAGCAAGTAAGTAAGTAAAC
*
21790029 AAGCAAGTGAAGTAAGTAAAG
1 AAGCAAGT-AAGTAAGTAAAC
*
21790050 AAGAAAGTAA
1 AAGCAAGTAA
21790060 AGATCCTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.14
Consensus pattern (20 bp):
AAGCAAGTAAGTAAGTAAAC
Found at i:21796307 original size:50 final size:50
Alignment explanation
Indices: 21796232--21796424 Score: 233
Period size: 50 Copynumber: 3.9 Consensus size: 50
21796222 CATTTGGGTA
* *
21796232 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* *
21796282 AAGAGGTCACATGTAAGACCATGTCTGGGACATGGCATTGGCACCGCGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * *
21796332 GAGAGGTCCCCGGTAAGACCATGTCTGGGACATAGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * *
21796382 GAGAACTCCCATGTTAGGCCATATCTGGGATATGGCATTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21796425 GTACAGGAAA
Statistics
Matches: 122, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 122 1.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:21796472 original size:49 final size:49
Alignment explanation
Indices: 21796241--21796473 Score: 175
Period size: 50 Copynumber: 4.7 Consensus size: 49
21796231 AAAGAGGTCT
* * * ** ** *
21796241 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCA
1 CATGTAAGACCATGTCTGGGACATAGCATTGGCA-CGACAGGAGAACTCC
* * **
21796291 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-CGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATAGCATTGGCA-CGAC-AGGAGAACTCC
** * * *
21796341 CCGGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATAGCATTGGCA-CGACAGGAGAACTCC
* * * * *
21796391 CATGTTAGGCCATATCTGGGATATGGCATTGGCA-GTACAGGA-AACATCC
1 CATGTAAGACCATGTCTGGGACATAGCATTGGCACG-ACAGGAGAAC-TCC
* *
21796440 CATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATAGCATTGGCA
21796474 TGTTATATTC
Statistics
Matches: 151, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
48 4 0.03
49 34 0.23
50 113 0.75
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (49 bp):
CATGTAAGACCATGTCTGGGACATAGCATTGGCACGACAGGAGAACTCC
Found at i:21796702 original size:16 final size:16
Alignment explanation
Indices: 21796681--21796711 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21796671 GTTATTTAAG
21796681 CAAGTAAGTAAGTAAA
1 CAAGTAAGTAAGTAAA
*
21796697 CAAGTAAGTGAGTAA
1 CAAGTAAGTAAGTAA
21796712 GTAAAGAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (16 bp):
CAAGTAAGTAAGTAAA
Found at i:21796725 original size:20 final size:20
Alignment explanation
Indices: 21796682--21796727 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
21796672 TTATTTAAGC
*
21796682 AAGTAAGTAAGTAAACAAGT
1 AAGTAAGTAAGTAAACAAGA
* *
21796702 AAGTGAGTAAGTAAAGAAGA
1 AAGTAAGTAAGTAAACAAGA
21796722 AAGTAA
1 AAGTAA
21796728 AGATCCTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGTAAGTAAGTAAACAAGA
Found at i:21800543 original size:24 final size:24
Alignment explanation
Indices: 21800516--21800572 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
21800506 ACTTATATTG
* *
21800516 ATCTCCATCGTCGTCTTCATCTTT
1 ATCTCCACCGTCGGCTTCATCTTT
* *
21800540 ATCTCCACCTTTGGCTTCATCTTT
1 ATCTCCACCGTCGGCTTCATCTTT
*
21800564 ATCCCCACC
1 ATCTCCACC
21800573 CTTAACTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.14, C:0.39, G:0.07, T:0.40
Consensus pattern (24 bp):
ATCTCCACCGTCGGCTTCATCTTT
Found at i:21800585 original size:24 final size:24
Alignment explanation
Indices: 21800530--21800586 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
21800520 CCATCGTCGT
* * **
21800530 CTTCATCTTTATCTCCACCTTTGG
1 CTTCATCTTTATCCCCACCCTTAA
21800554 CTTCATCTTTATCCCCACCCTTAA
1 CTTCATCTTTATCCCCACCCTTAA
*
21800578 CTTTATCTT
1 CTTCATCTT
21800587 CGTCTCTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.16, C:0.35, G:0.04, T:0.46
Consensus pattern (24 bp):
CTTCATCTTTATCCCCACCCTTAA
Found at i:21818612 original size:22 final size:23
Alignment explanation
Indices: 21818587--21818629 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
21818577 CACAACGCAA
21818587 CAAAAAAAAAAGACAA-TAATTT
1 CAAAAAAAAAAGACAACTAATTT
* *
21818609 CAAAATAAAAAGGCAACTAAT
1 CAAAAAAAAAAGACAACTAAT
21818630 CCGAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.65, C:0.12, G:0.07, T:0.16
Consensus pattern (23 bp):
CAAAAAAAAAAGACAACTAATTT
Found at i:21834213 original size:29 final size:30
Alignment explanation
Indices: 21834168--21834226 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
21834158 GAATTGAATC
21834168 AAATCAAAATTTCATGTACAAAATTACACA
1 AAATCAAAATTTCATGTACAAAATTACACA
* *
21834198 AAATTAAAATTT-ATGTACATAATTACACA
1 AAATCAAAATTTCATGTACAAAATTACACA
21834227 TTAAACCATA
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:0.53, C:0.14, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTACAAAATTACACA
Found at i:21836028 original size:21 final size:21
Alignment explanation
Indices: 21835998--21836041 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
21835988 TCATTTGGTC
*
21835998 AAGTACCGATGCTTCCTTT-AA
1 AAGTACCGATACTT-CTTTCAA
*
21836019 AAGTATCGATACTTCTTTCAA
1 AAGTACCGATACTTCTTTCAA
21836040 AA
1 AA
21836042 AACCAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (21 bp):
AAGTACCGATACTTCTTTCAA
Found at i:21838245 original size:51 final size:50
Alignment explanation
Indices: 21838168--21838283 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 50
21838158 CGGATCACAT
* *
21838168 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGC-AAAACTACCAC
21838219 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCAAAACTACCAC
1 TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCAAAACTACCAC
21838269 TTATCACTTGTCACT
1 TTATCACTTGTCACT
21838284 GATCAGAAGT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
50 25 0.40
51 38 0.60
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (50 bp):
TTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCAAAACTACCAC
Found at i:21846304 original size:42 final size:42
Alignment explanation
Indices: 21846091--21846320 Score: 205
Period size: 42 Copynumber: 5.5 Consensus size: 42
21846081 AGCTTGCTTG
** * *
21846091 GGGAGCTTCTTTGATACACAACTTGTCATTTAAGCTC-ACAT-
1 GGGAGCTTCGCTGATACACAACTTATCACTTAAGCTCTA-ATA
* * * * *
21846132 GGAGAGCTTTGCTAATACACAACTTATCAGTTAAACTC-ACGTA
1 GG-GAGCTTCGCTGATACACAACTTATCACTTAAGCTCTA-ATA
* * * *
21846175 GGGAGTTTCGTTGATACACAACTTATCACTTAAGGTCTTATA
1 GGGAGCTTCGCTGATACACAACTTATCACTTAAGCTCTAATA
* * * * ***
21846217 GAGAGCTTTGCTGATACACAACTTATCACGTAAGCTTTTGCA
1 GGGAGCTTCGCTGATACACAACTTATCACTTAAGCTCTAATA
* *
21846259 GGGAGCTTCACTGATACACAACTTATCACTTAAGTTCTAATA
1 GGGAGCTTCGCTGATACACAACTTATCACTTAAGCTCTAATA
*
21846301 GGGAGCTTCACTGATACACA
1 GGGAGCTTCGCTGATACACA
21846321 TATTATAAAA
Statistics
Matches: 151, Mismatches: 35, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
41 2 0.01
42 147 0.97
43 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (42 bp):
GGGAGCTTCGCTGATACACAACTTATCACTTAAGCTCTAATA
Found at i:21846307 original size:84 final size:84
Alignment explanation
Indices: 21846091--21846320 Score: 250
Period size: 84 Copynumber: 2.7 Consensus size: 84
21846081 AGCTTGCTTG
* * * *
21846091 GGGAGCTTCTTTGATACACAACTTGTCATTTAAGCTC-ACAT-GGAGAGCTTTGCTAATACACAA
1 GGGAGCTTCATTGATACACAACTTATCACTTAAGCTCTA-ATAGG-GAGCTTTGCTGATACACAA
*
21846154 CTTATCAGTTAAACTCACGTA
64 CTTATCAGTTAAACTCACGCA
* * * * *
21846175 GGGAGTTTCGTTGATACACAACTTATCACTTAAGGTCTTATAGAGAGCTTTGCTGATACACAACT
1 GGGAGCTTCATTGATACACAACTTATCACTTAAGCTCTAATAGGGAGCTTTGCTGATACACAACT
* ***
21846240 TATCACG-TAAGCTTTTGCA
66 TATCA-GTTAAACTCACGCA
* * **
21846259 GGGAGCTTCACTGATACACAACTTATCACTTAAGTTCTAATAGGGAGCTTCACTGATACACA
1 GGGAGCTTCATTGATACACAACTTATCACTTAAGCTCTAATAGGGAGCTTTGCTGATACACA
21846321 TATTATAAAA
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
84 120 0.98
85 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (84 bp):
GGGAGCTTCATTGATACACAACTTATCACTTAAGCTCTAATAGGGAGCTTTGCTGATACACAACT
TATCAGTTAAACTCACGCA
Found at i:21848605 original size:18 final size:18
Alignment explanation
Indices: 21848582--21848618 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21848572 ATGAGGTAAA
21848582 GGACGAACCAAGCAAGAT
1 GGACGAACCAAGCAAGAT
21848600 GGACGAACCAAGCAAGAT
1 GGACGAACCAAGCAAGAT
21848618 G
1 G
21848619 AAAGAAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.22, G:0.30, T:0.05
Consensus pattern (18 bp):
GGACGAACCAAGCAAGAT
Found at i:21859582 original size:29 final size:30
Alignment explanation
Indices: 21859548--21859605 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
21859538 CTTTTACTTG
*
21859548 AAAGAAAACACTAAAATTAA-ATTTAATAA
1 AAAGAAAACAATAAAATTAATATTTAATAA
* *
21859577 AAAGAAAAGAATAAAATTAATTTTTAATA
1 AAAGAAAACAATAAAATTAATATTTAATA
21859606 GATAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (30 bp):
AAAGAAAACAATAAAATTAATATTTAATAA
Found at i:21861958 original size:35 final size:35
Alignment explanation
Indices: 21861918--21861988 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
21861908 TTACAACATA
21861918 ATCTTTAATAAAAGTTTACTATCTCAAGTTTTTGG
1 ATCTTTAATAAAAGTTTACTATCTCAAGTTTTTGG
21861953 ATCTTTAATAAAAGTTTACTATCTCAAGTTTTTGG
1 ATCTTTAATAAAAGTTTACTATCTCAAGTTTTTGG
21861988 A
1 A
21861989 CTCTAAGGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (35 bp):
ATCTTTAATAAAAGTTTACTATCTCAAGTTTTTGG
Found at i:21868316 original size:24 final size:23
Alignment explanation
Indices: 21868289--21868352 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
21868279 GTAAAAGAAG
*
21868289 AAATTTTAGAATAAAAATAAATAA
1 AAATTTTA-AATAAAAAGAAATAA
**
21868313 AAATCATAAATAAATAAGAAATAA
1 AAATTTTAAATAAA-AAGAAATAA
21868337 AAATTTTAAA-AAAAAG
1 AAATTTTAAATAAAAAG
21868353 TGGCAGATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.09
23 9 0.26
24 22 0.65
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (23 bp):
AAATTTTAAATAAAAAGAAATAA
Found at i:21868340 original size:17 final size:16
Alignment explanation
Indices: 21868298--21868340 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
21868288 GAAATTTTAG
21868298 AATAAAAATAAATAAA
1 AATAAAAATAAATAAA
*
21868314 AATCATAAATAAATAAGA
1 AAT-AAAAATAAATAA-A
21868332 AATAAAAAT
1 AATAAAAAT
21868341 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 16 0.70
18 4 0.17
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (16 bp):
AATAAAAATAAATAAA
Found at i:21869740 original size:24 final size:24
Alignment explanation
Indices: 21869690--21869745 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
21869680 TCACAAAGTT
* * * *
21869690 CACTATCACTATCATCATAATTTG
1 CACTATTACGATCATCATAACTCG
*
21869714 CACTATTACGATCATCATAGCTCG
1 CACTATTACGATCATCATAACTCG
21869738 CACTATTA
1 CACTATTA
21869746 TTATTAACCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (24 bp):
CACTATTACGATCATCATAACTCG
Found at i:21871385 original size:25 final size:26
Alignment explanation
Indices: 21871346--21871395 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
21871336 TGAGAATATA
*
21871346 AAAACAAATAAAAATCATAAAAAAAT
1 AAAACAAATAAAAATCAAAAAAAAAT
* *
21871372 AAAA-AAATAGAAATTAAAAAAAAA
1 AAAACAAATAAAAATCAAAAAAAAA
21871396 CAAAGTGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (26 bp):
AAAACAAATAAAAATCAAAAAAAAAT
Found at i:21885047 original size:67 final size:67
Alignment explanation
Indices: 21884920--21885048 Score: 179
Period size: 67 Copynumber: 1.9 Consensus size: 67
21884910 CATTTTTTCC
* * * *
21884920 ATAGTCGAGCTATGGCCTTAAACAATATACCTTGTGTTTACTATCCCGCTGGGCTTTATATGCTG
1 ATAGTCGAGCTATGACCTTAAACAATATACCTCGTGTTTACTATCCCGCTGGACTCTATATGCTG
21884985 CT
66 CT
** *
21884987 ATAGTCGAGCTATGATGTTACACAATATACCTCGTGTTTACTATCCCGAC-GGACTCTATATG
1 ATAGTCGAGCTATGACCTTAAACAATATACCTCGTGTTTACTATCCCG-CTGGACTCTATATG
21885049 TTGCCATAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 53 0.98
68 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (67 bp):
ATAGTCGAGCTATGACCTTAAACAATATACCTCGTGTTTACTATCCCGCTGGACTCTATATGCTG
CT
Found at i:21885064 original size:67 final size:67
Alignment explanation
Indices: 21884918--21885076 Score: 169
Period size: 67 Copynumber: 2.4 Consensus size: 67
21884908 TTCATTTTTT
* *** * * * *
21884918 CCATAGTCGAGCTATGGCCTTAAACAATATACCTTGTGTTTACTATCCCGCTGGGCTTTATATGC
1 CCATACTCGAGCTATGATATTACACAATATACCTCGTGTTTACTATCCCGCTGGACTCTATATGC
21884983 TG
66 TG
* * *
21884985 CTATAGTCGAGCTATGATGTTACACAATATACCTCGTGTTTACTATCCCGAC-GGACTCTATATG
1 CCATACTCGAGCTATGATATTACACAATATACCTCGTGTTTACTATCCCG-CTGGACTCTATATG
*
21885049 TTG
65 CTG
*
21885052 CCATAACT-GAGCTATGGTATTACAC
1 CCAT-ACTCGAGCTATGATATTACAC
21885077 TCTAAACCTT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
67 74 0.96
68 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (67 bp):
CCATACTCGAGCTATGATATTACACAATATACCTCGTGTTTACTATCCCGCTGGACTCTATATGC
TG
Found at i:21893411 original size:35 final size:35
Alignment explanation
Indices: 21893365--21893434 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
21893355 CCTAGTAAGC
21893365 TCTAAAGGTAAATTAGGTCTACCTTGGGAAATATG
1 TCTAAAGGTAAATTAGGTCTACCTTGGGAAATATG
21893400 TCTAAAGGTAAATTAGGTCTACCTTGGGAAATATG
1 TCTAAAGGTAAATTAGGTCTACCTTGGGAAATATG
21893435 GAAAGTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (35 bp):
TCTAAAGGTAAATTAGGTCTACCTTGGGAAATATG
Found at i:21913806 original size:6 final size:6
Alignment explanation
Indices: 21913788--21913831 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
21913778 TACAAATGCA
* * *
21913788 TCATTT CTCATTT TCATTT TCATTT CCATTT CCATTT CCATTT T
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT T
21913832 GATAAACCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (6 bp):
TCATTT
Found at i:21913812 original size:12 final size:12
Alignment explanation
Indices: 21913789--21913831 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
21913779 ACAAATGCAT
*
21913789 CATTTCTCATTTT
1 CATTT-TCATTTC
21913802 CATTTTCATTTC
1 CATTTTCATTTC
*
21913814 CATTTCCATTTC
1 CATTTTCATTTC
21913826 CATTTT
1 CATTTT
21913832 GATAAACCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (12 bp):
CATTTTCATTTC
Found at i:21913823 original size:18 final size:19
Alignment explanation
Indices: 21913788--21913830 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
21913778 TACAAATGCA
*
21913788 TCATTTCTCATTTTCATTT
1 TCATTTCTCATTTCCATTT
21913807 TCATTTC-CATTTCCATTT
1 TCATTTCTCATTTCCATTT
*
21913825 CCATTT
1 TCATTT
21913831 TGATAAACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (19 bp):
TCATTTCTCATTTCCATTT
Found at i:21918032 original size:16 final size:15
Alignment explanation
Indices: 21918011--21918046 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
21918001 CTAAATAACG
*
21918011 AAAATAAATAAACAA
1 AAAATAAACAAACAA
21918026 TAAAATAAACAAACAA
1 -AAAATAAACAAACAA
21918042 AAAAT
1 AAAAT
21918047 TCAATCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAATAAACAAACAA
Found at i:21921304 original size:9 final size:9
Alignment explanation
Indices: 21921293--21921381 Score: 142
Period size: 9 Copynumber: 9.9 Consensus size: 9
21921283 TTTGACTAAA
*
21921293 AATTAACCA
1 AATTAACCG
21921302 AATTAACCG
1 AATTAACCG
*
21921311 AATTAACTG
1 AATTAACCG
*
21921320 AATTACCCG
1 AATTAACCG
21921329 AATTAACCG
1 AATTAACCG
*
21921338 AATTACCCG
1 AATTAACCG
21921347 AATTAACCG
1 AATTAACCG
21921356 AATTAACCG
1 AATTAACCG
21921365 AATTAACCG
1 AATTAACCG
21921374 AATTAACC
1 AATTAACC
21921382 AAAGTGAATC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 73 1.00
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:21930606 original size:18 final size:18
Alignment explanation
Indices: 21930583--21930623 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
21930573 TGCATACTTA
21930583 GCGAACTCTCCAAGAATG
1 GCGAACTCTCCAAGAATG
* * *
21930601 GCGAACTCTTCGAGAGTG
1 GCGAACTCTCCAAGAATG
21930619 GCGAA
1 GCGAA
21930624 ATCACGGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.17
Consensus pattern (18 bp):
GCGAACTCTCCAAGAATG
Found at i:21933214 original size:62 final size:59
Alignment explanation
Indices: 21933098--21933214 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
21933088 ATCATTTTAC
* * * *
21933098 TATTAAATTAATATAATATTTATTAAGAGAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTATTAAAAGAAATATTAAATTAAATTTAAGATTAAATCT
*
21933157 TATTAAATTAATAGAATATTTATTTACAAAATAAATATTAAATTAAATTTAAGATTAA
1 TATTAAATTAATAGAATATTTA-TT--AAAAGAAATATTAAATTAAATTTAAGATTAA
21933215 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
60 2 0.04
62 27 0.54
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (59 bp):
TATTAAATTAATAGAATATTTATTAAAAGAAATATTAAATTAAATTTAAGATTAAATCT
Found at i:21933724 original size:19 final size:19
Alignment explanation
Indices: 21933686--21933725 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21933676 AAAATATCAT
*
21933686 ATTAATTTAAATTAATTTG
1 ATTAATTTAAATTAACTTG
* *
21933705 ATTAATTTAATTTTACTTG
1 ATTAATTTAAATTAACTTG
21933724 AT
1 AT
21933726 CGAAATTACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:21941362 original size:2 final size:2
Alignment explanation
Indices: 21941355--21941387 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21941345 AATATCTTTC
21941355 TA TA TA 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 TA TA TA T
21941388 TAAATAGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21943630 original size:13 final size:14
Alignment explanation
Indices: 21943598--21943635 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
21943588 GCCCTATTTT
*
21943598 TTTTTGATTTATACA
1 TTTTT-ATTTTTACA
21943613 TTTTTATTTTTA-A
1 TTTTTATTTTTACA
21943626 TTTTTATTTT
1 TTTTTATTTT
21943636 CTAGATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 6 0.27
15 5 0.23
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTTATTTTTACA
Found at i:21943658 original size:15 final size:15
Alignment explanation
Indices: 21943641--21943679 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
21943631 ATTTTCTAGA
21943641 TTTATATATATTTTAT
1 TTTAT-TATATTTTAT
*
21943657 TTTATTTTATTTTAT
1 TTTATTATATTTTAT
21943672 TTTATTAT
1 TTTATTAT
21943680 GCATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTATATTTTAT
Found at i:21943659 original size:5 final size:5
Alignment explanation
Indices: 21943649--21943677 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
21943639 GATTTATATA
21943649 TATTT TATTT TATTT TATTT TATTT TATT
1 TATTT TATTT TATTT TATTT TATTT TATT
21943678 ATGCATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:21943660 original size:36 final size:34
Alignment explanation
Indices: 21943592--21943669 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 34
21943582 CCCCAAGCCC
21943592 TATTTT-TTTT-T-GATTTATACATTTTTATTTT
1 TATTTTATTTTCTAGATTTATACATTTTTATTTT
*
21943623 TAATTTTTATTTTCTAGATTTATATATATTTTA-TTT
1 T-A-TTTTATTTTCTAGATTTATACAT-TTTTATTTT
21943659 TATTTTATTTT
1 TATTTTATTTT
21943670 ATTTTATTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
31 1 0.03
32 1 0.03
33 4 0.10
34 13 0.32
35 2 0.05
36 14 0.35
37 5 0.12
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (34 bp):
TATTTTATTTTCTAGATTTATACATTTTTATTTT
Found at i:21944693 original size:25 final size:25
Alignment explanation
Indices: 21944634--21944694 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
21944624 AAAACACAGA
**
21944634 AAAAAAAAAGAAAAAGAAAAAAGAT
1 AAAAAAATTGAAAAAGAAAAAAGAT
*
21944659 ATAAAAATTGAAAAATGAAAAAAGA-
1 AAAAAAATTGAAAAA-GAAAAAAGAT
*
21944684 AAAAATATTGA
1 AAAAAAATTGA
21944695 TTGGGCTCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 21 0.70
26 9 0.30
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.13
Consensus pattern (25 bp):
AAAAAAATTGAAAAAGAAAAAAGAT
Found at i:21947656 original size:32 final size:32
Alignment explanation
Indices: 21947611--21947683 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
21947601 GCCTGTGCGC
* *
21947611 CCCACACGACCAAAATGGCCTTACCCATGTGG
1 CCCACACGCCCAAAATGGCCTTACCCATGTCG
* * *
21947643 CCCACACGCCCAAAATGGCTTTGCCCGTGTCG
1 CCCACACGCCCAAAATGGCCTTACCCATGTCG
21947675 CCCACACGC
1 CCCACACGC
21947684 TCGTGTGGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.23, C:0.42, G:0.19, T:0.15
Consensus pattern (32 bp):
CCCACACGCCCAAAATGGCCTTACCCATGTCG
Found at i:21957615 original size:5 final size:6
Alignment explanation
Indices: 21957605--21957630 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21957595 TTTTATTTTC
21957605 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
21957631 TATTTTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:21961597 original size:36 final size:36
Alignment explanation
Indices: 21961533--21961619 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 36
21961523 GTTATATTGT
* * * *
21961533 GAACCATGTTAACTTGGTGAATTATATTATTGTGGA
1 GAACTATGTTAATTTGGTGAATTATATTAATATGGA
* *
21961569 GAACTATGTTAATTTGGT-AATCTCTATTAATATGGC
1 GAACTATGTTAATTTGGTGAAT-TATATTAATATGGA
*
21961605 GAACTATATTAATTT
1 GAACTATGTTAATTT
21961620 CCCAAATGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 3 0.07
36 40 0.93
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.41
Consensus pattern (36 bp):
GAACTATGTTAATTTGGTGAATTATATTAATATGGA
Done.