Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 65 of 131
Found at i:21662022 original size:27 final size:27
Alignment explanation
Indices: 21661947--21662014 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
21661937 TATTATTAAG
21661947 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGTATTGGCACCAT
* * * *
21661974 TGGTGCAGCCAATGGTTTTGGCCCCTT
1 TGGTGCCGCCAATGGTATTGGCACCAT
21662001 TGGTGCCGCCAATG
1 TGGTGCCGCCAATG
21662015 CCATTGGCGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.15, C:0.26, G:0.31, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGGCACCAT
Found at i:21662146 original size:26 final size:27
Alignment explanation
Indices: 21662085--21662153 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
21662075 TGTTTTTTTG
* *
21662085 ATATATTTTGGTAAATAAAAAAATTAT
1 ATATATTTTGGTAATTAAAAAAAATAT
*
21662112 ATATTTTTTGGTAATTAAAAAAAATAT
1 ATATATTTTGGTAATTAAAAAAAATAT
*
21662139 A-ATATTTTGATAATT
1 ATATATTTTGGTAATT
21662154 TTTTATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 12 0.32
27 25 0.68
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (27 bp):
ATATATTTTGGTAATTAAAAAAAATAT
Found at i:21663322 original size:224 final size:225
Alignment explanation
Indices: 21663052--21663501 Score: 893
Period size: 224 Copynumber: 2.0 Consensus size: 225
21663042 TCTTTTTAAT
21663052 AAAAGTTATTTTAAAGATAAAATGTGAAATTGATGCTAACAAAAAAAATTTAACATAAAAATTTT
1 AAAAGTTATTTTAAAGATAAAATGTGAAATTGATGCTAACAAAAAAAATTTAACATAAAAATTTT
21663117 ATGTCATCATCAATAATTCAATTTTAACAGAAATTAATAAAGATTTAGCATGAATAAACAATGCA
66 ATGTCATCATCAATAATTCAATTTTAACAGAAATTAATAAAGATTTAGCATGAATAAACAATGCA
21663182 ATAATTTATTTATTAAAGATAAAAGGGTTTGATATTTGATTTATTCGAATTCAAAAATTTAACTT
131 ATAATTTATTTATTAAAGATAAAAGGGTTTGATATTTGATTTATTCGAATTCAAAAATTTAACTT
21663247 GATTTAAACTCGAAATTCAAAAAAAAATTG
196 GATTTAAACTCGAAATTCAAAAAAAAATTG
21663277 AAAAGTTA-TTTAAAGATAAAATGTGAAATTGATGCTAACAAAAAAAATTTAACATAAAAATTTT
1 AAAAGTTATTTTAAAGATAAAATGTGAAATTGATGCTAACAAAAAAAATTTAACATAAAAATTTT
21663341 ATGTCATCATCAATAATTCAATTTTAACAGAAATTAATAAAGATTTAGCATGAATAAACAATGCA
66 ATGTCATCATCAATAATTCAATTTTAACAGAAATTAATAAAGATTTAGCATGAATAAACAATGCA
21663406 ATAATTTATTTATTAAAGATAAAAGGGTTTGATATTTGATTTATTCGAATTCAAAAATTTAACTT
131 ATAATTTATTTATTAAAGATAAAAGGGTTTGATATTTGATTTATTCGAATTCAAAAATTTAACTT
21663471 GATTTAAACTCGAAATTCAAAAAAAAATTG
196 GATTTAAACTCGAAATTCAAAAAAAAATTG
21663501 A
1 A
21663502 GTTGATTCAA
Statistics
Matches: 225, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
224 217 0.96
225 8 0.04
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (225 bp):
AAAAGTTATTTTAAAGATAAAATGTGAAATTGATGCTAACAAAAAAAATTTAACATAAAAATTTT
ATGTCATCATCAATAATTCAATTTTAACAGAAATTAATAAAGATTTAGCATGAATAAACAATGCA
ATAATTTATTTATTAAAGATAAAAGGGTTTGATATTTGATTTATTCGAATTCAAAAATTTAACTT
GATTTAAACTCGAAATTCAAAAAAAAATTG
Found at i:21680909 original size:16 final size:18
Alignment explanation
Indices: 21680883--21680922 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
21680873 TTTAATTAGA
21680883 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
21680900 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
*
21680917 TCAATT
1 TAAATT
21680923 CTAATTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 7 0.35
17 12 0.60
18 1 0.05
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:21682416 original size:50 final size:50
Alignment explanation
Indices: 21682292--21682529 Score: 217
Period size: 50 Copynumber: 4.7 Consensus size: 50
21682282 GATGAGATCT
* * * * *
21682292 CATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGAGATTATGAGGGCCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CT-AGATGA-GA-GGTCC
21682347 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGGTCC
** * * * **
21682397 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGGTCC
* * * * * * * * **
21682447 CATGTAAGACCATATATGGGATATAGCATTGGCA-GTACAGGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGGTCC
*
21682496 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
21682530 TGTTATTATC
Statistics
Matches: 152, Mismatches: 31, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
49 37 0.24
50 74 0.49
51 2 0.01
52 5 0.03
53 1 0.01
54 1 0.01
55 32 0.21
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAGGTCC
Found at i:21684649 original size:17 final size:18
Alignment explanation
Indices: 21684616--21684650 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21684606 AAAAGTACAT
21684616 TATCGGGCCTCCGTCTTA
1 TATCGGGCCTCCGTCTTA
21684634 TATCGGGCCT-CGTCTTA
1 TATCGGGCCTCCGTCTTA
21684651 GTAAATTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.11, C:0.31, G:0.23, T:0.34
Consensus pattern (18 bp):
TATCGGGCCTCCGTCTTA
Found at i:21690961 original size:23 final size:24
Alignment explanation
Indices: 21690935--21690979 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
21690925 TTGGAAGCCT
21690935 ATTTAAGTCAGTTTTT-TTTCTAG
1 ATTTAAGTCAGTTTTTCTTTCTAG
* * *
21690958 ATTTCATTCATTTTTTCTTTCT
1 ATTTAAGTCAGTTTTTCTTTCT
21690980 TCAAAAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.18, C:0.13, G:0.07, T:0.62
Consensus pattern (24 bp):
ATTTAAGTCAGTTTTTCTTTCTAG
Found at i:21691754 original size:22 final size:22
Alignment explanation
Indices: 21691729--21691773 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
21691719 GTAAGTAAGT
21691729 AAAACAA-AAAAGAAAAAGAAAC
1 AAAACAAGAAAAG-AAAAGAAAC
* *
21691751 AAAAGAAGAACAGAAAAGAAAC
1 AAAACAAGAAAAGAAAAGAAAC
21691773 A
1 A
21691774 GAGAAAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.78, C:0.09, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAACAAGAAAAGAAAAGAAAC
Found at i:21692299 original size:21 final size:21
Alignment explanation
Indices: 21692251--21692334 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
21692241 TTTGCCGATA
*
21692251 AGGCACTTTATGTGTCGTTTCTC
1 AGGCACTTTATGTGTCG--TATC
*
21692274 AGGCACTTTATGTGTCGTAGC
1 AGGCACTTTATGTGTCGTATC
* ** *
21692295 AGGCACCTCGTGTGTCGTTTC
1 AGGCACTTTATGTGTCGTATC
*
21692316 AGGAAC-TTATGTGTCGTAT
1 AGGCACTTTATGTGTCGTAT
21692335 ACTGATCAGG
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 10 0.20
21 23 0.46
23 17 0.34
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (21 bp):
AGGCACTTTATGTGTCGTATC
Found at i:21695834 original size:22 final size:21
Alignment explanation
Indices: 21695807--21695891 Score: 59
Period size: 22 Copynumber: 4.0 Consensus size: 21
21695797 CAAGAGTTAT
21695807 AAAATAACAACAAAATAGTAG
1 AAAATAACAACAAAATAGTAG
**
21695828 AACAATAGTGAA-AAAATA--AG
1 AA-AATA-ACAACAAAATAGTAG
* * *
21695848 AAAATAGCAACAAAACAGTAAA
1 AAAATAACAACAAAATAGT-AG
*
21695870 AAAACAACAACAAAAATAGTAG
1 AAAATAACAAC-AAAATAGTAG
21695892 TTTTTTTGCA
Statistics
Matches: 47, Mismatches: 10, Indels: 13
0.67 0.14 0.19
Matches are distributed among these distances:
18 2 0.04
19 9 0.19
20 4 0.09
21 2 0.04
22 21 0.45
23 9 0.19
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.12
Consensus pattern (21 bp):
AAAATAACAACAAAATAGTAG
Found at i:21698774 original size:20 final size:20
Alignment explanation
Indices: 21698741--21698790 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
21698731 TTGTACAGGT
* * *
21698741 TTAATAAATTTATTTAAAAA
1 TTAATTAATATATTGAAAAA
21698761 TTAATTAATATATTGAAAAA
1 TTAATTAATATATTGAAAAA
21698781 TTAATGTAAT
1 TTAAT-TAAT
21698791 TATAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (20 bp):
TTAATTAATATATTGAAAAA
Found at i:21699293 original size:15 final size:16
Alignment explanation
Indices: 21699260--21699294 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
21699250 TAAGTTTAAT
*
21699260 AATTTAATAATTATTA
1 AATTTAATAATTATAA
21699276 AATTTAAT-ATTATAA
1 AATTTAATAATTATAA
21699291 AATT
1 AATT
21699295 AAAAGCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTTAATAATTATAA
Found at i:21707847 original size:53 final size:53
Alignment explanation
Indices: 21707763--21707867 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
21707753 CCGTATTGGA
21707763 AACATTGTACCGAGAGATGTGCGGGGCGACACCACCAAATAAAGCCAAAATCC
1 AACATTGTACCGAGAGATGTGCGGGGCGACACCACCAAATAAAGCCAAAATCC
*
21707816 AACATTGTACCGAGAGATGTGCGGGGTGACACCACCAAATAAAGCCAAAATC
1 AACATTGTACCGAGAGATGTGCGGGGCGACACCACCAAATAAAGCCAAAATC
21707868 GGAGGTTGCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.14
Consensus pattern (53 bp):
AACATTGTACCGAGAGATGTGCGGGGCGACACCACCAAATAAAGCCAAAATCC
Found at i:21708559 original size:15 final size:14
Alignment explanation
Indices: 21708532--21708561 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
21708522 CGGGATCACT
21708532 ACTAATATAATCTA
1 ACTAATATAATCTA
21708546 ACTAATACTAATCTA
1 ACTAATA-TAATCTA
21708561 A
1 A
21708562 TACTAATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (14 bp):
ACTAATATAATCTA
Found at i:21708563 original size:11 final size:11
Alignment explanation
Indices: 21708531--21708568 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
21708521 CCGGGATCAC
*
21708531 TACTAATATAA
1 TACTAATCTAA
21708542 T-CTAA-CTAA
1 TACTAATCTAA
21708551 TACTAATCTAA
1 TACTAATCTAA
21708562 TACTAAT
1 TACTAAT
21708569 AGAATATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 4 0.17
10 8 0.33
11 12 0.50
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (11 bp):
TACTAATCTAA
Found at i:21709288 original size:18 final size:18
Alignment explanation
Indices: 21709261--21709296 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21709251 TGCCAGGTGC
*
21709261 GTATCCTAACCCTTATAT
1 GTATCATAACCCTTATAT
21709279 GTATCATAACCCTTATAT
1 GTATCATAACCCTTATAT
21709297 ATTTCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.39
Consensus pattern (18 bp):
GTATCATAACCCTTATAT
Found at i:21709303 original size:18 final size:18
Alignment explanation
Indices: 21709262--21709303 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
21709252 GCCAGGTGCG
* *
21709262 TATCCTAACCCTTATATG
1 TATCATAACCCTTATATA
21709280 TATCATAACCCTTATATA
1 TATCATAACCCTTATATA
*
21709298 TTTCAT
1 TATCAT
21709304 TTTCCCAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (18 bp):
TATCATAACCCTTATATA
Found at i:21709780 original size:62 final size:60
Alignment explanation
Indices: 21709660--21709784 Score: 162
Period size: 62 Copynumber: 2.0 Consensus size: 60
21709650 TATATTTGTA
* * ***
21709660 CAAATTGTTTTTATATTCTTTCATTTAATAAAATAAAAGTTGTTTTGAATATTTTAATAG
1 CAAATTATTTTTATATTCTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGTAATAG
*
21709720 CAAATTATTTTTATATT-TTGTCTTATTTAATAAAATAGAAGTTCTTTTGAATAAGGTAATAG
1 CAAATTATTTTTATATTCTT-TC--ATTTAATAAAATAAAAGTTCTTTTGAATAAGGTAATAG
21709782 CAA
1 CAA
21709785 TAATGCAACA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
59 2 0.04
60 18 0.32
62 36 0.64
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.47
Consensus pattern (60 bp):
CAAATTATTTTTATATTCTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGTAATAG
Found at i:21713024 original size:126 final size:125
Alignment explanation
Indices: 21712799--21713298 Score: 712
Period size: 126 Copynumber: 4.0 Consensus size: 125
21712789 GGCCAAATAG
* * *
21712799 GAACTACTGTAGAAAAAGAACGTCCATGTGGGAGCCTTTTTCAGTAATTTTGCTGACAGTGCATA
1 GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * ** * * *
21712864 TTGCTTGAAGTATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTATAA
66 CTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTT-TAA
* * * *
21712925 GAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAATGCATC
1 GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * *
21712990 CTGCTTGAAGCTTTTTTGACATTATTTTTTCAGAACCGTTTTCTCAAAATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTT-AA
* * * *
21713051 GAACTACTGTAGAAAAAGAGCATCCACGTAGGAGCTTTTTTCATTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
21713116 TTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTTAG
66 CTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTTAA
* * * *
21713176 GAACTACTATAGAAAAATAACGTCTACGTGGGAGCTTTTTTCAGTAATTTTGCTGACGGTGCATC
1 GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
21713241 CTACTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTAATTTTT
66 CTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
21713299 CTGAAACTAC
Statistics
Matches: 337, Mismatches: 36, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
125 114 0.34
126 223 0.66
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTTAA
Found at i:21713309 original size:251 final size:252
Alignment explanation
Indices: 21712799--21713299 Score: 745
Period size: 251 Copynumber: 2.0 Consensus size: 252
21712789 GGCCAAATAG
* * *
21712799 GAACTACTGTAGAAAAAGAACGTCCATGTGGGAGCCTTTTTCAGTAATTTTGCTGACAGTGCATA
1 GAACTACTGTAGAAAAAGAACATCCACGTAGGAGCCTTTTTCAGTAATTTTGCTGACAGTGCATA
* * * *
21712864 TTGCTTGAAGTATTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTATAAGAAC
66 TTGCTTAAAGCATTTTTGACACTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTATAAGAAC
* * * *
21712929 TACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAATGCATCCTGC
131 TACTATAGAAAAAGAACGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCCTAC
* * * * *
21712994 TTGAAGCTTTTTTGACATTATTTTTTCAGAACCGTTTTCTCAAAATTATTTTTTCAA
196 TTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTAATTTTTCAA
* * * *
21713051 GAACTACTGTAGAAAAAGAGCATCCACGTAGGAGCTTTTTTCATTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAACATCCACGTAGGAGCCTTTTTCAGTAATTTTGCTGACAGTGCATA
* * *
21713116 TTGCTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTT-TAGGAAC
66 TTGCTTAAAGCATTTTTGACACTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTATAAGAAC
* **
21713180 TACTATAGAAAAATAACG-TCTACGTGGGAGCTTTTTTCAGTAATTTTGCTGACGGTGCATCCTA
131 TACTATAGAAAAAGAACGTTC-ACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCCTA
21713244 CTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTAATTTTTC
195 CTTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTAATTTTTC
21713300 TGAAACTACT
Statistics
Matches: 222, Mismatches: 26, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
250 2 0.01
251 111 0.50
252 109 0.49
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (252 bp):
GAACTACTGTAGAAAAAGAACATCCACGTAGGAGCCTTTTTCAGTAATTTTGCTGACAGTGCATA
TTGCTTAAAGCATTTTTGACACTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTATAAGAAC
TACTATAGAAAAAGAACGTTCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATCCTAC
TTAAAGCGTTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTAATTTTTCAA
Found at i:21713438 original size:34 final size:33
Alignment explanation
Indices: 21713404--21713529 Score: 128
Period size: 34 Copynumber: 3.7 Consensus size: 33
21713394 CAAAAATTAT
* *
21713404 TTTAAAAAACTAAACCCTAATTTAATTAATTTA
1 TTTAAAAACCTAAAACCTAATTTAATTAATTTA
* **
21713437 TTTAAAACCCCTAAAATATAATTTAATTAATTTA
1 TTTAAAA-ACCTAAAACCTAATTTAATTAATTTA
*
21713471 TTTAAAACCCTTAAAACCTAATTTAATTAATTT-
1 TTTAAAAACC-TAAAACCTAATTTAATTAATTTA
* * *
21713504 TTAGAAAAATTCTAAACCCTAATTTA
1 TT-TAAAAA-CCTAAAACCTAATTTA
21713530 TTTTTTAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
33 12 0.15
34 65 0.83
35 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (33 bp):
TTTAAAAACCTAAAACCTAATTTAATTAATTTA
Found at i:21729484 original size:51 final size:51
Alignment explanation
Indices: 21729364--21729602 Score: 252
Period size: 51 Copynumber: 4.7 Consensus size: 51
21729354 AAAGTGATGG
* * *** *
21729364 TCACGTGTGCAGTACTATGTGAAGGCTACTACGTGTACCGGA-A-TGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-TTTGA
* * * * *
21729414 TCTCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTTGA
* * * * *
21729465 TCACGTGTGTAGTACTATGTGCAAGCTACTACATGTATCGGATA-TTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTT-TTGA
* *
21729516 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAG-TTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTTGA
* *
21729566 TCACGTGTGTAATACTATGTGAAGGCTACTACGTGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
21729603 TTGAATGATA
Statistics
Matches: 154, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
50 73 0.47
51 80 0.52
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTTGA
Found at i:21729603 original size:101 final size:101
Alignment explanation
Indices: 21729364--21729603 Score: 331
Period size: 101 Copynumber: 2.4 Consensus size: 101
21729354 AAAGTGATGG
* * *
21729364 TCACGTGTGCAGTACTATGTGAAGGCTACTACGTGTACCGGAATGAAAGGTCTCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAGTAC
* * *
21729429 TATGTGCAGGCTACTATGCGTACCAGATAGTTTTGA
66 TATGTGCAGGCTACTACGCGAACCAGAAAGTTTTGA
* * * *
21729465 TCACGTGTGTAGTACTATGTGCAA-GCTACTACATGTATCGGATATTAATGGTCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTG-AAGGCTACTACGTGTATCGGA-ATGAAAGGTCACATGTGTAGT
* *
21729529 ACTATGTGCAGGCTACTACGTGAACCGGAAAG-TTTGA
64 ACTATGTGCAGGCTACTACGCGAACCAGAAAGTTTTGA
*
21729566 TCACGTGTGTAATACTATGTGAAGGCTACTACGTGTAT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
21729604 TGAATGATAA
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
100 2 0.02
101 74 0.61
102 46 0.38
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTACGCGAACCAGAAAGTTTTGA
Found at i:21729632 original size:101 final size:100
Alignment explanation
Indices: 21729364--21729639 Score: 308
Period size: 101 Copynumber: 2.7 Consensus size: 100
21729354 AAAGTGATGG
* * * * *
21729364 TCACGTGTGCAGTACTATGTGAAGGCTACTACGTGTACCGGAATGA-AAGGTCTCATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGATAATGT-TCACGGGTAGTA
* * *
21729428 CTATGTGCAGGCTACTATGCGTACCAGATAGTTTTGA
64 CTATGTGCAGGCTACTACGCGAACCAGAAAGTTTTGA
* * *
21729465 TCACGTGTGTAGTACTATGTGCAA-GCTACTACATGTATCGGAT-ATTAATGGTCACGTGTGTAG
1 TCACGTGTGTAGTACTATGTG-AAGGCTACTACGTGTATCGAATGA-TAATGTTCACG-G-GTAG
* *
21729528 TACTATGTGCAGGCTACTACGTGAACCGGAAAG-TTTGA
62 TACTATGTGCAGGCTACTACGCGAACCAGAAAGTTTTGA
* * *
21729566 TCACGTGTGTAATACTATGTGAAGGCTACTACGTGTATTGAATGATAATAGTTACACGGGTGGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAAT-GTT-CACGGGTAGTA
21729631 CTATGTGCA
64 CTATGTGCA
21729640 AACCACCGAA
Statistics
Matches: 147, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
99 1 0.01
100 9 0.06
101 95 0.65
102 38 0.26
103 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGTTCACGGGTAGTACT
ATGTGCAGGCTACTACGCGAACCAGAAAGTTTTGA
Found at i:21732235 original size:25 final size:24
Alignment explanation
Indices: 21732188--21732240 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
21732178 ACATATCGCA
21732188 GCTCTTTATGAGCGTCCCAATATAG
1 GCTCTTTATGAGCGTCCCAATAT-G
* * **
21732213 GCTCTTTGTGAGCTTCCTGATATG
1 GCTCTTTATGAGCGTCCCAATATG
21732237 GCTC
1 GCTC
21732241 GCTTGAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCCAATATG
Found at i:21733128 original size:26 final size:26
Alignment explanation
Indices: 21733097--21733180 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 26
21733087 GTTTAGAATT
21733097 AGCATAATTGATAAAGCATGCCTATG
1 AGCATAATTGATAAAGCATGCCTATG
* ** ** ** *
21733123 AGCATAAATG-TGTA-TTTGGCGAATT
1 AGCATAATTGATAAAGCAT-GCCTATG
21733148 AGCATAATTGATAAAGCATGCCTATG
1 AGCATAATTGATAAAGCATGCCTATG
21733174 AGCATAA
1 AGCATAA
21733181 ATGTGTATTT
Statistics
Matches: 39, Mismatches: 16, Indels: 6
0.64 0.26 0.10
Matches are distributed among these distances:
24 1 0.03
25 15 0.38
26 22 0.56
27 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (26 bp):
AGCATAATTGATAAAGCATGCCTATG
Found at i:21733152 original size:51 final size:51
Alignment explanation
Indices: 21733092--21733193 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
21733082 GAATGGTTTA
21733092 GAATTAGCATAATTGATAAAGCATGCCTATGAGCATAAATGTGTATTTGGC
1 GAATTAGCATAATTGATAAAGCATGCCTATGAGCATAAATGTGTATTTGGC
21733143 GAATTAGCATAATTGATAAAGCATGCCTATGAGCATAAATGTGTATTTGGC
1 GAATTAGCATAATTGATAAAGCATGCCTATGAGCATAAATGTGTATTTGGC
21733194 AAGTTTAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (51 bp):
GAATTAGCATAATTGATAAAGCATGCCTATGAGCATAAATGTGTATTTGGC
Found at i:21736949 original size:7 final size:7
Alignment explanation
Indices: 21736934--21737007 Score: 76
Period size: 7 Copynumber: 10.6 Consensus size: 7
21736924 TAGATCGAGC
21736934 TTTATGG
1 TTTATGG
*
21736941 TTTAAGG
1 TTTATGG
21736948 TTTATGG
1 TTTATGG
21736955 TTTATGG
1 TTTATGG
21736962 TTTATGG
1 TTTATGG
*
21736969 TTTAAGG
1 TTTATGG
* **
21736976 GTTGGGG
1 TTTATGG
*
21736983 TTTAGGG
1 TTTATGG
*
21736990 TTTATGT
1 TTTATGG
*
21736997 TTTATGA
1 TTTATGG
21737004 TTTA
1 TTTA
21737008 GGATTTAGGG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 56 1.00
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.53
Consensus pattern (7 bp):
TTTATGG
Found at i:21736974 original size:28 final size:28
Alignment explanation
Indices: 21736934--21737000 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
21736924 TAGATCGAGC
* * *
21736934 TTTATGGTTTAAGGTTTATGGTTTATGG
1 TTTATGGTTTAAGGGTTAGGGTTTAGGG
*
21736962 TTTATGGTTTAAGGGTTGGGGTTTAGGG
1 TTTATGGTTTAAGGGTTAGGGTTTAGGG
*
21736990 TTTATGTTTTA
1 TTTATGGTTTA
21737001 TGATTTAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.52
Consensus pattern (28 bp):
TTTATGGTTTAAGGGTTAGGGTTTAGGG
Found at i:21737032 original size:7 final size:7
Alignment explanation
Indices: 21736934--21737032 Score: 56
Period size: 7 Copynumber: 14.0 Consensus size: 7
21736924 TAGATCGAGC
*
21736934 TTTATGG
1 TTTAGGG
*
21736941 TTTAAGG
1 TTTAGGG
*
21736948 TTTATGG
1 TTTAGGG
*
21736955 TTTATGG
1 TTTAGGG
*
21736962 TTTATGG
1 TTTAGGG
21736969 TTTAAGGG
1 TTT-AGGG
*
21736977 -TTGGGG
1 TTTAGGG
21736983 TTTAGGG
1 TTTAGGG
* *
21736990 TTTATGT
1 TTTAGGG
* *
21736997 TTTATGA
1 TTTAGGG
*
21737004 TTTAGGA
1 TTTAGGG
21737011 TTTAGGGG
1 TTTA-GGG
* *
21737019 ATAAGGG
1 TTTAGGG
21737026 TTTAGGG
1 TTTAGGG
21737033 CTTAATTAGT
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
6 3 0.04
7 65 0.87
8 7 0.09
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:21737192 original size:15 final size:14
Alignment explanation
Indices: 21737162--21737203 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
21737152 AGTTACTATT
21737162 TTAAGGTTTATGGA
1 TTAAGGTTTATGGA
21737176 TTAAGAGTTTA-GAGA
1 TTAAG-GTTTATG-GA
*
21737191 TTATGGTTTATGG
1 TTAAGGTTTATGG
21737204 TTTATGGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
TTAAGGTTTATGGA
Found at i:21737208 original size:14 final size:14
Alignment explanation
Indices: 21737195--21737271 Score: 64
Period size: 14 Copynumber: 5.4 Consensus size: 14
21737185 TAGAGATTAT
* *
21737195 GGTTTATGGTTTAT
1 GGTTTAAGGTTTAG
* * *
21737209 GGTGTAAGGGTTGG
1 GGTTTAAGGTTTAG
21737223 GGTTTAAGGTTTAG
1 GGTTTAAGGTTTAG
* *
21737237 GGGTTAAGGGTTAAG
1 GGTTTAA-GGTTTAG
* *
21737252 AGTTTAGGGTTTAG
1 GGTTTAAGGTTTAG
21737266 GGTTTA
1 GGTTTA
21737272 TGTTTTATAA
Statistics
Matches: 47, Mismatches: 15, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
14 37 0.79
15 10 0.21
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.40
Consensus pattern (14 bp):
GGTTTAAGGTTTAG
Found at i:21737235 original size:28 final size:28
Alignment explanation
Indices: 21737195--21737267 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
21737185 TAGAGATTAT
* *
21737195 GGTTTATGGTTTA-TGGTGTAAGGGTTGG
1 GGTTTAAGGTTTAGGGGT-TAAGGGTTGG
*
21737223 GGTTTAAGGTTTAGGGGTTAAGGGTTAAG
1 GGTTTAAGGTTTAGGGGTTAAGGGTT-GG
* *
21737252 AGTTTAGGGTTTAGGG
1 GGTTTAAGGTTTAGGG
21737268 TTTATGTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 20 0.53
29 18 0.47
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.38
Consensus pattern (28 bp):
GGTTTAAGGTTTAGGGGTTAAGGGTTGG
Found at i:21737240 original size:21 final size:21
Alignment explanation
Indices: 21737202--21737271 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
21737192 TATGGTTTAT
* * * *
21737202 GGTTTATGGTGTAAGGGTTGG
1 GGTTTAAGGTTTAGGGGTTAG
21737223 GGTTTAAGGTTTAGGGGTTAAG
1 GGTTTAAGGTTTAGGGGTT-AG
*
21737245 GG-TTAAGAGTTTAGGGTTTAG
1 GGTTTAAG-GTTTAGGGGTTAG
21737266 GGTTTA
1 GGTTTA
21737272 TGTTTTATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 25 0.61
22 16 0.39
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (21 bp):
GGTTTAAGGTTTAGGGGTTAG
Found at i:21737697 original size:19 final size:19
Alignment explanation
Indices: 21737670--21737718 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
21737660 AAATTATAAC
* *
21737670 AAATGAAAATGAAATGCAA
1 AAATAAAAATGAAATACAA
21737689 AAATAAAAATGAAATACAA
1 AAATAAAAATGAAATACAA
21737708 AAACTAAAAAT
1 AAA-TAAAAAT
21737719 TATAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.16
Consensus pattern (19 bp):
AAATAAAAATGAAATACAA
Found at i:21737851 original size:42 final size:41
Alignment explanation
Indices: 21737795--21737873 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
21737785 AAAAGGCCGC
* *
21737795 AAAAAGTAAGCAATAGCGACATTTTTGTTGCAAACGCTGCA
1 AAAAAGTAAGCAATAGCGACATTTTTGGTCCAAACGCTGCA
* * *
21737836 AAAAAGTTGAGCAATAGTGACGTTTTTGGTCCAAACGC
1 AAAAAG-TAAGCAATAGCGACATTTTTGGTCCAAACGC
21737874 CACTAAAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 6 0.19
42 26 0.81
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (41 bp):
AAAAAGTAAGCAATAGCGACATTTTTGGTCCAAACGCTGCA
Found at i:21741358 original size:43 final size:44
Alignment explanation
Indices: 21741213--21741346 Score: 157
Period size: 43 Copynumber: 3.1 Consensus size: 44
21741203 ATTTGTTACT
* * *
21741213 TTTAGCGGCGTTTGTAATAAAAGTGC--CGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTGTGATAAAA-AGCATTGCTAAAGGTTATGTTC
*
21741256 TTTAGCGGCGTTTGTGATAAAAAGCATTGCTAAAGGTTATGCTC
1 TTTAGCGGCGTTTGTGATAAAAAGCATTGCTAAAGGTTATGTTC
** * * *
21741300 TTTAGCAACGTTTGTGAT-AAAAGCGTTGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAAGCATTGCTAAAGGTTATGTTC
21741343 TTTA
1 TTTA
21741347 ATGGCATTTG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 2 0.03
43 46 0.58
44 31 0.39
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (44 bp):
TTTAGCGGCGTTTGTGATAAAAAGCATTGCTAAAGGTTATGTTC
Found at i:21741657 original size:32 final size:32
Alignment explanation
Indices: 21741597--21741659 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
21741587 ATTAATCAAT
* *
21741597 ATGAGTTATCAAATTAAATTAATTAATTTATC
1 ATGAGTTATCAAATTAAAGTAATCAATTTATC
** *
21741629 ATGAGTTATTGAATTCAAGTAATCAATTTAT
1 ATGAGTTATCAAATTAAAGTAATCAATTTAT
21741660 AAGTTTATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (32 bp):
ATGAGTTATCAAATTAAAGTAATCAATTTATC
Found at i:21741920 original size:16 final size:17
Alignment explanation
Indices: 21741899--21741935 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
21741889 GAAGATTAAC
21741899 ATTTT-ATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
21741915 ATTTTAATTAAGATAAT
1 ATTTTAATTAAAATAAT
21741932 -TTTT
1 ATTTT
21741936 GTTCAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTAATTAAAATAAT
Found at i:21748954 original size:29 final size:29
Alignment explanation
Indices: 21748910--21748991 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
21748900 TATCGACGAT
* *
21748910 CATCGATGAATGAAAATGGATGGATTT-AAC
1 CATCGAT-TATGAAAAAGGATGG-TTTCAAC
* *
21748940 CATCGATTATGAAAAGGGATAGTTTCAAC
1 CATCGATTATGAAAAAGGATGGTTTCAAC
*
21748969 TATCGATTATGAAAAAGGATGGT
1 CATCGATTATGAAAAAGGATGGT
21748992 AACGACCATC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.07
29 35 0.78
30 7 0.16
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (29 bp):
CATCGATTATGAAAAAGGATGGTTTCAAC
Found at i:21749002 original size:29 final size:29
Alignment explanation
Indices: 21748938--21749114 Score: 116
Period size: 29 Copynumber: 6.2 Consensus size: 29
21748928 GATGGATTTA
* * ** *
21748938 ACCATCGATTATGAAAAGGGATAGTTTCA
1 ACCATCGATTATGAAAAAGGATGGTGACG
* *
21748967 ACTATCGATTATGAAAAAGGATGGTAACG
1 ACCATCGATTATGAAAAAGGATGGTGACG
*
21748996 ACCATCG-TATATGAAAATA-G-T--T-TCG
1 ACCATCGAT-TATGAAAA-AGGATGGTGACG
* * *
21749021 ACAATCAAATAT-AAAAATGGATGGTGACG
1 ACCATCGATTATGAAAAA-GGATGGTGACG
* * *
21749050 ACCATCAACTATGAAAAGGGATGGTGACG
1 ACCATCGATTATGAAAAAGGATGGTGACG
* ** *
21749079 ACCATCGAATATGAAATGGGATGGTTACG
1 ACCATCGATTATGAAAAAGGATGGTGACG
21749108 ACCATCG
1 ACCATCG
21749115 TTAACACACT
Statistics
Matches: 119, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
23 1 0.01
24 4 0.03
25 11 0.09
26 2 0.02
28 3 0.03
29 93 0.78
30 5 0.04
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (29 bp):
ACCATCGATTATGAAAAAGGATGGTGACG
Found at i:21756262 original size:87 final size:88
Alignment explanation
Indices: 21756099--21756325 Score: 305
Period size: 87 Copynumber: 2.6 Consensus size: 88
21756089 ACGGTGTATC
* * * ** * * * *
21756099 GACGATCATCGATCAATGAAAAGGGATGGAT-TTGACCATTGACTATGAAAAGGGATAGTTTTGA
1 GACGACCATCAATTAATGAAAAGGGATGG-TGACGACCATCGAATATGAAAAGAGATAGTTTCGA
* *
21756163 CTATCGATTATGAAAAGGGATGGT
65 CTATCAAATATGAAAAGGGATGGT
*
21756187 GACGACCATCAATT-ATGAAAAGGGATGGTGACGACCATCGTATATGAAAAGAGATAGTTTCGAC
1 GACGACCATCAATTAATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGAGATAGTTTCGAC
21756251 TATCAAATATGAAAAGGGATGGT
66 TATCAAATATGAAAAGGGATGGT
* *
21756274 GACGACCATCGATTAATGAAAAGGGATGGTGACGGCCATCGAATATGAAAAG
1 GACGACCATCAATTAATGAAAAGGGATGGTGACGACCATCGAATATGAAAAG
21756326 GGATGGTTAC
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
86 1 0.01
87 75 0.61
88 46 0.38
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.23
Consensus pattern (88 bp):
GACGACCATCAATTAATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGAGATAGTTTCGAC
TATCAAATATGAAAAGGGATGGT
Found at i:21756279 original size:29 final size:29
Alignment explanation
Indices: 21756114--21756343 Score: 239
Period size: 29 Copynumber: 7.9 Consensus size: 29
21756104 TCATCGATCA
** * *
21756114 ATGAAAAGGGATGGAT-TTGACCATTGACT
1 ATGAAAAGGGATGG-TGACGACCATCGAAT
* *** * *
21756143 ATGAAAAGGGATAGTTTTGACTATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
21756172 ATGAAAAGGGATGGTGACGACCATC-AATT
1 ATGAAAAGGGATGGTGACGACCATCGAA-T
*
21756201 ATGAAAAGGGATGGTGACGACCATCGTAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
* * ** * *
21756230 ATGAAAAGAGATAGTTTCGACTATCAAAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
*
21756259 ATGAAAAGGGATGGTGACGACCATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
*
21756288 AATGAAAAGGGATGGTGACGGCCATCGAAT
1 -ATGAAAAGGGATGGTGACGACCATCGAAT
*
21756318 ATGAAAAGGGATGGTTACGACCATCG
1 ATGAAAAGGGATGGTGACGACCATCG
21756344 TTAGCACACT
Statistics
Matches: 168, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
28 2 0.01
29 138 0.82
30 28 0.17
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCGAAT
Found at i:21757372 original size:13 final size:13
Alignment explanation
Indices: 21757354--21757384 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21757344 GCACACAGGG
21757354 GTGTGGCTTGGCC
1 GTGTGGCTTGGCC
*
21757367 GTGTGGCTTGGCT
1 GTGTGGCTTGGCC
21757380 GTGTG
1 GTGTG
21757385 ACCTAAGTTA
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:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (13 bp):
GTGTGGCTTGGCC
Found at i:21761303 original size:9 final size:9
Alignment explanation
Indices: 21761285--21761318 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
21761275 ACTATTTTTT
*
21761285 ATTAAATAA
1 ATTAATTAA
21761294 ATTAATTAA
1 ATTAATTAA
*
21761303 ATTAACTAA
1 ATTAATTAA
21761312 ATTAATT
1 ATTAATT
21761319 TTGTCAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (9 bp):
ATTAATTAA
Found at i:21761342 original size:17 final size:18
Alignment explanation
Indices: 21761309--21761342 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21761299 TTAAATTAAC
21761309 TAAATTAATTTTGTCAAT
1 TAAATTAATTTTGTCAAT
*
21761327 TAAATT-ATTTTTTCAA
1 TAAATTAATTTTGTCAA
21761343 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (18 bp):
TAAATTAATTTTGTCAAT
Found at i:21764477 original size:18 final size:18
Alignment explanation
Indices: 21764454--21764488 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21764444 TAGTTATCAA
21764454 TGCTACCTCTACCTCTAC
1 TGCTACCTCTACCTCTAC
* *
21764472 TGCTACGTCTAGCTCTA
1 TGCTACCTCTACCTCTA
21764489 TATGAATTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.37, G:0.11, T:0.34
Consensus pattern (18 bp):
TGCTACCTCTACCTCTAC
Found at i:21765354 original size:18 final size:18
Alignment explanation
Indices: 21765333--21765373 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
21765323 GATGAAAATA
*
21765333 TTAATTAAACTAATTAAC
1 TTAATTAAACTAACTAAC
*
21765351 TTAATTAACCTAACTAAC
1 TTAATTAAACTAACTAAC
*
21765369 CTAAT
1 TTAAT
21765374 GGAATTTCCT
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:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAATTAAACTAACTAAC
Found at i:21768383 original size:18 final size:17
Alignment explanation
Indices: 21768350--21768383 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21768340 ACTTATTACC
*
21768350 CGAAAAATATAAAAACA
1 CGAAAAATAAAAAAACA
21768367 CGAAAATATAAAAAAAC
1 CGAAAA-ATAAAAAAAC
21768384 TAAGCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.12, G:0.06, T:0.12
Consensus pattern (17 bp):
CGAAAAATAAAAAAACA
Found at i:21774909 original size:12 final size:12
Alignment explanation
Indices: 21774886--21774920 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
21774876 TTTTTCAGTG
*
21774886 GCAGTAGTTGGT
1 GCAGTAGCTGGT
*
21774898 GCAGTGGCTGGT
1 GCAGTAGCTGGT
21774910 GCAGTAGCTGG
1 GCAGTAGCTGG
21774921 GACATTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.46, T:0.26
Consensus pattern (12 bp):
GCAGTAGCTGGT
Found at i:21793491 original size:130 final size:130
Alignment explanation
Indices: 21793122--21793509 Score: 689
Period size: 130 Copynumber: 3.0 Consensus size: 130
21793112 TTAGAGTTAG
* * *
21793122 AGAATAAAGCTCATTGGGCTTTGAAGCAGTTGAACTTTGATCTTAAGAAAGTGGGTCAAAGAAGG
1 AGAATAAAGCTCATTGGGCTTTGAAGCAATTGAACTTTGATCTTAAGCAAGTGGGTCAGAGAAGG
*
21793187 ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATGAGAATGCGAAAATGTGTAA
66 ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATGAGAATGCCAAAATGTGTAA
21793252 AGAATAAAGCTCATTGGGCTTTGAAGCAATTGAACTTTGATCTTAAGC-A-----TCAGAGAAGG
1 AGAATAAAGCTCATTGGGCTTTGAAGCAATTGAACTTTGATCTTAAGCAAGTGGGTCAGAGAAGG
21793311 ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATGAGAATGCCAAAATGTGTAA
66 ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATGAGAATGCCAAAATGTGTAA
21793376 AGAATAAAGCTCATTGGGCTTTGAAGCAATTGAACTTTGATCTTAAGCAAGTGGGTCAGAGAAGG
1 AGAATAAAGCTCATTGGGCTTTGAAGCAATTGAACTTTGATCTTAAGCAAGTGGGTCAGAGAAGG
*
21793441 ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATAAGAATGCCAAAATGTGTAA
66 ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATGAGAATGCCAAAATGTGTAA
21793506 AGAA
1 AGAA
21793510 AGATCAAAGA
Statistics
Matches: 247, Mismatches: 5, Indels: 12
0.94 0.02 0.05
Matches are distributed among these distances:
124 121 0.49
125 1 0.00
129 1 0.00
130 124 0.50
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (130 bp):
AGAATAAAGCTCATTGGGCTTTGAAGCAATTGAACTTTGATCTTAAGCAAGTGGGTCAGAGAAGG
ATGTTACAACTTGATGAGTTGGAAGAGCTGAGGTTGTTTTCCTATGAGAATGCCAAAATGTGTAA
Found at i:21797016 original size:28 final size:28
Alignment explanation
Indices: 21796976--21797036 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
21796966 CATCAAGCAT
*
21796976 CATTCTCTCTTTTTCTCTTAGCCTTTTC
1 CATTCTCACTTTTTCTCTTAGCCTTTTC
21797004 CATTCTCACTTTTTCTCTTAGCCTTTTC
1 CATTCTCACTTTTTCTCTTAGCCTTTTC
21797032 CATTC
1 CATTC
21797037 CCACACTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.10, C:0.33, G:0.03, T:0.54
Consensus pattern (28 bp):
CATTCTCACTTTTTCTCTTAGCCTTTTC
Found at i:21806169 original size:26 final size:27
Alignment explanation
Indices: 21806131--21806190 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
21806121 AAAAACGCCT
*
21806131 TTGTGGCGTAATATGAAA-GAAAGCCC
1 TTGTGGCGGAATATGAAAGGAAAGCCC
* *
21806157 TTGTGGCGGAATATGAAAGGAATGCCT
1 TTGTGGCGGAATATGAAAGGAAAGCCC
21806184 TTGTGGC
1 TTGTGGC
21806191 AAAATTTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 17 0.57
27 13 0.43
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (27 bp):
TTGTGGCGGAATATGAAAGGAAAGCCC
Found at i:21827461 original size:43 final size:43
Alignment explanation
Indices: 21827383--21827474 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
21827373 GAAACACGAG
* *
21827383 CGTGTGTCTCAGCCGTGTGACTTACACAACCTAGCTATACGGC
1 CGTGTGTCTCAGCCATGTGACTTACACAACCTAGCTACACGGC
* * *** *
21827426 TGTGTGTCTCAGCCATGTGAGTTACATGGCTTAGCTACACGGC
1 CGTGTGTCTCAGCCATGTGACTTACACAACCTAGCTACACGGC
21827469 CGTGTG
1 CGTGTG
21827475 ACCCTTACAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.28
Consensus pattern (43 bp):
CGTGTGTCTCAGCCATGTGACTTACACAACCTAGCTACACGGC
Found at i:21830720 original size:29 final size:30
Alignment explanation
Indices: 21830674--21830732 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
21830664 TAATTGGATC
21830674 AAATCAAAATTTAATGTATAAAATTGCACA
1 AAATCAAAATTTAATGTATAAAATTGCACA
*
21830704 AAATCACAATTT-ATGTATAAAATTGCACA
1 AAATCAAAATTTAATGTATAAAATTGCACA
21830733 TTAGGTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTAATGTATAAAATTGCACA
Found at i:21839137 original size:23 final size:24
Alignment explanation
Indices: 21839075--21839137 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
21839065 TATTCGAATT
*
21839075 ATTCGAGTT-ATTCGAATTCGAAA
1 ATTCGAGTTGATTCGAACTCGAAA
* * * *
21839098 ACTCAACTCGATTCGAACTCG-AA
1 ATTCGAGTTGATTCGAACTCGAAA
21839121 ATTCGAGTTGATTCGAA
1 ATTCGAGTTGATTCGAA
21839138 TAACTCGAAT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (24 bp):
ATTCGAGTTGATTCGAACTCGAAA
Found at i:21840732 original size:52 final size:53
Alignment explanation
Indices: 21840644--21840745 Score: 152
Period size: 52 Copynumber: 1.9 Consensus size: 53
21840634 TCCTTAAATT
*
21840644 TTCCCATATGATGTCATAACCCACCAATTACGGTCTTACACAATATGGTCTTC
1 TTCCCATATGATGCCATAACCCACCAATTACGGTCTTACACAATATGGTCTTC
* ** *
21840697 TTCCCATATGAT-CCATAACCCACCAGTTATTGTCTTACACGATATGGTC
1 TTCCCATATGATGCCATAACCCACCAATTACGGTCTTACACAATATGGTC
21840746 ATTCAGTGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 32 0.73
53 12 0.27
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCCCATATGATGCCATAACCCACCAATTACGGTCTTACACAATATGGTCTTC
Found at i:21841856 original size:17 final size:16
Alignment explanation
Indices: 21841836--21841900 Score: 53
Period size: 17 Copynumber: 4.0 Consensus size: 16
21841826 TATATATGTA
21841836 TAATAAATATATAAAAT
1 TAATAAATAT-TAAAAT
* *
21841853 TAATAATTATTAAAAA
1 TAATAAATATTAAAAT
* *
21841869 T-ATAAAAATTAAATT
1 TAATAAATATTAAAAT
21841884 TAATGATAATA-TAAAAT
1 TAAT-A-AATATTAAAAT
21841901 ATGTAGTGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
15 11 0.30
16 8 0.22
17 15 0.41
18 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAATAAATATTAAAAT
Found at i:21842281 original size:19 final size:18
Alignment explanation
Indices: 21842254--21842289 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
21842244 TGGATTTAGA
21842254 TTTAGATATATATTATATG
1 TTTAGATATATA-TATATG
*
21842273 TTTATATATATATATAT
1 TTTAGATATATATATAT
21842290 AAAAAACTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAGATATATATATATG
Found at i:21842534 original size:20 final size:19
Alignment explanation
Indices: 21842506--21842598 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 19
21842496 AATGATTAAA
21842506 TAATCAAATATTAATAAAAAT
1 TAAT-AAATATT-ATAAAAAT
*
21842527 TAATAAATATT-TAACAA-
1 TAATAAATATTATAAAAAT
* *
21842544 TATTAAA-ATTGATATAAACT
1 TAATAAATATT-ATA-AAAAT
21842564 T-ATAAATATTATAAAAAT
1 TAATAAATATTATAAAAAT
* *
21842582 ATAACAAATATAATAAA
1 -TAATAAATATTATAAA
21842599 TTCTATAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
16 3 0.05
17 6 0.11
18 11 0.19
19 10 0.18
20 23 0.40
21 4 0.07
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (19 bp):
TAATAAATATTATAAAAAT
Found at i:21842598 original size:37 final size:37
Alignment explanation
Indices: 21842505--21842622 Score: 91
Period size: 37 Copynumber: 3.1 Consensus size: 37
21842495 AAATGATTAA
*
21842505 ATAATCAAATATTAATAAAAATTAATAAATATT-TAACAAT
1 ATAA-CAAATA-TAAT-AAAATT-ATAAATATTATAAAAAT
* *
21842545 ATTA-AAAT-TGATATAAACTTATAAATATTATAAAAAT
1 ATAACAAATAT-A-ATAAAATTATAAATATTATAAAAAT
*
21842582 ATAACAAATATAATAAATTCTATAAA-ATTAATAAAATAT
1 ATAACAAATATAATAAAAT-TATAAATATT-ATAAAA-AT
21842621 AT
1 AT
21842623 TTAAAATTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
36 10 0.15
37 24 0.37
38 23 0.35
39 5 0.08
40 3 0.05
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (37 bp):
ATAACAAATATAATAAAATTATAAATATTATAAAAAT
Found at i:21842647 original size:20 final size:20
Alignment explanation
Indices: 21842602--21842660 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
21842592 TAATAAATTC
* *
21842602 TATAAAA-TTAATAAAATATA
1 TATAAAATTTTATAAAA-ACA
*
21842622 TTTAAAATTTTATAAAAACA
1 TATAAAATTTTATAAAAACA
21842642 TATAAAATTTCT-TAAAAAC
1 TATAAAATTT-TATAAAAAC
21842661 TTTATAGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 24 0.73
21 9 0.27
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
TATAAAATTTTATAAAAACA
Found at i:21856075 original size:27 final size:27
Alignment explanation
Indices: 21856037--21856089 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
21856027 TCAAAAAAGG
21856037 GATTGTCCAAGTTTAAACTTAGAATTT
1 GATTGTCCAAGTTTAAACTTAGAATTT
*
21856064 GATTGTCCAAGTTTAAACTTGGAATT
1 GATTGTCCAAGTTTAAACTTAGAATT
21856090 CTTTAACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GATTGTCCAAGTTTAAACTTAGAATTT
Found at i:21858133 original size:29 final size:30
Alignment explanation
Indices: 21858100--21858156 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
21858090 ACAACCTGGA
* *
21858100 CACACGGCCATGTCC-TTGCCTGTGTGGCT
1 CACACGCCCATGTCCTTTGCCCGTGTGGCT
21858129 CACACGCCCATGTCCTTTGCCCGTGTGG
1 CACACGCCCATGTCCTTTGCCCGTGTGG
21858157 TTCTGGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.11, C:0.37, G:0.26, T:0.26
Consensus pattern (30 bp):
CACACGCCCATGTCCTTTGCCCGTGTGGCT
Found at i:21869948 original size:6 final size:6
Alignment explanation
Indices: 21869937--21869974 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
21869927 GTTAATAAAG
21869937 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT AC
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT AC
21869975 GCGTGCACGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (6 bp):
ACACAT
Found at i:21874766 original size:26 final size:26
Alignment explanation
Indices: 21874733--21874784 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
21874723 GTGGATGCTT
* *
21874733 AGAAGTTGTTAGCTAGGACTCTTAGA
1 AGAAGTTGCTAGCTAGGACTCCTAGA
*
21874759 AGAAGTTGCTAGGTAGGACTCCTAGA
1 AGAAGTTGCTAGCTAGGACTCCTAGA
21874785 GTAAAATAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (26 bp):
AGAAGTTGCTAGCTAGGACTCCTAGA
Found at i:21881197 original size:37 final size:38
Alignment explanation
Indices: 21881132--21881211 Score: 90
Period size: 37 Copynumber: 2.1 Consensus size: 38
21881122 AAAATTTTCC
* * *
21881132 AAAAATAAAAAAAATCAAAACATGAGAAA-TCATTTTA
1 AAAAATAAAAAAAATCAAAACATAAGAAAGCCATTTAA
** * *
21881169 AAAAATAAAAATTATTAAAATATAAGAAAGCCATTTAA
1 AAAAATAAAAAAAATCAAAACATAAGAAAGCCATTTAA
21881207 AAAAA
1 AAAAA
21881212 AGTGTTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
37 24 0.69
38 11 0.31
ACGTcount: A:0.66, C:0.06, G:0.05, T:0.23
Consensus pattern (38 bp):
AAAAATAAAAAAAATCAAAACATAAGAAAGCCATTTAA
Found at i:21882136 original size:14 final size:14
Alignment explanation
Indices: 21882119--21882147 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21882109 ATTATCTAAT
21882119 GGTCTTATGAGAAG
1 GGTCTTATGAGAAG
21882133 GGTCTTATGAGAAG
1 GGTCTTATGAGAAG
21882147 G
1 G
21882148 ATCGCCTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.38, T:0.28
Consensus pattern (14 bp):
GGTCTTATGAGAAG
Found at i:21893157 original size:21 final size:20
Alignment explanation
Indices: 21893115--21893165 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
21893105 ATATGTATGA
*
21893115 AAAAT-ATAATTATATTTAT
1 AAAATAATAATTAAATTTAT
*
21893134 AAATTCAATAATTAAATTGT-T
1 AAAAT-AATAATTAAATT-TAT
21893155 AAAATAATAAT
1 AAAATAATAAT
21893166 GGTATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 4 0.15
20 6 0.23
21 15 0.58
22 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAATAATAATTAAATTTAT
Found at i:21893936 original size:18 final size:19
Alignment explanation
Indices: 21893910--21893949 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
21893900 GGTAAAAGCT
* *
21893910 ATTATAATTA-TAATTTAA
1 ATTACAATTACTAATTAAA
21893928 ATTACAATTACTAATTAAA
1 ATTACAATTACTAATTAAA
21893947 ATT
1 ATT
21893950 GGTGTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTACAATTACTAATTAAA
Found at i:21908706 original size:41 final size:41
Alignment explanation
Indices: 21908662--21908811 Score: 219
Period size: 41 Copynumber: 3.7 Consensus size: 41
21908652 TTTAACATAT
* * * *
21908662 TCACCGGCATTTAGCTTGCTAGGCTTATAGCCTGATTCAGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
21908703 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
** *
21908744 TCACCAACACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
21908785 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
21908812 AAGTCCGAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:21910141 original size:20 final size:20
Alignment explanation
Indices: 21910116--21910156 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
21910106 AAAATCATCA
21910116 ACAATTCACAAAATTAAGAC
1 ACAATTCACAAAATTAAGAC
*
21910136 ACAATTCACAAAATTCAGAC
1 ACAATTCACAAAATTAAGAC
21910156 A
1 A
21910157 TGAGTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.54, C:0.22, G:0.05, T:0.20
Consensus pattern (20 bp):
ACAATTCACAAAATTAAGAC
Found at i:21912098 original size:15 final size:15
Alignment explanation
Indices: 21912078--21912109 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21912068 CATTTCACTG
*
21912078 TTATGTCTTTTTTAT
1 TTATGTCTTTTATAT
21912093 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
21912108 TT
1 TT
21912110 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:21919647 original size:8 final size:8
Alignment explanation
Indices: 21919627--21919657 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
21919617 TTAGCATAGT
21919627 TTTTCATTA
1 TTTTCA-TA
21919636 TTTTCATA
1 TTTTCATA
21919644 TTTTCATA
1 TTTTCATA
21919652 TTTTCA
1 TTTTCA
21919658 AATAATAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTCATA
Found at i:21922705 original size:25 final size:25
Alignment explanation
Indices: 21922518--21922750 Score: 87
Period size: 24 Copynumber: 9.4 Consensus size: 25
21922508 TGACTCTTTG
*
21922518 TGAGCTTCCCG--ATATGGCTCGCT-
1 TGAGCTTCCCGTTATATGGCTC-ATA
* * *
21922541 TGAACTTCCCGTTAT-TAAGCT-ATC
1 TGAGCTTCCCGTTATAT-GGCTCATA
* *
21922565 TGGAGCTTCCCATTAT-TGGCTC-TT
1 T-GAGCTTCCCGTTATATGGCTCATA
* * *
21922589 TGGAGCTACCTGTTAT-TAGCTCATA
1 T-GAGCTTCCCGTTATATGGCTCATA
* * *
21922614 TGAGCTTCCTG-AATATGGCTCTTA
1 TGAGCTTCCCGTTATATGGCTCATA
* **
21922638 TGAGCTTCCCGATATAAAGCTCGA-A
1 TGAGCTTCCCGTTATATGGCTC-ATA
* * * *
21922663 TAAGC-TCCTGTTACATGGCTCACA
1 TGAGCTTCCCGTTATATGGCTCATA
* *
21922687 TGAGCTTCCCGTTATATGGCTTGAGA
1 TGAGCTTCCCGTTATATGGC-TCATA
*
21922713 -GAGTGCTTCCCGTTA-ATGTGCTCTTA
1 TGA--GCTTCCCGTTATATG-GCTCATA
21922739 TGAGCATTCCCG
1 TGAGC-TTCCCG
21922751 AATATGAATT
Statistics
Matches: 157, Mismatches: 35, Indels: 33
0.70 0.16 0.15
Matches are distributed among these distances:
23 14 0.09
24 66 0.42
25 48 0.31
26 14 0.09
27 15 0.10
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (25 bp):
TGAGCTTCCCGTTATATGGCTCATA
Found at i:21924237 original size:50 final size:50
Alignment explanation
Indices: 21924112--21924403 Score: 284
Period size: 50 Copynumber: 5.7 Consensus size: 50
21924102 GATAATAACA
* * ** * *
21924112 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * *
21924161 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGA-GTCCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATATCGG
* ** *
21924211 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * * *
21924261 TGCCAACGCCGTGTCCCAGACATGGTCTTACATGGGAACTCTCGTCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
21924311 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC--GG
* *
21924366 ATGCTAATGACATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
21924404 NNNNNNNNNN
Statistics
Matches: 200, Mismatches: 33, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
48 3 0.01
49 37 0.19
50 122 0.61
51 1 0.00
53 2 0.01
55 1 0.00
56 34 0.17
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:21925453 original size:14 final size:14
Alignment explanation
Indices: 21925434--21925461 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21925424 ATCATTACCC
21925434 ATATATATATATGT
1 ATATATATATATGT
21925448 ATATATATATATGT
1 ATATATATATATGT
21925462 CGAAACCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATATATATATATGT
Found at i:21926543 original size:15 final size:16
Alignment explanation
Indices: 21926514--21926552 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
21926504 CAAAAAGTTA
*
21926514 GAAATGAATACTATAT
1 GAAATGAATAATATAT
21926530 GAAAT-AATAATATAT
1 GAAATGAATAATATAT
21926545 -AAATGAAT
1 GAAATGAAT
21926553 TTTCAGGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (16 bp):
GAAATGAATAATATAT
Found at i:21928212 original size:16 final size:17
Alignment explanation
Indices: 21928172--21928212 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
21928162 TTTTTGGACT
21928172 ATTATTTTATTTTATTTG
1 ATTA-TTTATTTTATTTG
*
21928190 GTT-TTTATTTT-TTTG
1 ATTATTTATTTTATTTG
21928205 ATTATTTA
1 ATTATTTA
21928213 ATCTGCATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.30
16 12 0.60
18 2 0.10
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (17 bp):
ATTATTTATTTTATTTG
Found at i:21928255 original size:2 final size:2
Alignment explanation
Indices: 21928248--21928275 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21928238 GGGTAGTACA
21928248 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21928276 GAAATACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21930006 original size:3 final size:3
Alignment explanation
Indices: 21929998--21930570 Score: 1146
Period size: 3 Copynumber: 191.0 Consensus size: 3
21929988 AAGGAGCAAG
21929998 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21930046 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21930094 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21930142 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21930190 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21930238 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21930286 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21930334 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21930382 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21930430 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21930478 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21930526 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21930571 CATTCTTTGC
Statistics
Matches: 570, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 570 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:21931659 original size:27 final size:28
Alignment explanation
Indices: 21931628--21931691 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
21931618 TTTTTTCTTC
* *
21931628 TTGGTACCTAAA-TTTTTTTTTTCATAAG
1 TTGGTACCTAAACTATTTTTTTCCA-AAG
*
21931656 -TGGTACTTAAACTATTTTTTTCCAAAG
1 TTGGTACCTAAACTATTTTTTTCCAAAG
21931683 TTGGTACCT
1 TTGGTACCT
21931692 TTGTCAGTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 13 0.43
28 17 0.57
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.48
Consensus pattern (28 bp):
TTGGTACCTAAACTATTTTTTTCCAAAG
Found at i:21936623 original size:25 final size:24
Alignment explanation
Indices: 21936552--21936747 Score: 96
Period size: 25 Copynumber: 7.9 Consensus size: 24
21936542 GGAAGCTGAT
* * *
21936552 AAGAGCCATAGTCAGAAAGCTCATG
1 AAGAGCCATAATCAGGAAGCTC-CG
* *
21936577 -CGAGCCAATAA-CAGGTAGCTCCG
1 AAGAGCC-ATAATCAGGAAGCTCCG
*
21936600 AAGAGCCACTAATCGGGAAGCTCCG
1 AAGAGCCA-TAATCAGGAAGCTCCG
* * * **
21936625 GATAGCCATATATCAGAAAG-T-TT
1 AAGAGCCATA-ATCAGGAAGCTCCG
*
21936648 AAGCGAGCCAT-ATCAGGAAGCTCTG
1 AA--GAGCCATAATCAGGAAGCTCCG
* *
21936673 GAGAGCCATTAATCAGGAAGCTCACA
1 AAGAGCCA-TAATCAGGAAGCTC-CG
* * *
21936699 AAGAGCCTTTAATCGGGAAGCTCATG
1 AAGAGCC-ATAATCAGGAAGCTC-CG
*
21936725 AAGAGCCATATATCAGGACGCTC
1 AAGAGCCATA-ATCAGGAAGCTC
21936748 ATAAAAGTTG
Statistics
Matches: 128, Mismatches: 29, Indels: 27
0.70 0.16 0.15
Matches are distributed among these distances:
23 17 0.13
24 26 0.20
25 48 0.38
26 37 0.29
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (24 bp):
AAGAGCCATAATCAGGAAGCTCCG
Found at i:21936633 original size:73 final size:73
Alignment explanation
Indices: 21936555--21936695 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 73
21936545 AGCTGATAAG
* * * *
21936555 AGCCATA-GTCAGAAAGCTCATGCGAGCCAATAACAGGTAGCTCCGAAGAGCCACTAATCGGGAA
1 AGCCATATATCAGAAAGCTCAAGCGAGCC-ATAACAGGAAGCTCCGAAGAGCCACTAATCAGGAA
21936619 GCTCCGGAT
65 GCTCCGGAT
* * * * * *
21936628 AGCCATATATCAGAAAGTTTAAGCGAGCCATATCAGGAAGCTCTGGAGAGCCATTAATCAGGAAG
1 AGCCATATATCAGAAAGCTCAAGCGAGCCATAACAGGAAGCTCCGAAGAGCCACTAATCAGGAAG
21936693 CTC
66 CTC
21936696 ACAAAGAGCC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
73 40 0.70
74 17 0.30
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (73 bp):
AGCCATATATCAGAAAGCTCAAGCGAGCCATAACAGGAAGCTCCGAAGAGCCACTAATCAGGAAG
CTCCGGAT
Found at i:21936749 original size:26 final size:27
Alignment explanation
Indices: 21936659--21936749 Score: 100
Period size: 26 Copynumber: 3.5 Consensus size: 27
21936649 AGCGAGCCAT
*
21936659 ATCAGGAAGCTC-TGGAGAGCCAT-TA
1 ATCAGGAAGCTCATGAAGAGCCATATA
** *
21936684 ATCAGGAAGCTCACAAAGAGCC-TTTA
1 ATCAGGAAGCTCATGAAGAGCCATATA
*
21936710 ATCGGGAAGCTCATGAAGAGCCATAT-
1 ATCAGGAAGCTCATGAAGAGCCATATA
*
21936736 ATCAGGACGCTCAT
1 ATCAGGAAGCTCAT
21936750 AAAAGTTGCG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
25 13 0.24
26 39 0.72
27 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
ATCAGGAAGCTCATGAAGAGCCATATA
Found at i:21941267 original size:20 final size:20
Alignment explanation
Indices: 21941242--21941291 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
21941232 TTAGGTTGGA
21941242 TAAATTATATGAGTTTGTTT
1 TAAATTATATGAGTTTGTTT
21941262 TAAATTATATGAGTTTGTTT
1 TAAATTATATGAGTTTGTTT
*
21941282 TAAATAATAT
1 TAAATTATAT
21941292 CATTGTGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (20 bp):
TAAATTATATGAGTTTGTTT
Found at i:21944779 original size:51 final size:50
Alignment explanation
Indices: 21944702--21944806 Score: 174
Period size: 51 Copynumber: 2.1 Consensus size: 50
21944692 ATGCTGGTTT
* *
21944702 TGATACCCTATCTTGATACGTGCAACAAATGGACACTTAAATATAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTT-AATATAAACAAA
*
21944753 TGATACCCTATCTTGATACATACAACACATGGACACTTAATATAAACAAA
1 TGATACCCTATCTTGATACATACAACAAATGGACACTTAATATAAACAAA
21944803 TGAT
1 TGAT
21944807 TTATAGCTAC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 16 0.31
51 35 0.69
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (50 bp):
TGATACCCTATCTTGATACATACAACAAATGGACACTTAATATAAACAAA
Found at i:21945457 original size:227 final size:227
Alignment explanation
Indices: 21945062--21945515 Score: 863
Period size: 227 Copynumber: 2.0 Consensus size: 227
21945052 GATAGCCGAT
* *
21945062 TGGATCCTTTGCTGTCTGTTCTGAAAAGAGATACTCTAAAGTTACCCCCCATAACTCAGTGTGAA
1 TGGATCCTTTGCTGTCTGTTCTAAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
*
21945127 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATAGGTGGTGGGGGCCAATCCCA
66 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATAGGTGGTGGGAGCCAATCCCA
21945192 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
131 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
21945257 AACCACCTTCGGCCCTATTTGTCAAGAATCGA
196 AACCACCTTCGGCCCTATTTGTCAAGAATCGA
*
21945289 TGGATCCTTTGTTGTCTGTTCTAAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
1 TGGATCCTTTGCTGTCTGTTCTAAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
*
21945354 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATGGGTGGTGGGAGCCAATCCCA
66 GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATAGGTGGTGGGAGCCAATCCCA
21945419 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
131 AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
21945484 AACCACCTTCGGCCCTATTTGTCAAGAATCGA
196 AACCACCTTCGGCCCTATTTGTCAAGAATCGA
21945516 CAATGCTGGA
Statistics
Matches: 222, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
227 222 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (227 bp):
TGGATCCTTTGCTGTCTGTTCTAAAAAGAGATACTCTAAAGTTACCCCCCAAAACTCAGTGTGAA
GATGATTGAGTAGCCGTACACTAACAGCTATAGGAGGCTACTATAGGTGGTGGGAGCCAATCCCA
AGGGGAAGAAGGGCTGAGACATTATAACTAATGAAACAAAGAAAAACATGGATGATGGAGGATCT
AACCACCTTCGGCCCTATTTGTCAAGAATCGA
Found at i:21950007 original size:32 final size:33
Alignment explanation
Indices: 21949957--21950021 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
21949947 ATCTTATAAG
*
21949957 ACATATGGGAGGGGTCTAAAAATTAAAATAATT
1 ACATATGGGAGGGATCTAAAAATTAAAATAATT
21949990 ACATAT-GGAGGGATCTAAAAATTAAAATAATT
1 ACATATGGGAGGGATCTAAAAATTAAAATAATT
21950022 TTACACATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 25 0.81
33 6 0.19
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (33 bp):
ACATATGGGAGGGATCTAAAAATTAAAATAATT
Found at i:21950973 original size:3 final size:3
Alignment explanation
Indices: 21950967--21950992 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21950957 CACATCGTCC
21950967 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
21950993 ATCGAGTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:21956074 original size:26 final size:26
Alignment explanation
Indices: 21956024--21956074 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
21956014 TTGGATGATT
*
21956024 GAACGATTGAAATTTTAAGGGAAAGG
1 GAACGATTGAAATTTTAAGGAAAAGG
*
21956050 GAACGGTTGAAATTTT-AGAGAAAAG
1 GAACGATTGAAATTTTAAG-GAAAAG
21956075 ATATCGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.43, C:0.04, G:0.29, T:0.24
Consensus pattern (26 bp):
GAACGATTGAAATTTTAAGGAAAAGG
Found at i:21957540 original size:19 final size:18
Alignment explanation
Indices: 21957497--21957543 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
21957487 ATAAGTATAC
21957497 ATATAT-AAAATAAATAA
1 ATATATAAAAATAAATAA
* *
21957514 ATAAATAAAAATGAATGAA
1 ATATATAAAAATAAAT-AA
21957533 ATATATAAAAA
1 ATATATAAAAA
21957544 AACTTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 5 0.20
18 8 0.32
19 12 0.48
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (18 bp):
ATATATAAAAATAAATAA
Found at i:21958566 original size:18 final size:18
Alignment explanation
Indices: 21958543--21958584 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
21958533 AGGCTGCTGA
21958543 ACGTGGGCGGTTGCTGCG
1 ACGTGGGCGGTTGCTGCG
21958561 ACGTGGGCGGTTGCTGCG
1 ACGTGGGCGGTTGCTGCG
21958579 ACGTGG
1 ACGTGG
21958585 AGTACGCGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.07, C:0.21, G:0.50, T:0.21
Consensus pattern (18 bp):
ACGTGGGCGGTTGCTGCG
Found at i:21959268 original size:128 final size:127
Alignment explanation
Indices: 21959079--21959422 Score: 483
Period size: 128 Copynumber: 2.7 Consensus size: 127
21959069 GTCTGATGAG
* * * *** * *
21959079 ATCTGCTCTACTGCAAC-TCATAGAGATAAGATCCGTTTTTAATCCGCTCCACTGCATCTTCAGG
1 ATCTACTCTTCTGCAACTTCAGAGAGATAAGATCTAATGTTAATCCGCTCCACTGCAACTTCAGG
*
21959143 GAGATAGGATTATTTTCTTCAATTTACTCCACTGCAACTTCAGGGAGATAAGATTGGATACA
66 GAGATAGGATTATTTTCTTCAATTTACTCCACTGCAACTTCAGGGAGATAAGACTGGATACA
* * *
21959205 ATCTGCTCTTCTGTAACTTCAGAGAAGCTAAGATCTAATGTTAATCCGCTCCACTGCAACTTCAG
1 ATCTACTCTTCTGCAACTTCAGAG-AGATAAGATCTAATGTTAATCCGCTCCACTGCAACTTCAG
* * * * *
21959270 GGAGATAGGATTATTTTCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTGGATGCG
65 GGAGATAGGATTATTTTCTTCAATTTACTCCACTGCAACTTCAGGGAGATAAGACTGGATACA
* * * *
21959333 ATCTACTCTTCTGCAACTTTAGAGAGATAAGATTTGATTTTAATCCGCTCCACTGCAACTTCAGG
1 ATCTACTCTTCTGCAACTTCAGAGAGATAAGATCTAATGTTAATCCGCTCCACTGCAACTTCAGG
21959398 GAGATAGGATTATTTTCTTCAATTT
66 GAGATAGGATTATTTTCTTCAATTT
21959423 GTTTAACTGC
Statistics
Matches: 193, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
126 15 0.08
127 66 0.34
128 112 0.58
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (127 bp):
ATCTACTCTTCTGCAACTTCAGAGAGATAAGATCTAATGTTAATCCGCTCCACTGCAACTTCAGG
GAGATAGGATTATTTTCTTCAATTTACTCCACTGCAACTTCAGGGAGATAAGACTGGATACA
Found at i:21959303 original size:44 final size:44
Alignment explanation
Indices: 21959119--21959420 Score: 187
Period size: 44 Copynumber: 7.1 Consensus size: 44
21959109 ATCCGTTTTT
* *
21959119 AATCCGCTCCACTGCATCTTCAGGGAGATAGGATTATTTTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTCTTC
* * * *** *
21959163 AATTTACTCCACTGCAACTTCAGGGAGATA--A-GATTGGATAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTCTTC
** * * * * * *
21959204 AATCTGCTCTTCTGTAACTTCAGAGAAGCTAAGATCTA--ATGTT-
1 AATCTGCTCCACTGCAACTTCAG-GGAGATAGGAT-TATTTTCTTC
*
21959247 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTCTTC
* * * *** *
21959291 AATCTGCTCCACTGCAACTTTAGGGAGATA--A-GACTGGATGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTCTTC
* * ** * * * *
21959332 GATCTACTCTTCTGCAACTTTAGAGAGATAAGATT-TGATT-TT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAT-TTTCTTC
*
21959374 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTCTTC
21959418 AAT
1 AAT
21959421 TTGTTTAACT
Statistics
Matches: 185, Mismatches: 58, Indels: 30
0.68 0.21 0.11
Matches are distributed among these distances:
41 54 0.29
42 44 0.24
43 27 0.15
44 59 0.32
46 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTTCTTC
Found at i:21959468 original size:50 final size:50
Alignment explanation
Indices: 21959414--21959772 Score: 183
Period size: 50 Copynumber: 7.2 Consensus size: 50
21959404 GGATTATTTT
* *
21959414 CTTCAATTTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGA
1 CTTCAATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGG
** *** *** ** * * *
21959464 CTTCAATCTGTTCCACTGC-ACCACCAAGAAGGTAAAATTCGTCGTTGTGG
1 CTTCAATCTGTTTAACTGCAATGTCGGGGAA-ACAAGATTCGCCGTCGTGG
* * * * *
21959514 CTTCAATATATTTAACTACAATGTCAGGGG-AACAAGATTCGCCATCGTGA
1 CTTCAATCTGTTTAACTGCAATGTC-GGGGAAACAAGATTCGCCGTCGTGG
* *** ** * ** * * *
21959564 CTTCAATCTATTCCCCT--ACCG-CTAGGGAAGTAAGATTCACTGTTGTGG
1 CTTCAATCTGTTTAACTGCAATGTC-GGGGAAACAAGATTCGCCGTCGTGG
* * * * *
21959612 CTTCAATCTTTTTAATTGCAATGT-TGGGAAACAAGATACGCCGTCGTAG
1 CTTCAATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGG
** * ** * * ** *
21959661 CTTCAATCTGTTCCACTACACCGCCGAGGAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGG
* * *
21959711 CTTCAATCTTTTTAATTGCAATGTCGAGGAAACAAGA-TCTGCCGTCGTGG
1 CTTCAATCTGTTTAACTGCAATGTCGGGGAAACAAGATTC-GCCGTCGTGG
21959761 CTTCAATCTGTT
1 CTTCAATCTGTT
21959773 ACACTGTAAT
Statistics
Matches: 210, Mismatches: 90, Indels: 18
0.66 0.28 0.06
Matches are distributed among these distances:
47 4 0.02
48 27 0.13
49 40 0.19
50 135 0.64
51 3 0.01
52 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGG
Found at i:21959548 original size:100 final size:98
Alignment explanation
Indices: 21959414--21959778 Score: 418
Period size: 100 Copynumber: 3.7 Consensus size: 98
21959404 GGATTATTTT
21959414 CTTCAAT-TTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCC
1 CTTCAATCTT-TTTAACTGCAATGTC-GGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCC
* * * *
21959478 ACTGCACCACCAAGAAGGTAAAATTCGTCGTTGTGG
64 ACTGCACCGCCAGGAA-GTAAGATTCGACGTTGTGG
* * * * * * *
21959514 CTTCAATATATTTAACTACAATGTCAGGGGAACAAGATTCGCCATCGTGACTTCAATCTATTCCC
1 CTTCAATCTTTTTAACTGCAATGTC-GGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCCA
*
21959579 CT--ACCGCTAGGGAAGTAAGATTC-ACTGTTGTGG
65 CTGCACCGCCA-GGAAGTAAGATTCGAC-GTTGTGG
* * *
21959612 CTTCAATCTTTTTAATTGCAATGTTGGGAAACAAGATACGCCGTCGT-AGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAACTGCAATGTCGGGAAACAAGATTCGCCGTCGTGA-CTTCAATCTGTTCCA
* *
21959676 CTACACCGCCGAGGAAGTAAGATTCGCCGTTGTGG
65 CTGCACCGCC-AGGAAGTAAGATTCGACGTTGTGG
* * *
21959711 CTTCAATCTTTTTAATTGCAATGTCGAGGAAACAAGA-TCTGCCGTCGTGGCTTCAATCTGTTAC
1 CTTCAATCTTTTTAACTGCAATGTCG-GGAAACAAGATTC-GCCGTCGTGACTTCAATCTGTTCC
21959775 ACTG
64 ACTG
21959779 TAATGCCAAA
Statistics
Matches: 225, Mismatches: 29, Indels: 22
0.82 0.11 0.08
Matches are distributed among these distances:
96 1 0.00
97 35 0.16
98 40 0.18
99 54 0.24
100 94 0.42
101 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (98 bp):
CTTCAATCTTTTTAACTGCAATGTCGGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCCAC
TGCACCGCCAGGAAGTAAGATTCGACGTTGTGG
Found at i:21961185 original size:21 final size:20
Alignment explanation
Indices: 21961161--21961229 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 20
21961151 TGAGCTCCTC
21961161 TGATCACCTCATGCCCTATTT
1 TGATCACCTCATGCCC-ATTT
* * *
21961182 TGATCA-AT-ATTTGAGCCATTC
1 TGATCACCTCA--TG-CCCATTT
21961203 TGATCACCTCATGCCCCATTT
1 TGATCACCTCATG-CCCATTT
21961224 TGATCA
1 TGATCA
21961230 ATATTTGAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 30 0.83
22 3 0.08
23 1 0.03
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.36
Consensus pattern (20 bp):
TGATCACCTCATGCCCATTT
Found at i:21961188 original size:42 final size:42
Alignment explanation
Indices: 21961120--21961240 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
21961110 AGTATAGCAA
* * *
21961120 GATCACCGCATG-CCTCATTCTAATCAATATTTGAGCTC-CTCT
1 GATCACCTCATGCCCT-ATTTTGATCAATATTTGAGC-CACTCT
*
21961162 GATCACCTCATGCCCTATTTTGATCAATATTTGAGCCATTCT
1 GATCACCTCATGCCCTATTTTGATCAATATTTGAGCCACTCT
*
21961204 GATCACCTCATGCCCCATTTTGATCAATATTTGAGCC
1 GATCACCTCATGCCCTATTTTGATCAATATTTGAGCC
21961241 GCCCTTTTTG
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.94
43 3 0.04
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (42 bp):
GATCACCTCATGCCCTATTTTGATCAATATTTGAGCCACTCT
Found at i:21961402 original size:23 final size:22
Alignment explanation
Indices: 21961371--21961437 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 22
21961361 TTATTTTTTA
*
21961371 TTTTGATTTTGATTTTTCCTGAT
1 TTTTTATTTTGATTTTT-CTGAT
21961394 TTTTTATTTTTTGATTTTT-TGAT
1 TTTTTA--TTTTGATTTTTCTGAT
21961417 TTTATT-TTTTCAGATTTTTCT
1 TTT-TTATTTT--GATTTTTCT
21961438 TTGATTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
21 4 0.11
23 19 0.51
24 3 0.08
25 11 0.30
ACGTcount: A:0.13, C:0.06, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTTTATTTTGATTTTTCTGAT
Found at i:21961403 original size:16 final size:16
Alignment explanation
Indices: 21961377--21961419 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
21961367 TTTATTTTGA
21961377 TTTTGATTTTTCCTGATT
1 TTTTGA-TTTT-CTGATT
*
21961395 TTTT-ATTTTTTGATT
1 TTTTGATTTTCTGATT
21961410 TTTTGATTTT
1 TTTTGATTTT
21961420 ATTTTTTCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 9 0.39
16 9 0.39
17 1 0.04
18 4 0.17
ACGTcount: A:0.12, C:0.05, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTTGATTTTCTGATT
Found at i:21961410 original size:8 final size:8
Alignment explanation
Indices: 21961377--21961419 Score: 61
Period size: 8 Copynumber: 5.2 Consensus size: 8
21961367 TTTATTTTGA
21961377 TTTTGATT
1 TTTTGATT
21961385 TTTCCTGATT
1 TTT--TGATT
21961395 TTTT-ATT
1 TTTTGATT
21961402 TTTTGATT
1 TTTTGATT
21961410 TTTTGATT
1 TTTTGATT
21961418 TT
1 TT
21961420 ATTTTTTCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.22
8 17 0.53
10 8 0.25
ACGTcount: A:0.12, C:0.05, G:0.09, T:0.74
Consensus pattern (8 bp):
TTTTGATT
Found at i:21961426 original size:7 final size:7
Alignment explanation
Indices: 21961354--21961419 Score: 55
Period size: 7 Copynumber: 9.0 Consensus size: 7
21961344 TTTATCATTC
21961354 TTATTTT
1 TTATTTT
21961361 TTATTTT
1 TTATTTT
21961368 TTA-TTT
1 TTATTTT
*
21961374 TGA-TTT
1 TTATTTT
*
21961380 TGATTTT
1 TTATTTT
21961387 TCCTGATTTT
1 T--T-ATTTT
21961397 TTATTTT
1 TTATTTT
21961404 TTGATTTT
1 TT-ATTTT
21961412 TTGATTTT
1 TT-ATTTT
21961420 ATTTTTTCAG
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
6 11 0.21
7 21 0.40
8 14 0.27
10 6 0.12
ACGTcount: A:0.14, C:0.03, G:0.08, T:0.76
Consensus pattern (7 bp):
TTATTTT
Found at i:21965940 original size:3 final size:3
Alignment explanation
Indices: 21965932--21965957 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21965922 TTAATATAGA
21965932 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
21965958 GAGAAAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21980578 original size:34 final size:34
Alignment explanation
Indices: 21980534--21980604 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
21980524 TTCTAAGCGC
*
21980534 GTTAGGGTTTTGTTTATTTAAA-TTAGGATTTAGG
1 GTTAGGGTTTTGTTTATTTAAAGTAAGG-TTTAGG
*
21980568 GTTAGTGTTTTGTTTATTTAAAGTAAGGTTTAGG
1 GTTAGGGTTTTGTTTATTTAAAGTAAGGTTTAGG
21980602 GTT
1 GTT
21980605 TTTTTGAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 30 0.88
35 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.51
Consensus pattern (34 bp):
GTTAGGGTTTTGTTTATTTAAAGTAAGGTTTAGG
Found at i:21981191 original size:40 final size:41
Alignment explanation
Indices: 21981140--21981244 Score: 108
Period size: 40 Copynumber: 2.6 Consensus size: 41
21981130 AAGCGCCACA
* *
21981140 AAAAATCGAGCATTAGCGGCGATTTAGCCA-AAGCACCGCT
1 AAAAATAGAGCATTAGCGGCGATTTACCCAGAAGCACCGCT
** * * *
21981180 AAAGGTAGAGCATCAGCGGAGATTT-CCCAGAAGCGCCGCT
1 AAAAATAGAGCATTAGCGGCGATTTACCCAGAAGCACCGCT
* *
21981220 AAAAATAG-GAATTAGCGGCGTTTTA
1 AAAAATAGAGCATTAGCGGCGATTTA
21981245 TATAAAGCGC
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
39 15 0.30
40 35 0.70
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (41 bp):
AAAAATAGAGCATTAGCGGCGATTTACCCAGAAGCACCGCT
Found at i:21981359 original size:41 final size:41
Alignment explanation
Indices: 21981301--21981539 Score: 261
Period size: 41 Copynumber: 5.8 Consensus size: 41
21981291 ATTTTTTAAA
*
21981301 CCTTTAGCGGCGTTTTTATCTAAGTGCCGCTAATGCTC-GG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
* * *
21981341 ATCTTTAGCAGCGTTTTTATCTAAGCGCCGCTAATTCTCTGG
1 -CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
*
21981383 CCTTTAGCGGCGTTTTCATCTAAGCGCCGCTAATGCTC-GG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
* * * *
21981423 ATCTTTAGCCGG-GTTTTTATCTGAGCGCCACTAATTCTCTGG
1 -CCTTTAG-CGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
* * * **
21981465 CCTTTAGCGGCATTTGTAGCTAAGCGCCGCTAATGCAT-TTA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC-TCTGG
** *
21981506 CCTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
21981540 AGTAACAAAA
Statistics
Matches: 165, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
40 5 0.03
41 152 0.92
42 8 0.05
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG
Found at i:21981513 original size:82 final size:81
Alignment explanation
Indices: 21981301--21981500 Score: 310
Period size: 82 Copynumber: 2.4 Consensus size: 81
21981291 ATTTTTTAAA
* * *
21981301 CCTTTAGCGGCGTTTTTATCTAAGTGCCGCTAATGCTCGGATCTTTAGCAGCGTTTTTATCTAAG
1 CCTTTAGCGGCG-TTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCCGGGTTTTTATCTAAG
*
21981366 CGCCGCTAATTCTCTGG
65 CGCCACTAATTCTCTGG
*
21981383 CCTTTAGCGGCGTTTTCATCTAAGCGCCGCTAATGCTCGGATCTTTAGCCGGGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTT-ATCTAAGCGCCGCTAATGCTCGGATCTTTAGCCGGGTTTTTATCTAAG
21981448 CGCCACTAATTCTCTGG
65 CGCCACTAATTCTCTGG
* *
21981465 CCTTTAGCGGCATTTGTAGCTAAGCGCCGCTAATGC
1 CCTTTAGCGGCGTTT-TATCTAAGCGCCGCTAATGC
21981501 ATTTACCTTT
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
81 4 0.04
82 104 0.95
83 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (81 bp):
CCTTTAGCGGCGTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCCGGGTTTTTATCTAAGC
GCCACTAATTCTCTGG
Found at i:21981532 original size:82 final size:81
Alignment explanation
Indices: 21981301--21981539 Score: 295
Period size: 82 Copynumber: 2.9 Consensus size: 81
21981291 ATTTTTTAAA
* * * *
21981301 CCTTTAGCGGCGTTTTTATCTAAGTGCCGCTAATGCTCGGATCTTTAGCAGCGTTTTTATCTAAG
1 CCTTTAGCGGCG-TTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTACCGAAG
21981366 CGCCGCTAATTCTCTGG
65 CGCCGCTAATTCTCTGG
*
21981383 CCTTTAGCGGCGTTTTCATCTAAGCGCCGCTAATGCTCGGATCTTTAGCCGG-GTTTTTATCTG-
1 CCTTTAGCGGCGTTTT-ATCTAAGCGCCGCTAATGCTCGGATCTTTAG-CGGCGTTTTTA-CCGA
*
21981446 AGCGCCACTAATTCTCTGG
63 AGCGCCGCTAATTCTCTGG
* * ** * *
21981465 CCTTTAGCGGCATTTGTAGCTAAGCGCCGCTAATGCAT-TTACCTTTAGCGGCGTTTTTGCCGAA
1 CCTTTAGCGGCGTTT-TATCTAAGCGCCGCTAATGC-TCGGATCTTTAGCGGCGTTTTTACCGAA
21981529 GCGCCGCTAAT
64 GCGCCGCTAAT
21981540 AGTAACAAAA
Statistics
Matches: 136, Mismatches: 14, Indels: 14
0.83 0.09 0.09
Matches are distributed among these distances:
81 9 0.07
82 123 0.90
83 4 0.03
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (81 bp):
CCTTTAGCGGCGTTTTATCTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTACCGAAGC
GCCGCTAATTCTCTGG
Found at i:21982665 original size:42 final size:43
Alignment explanation
Indices: 21982579--21982755 Score: 234
Period size: 43 Copynumber: 4.2 Consensus size: 43
21982569 NNNNNNNNNN
*
21982579 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAGTGCC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAGCGCC
* * * *
21982622 GCTAAAGATCATG-TCCTTTAGCAG-TTTTTTTTCCCAAGCGCC
1 GCTAAAGAACATGAT-CTTTAGCGGCGTTTTTTTCCTAAGCGCC
* *
21982664 GCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCTAAGCGCT
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAGCGCC
* *
21982707 GCTAAAGAACATGATCATTAGTGGCG-TTTTTTCCTAAGCGCC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAGCGCC
*
21982749 GCAAAAG
1 GCTAAAG
21982756 TTAGCGACGT
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
42 56 0.48
43 61 0.52
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (43 bp):
GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAGCGCC
Found at i:21982737 original size:85 final size:85
Alignment explanation
Indices: 21982579--21982755 Score: 239
Period size: 85 Copynumber: 2.1 Consensus size: 85
21982569 NNNNNNNNNN
* * * *
21982579 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAGTGCCGCTAAAGATCATGTCCTTTAGC
1 GCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGTCCATTAGC
**
21982644 AGTTTTTTTTCCCAAGCGCC
66 AGCGTTTTTTCCCAAGCGCC
*
21982664 GCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCTAAGCGCTGCTAAAGAACATGAT-CATTAG
1 GCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATG-TCCATTAG
** *
21982728 TGGCGTTTTTTCCTAAGCGCC
65 CAGCGTTTTTTCCCAAGCGCC
*
21982749 GCAAAAG
1 GCTAAAG
21982756 TTAGCGACGT
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 79 0.99
86 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (85 bp):
GCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGTCCATTAGC
AGCGTTTTTTCCCAAGCGCC
Found at i:21991400 original size:18 final size:18
Alignment explanation
Indices: 21991379--21991426 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
21991369 TTATTCATTC
21991379 GATGGCTATTAAAAGTTG
1 GATGGCTATTAAAAGTTG
* **
21991397 GATGG-AAAAAAAAGTTG
1 GATGGCTATTAAAAGTTG
21991414 GATGGCTATTAAA
1 GATGGCTATTAAA
21991427 GTGGACTTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.42, C:0.04, G:0.27, T:0.27
Consensus pattern (18 bp):
GATGGCTATTAAAAGTTG
Found at i:21995427 original size:18 final size:18
Alignment explanation
Indices: 21995404--21995462 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
21995394 AGTTTGTAAC
21995404 TGAGTTGGGGTAGCCTGT
1 TGAGTTGGGGTAGCCTGT
* *
21995422 TGAGTTGGGGTACTCTCTTGC
1 TGAGTTGGGGTA-GC-C-TGT
*
21995443 TGATTTGGGGTAGCCTGT
1 TGAGTTGGGGTAGCCTGT
21995461 TG
1 TG
21995463 TTGAGTTGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 16 0.48
19 2 0.06
20 2 0.06
21 13 0.39
ACGTcount: A:0.10, C:0.14, G:0.39, T:0.37
Consensus pattern (18 bp):
TGAGTTGGGGTAGCCTGT
Found at i:21995471 original size:21 final size:20
Alignment explanation
Indices: 21995404--21995473 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
21995394 AGTTTGTAAC
21995404 TGAGTTGGGGTAGCC--TGT
1 TGAGTTGGGGTAGCCTTTGT
*
21995422 TGAGTTGGGGTA-CTCTCTTGC
1 TGAGTTGGGGTAGC-CT-TTGT
*
21995443 TGATTTGGGGTAGCCTGTTGT
1 TGAGTTGGGGTAGCCT-TTGT
21995464 TGAGTTGGGG
1 TGAGTTGGGG
21995474 CAACCACTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 13 0.31
21 27 0.64
22 1 0.02
ACGTcount: A:0.10, C:0.11, G:0.41, T:0.37
Consensus pattern (20 bp):
TGAGTTGGGGTAGCCTTTGT
Found at i:21996174 original size:28 final size:28
Alignment explanation
Indices: 21996143--21996197 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
21996133 CACACGCACC
*
21996143 TAAAAAACAGTCACTACATGCATATTAT
1 TAAAAAACACTCACTACATGCATATTAT
* *
21996171 TAAAAAATACTCACTGCATGCATATTA
1 TAAAAAACACTCACTACATGCATATTA
21996198 AAAAGTAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.29
Consensus pattern (28 bp):
TAAAAAACACTCACTACATGCATATTAT
Found at i:21996221 original size:26 final size:25
Alignment explanation
Indices: 21996192--21996275 Score: 86
Period size: 22 Copynumber: 3.4 Consensus size: 25
21996182 CACTGCATGC
*
21996192 ATATTAAAAAGTAGTCAACAATATAT
1 ATATTAAAAA-TAGTCAACAACATAT
*
21996218 ATATTAAAAAATATTCATAC-ACATAT
1 ATATT-AAAAATAGTCA-ACAACATAT
*
21996244 -TA--AAAAATAGTCAACAACATGT
1 ATATTAAAAATAGTCAACAACATAT
21996266 ATATTAAAAA
1 ATATTAAAAA
21996276 ACAGTCATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
21 2 0.04
22 15 0.31
23 2 0.04
25 7 0.15
26 15 0.31
27 7 0.15
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.30
Consensus pattern (25 bp):
ATATTAAAAATAGTCAACAACATAT
Found at i:21996255 original size:48 final size:48
Alignment explanation
Indices: 21996163--21996431 Score: 262
Period size: 48 Copynumber: 5.6 Consensus size: 48
21996153 TCACTACATG
* * *
21996163 CATAT-TATTAAAAAATACTCACTGCATGCATATTAAAAAGTAGTCAACAA
1 CATATATATTAAAAAATATTCA-TACA--CATATTAAAAAATAGTCAACAA
*
21996213 TATATATATTAAAAAATATTCATACACATATTAAAAAATAGTCAACAA
1 CATATATATTAAAAAATATTCATACACATATTAAAAAATAGTCAACAA
* * * * * ** * **
21996261 CATGTATATTAAAAAACAGTCATACACACCAATAATCACT-G-C-A-TG
1 CATATATATTAAAAAATATTCATACACA-TATTAAAAAATAGTCAACAA
* * *
21996306 CATAT-TATTAAAAAATACTCACTGCATGCATATTAAAAAGTAGTCAACAA
1 CATATATATTAAAAAATATTCA-TACA--CATATTAAAAAATAGTCAACAA
*
21996356 TATATATATTAAAAAATATTCATACACATATTAAAAAATAGTCAACAA
1 CATATATATTAAAAAATATTCATACACATATTAAAAAATAGTCAACAA
*
21996404 CATGTATATTAAAAAATATTCATACACA
1 CATATATATTAAAAAATATTCATACACA
21996432 CCAACAATCA
Statistics
Matches: 177, Mismatches: 32, Indels: 22
0.77 0.14 0.10
Matches are distributed among these distances:
44 14 0.08
45 7 0.04
46 7 0.04
47 4 0.02
48 94 0.53
49 7 0.04
50 14 0.08
51 30 0.17
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.29
Consensus pattern (48 bp):
CATATATATTAAAAAATATTCATACACATATTAAAAAATAGTCAACAA
Found at i:21996276 original size:26 final size:26
Alignment explanation
Indices: 21996168--21996421 Score: 109
Period size: 26 Copynumber: 10.5 Consensus size: 26
21996158 ACATGCATAT
* ** *
21996168 TATTAAAAAATACTC-ACTGCATGCA
1 TATTAAAAAATAGTCAACAACATGTA
* * *
21996193 TATTAAAAAGTAGTCAACAATATATA
1 TATTAAAAAATAGTCAACAACATGTA
*
21996219 TATTAAAAAATATTCATAC-AC----A
1 TATTAAAAAATAGTCA-ACAACATGTA
21996241 TATTAAAAAATAGTCAACAACATGTA
1 TATTAAAAAATAGTCAACAACATGTA
* **
21996267 TATTAAAAAACAGTCATAC-ACA-CCA
1 TATTAAAAAATAGTCA-ACAACATGTA
** * ** *
21996292 -A-TAATCACT-G-C-A-TGCATAT-
1 TATTAAAAAATAGTCAACAACATGTA
* ** *
21996311 TATTAAAAAATACTC-ACTGCATGCA
1 TATTAAAAAATAGTCAACAACATGTA
* * *
21996336 TATTAAAAAGTAGTCAACAATATATA
1 TATTAAAAAATAGTCAACAACATGTA
*
21996362 TATTAAAAAATATTCATAC-AC----A
1 TATTAAAAAATAGTCA-ACAACATGTA
21996384 TATTAAAAAATAGTCAACAACATGTA
1 TATTAAAAAATAGTCAACAACATGTA
21996410 TATTAAAAAATA
1 TATTAAAAAATA
21996422 TTCATACACA
Statistics
Matches: 168, Mismatches: 38, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
19 3 0.02
20 1 0.01
21 10 0.06
22 37 0.22
23 6 0.04
24 6 0.04
25 27 0.16
26 72 0.43
27 6 0.04
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (26 bp):
TATTAAAAAATAGTCAACAACATGTA
Found at i:21996314 original size:143 final size:143
Alignment explanation
Indices: 21996148--21996527 Score: 643
Period size: 143 Copynumber: 2.7 Consensus size: 143
21996138 GCACCTAAAA
* *
21996148 AACAGTCACTACATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAGTAGTCAACAA
1 AACAATCACTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAGTAGTCAACAA
21996213 TATATATATTAAAAAATATTCATACACATATTAAAAAATAGTCAACAACATGTATATTAAAAAAC
66 TATATATATTAAAAAATATTCATACACATATTAAAAAATAGTCAACAACATGTATATTAAAAAAC
21996278 AGTCATACACACC
131 AGTCATACACACC
*
21996291 AATAATCACTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAGTAGTCAACAA
1 AACAATCACTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAGTAGTCAACAA
*
21996356 TATATATATTAAAAAATATTCATACACATATTAAAAAATAGTCAACAACATGTATATTAAAAAAT
66 TATATATATTAAAAAATATTCATACACATATTAAAAAATAGTCAACAACATGTATATTAAAAAAC
*
21996421 ATTCATACACACC
131 AGTCATACACACC
* *
21996434 AACAATCACTGCATGCATATTATTAAAAAAATACTCACTGCATACATATTAAAAAATAGTCAACA
1 AACAATCACTGCATGCATATTATT-AAAAAATACTCACTGCATGCATATTAAAAAGTAGTCAACA
** * * *
21996499 GCATGTATATTAAAAAACAGTCATACACA
65 ATATATATATTAAAAAATATTCATACACA
21996528 CCAACAATCA
Statistics
Matches: 223, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
143 161 0.72
144 62 0.28
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (143 bp):
AACAATCACTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAGTAGTCAACAA
TATATATATTAAAAAATATTCATACACATATTAAAAAATAGTCAACAACATGTATATTAAAAAAC
AGTCATACACACC
Found at i:21996343 original size:24 final size:27
Alignment explanation
Indices: 21996291--21996344 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
21996281 CATACACACC
21996291 AATAATCACTGCATGCATATTATTAAAA
1 AATAATCACTGCATGCA-ATTATTAAAA
*
21996319 AATACTCACTGCATGC-A-TATTAAAA
1 AATAATCACTGCATGCAATTATTAAAA
21996344 A
1 A
21996345 GTAGTCAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 1 0.04
28 15 0.60
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (27 bp):
AATAATCACTGCATGCAATTATTAAAA
Done.