Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008640.1 Hibiscus syriacus cultivar Beakdansim tig00111616_pilon, whole genome shotgun sequence
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: 250914
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:7862 original size:17 final size:18
Alignment explanation
Indices: 7824--7863 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7814 TTTTATTACA
7824 TAAAAAATGATATTATTG
1 TAAAAAATGATATTATTG
7842 TAAAAAAT-ATAATTATT-
1 TAAAAAATGAT-ATTATTG
7859 TAAAA
1 TAAAA
7864 TAAAATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
TAAAAAATGATATTATTG
Found at i:7937 original size:16 final size:17
Alignment explanation
Indices: 7916--7947 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7906 ACTTTATATC
7916 ATTATATTAT-TTTTAT
1 ATTATATTATATTTTAT
7932 ATTATATTATATTTTA
1 ATTATATTATATTTTA
7948 CATAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTATATTATATTTTAT
Found at i:11567 original size:2 final size:2
Alignment explanation
Indices: 11555--12049 Score: 308
Period size: 2 Copynumber: 265.0 Consensus size: 2
11545 ACTATAATAA
*
11555 AT AT AT A- AT AT AT AT AT A- AT A- AT AT A- AT AA AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
11591 AT A- AT AT AT AA AT A- AT AT -T AT AT ACT AT AT AT ACT AT GAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT -AT
*
11631 AT AT A- AT AT AA AT AT AT AT ACT AT A- AT AT AT A- ACT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT
*
11671 A- AT AT AT ACT AT A- AT AT AT A- ACT A- AT AT A- AT AT AT AC AT
1 AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
11710 AT A- AT AT AT A- AT -T AT AT AT AT AT AT AT A- AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11747 A- AT AT AT ACT AT A- AT AT A- AT AT A- AT AT -T A- AT AT A- AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
11783 AT AT A- AT AT AT -T TT A- AT AT AT AT A- AT AC AT ACT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
*
11821 AT AT AT AT AT AT AT AT ACT TT AT A- AT AT ACT AT -T AT A- AT A-
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT
* *
11861 AT AT AT AT A- AT AT AT -T AT A- AT AT AT A- AC AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
11899 AT AT AT AT AT AT AT AT AT AT AT AT AC ACT AT AT AGT AT AT AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT A-T
* *
11944 AT A- AT AC ACT AT AT AT ACT AT AT ACT AT AT A- AT AT AC AT A-
1 AT AT AT AT A-T AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT
11984 AT AT A- AT AT AT AT -T AT AT A- ACT GAT ACT AT AT A- AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T -AT A-T AT AT AT AT AT AT
*
12022 AT AT A- AA AT AT AT A- AT AT -T AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12050 TGTTGAAAAC
Statistics
Matches: 397, Mismatches: 21, Indels: 150
0.70 0.04 0.26
Matches are distributed among these distances:
1 55 0.14
2 309 0.78
3 32 0.08
4 1 0.00
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (2 bp):
AT
Found at i:11778 original size:140 final size:138
Alignment explanation
Indices: 11536--12049 Score: 441
Period size: 132 Copynumber: 3.7 Consensus size: 138
11526 TAAATATAAG
*
11536 TATAATAATACTAT-A-ATA-AATATATA-ATATATATATA-ATAATATAATAA--ATAATA-AT
1 TATAATAATACTATAATATATAATATATATATATATATACATATAATAT-ATAATTATAATATAT
* * * *
11593 A-ATATATAAATAATATTATATACTATATATACTATGATATATAATATAAATATATATACTATAA
65 ATATA-ATATATAATAATATATACTATATATAATATAATATATAATATAAATATATA-ACTATAA
11657 TATATAACTAA
128 TATATAACTAA
11668 TATAATATATACTATAATATATAACTA-ATATA-ATATATACATATAATATATAATTATATATAT
1 TATAATA-ATACTATAATATATAA-TATATATATATATATACATATAATATATAATTATA-ATAT
11731 ATATATAATATATAATAATATATACTATAATATAATATAATAT-TAATAT-AATATATAA-TAT-
63 ATATATAATATATAATAATATATACTAT-ATATAATATAATATATAATATAAATATATAACTATA
*
11792 AT-TTTAA-T-A
127 ATATATAACTAA
* *
11801 TAT-ATAATAC-ATACTATATAATATATATATATATATACTTTATAATATACT-ATTATAATAAT
1 TATAATAATACTATAATATATAATATATATATATATATAC-ATATAATATA-TAATTATAAT-AT
* * *
11863 ATATATAATATATTATAATATATAAC-ACATATATATATATATATATATATATATATATATACAC
63 ATATATAATATATAATAATATAT-ACTATATATA-ATATA-ATATATA-ATATAAATATATA-AC
11927 TATATAGTATATATACTATAA
123 TATA-A-TATATA-AC--TAA
* * * * * *
11948 TACACTATATATACTATATACTATATAATATACATA-ATATA-ATATATATTATATAACTGATAC
1 TATA--ATA-ATACTATA-A-TATATAATATATATATATATATACATATAATATATAA-TTATAA
*
12011 TATATA-ATAATATATAA-AATATATAATATTATATAATAT
60 TATATATATAATATATAATAATATATACTA-TATATAATAT
12050 TGTTGAAAAC
Statistics
Matches: 313, Mismatches: 23, Indels: 75
0.76 0.06 0.18
Matches are distributed among these distances:
129 2 0.01
130 15 0.05
131 19 0.06
132 55 0.18
133 18 0.06
134 4 0.01
135 11 0.04
136 26 0.08
137 14 0.04
138 7 0.02
139 11 0.04
140 29 0.09
141 16 0.05
142 3 0.01
143 1 0.00
146 1 0.00
147 3 0.01
148 1 0.00
149 12 0.04
150 19 0.06
151 18 0.06
152 9 0.03
153 5 0.02
154 14 0.04
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.42
Consensus pattern (138 bp):
TATAATAATACTATAATATATAATATATATATATATATACATATAATATATAATTATAATATATA
TATAATATATAATAATATATACTATATATAATATAATATATAATATAAATATATAACTATAATAT
ATAACTAA
Found at i:12415 original size:65 final size:63
Alignment explanation
Indices: 12346--12529 Score: 194
Period size: 65 Copynumber: 2.9 Consensus size: 63
12336 AATTAAATTG
*
12346 AACATCGAATGCATTTCATGCATCGATGCACTTACCATGCACCGATGCACTAAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACTTA-CATGCACCGATGCACTAAGGATATTT-TG-
12410 A
63 A
* * ** *
12411 AACATCGAATGCATTTGATGCATCGATGCAC-CAGCTATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACTTA-C-ATGCACCGATGCACTAAGGATATTTTGA
* * * *
12475 AACATCAAATGCACTTGATGCATCGTTGCACTCTTA-GTGCACCGATGCACTAAGG
1 AACATCGAATGCATTTGATGCATCGATGCA--CTTACATGCACCGATGCACTAAGG
12530 GTCCAACAGT
Statistics
Matches: 99, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
64 45 0.45
65 49 0.49
66 4 0.04
67 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACTTACATGCACCGATGCACTAAGGATATTTTGA
Found at i:16119 original size:23 final size:23
Alignment explanation
Indices: 16059--16131 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 23
16049 CACCACAGCT
**
16059 CATATA-AA-TGCACCAAAGTGC
1 CATATAGAATTGCACCGTAGTGC
*
16080 CACATAGAATTGCACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
* *
16103 CATGTAGAATTGCACCGTAGTTC
1 CATATAGAATTGCACCGTAGTGC
16126 CATATA
1 CATATA
16132 ATAATGTCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.12
22 2 0.05
23 36 0.84
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (23 bp):
CATATAGAATTGCACCGTAGTGC
Found at i:16361 original size:121 final size:121
Alignment explanation
Indices: 16147--16497 Score: 648
Period size: 121 Copynumber: 2.9 Consensus size: 121
16137 GTCCATAAGG
* *
16147 ACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGCGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCACCAGACT
16212 TCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCACAATATCCCGAAGA
66 TCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCACAATATCCCGAAGA
16268 ACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCACCAGACT
* *
16333 TCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCACAATGTCCCGAAGG
66 TCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCACAATATCCCGAAGA
16389 ACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCACCAGACT
**
16454 TCACACATGTTCCAAAGAATACATATATGTCCTGAAGGACCACA
66 TCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCACA
16498 TAGACCCTCG
Statistics
Matches: 224, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 224 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (121 bp):
ACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCACCAGACT
TCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCACAATATCCCGAAGA
Found at i:16382 original size:18 final size:18
Alignment explanation
Indices: 16359--16394 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
16349 GAATACATAT
16359 ATGTCCCAAAGGACCACA
1 ATGTCCCAAAGGACCACA
*
16377 ATGTCCCGAAGGACCACA
1 ATGTCCCAAAGGACCACA
16395 TATCATTCCT
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:0.36, C:0.33, G:0.19, T:0.11
Consensus pattern (18 bp):
ATGTCCCAAAGGACCACA
Found at i:17807 original size:63 final size:63
Alignment explanation
Indices: 17701--17859 Score: 212
Period size: 63 Copynumber: 2.5 Consensus size: 63
17691 TAATGGAGGC
* * * *
17701 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCAT-TTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTA-AAGAA
** **
17764 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTTGTATTTAAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
* *
17827 ATGCATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
17860 CTTCAACAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 81 0.95
64 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
Found at i:17851 original size:19 final size:20
Alignment explanation
Indices: 17827--17864 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
17817 ATTTAAATTA
17827 ATGCATCGATGCA-CTTCAT
1 ATGCATCGATGCACCTTCAT
17846 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCACCTTCA
17865 ACAAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACCTTCAT
Found at i:24388 original size:65 final size:64
Alignment explanation
Indices: 24313--24496 Score: 205
Period size: 65 Copynumber: 2.9 Consensus size: 64
24303 AATTAAATTG
* *
24313 AACATGGAATGCAATTCATGCATCGATGCACTTACCATGCACCGATGCACTAAGGAT-TTTATGA
1 AACATCGAATGCAATTGATGCATCGATGCACTTACCATGCACCGATGCACTAAGGATATTT-TG-
24377 A
64 A
* * * * *
24378 AACATCGAATGCATTTGATGCATCGATGCAC-CAGCCATGCATCGATGCACTATGGCTATTTTGA
1 AACATCGAATGCAATTGATGCATCGATGCACTTA-CCATGCACCGATGCACTAAGGATATTTTGA
* * *
24442 AACATCGAATGCACTTGATGCATCGGTGCACTCTTA--GTGCACCGATGCACTAAGG
1 AACATCGAATGCAATTGATGCATCGATGCA--CTTACCATGCACCGATGCACTAAGG
24497 GTCCAACGGT
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
64 46 0.46
65 50 0.50
66 4 0.04
67 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (64 bp):
AACATCGAATGCAATTGATGCATCGATGCACTTACCATGCACCGATGCACTAAGGATATTTTGA
Found at i:33777 original size:17 final size:18
Alignment explanation
Indices: 33748--33930 Score: 96
Period size: 17 Copynumber: 10.1 Consensus size: 18
33738 AATTTGAACC
33748 TAAAATAATAAATA-AATA
1 TAAAAT-ATAAATATAATA
33766 TAAAATATAAATATAATAA
1 TAAAATATAAATATAAT-A
*
33785 TTACAATA-AATATATAATA
1 -TAAAATATAA-ATATAATA
* *
33804 TATATTAT-AATATAATA
1 TAAAATATAAATATAATA
* *
33821 TAATATATAATAAATAATA
1 TAAAATATAA-ATATAATA
*
33840 AAAAATATAAA-ATAATA
1 TAAAATATAAATATAATA
** * *
33857 TATTATAT-ATTGTAATA
1 TAAAATATAAATATAATA
* *
33874 TATATAATAAAAAAATAATA
1 TA-A-AATATAAATATAATA
33894 T---ATACTAAATATAATA
1 TAAAATA-TAAATATAATA
*
33910 TTAATATAATAAATAT-ATA
1 -TAAAAT-ATAAATATAATA
33929 TA
1 TA
33931 TTATAATATA
Statistics
Matches: 126, Mismatches: 22, Indels: 34
0.69 0.12 0.19
Matches are distributed among these distances:
15 3 0.02
16 10 0.08
17 39 0.31
18 19 0.15
19 25 0.20
20 29 0.23
21 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.37
Consensus pattern (18 bp):
TAAAATATAAATATAATA
Found at i:33795 original size:24 final size:24
Alignment explanation
Indices: 33768--33942 Score: 106
Period size: 24 Copynumber: 6.9 Consensus size: 24
33758 AATAAATATA
*
33768 AAATATAAATATAATAATTACAAT
1 AAATATAAATATAATAATTATAAT
33792 AAATATATAATAT-AT-ATTATAAT
1 AAATATA-AATATAATAATTATAAT
* *
33815 ATAATATAATATATAATAAATAATAAA
1 A-AATATAA-ATATAAT-AATTATAAT
33842 AAATATAAA-ATAATATATTATATATT
1 AAATATAAATATAATA-ATTATA-A-T
* * **
33868 GTAATATATATAATAA-AAAAATAAT
1 -AAATATAAAT-ATAATAATTATAAT
* *
33893 ATATACTAAATATAATATTAATATAAT
1 AAATA-TAAATATAATA--ATTATAAT
* *
33920 AAATATATATATTATAATATATA
1 AAATATAAATATAATAAT-TATA
33943 TACATACTAT
Statistics
Matches: 117, Mismatches: 17, Indels: 33
0.70 0.10 0.20
Matches are distributed among these distances:
23 10 0.09
24 37 0.32
25 19 0.16
26 17 0.15
27 29 0.25
28 1 0.01
29 4 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (24 bp):
AAATATAAATATAATAATTATAAT
Found at i:33806 original size:2 final size:2
Alignment explanation
Indices: 33794--34116 Score: 126
Period size: 2 Copynumber: 173.5 Consensus size: 2
33784 ATTACAATAA
33794 AT AT AT A- AT AT AT AT -T AT A- AT AT A- AT AT A- AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
33830 AT AA AT A- AT A- AA AA AT AT A- AA AT A- AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
33867 -T GT A- AT AT AT AT A- AT AA AA AA AT A- AT AT AT ACT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
*
33906 A- AT AT -T A- AT AT A- AT AA AT AT AT AT AT -T AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
33942 AT AC AT ACT AT AT A- AT AT AT ACT TT AT A- AT AA ACT AT -T AT
1 AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT
33982 A- AT A- AT AT AT CAT ACT AT AT A- AT AT AT AT AT ACT AT A- AT
1 AT AT AT AT AT AT -AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT
* *
34021 AC ACT AT AT ACT AT AT AT AT AT AT AA AT A- AT AT A- AT AT ACT
1 AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
*
34062 AT AT A- ACT CAT ACT AT AT A- AT A- AT AT AT A- AA AT AT AT AT
1 AT AT AT A-T -AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34101 A- AT AT -T AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT A
34117 ATAATCCCGA
Statistics
Matches: 249, Mismatches: 22, Indels: 100
0.67 0.06 0.27
Matches are distributed among these distances:
1 37 0.15
2 191 0.77
3 20 0.08
4 1 0.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:33808 original size:29 final size:27
Alignment explanation
Indices: 33751--34121 Score: 110
Period size: 29 Copynumber: 13.8 Consensus size: 27
33741 TTGAACCTAA
*
33751 AATAATAAATAAATATAAAATATAAATAT
1 AATAATAAATAAATATATAATAT--ATAT
33780 AATAATTACAATAAATATATAATATATAT
1 AATAA-TA-AATAAATATATAATATATAT
*
33809 TATAATATAATATAATATATAATA-A-AT
1 AATAATA-AATA-AATATATAATATATAT
*
33836 AATAAAAAATATAA-A-ATAATATAT-T
1 AATAATAAATA-AATATATAATATATAT
** * *
33861 -AT-ATATTGTAATATATATAATA-AAAA
1 AATAATA-AATAA-ATATATAATATATAT
*
33887 AATAATATATACTAA-ATATAATAT-TA-
1 AATAATAAATA--AATATATAATATATAT
* *
33913 ATATAATAAATATATATATTATA-ATAT
1 A-ATAATAAATAAATATATAATATATAT
* *
33940 -AT-ATACAT-ACTATATAATATATACTT
1 AATAATAAATAAATATATAATATATA--T
* *
33966 TATAATAAACT-ATTATAATAATATATCAT
1 AATAATAAA-TAAATAT-ATAATATAT-AT
* * *
33995 ACT-ATATAATATATATATACTATA-AT
1 AATAATA-AATAAATATATAATATATAT
* * * *
34021 -ACACTATAT-ACTATAT-ATATATAT
1 AATAATAAATAAATATATAATATATAT
*
34045 AAATAATATAATATACTATATAACTCATACTAT
1 -AATAATA-AATA-AATATATAA-T-ATA-TAT
*
34078 -ATAAT-AAT--ATATAAAATATATAT
1 AATAATAAATAAATATATAATATATAT
* *
34101 AATATTATAT-AATATAATAAT
1 AATAATAAATAAATAT-ATAAT
34122 CCCGAACGAA
Statistics
Matches: 257, Mismatches: 41, Indels: 90
0.66 0.11 0.23
Matches are distributed among these distances:
23 18 0.07
24 33 0.13
25 13 0.05
26 42 0.16
27 38 0.15
28 26 0.10
29 47 0.18
30 12 0.05
31 22 0.09
32 3 0.01
33 3 0.01
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
AATAATAAATAAATATATAATATATAT
Found at i:33812 original size:5 final size:5
Alignment explanation
Indices: 33752--34119 Score: 156
Period size: 5 Copynumber: 73.2 Consensus size: 5
33742 TGAACCTAAA
* * * *
33752 ATAAT A-AAT A-AAT ATAAA AT-AT A-AAT ATAAT A-ATT ACAAT AAATAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT
33798 ATAAT ATATATT ATAAT ATAAT ATAAT AT-AT AATAA- ATAAT A-AA-
1 ATAAT ATA-A-T ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT
* * * * *
33842 A-AAT ATAAA ATAAT ATATTAT ATATT GTAAT AT-AT ATAAT AAAAAA
1 ATAAT ATAAT ATAAT ATA--AT ATAAT ATAAT ATAAT ATAAT -ATAAT
*
33888 ATAAT AT-AT ACTAAAT ATAAT ATTAAT ATAAT A-AAT AT-AT ATATT
1 ATAAT ATAAT A-T-AAT ATAAT A-TAAT ATAAT ATAAT ATAAT ATAAT
*
33933 ATAAT AT-AT ATACAT ACT-AT ATAAT AT-AT ACT-TT ATAAT A-AACT
1 ATAAT ATAAT ATA-AT A-TAAT ATAAT ATAAT A-TAAT ATAAT ATAA-T
* * * *
33977 ATTAT AATAAT AT-AT CATACTAT ATAAT ATATAT ATACT ATAAT ACACT
1 ATAAT -ATAAT ATAAT -ATA--AT ATAAT ATA-AT ATAAT ATAAT ATAAT
*
34026 AT-AT ACTATAT ATATAT ATAA- ATAAT ATAAT ATACTAT ATAACT CATACT
1 ATAAT A-TA-AT ATA-AT ATAAT ATAAT ATAAT ATA--AT ATAA-T -ATAAT
* *
34076 AT-AT AATAAT AT-AT AAAAT AT-AT ATAAT ATTAT ATAAT ATAAT A
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
34120 ATCCCGAACG
Statistics
Matches: 281, Mismatches: 34, Indels: 96
0.68 0.08 0.23
Matches are distributed among these distances:
3 3 0.01
4 67 0.24
5 141 0.50
6 41 0.15
7 27 0.10
8 2 0.01
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:33855 original size:53 final size:54
Alignment explanation
Indices: 33796--33938 Score: 147
Period size: 53 Copynumber: 2.7 Consensus size: 54
33786 TACAATAAAT
33796 ATATAATATATATTATAATATAATATAATATATAATAAATAATAAAAAATA-TAA
1 ATATAATATATATTATAATATAATATAATATATAATAAA-AATAAAAAATACTAA
* * * *
33850 A-ATAATATAT-TATATATTGTAATAT-ATATAATAA-AAAAATAATATATACTAA
1 ATATAATATATAT-TATAATATAATATAATAT-ATAATAAAAATAAAAAATACTAA
*
33902 ATATAATAT-TAATATAATA-AATATATATATTATAATA
1 ATATAATATATATTATAATATAATATA-ATA-TATAATA
33939 TATATACATA
Statistics
Matches: 73, Mismatches: 7, Indels: 18
0.74 0.07 0.18
Matches are distributed among these distances:
51 14 0.19
52 18 0.25
53 38 0.52
54 3 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (54 bp):
ATATAATATATATTATAATATAATATAATATATAATAAAAATAAAAAATACTAA
Found at i:33864 original size:65 final size:65
Alignment explanation
Indices: 33795--34099 Score: 228
Period size: 68 Copynumber: 4.5 Consensus size: 65
33785 TTACAATAAA
* *
33795 TATATAATATATATTATAATATAATATAATATATAATAAATAATAAA-AAATATAAAATAATATA
1 TATATAATATATA-TATAATATAATATAATATATACTAAATAATAAACTAATATAAAATAATATA
*
33859 T
65 C
* * * * *
33860 TATATATTGTAATATATATAATAAAAAAATAATATATACTAAAT-ATAATATTAATATAATA-AA
1 TATATA--AT-ATATATATAAT-ATAATATAATATATACTAAATAATAA-ACTAATATAAAATAA
33923 TATA-
61 TATAC
* ** *
33927 TATATTATAATATATATACATACT-ATATAATATATACTTTATAATAAACTATTATAATAATATA
1 TATATAAT-ATATATATA-ATA-TAATATAATATATACTAAATAATAAACTAATATAA-AATA-A
33991 TCATAC
61 T-ATAC
* * * * * *
33997 TATATAATATATATATACTATAATACACTATATACTATATATATATA-TAA-ATAATATAATATA
1 TATATAATATATATATAATATAATATAATATATACTAAATA-ATAAACTAATATAAAATAATATA
34060 C
65 C
*
34061 TATATAACTCATACTATATAATAATATATAAAATATATA
1 TATATAA-T-ATA-TATATAAT-ATA-ATATAATATATA
34100 TAATATTATA
Statistics
Matches: 193, Mismatches: 26, Indels: 38
0.75 0.10 0.15
Matches are distributed among these distances:
64 11 0.06
65 44 0.23
66 13 0.07
67 29 0.15
68 55 0.28
69 34 0.18
70 7 0.04
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (65 bp):
TATATAATATATATATAATATAATATAATATATACTAAATAATAAACTAATATAAAATAATATAC
Found at i:33942 original size:7 final size:7
Alignment explanation
Indices: 33752--34121 Score: 152
Period size: 7 Copynumber: 51.7 Consensus size: 7
33742 TGAACCTAAA
*
33752 ATAATAA
1 ATAATAT
33759 ATAA-AT
1 ATAATAT
*
33765 ATAAAAT
1 ATAATAT
33772 ATAA-AT
1 ATAATAT
33778 ATAATA-
1 ATAATAT
33784 ATTACA-AT
1 A-TA-ATAT
33792 A-AATAT
1 ATAATAT
33798 ATAATAT
1 ATAATAT
*
33805 ATATTAT
1 ATAATAT
33812 A-ATATAAT
1 ATA-AT-AT
33820 ATAATAT
1 ATAATAT
*
33827 ATAATAA
1 ATAATAT
33834 ATAATA-
1 ATAATAT
*
33840 A-AAAAT
1 ATAATAT
33846 ATAA-A-
1 ATAATAT
33851 ATAATAT
1 ATAATAT
*
33858 ATTATAT
1 ATAATAT
**
33865 ATTGTA-
1 ATAATAT
33871 AT-ATAT
1 ATAATAT
33877 ATAATA-
1 ATAATAT
*
33883 A-AA-AA
1 ATAATAT
33888 ATAATAT
1 ATAATAT
*
33895 ATACTAAAT
1 ATA--ATAT
33904 ATAATAT
1 ATAATAT
33911 -TAATAT
1 ATAATAT
33917 AATAA-AT
1 -ATAATAT
33924 ATATATATT
1 ATA-ATA-T
33933 ATAATAT
1 ATAATAT
*
33940 AT-ATAC
1 ATAATAT
*
33946 ATACTAT
1 ATAATAT
33953 ATAATAT
1 ATAATAT
* *
33960 ATACTTT
1 ATAATAT
*
33967 ATAATAA
1 ATAATAT
*
33974 ACTATTAT
1 A-TAATAT
33982 AATAATAT
1 -ATAATAT
33990 ATCATACTAT
1 AT-A-A-TAT
34000 ATAATAT
1 ATAATAT
34007 ATATATACT
1 ATA-ATA-T
*
34016 ATAATAC
1 ATAATAT
34023 ACT-ATAT
1 A-TAATAT
34030 ACTATATAT
1 A-TA-ATAT
*
34039 ATATATAA
1 ATA-ATAT
34047 ATAATAT
1 ATAATAT
34054 AATATACTAT
1 -ATA-A-TAT
34064 ATAACTCAT
1 ATAA-T-AT
34073 ACT-ATAT
1 A-TAATAT
34080 AATAATAT
1 -ATAATAT
*
34088 ATAAAAT
1 ATAATAT
34095 AT-ATAT
1 ATAATAT
*
34101 AATATTAT
1 -ATAATAT
34109 ATAATAT
1 ATAATAT
34116 AATAAT
1 -ATAAT
34122 CCCGAACGAA
Statistics
Matches: 285, Mismatches: 31, Indels: 93
0.70 0.08 0.23
Matches are distributed among these distances:
4 1 0.00
5 13 0.05
6 45 0.16
7 125 0.44
8 61 0.21
9 31 0.11
10 9 0.03
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.39
Consensus pattern (7 bp):
ATAATAT
Found at i:34238 original size:21 final size:21
Alignment explanation
Indices: 34214--34253 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
34204 TTATTGAATT
34214 AAATTTCTTTCAATAATAATA
1 AAATTTCTTTCAATAATAATA
34235 AAATTTCTTTCAATAATAA
1 AAATTTCTTTCAATAATAA
34254 CATGATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTCTTTCAATAATAATA
Found at i:34740 original size:113 final size:112
Alignment explanation
Indices: 34528--34991 Score: 741
Period size: 113 Copynumber: 4.1 Consensus size: 112
34518 TTGTCGGTTT
* * *
34528 GTGTCGATATTTTATAAAACTATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
34593 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGCATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
* * *
34640 GTGTCGATACTTTATAAAAATATATTGATCTATAACAATATAACATGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
*
34705 CGGTTTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
* * *
34753 GAGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
* *
34818 CGGTCTATAGATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
* *
34866 GAGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
34930 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
*
34977 GTGTTGATACTTTAT
1 GTGTCGATACTTTAT
34992 TATAAGTATC
Statistics
Matches: 329, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
111 72 0.22
112 44 0.13
113 213 0.65
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
Found at i:35176 original size:182 final size:181
Alignment explanation
Indices: 34863--35555 Score: 1111
Period size: 182 Copynumber: 3.8 Consensus size: 181
34853 GGATATATTG
*
34863 AAAGAGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA-ATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * * *
34927 ACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACC-GAATATGTTGATAGTGTTGATACTTTA
66 ACCGGTCTAGAAATGACAAAACAGGTAAAGAGCTACCAG-ATATGTTGAAAGTGTCGATACTTTA
*
34991 TTATAAGTATCGACACTTTTAGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
130 TTATAAGTATCGACACTTTT-GAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
*
35044 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * *
35109 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTAT
66 ACCGGTCTAGAAATGACAAAACAGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTAT
*
35174 TATAAGTATCGACACTTTTGTAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
131 TATAAGTATCGACACTTTTG-AATTTAAAAGAAAAGAAGTTATAGCGCTAAT
*
35226 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * * * * *
35291 ATCAGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATGATGATAGTGTCGATACTTTAT
66 ACCGGTCTAGAAATGACAAAACAGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTAT
*
35356 TATAAGAATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
131 TATAAGTATCGACACTTTT-GAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
*
35408 AAAGTGTCGATACTTTATAAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * * *
35473 ACCGATCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
66 ACCGGTCTAGAAATGACAAAACAGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTAT
*
35538 TATAAGTATCGATACTTT
131 TATAAGTATCGACACTTT
35556 ATTATAAGTA
Statistics
Matches: 472, Mismatches: 36, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
181 55 0.12
182 415 0.88
183 2 0.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (181 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ACCGGTCTAGAAATGACAAAACAGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
Found at i:35536 original size:364 final size:368
Alignment explanation
Indices: 34863--35701 Score: 1303
Period size: 364 Copynumber: 2.2 Consensus size: 368
34853 GGATATATTG
*
34863 AAAGAGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
* * *
34927 ACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATGTTGATAGTGTTGATACTTTAT
66 ATCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATGATGATAGTGTCGATACTTTAT
* *
34992 TATAAGTATCGACACTTTTAGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATAC
131 TATAAGAATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAGTGTCGATAC
* * * *
35057 TTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAA
196 TTTATAAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTCGAAA
35122 TGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAA-G-T-G-TCGATACTTTATTATAAGTAT
261 TGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGGTTAGATCGATACTTTATTATAAGTAT
* *
35183 CGACACTTTTGTAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
326 CGACACTTTTGGAATTTAAAAGAAAAGAAGTTACAGCGCCAAT
35226 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
*
35291 ATCAGTCTATAAATGACAAAACAGGTAAAGCGCTACC-AGATATGATGATAGTGTCGATACTTTA
66 ATCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGA-ATATGATGATAGTGTCGATACTTTA
*
35355 TTATAAGAATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAGTGTCGATA
130 TTATAAGAATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAGTGTCGATA
35420 CTTTATAAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTCGAA
195 CTTTATAAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTCGAA
*
35485 ATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGA
260 ATGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAA--G--G---------T-T-AG-ATCGA
35550 TACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTACAGCGCCAAT
309 TACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTACAGCGCCAAT
*
35610 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
** * *
35675 ATCGGTCTCGAAATGAAAAAACCGGTA
66 ATCGGTCTATAAATGACAAAACAGGTA
35702 GTAAAAAAGT
Statistics
Matches: 433, Mismatches: 21, Indels: 23
0.91 0.04 0.05
Matches are distributed among these distances:
363 51 0.12
364 231 0.53
369 1 0.00
380 1 0.00
382 1 0.00
384 148 0.34
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (368 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAA
ATCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATGATGATAGTGTCGATACTTTAT
TATAAGAATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAGTGTCGATAC
TTTATAAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTCGAAA
TGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGGTTAGATCGATACTTTATTATAAGTAT
CGACACTTTTGGAATTTAAAAGAAAAGAAGTTACAGCGCCAAT
Found at i:35549 original size:20 final size:20
Alignment explanation
Indices: 35521--35575 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
35511 GATATGTTGA
*
35521 AAGTGTCGATACTTTATTAT
1 AAGTATCGATACTTTATTAT
35541 AAGTATCGATACTTTATTAT
1 AAGTATCGATACTTTATTAT
*
35561 AAGTATCGACACTTT
1 AAGTATCGATACTTT
35576 TGGAATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
AAGTATCGATACTTTATTAT
Found at i:38204 original size:21 final size:21
Alignment explanation
Indices: 38179--38233 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
38169 GGACAGGGTA
*
38179 TATCGGTACACTATGAATAGG
1 TATCGATACACTATGAATAGG
38200 TATCGATACACTATGAATAGG
1 TATCGATACACTATGAATAGG
38221 TATCGATACACTA
1 TATCGATACACTA
38234 AGACCAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (21 bp):
TATCGATACACTATGAATAGG
Found at i:39856 original size:19 final size:19
Alignment explanation
Indices: 39832--39892 Score: 113
Period size: 19 Copynumber: 3.2 Consensus size: 19
39822 TTGGGTACCA
*
39832 ATACACTCGTAGTGTCCCG
1 ATACACCCGTAGTGTCCCG
39851 ATACACCCGTAGTGTCCCG
1 ATACACCCGTAGTGTCCCG
39870 ATACACCCGTAGTGTCCCG
1 ATACACCCGTAGTGTCCCG
39889 ATAC
1 ATAC
39893 TCCCTTAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (19 bp):
ATACACCCGTAGTGTCCCG
Found at i:42055 original size:23 final size:23
Alignment explanation
Indices: 42029--42078 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
42019 ATACTTTTAC
42029 AAAAAT-TATATGA-AATCATTATA
1 AAAAATGTAT-TGATAAT-ATTATA
*
42052 AAAAATGTATTTATAATATTATA
1 AAAAATGTATTGATAATATTATA
42075 AAAA
1 AAAA
42079 TATTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
AAAAATGTATTGATAATATTATA
Found at i:42099 original size:22 final size:22
Alignment explanation
Indices: 42074--42117 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
42064 ATAATATTAT
* * *
42074 AAAAATATTTATTTTTTTAAAA
1 AAAAATAATCATTTATTTAAAA
*
42096 AAAATTAATCATTTATTTAAAA
1 AAAAATAATCATTTATTTAAAA
42118 TAGTATTATT
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:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAAATAATCATTTATTTAAAA
Found at i:42264 original size:23 final size:23
Alignment explanation
Indices: 42231--42290 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
42221 ACTAATTTAA
*
42231 AAATAATATTATTTCAAATAAGT
1 AAATAATATTATTTCAAATAAAT
*
42254 AATTAATATTATTTCAAATAAAT
1 AAATAATATTATTTCAAATAAAT
*
42277 AAATAATATGATTT
1 AAATAATATTATTT
42291 AAAAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (23 bp):
AAATAATATTATTTCAAATAAAT
Found at i:42296 original size:20 final size:19
Alignment explanation
Indices: 42198--42296 Score: 62
Period size: 23 Copynumber: 4.9 Consensus size: 19
42188 TTGGTTCTGT
*
42198 ATAATATTATTTAAAACTAA
1 ATAATA-TATTTAAAAATAA
42218 ATAACTA-ATTTAAAAAT-A
1 ATAA-TATATTTAAAAATAA
42236 AT-AT-TATTTCAAATAAGTAA
1 ATAATATATTT-AAA-AA-TAA
*
42256 TTAATATTATTTCAAATAAATAA
1 ATAATA-TATTT--AA-AAATAA
42279 ATAATATGATTTAAAAAT
1 ATAATAT-ATTTAAAAAT
42297 TTAATACATA
Statistics
Matches: 63, Mismatches: 4, Indels: 24
0.69 0.04 0.26
Matches are distributed among these distances:
16 5 0.08
17 4 0.06
18 5 0.08
19 10 0.16
20 10 0.16
21 6 0.10
22 1 0.02
23 17 0.27
24 4 0.06
25 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (19 bp):
ATAATATATTTAAAAATAA
Found at i:43512 original size:2 final size:2
Alignment explanation
Indices: 43505--43560 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
43495 AATGAAATCA
43505 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
43547 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
43561 CGATCGAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43675 original size:54 final size:54
Alignment explanation
Indices: 43617--43947 Score: 254
Period size: 54 Copynumber: 6.1 Consensus size: 54
43607 AATGCACCTG
* * ** ***
43617 TAGTGCCCACACGGTCATTCATAAACATATTATGAATTCCGTGTTTTGCACACA
1 TAGTGCCCAAACAGTCATTCATAAACATAGAATGAATTCCGTGAAATGCACACA
* * ** *
43671 TAGTGCCGAAACAGTTATTCATCCACATAGAATGAATTCCGTGAAATGCACACT
1 TAGTGCCCAAACAGTCATTCATAAACATAGAATGAATTCCGTGAAATGCACACA
* * ** * * * *
43725 TAGTGCCGAAACAGTTATTCATCCACATAGGATAAATTTCGTGAAATGCACACT
1 TAGTGCCCAAACAGTCATTCATAAACATAGAATGAATTCCGTGAAATGCACACA
* * * * * * *
43779 TAGTGCCGAAACAGTTATTCACACACATAGGATAAATTCCGTGAAATGCACACT
1 TAGTGCCCAAACAGTCATTCATAAACATAGAATGAATTCCGTGAAATGCACACA
* * ** * *
43833 TAGTGCCGAAAC-GATTATTCATCCACATA-AGATTAATTCCGTGAAATGCACACT
1 TAGTGCCCAAACAG-TCATTCATAAACATAGA-ATGAATTCCGTGAAATGCACACA
* * * * ** *
43887 TAATGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATTG-ACACA
1 TAGTGCCCAAACAGTCATTCATAAACATAGAATGAATTCCGTGAAA-TGCACACA
43941 TAGTGCC
1 TAGTGCC
43948 TATTTGGTAA
Statistics
Matches: 245, Mismatches: 27, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
53 1 0.00
54 241 0.98
55 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (54 bp):
TAGTGCCCAAACAGTCATTCATAAACATAGAATGAATTCCGTGAAATGCACACA
Found at i:43796 original size:108 final size:108
Alignment explanation
Indices: 43663--43947 Score: 441
Period size: 108 Copynumber: 2.6 Consensus size: 108
43653 TTCCGTGTTT
* *
43663 TGCACACATAGTGCCGAAACAGTTATTCATCCACATAGAATGAATTCCGTGAAATGCACACTTAG
1 TGCACACTTAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAG
* *
43728 TGCCGAAAC-AGTTATTCATCCACATAGGATAAATTTCGTGAAA
66 TGCCGAAACGA-TTATTCATCCACATAAGATAAATTCCGTGAAA
*
43771 TGCACACTTAGTGCCGAAACAGTTATTCA-CACACATAGGATAAATTCCGTGAAATGCACACTTA
1 TGCACACTTAGTGCCGAAACAGTTATTCATC-CACATAGGATGAATTCCGTGAAATGCACACTTA
*
43835 GTGCCGAAACGATTATTCATCCACATAAGATTAATTCCGTGAAA
65 GTGCCGAAACGATTATTCATCCACATAAGATAAATTCCGTGAAA
* * *
43879 TGCACACTTAATGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATTG-ACACATA
1 TGCACACTTAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAA-TGCACACTTA
43943 GTGCC
65 GTGCC
43948 TATTTGGTAA
Statistics
Matches: 163, Mismatches: 10, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 158 0.97
109 4 0.02
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (108 bp):
TGCACACTTAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAG
TGCCGAAACGATTATTCATCCACATAAGATAAATTCCGTGAAA
Found at i:44338 original size:19 final size:22
Alignment explanation
Indices: 44287--44340 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 22
44277 TACCCTTACC
*
44287 ATGGTATCGATACTGCTATACT
1 ATGGTATCGATACTGCTAGACT
* *
44309 ATGATACCGATACT-CT-GA-T
1 ATGGTATCGATACTGCTAGACT
44328 ATGGTATCGATAC
1 ATGGTATCGATAC
44341 CATTTTGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 12 0.44
20 1 0.04
21 2 0.07
22 12 0.44
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (22 bp):
ATGGTATCGATACTGCTAGACT
Found at i:44389 original size:20 final size:21
Alignment explanation
Indices: 44364--44414 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
44354 GTTTCAAAAT
44364 GGTATCGATACATT-CCCTTC
1 GGTATCGATACATTCCCCTTC
*
44384 GGTATCGAT--ATTCCCCCTTT
1 GGTATCGATACATT-CCCCTTC
44404 GGTATCGATAC
1 GGTATCGATAC
44415 TGATTCAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.12
20 23 0.88
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (21 bp):
GGTATCGATACATTCCCCTTC
Found at i:50423 original size:54 final size:54
Alignment explanation
Indices: 50351--50571 Score: 313
Period size: 54 Copynumber: 4.1 Consensus size: 54
50341 TTTTGCACAA
* *
50351 TAGTGCTGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
1 TAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
* *
50405 TAGTGCCGAAAC-GATTATTCATTCAC--AGGATGAATTTCGTGAAATGCACACT
1 TAGTGCCGAAACAG-TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
* * * *
50457 TAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCATGAATTACATACT
1 TAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
* * *
50511 TAGTGTCGAAACAGTTATTCATCCACATAAGATGGATTCCGTGAAATGCACACT
1 TAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
50565 TAGTGCC
1 TAGTGCC
50572 TATTTGGTAA
Statistics
Matches: 146, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
52 48 0.33
53 2 0.01
54 96 0.66
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (54 bp):
TAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
Found at i:50478 original size:106 final size:107
Alignment explanation
Indices: 50351--50571 Score: 311
Period size: 106 Copynumber: 2.1 Consensus size: 107
50341 TTTTGCACAA
* * * *
50351 TAGTGCTGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAA
1 TAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCATGAAATACACACTTAGTGCCGAAA
* * *
50416 C-GATTATTCATTCAC-AGGATGAATTTCGTGAAATGCACACT
66 CAG-TTATTCATCCACAAAGATGAATTCCGTGAAATGCACACT
* * *
50457 TAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCATGAATTACATACTTAGTGTCGAAA
1 TAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCATGAAATACACACTTAGTGCCGAAA
*
50522 CAGTTATTCATCCACATAAGATGGATTCCGTGAAATGCACACT
66 CAGTTATTCATCCACA-AAGATGAATTCCGTGAAATGCACACT
50565 TAGTGCC
1 TAGTGCC
50572 TATTTGGTAA
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
106 70 0.69
107 1 0.01
108 30 0.30
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (107 bp):
TAGTGCCGAAACAGTTATTCATCCACATAGGATGAATTCCATGAAATACACACTTAGTGCCGAAA
CAGTTATTCATCCACAAAGATGAATTCCGTGAAATGCACACT
Found at i:51734 original size:4 final size:4
Alignment explanation
Indices: 51725--51763 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
51715 CTAATAATGT
51725 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
51764 TATTGTATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:52543 original size:104 final size:105
Alignment explanation
Indices: 52331--52543 Score: 326
Period size: 104 Copynumber: 2.0 Consensus size: 105
52321 ATACAAAAAT
* * *
52331 TATATACACCTATTTAATAATATATAAATTAAACACATGTAATATGGGATACATAGAAACAACAT
1 TATATACACCTATTTAATAATATATAAATTAAACACATGTAATATAGGATACAGAAAAACAACAT
52396 ACGATTATATAACTAAAGCATATTCATATATATATATATA
66 ACGATTATATAACTAAAGCATATTCATATATATATATATA
*
52436 TATATACACCTATTTAATAATATATATAAGTT-AA-ACA-GTAATATAGGATGCAGAAAAACAAC
1 TATATACACCTATTTAATAATATATA-AA-TTAAACACATGTAATATAGGATACAGAAAAACAAC
*
52498 ATACGATTATAATAACTAAAGCATATTTA-ATATATATATATA
64 ATACGATTAT-ATAACTAAAGCATATTCATATATATATATATA
52540 TATA
1 TATA
52544 ATACTTATGA
Statistics
Matches: 100, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
104 48 0.48
105 46 0.46
106 4 0.04
107 2 0.02
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.33
Consensus pattern (105 bp):
TATATACACCTATTTAATAATATATAAATTAAACACATGTAATATAGGATACAGAAAAACAACAT
ACGATTATATAACTAAAGCATATTCATATATATATATATA
Found at i:53576 original size:3 final size:3
Alignment explanation
Indices: 53568--53614 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
53558 CCTACAAATG
* * *
53568 TAA TAA TAA TAA TAT TAA TAA TAG TAA TAG TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
53615 TAAACCCGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:53846 original size:15 final size:15
Alignment explanation
Indices: 53826--53860 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
53816 CCTACATAAT
53826 GAGGAGATCTAGTCA
1 GAGGAGATCTAGTCA
53841 GAGGAGATCTAGTCA
1 GAGGAGATCTAGTCA
53856 GAGGA
1 GAGGA
53861 TGACACTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.37, T:0.17
Consensus pattern (15 bp):
GAGGAGATCTAGTCA
Found at i:54071 original size:82 final size:82
Alignment explanation
Indices: 53940--54097 Score: 203
Period size: 82 Copynumber: 1.9 Consensus size: 82
53930 ATAAGGACGA
* * * *
53940 CTGGTTATCTAGGTTGACATAGCTCCTACATAATGAGGAAATCTAGTC-GGTGATGACATGGCTC
1 CTGGTTATCAAGGTTGACACAGCTCCTACATAACGAGGAAATCTAGTCGGGTGATGACACGGCTC
54004 ATACGTGATGAAGAGTT
66 ATACGTGATGAAGAGTT
* ** *
54021 CTGGTTATCAAGGATTGACACGGCTCCTACATAACGAGGAGTTC-AGGTCGGGTGATGACACGGT
1 CTGGTTATCAAGG-TTGACACAGCTCCTACATAACGAGGAAATCTA-GTCGGGTGATGACACGGC
*
54085 TCTTACGTGATGA
64 TCATACGTGATGA
54098 GGACGGTAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 13 0.20
82 28 0.43
83 24 0.37
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (82 bp):
CTGGTTATCAAGGTTGACACAGCTCCTACATAACGAGGAAATCTAGTCGGGTGATGACACGGCTC
ATACGTGATGAAGAGTT
Found at i:54841 original size:105 final size:105
Alignment explanation
Indices: 54624--54914 Score: 356
Period size: 105 Copynumber: 2.7 Consensus size: 105
54614 AACTAAGGTT
*
54624 GAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATT-GGACAAGTCCTTCTCATTATGAAC-
1 GAACAAGTTCTTCTCATTATGAAC-T-TTCT-CCT--TTAGGACAAGTTCTTCTCATTATGAACT
*
54687 CTTCCACTGGAAATCTTGAGTCACCTCCTTCTACGGTGGACTTAGAAG
61 CTT---CTGGAAATGTTGAGTCACCTCCTTCTACGGTGGACTTAGAAG
*
54735 GAACACGTTCTTCTCATTATGAACTTTCTCCTTTAGGACAAGTTCTTCTCATTATGAACTCTTCT
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACAAGTTCTTCTCATTATGAACTCTTCT
** * *
54800 GGAAATGTTG-GTTCACCTCCTTCTGTGGT-GATTTTGAAAG
66 GGAAATGTTGAG-TCACCTCCTTCTACGGTGGACTTAG-AAG
* * *
54840 GAACAAGTTCTTCTCATTATGAACTTCCTCCTTTAGGACGAGTTCTTCTCATTACGAACTCTTCA
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACAAGTTCTTCTCATTATGAACTCTTC-
54905 TTGGAAATGT
65 -TGGAAATGT
54915 CTATCCCTCA
Statistics
Matches: 163, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
104 6 0.04
105 89 0.55
106 2 0.01
107 32 0.20
108 6 0.04
109 4 0.02
110 1 0.01
111 23 0.14
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (105 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACAAGTTCTTCTCATTATGAACTCTTCT
GGAAATGTTGAGTCACCTCCTTCTACGGTGGACTTAGAAG
Found at i:55077 original size:136 final size:136
Alignment explanation
Indices: 54880--55129 Score: 356
Period size: 136 Copynumber: 1.8 Consensus size: 136
54870 CTTTAGGACG
* * **
54880 AGTTCTTCTCATTACGAACTCTTCATTGGAAATGTCTATCCCTCAAACAAGATGTCACTGATTCG
1 AGTTCTTCTCATTACGAACTCTCCATTGGAAATGTCAATCCCTCAAACAAGACATCACTGATTCG
* * * *
54945 AAATGCCCTAAATCGAGTGATAGGTTGAACAAGTTCTTCTTATTATGAAGTTATTCTTCCTCTTT
66 AAATACCCTAAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAAGTTATTCTTCCTCTTT
55010 CGGATA
131 CGGATA
* * *** *
55016 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCTTCAAGTGAGGCATCACTGATTCG
1 AGTTCTTCTCATTACGAACTCTCCATTGGAAATGTCAATCCCTCAAACAAGACATCACTGATTCG
* *
55081 AAATACCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAA
66 AAATACCCTAAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAA
55130 CTTTGTACTG
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
136 98 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (136 bp):
AGTTCTTCTCATTACGAACTCTCCATTGGAAATGTCAATCCCTCAAACAAGACATCACTGATTCG
AAATACCCTAAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAAGTTATTCTTCCTCTTT
CGGATA
Found at i:55534 original size:75 final size:73
Alignment explanation
Indices: 55407--55597 Score: 242
Period size: 75 Copynumber: 2.6 Consensus size: 73
55397 AGAGAAGCTC
55407 TCTCAAGTGAGATAAATTTTGTTTCGAA-GGAAAATTATCTCAAGCAAGACGAAGTAAGTTTTAA
1 TCTCAAGTGAGATAAATTTTGTTTC-AAGGGAAAATTATCTCAAGCAAGACGAAGTAAGTTTTAA
55471 GAAAAACCA
65 GAAAAACCA
* * * * * **
55480 TCTCAAGTGAGATTAATTTCTTGTTTCAAGGGAAAGTTGTCTCAAGCGAGACGAATTTGGTTTTA
1 TCTCAAGTGAGA-TAAATT-TTGTTTCAAGGGAAAATTATCTCAAGCAAGACGAAGTAAGTTTTA
55545 AGAAAAACCA
64 AGAAAAACCA
* * * *
55555 TCTCAAGCGAGACAAAATTTGTTTCAAGGG-AAACTATCTCAAG
1 TCTCAAGTGAGATAAATTTTGTTTCAAGGGAAAATTATCTCAAG
55598 GAGATAAAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
72 10 0.10
73 24 0.24
74 10 0.10
75 57 0.56
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (73 bp):
TCTCAAGTGAGATAAATTTTGTTTCAAGGGAAAATTATCTCAAGCAAGACGAAGTAAGTTTTAAG
AAAAACCA
Found at i:55564 original size:36 final size:36
Alignment explanation
Indices: 55519--55607 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 36
55509 GGGAAAGTTG
* *
55519 TCTCAAGCGAGAC-GAATTTGGTTTTAAGAAAAACCA
1 TCTCAAGCGAGACAAAATTT-GTTTCAAGAAAAACCA
** *
55555 TCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACTA
1 TCTCAAGCGAGACAAAATTTGTTTCAAGAAAAACCA
*
55591 TCTCAAG-GAGATAAAAT
1 TCTCAAGCGAGACAAAAT
55608 CTTCTATTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
35 9 0.20
36 32 0.70
37 5 0.11
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (36 bp):
TCTCAAGCGAGACAAAATTTGTTTCAAGAAAAACCA
Found at i:55631 original size:23 final size:23
Alignment explanation
Indices: 55588--55633 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
55578 TCAAGGGAAA
*
55588 CTATCTCAAGGAGATAAAATCTT
1 CTATCTCAAGGAGAAAAAATCTT
*
55611 CTATTTCAAGGA-AAAACAATCTT
1 CTATCTCAAGGAGAAAA-AATCTT
55634 GAGTGAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.30
Consensus pattern (23 bp):
CTATCTCAAGGAGAAAAAATCTT
Found at i:55645 original size:40 final size:40
Alignment explanation
Indices: 55598--55932 Score: 557
Period size: 40 Copynumber: 8.4 Consensus size: 40
55588 CTATCTCAAG
* *
55598 GAGATAAAATCTTCTATTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* *
55638 GAGATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* *
55678 GAGATAAAATCTTCTGTTTCAAGGAAAAATAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* *
55718 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTAAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
55758 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
55798 GAGATAAAATCTTATGTTTCAAGG-AAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
55837 GAGATAAAATCTT-TGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
55876 GAGGTAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
55916 GAGATAAAATCTTCTGT
1 GAGATAAAATCTTCTGT
55933 ATTAAATGAG
Statistics
Matches: 278, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
38 10 0.04
39 54 0.19
40 214 0.77
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (40 bp):
GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
Found at i:64731 original size:110 final size:113
Alignment explanation
Indices: 64559--64767 Score: 343
Period size: 110 Copynumber: 1.9 Consensus size: 113
64549 CACCTATTTA
* *
64559 ATAATATATAAATTAAACACATGTAATATGGGATACATAGAAACAACATACGATTATAATAACTA
1 ATAATATATAAATTAAACACATGTAATATAGGATACATAAAAACAACATACGATTATAATAACTA
*
64624 AAGCATATTCAATATATATATATATATATAATACACCTATTTAATAAT
66 AAGCATATTCAATATAAATATATATATATAATACACCTATTTAATAAT
* *
64672 ATAATATATAAGTT-AA-ACA-GTAATATAGGATGCATAAAAACAACATACGATTATAATAACTA
1 ATAATATATAAATTAAACACATGTAATATAGGATACATAAAAACAACATACGATTATAATAACTA
*
64734 AAGCATATTTAATATAAATATATATATATAATAC
66 AAGCATATTCAATATAAATATATATATATAATAC
64768 TTATGAACTA
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
110 72 0.80
111 3 0.03
112 2 0.02
113 13 0.14
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.32
Consensus pattern (113 bp):
ATAATATATAAATTAAACACATGTAATATAGGATACATAAAAACAACATACGATTATAATAACTA
AAGCATATTCAATATAAATATATATATATAATACACCTATTTAATAAT
Found at i:65942 original size:20 final size:20
Alignment explanation
Indices: 65917--65968 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
65907 GTTTCGAAAT
**
65917 GGTATCGATACTTGCCCTTC
1 GGTATCGATACTCCCCCTTC
65937 GGTATCGATACTCCCCCTTC
1 GGTATCGATACTCCCCCTTC
*
65957 GGTATTGATACT
1 GGTATCGATACT
65969 GATTGAATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (20 bp):
GGTATCGATACTCCCCCTTC
Found at i:77909 original size:33 final size:33
Alignment explanation
Indices: 77855--77927 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
77845 TATAAATTAA
* * *
77855 ATTAATGGTGCTCAGCGGTGCTCACAACTCCTC
1 ATTAGTGGTACTCAGCAGTGCTCACAACTCCTC
*
77888 GTTAGTGGTACTCAGCAGTGCTCACAACTCCTC
1 ATTAGTGGTACTCAGCAGTGCTCACAACTCCTC
77921 ATTAGTG
1 ATTAGTG
77928 ATGCTAAGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (33 bp):
ATTAGTGGTACTCAGCAGTGCTCACAACTCCTC
Found at i:77938 original size:33 final size:33
Alignment explanation
Indices: 77863--77939 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
77853 AAATTAATGG
* * *
77863 TGCTCAGCGGTGCTCACAACTCCTCGTTAGTGG
1 TGCTCAGCAGTGCTCACAACTCCTCATTAGTGA
*
77896 TACTCAGCAGTGCTCACAACTCCTCATTAGTGA
1 TGCTCAGCAGTGCTCACAACTCCTCATTAGTGA
*
77929 TGCTAAGCAGT
1 TGCTCAGCAGT
77940 ATTCATCGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (33 bp):
TGCTCAGCAGTGCTCACAACTCCTCATTAGTGA
Found at i:78577 original size:19 final size:19
Alignment explanation
Indices: 78553--78589 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
78543 ATGACCAACA
*
78553 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
78572 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
78590 CATTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:78732 original size:20 final size:20
Alignment explanation
Indices: 78680--78732 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
78670 AATTTTAGAT
*
78680 AATCGCAATACGAATATGTA
1 AATCGCAATGCGAATATGTA
78700 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
*
78720 AATCGCAACGCGA
1 AATCGCAATGCGA
78733 TAACACATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
AATCGCAATGCGAATATGTA
Found at i:78770 original size:20 final size:20
Alignment explanation
Indices: 78745--78786 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
78735 ACACATGATT
*
78745 GCAACGCGATTCTGACTATC
1 GCAACGAGATTCTGACTATC
78765 GCAACGAGATTCTGACTATC
1 GCAACGAGATTCTGACTATC
78785 GC
1 GC
78787 GTTGCGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (20 bp):
GCAACGAGATTCTGACTATC
Found at i:79035 original size:20 final size:21
Alignment explanation
Indices: 78956--79028 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
78946 ATACGGCGAC
**
78956 ATCCGTCCCCATCTCCGACGAA
1 ATCCGT-CCCATCTCCGGTGAA
* * *
78978 TTCCGTCCCTATTTTCGGTGAA
1 ATCCGTCCC-ATCTCCGGTGAA
79000 ATCCGTCCCCATCTCCGGTGAA
1 ATCCGT-CCCATCTCCGGTGAA
79022 ATCCGTC
1 ATCCGTC
79029 TATCTCCATC
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
21 4 0.10
22 34 0.83
23 3 0.07
ACGTcount: A:0.18, C:0.38, G:0.16, T:0.27
Consensus pattern (21 bp):
ATCCGTCCCATCTCCGGTGAA
Found at i:79453 original size:20 final size:20
Alignment explanation
Indices: 79413--79480 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
79403 ACAAAATTAT
*
79413 CGTTGCGATAG-CCATTTCG
1 CGTTGCGATAGTCAATTTCG
*
79432 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
* *
79452 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAGTCAATTTCG
*
79472 TGTTGCGAT
1 CGTTGCGAT
79481 TTTCATTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 11 0.26
20 31 0.74
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:79486 original size:20 final size:20
Alignment explanation
Indices: 79448--79503 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
79438 GATAGTCAAA
* **
79448 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
79468 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
79488 TTCGTGTTGCAATTTT
1 TTCGTGTTGCGATTTT
79504 AAGTTTCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.14, C:0.16, G:0.20, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:79510 original size:20 final size:20
Alignment explanation
Indices: 79467--79510 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
79457 CGATAATCAT
* * *
79467 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCAATTTTAAG
79487 TTTCGTGTTGCAATTTTAAG
1 TTTCGTGTTGCAATTTTAAG
79507 TTTC
1 TTTC
79511 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCAATTTTAAG
Found at i:79682 original size:25 final size:25
Alignment explanation
Indices: 79648--79712 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
79638 GTTTATTATT
79648 GTTTTTGGTATATCTTCACAATGTA
1 GTTTTTGGTATATCTTCACAATGTA
*
79673 GTTTTTGGTATATCTTCACAGTGTA
1 GTTTTTGGTATATCTTCACAATGTA
79698 GTTTTTGGTATATCT
1 GTTTTTGGTATATCT
79713 AACTTGGTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.20, C:0.11, G:0.18, T:0.51
Consensus pattern (25 bp):
GTTTTTGGTATATCTTCACAATGTA
Found at i:81398 original size:31 final size:31
Alignment explanation
Indices: 81342--81403 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
81332 TTGTCTTTGT
*
81342 TTTGTCTTTTGGTTGAAGTTAGTAAATTCATA
1 TTTGTCTTTTGGTTG-ACTTAGTAAATTCATA
81374 TTTGTCTTTTGGATTG-CTTAGTAAATTCAT
1 TTTGTCTTTTGG-TTGACTTAGTAAATTCAT
81404 TCGGTAGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 13 0.46
32 12 0.43
33 3 0.11
ACGTcount: A:0.23, C:0.08, G:0.18, T:0.52
Consensus pattern (31 bp):
TTTGTCTTTTGGTTGACTTAGTAAATTCATA
Found at i:81563 original size:20 final size:19
Alignment explanation
Indices: 81522--81674 Score: 67
Period size: 20 Copynumber: 8.3 Consensus size: 19
81512 AGAAGAATAG
* *
81522 TCGCAACACGAAAATGATTA
1 TCGCAACGCG-AAATGACTA
*
81542 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
* *
81562 TCGTAACG-G-GAT-A--A
1 TCGCAACGCGAAATGACTA
* *
81576 TCGCAATGCGAAAACGACTA
1 TCGCAACGCG-AAATGACTA
*
81596 TCGCAACGAGGAAATGACTA
1 TCGCAACG-CGAAATGACTA
* *
81616 TCACAACGCGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
*
81636 TCACAACG-G--AT-A--A
1 TCGCAACGCGAAATGACTA
*
81649 TCGCAATGCGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
81669 TCGCAA
1 TCGCAA
81675 TGAGTTGCGA
Statistics
Matches: 98, Mismatches: 19, Indels: 32
0.66 0.13 0.21
Matches are distributed among these distances:
13 7 0.07
14 8 0.08
15 2 0.02
16 2 0.02
17 4 0.04
18 2 0.02
19 7 0.07
20 65 0.66
21 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:81644 original size:74 final size:73
Alignment explanation
Indices: 81533--81674 Score: 230
Period size: 74 Copynumber: 1.9 Consensus size: 73
81523 CGCAACACGA
* * **
81533 AAATGATTATCGCAACGCGAATTTGACTATCGTAACGGGATAATCGCAATGCGAAAACGACTATC
1 AAATGACTATCACAACGCGAATTTGACTATCACAAC-GGATAATCGCAATGCGAAAACGACTATC
81598 GCAACGAGG
65 GCAACGAGG
*
81607 AAATGACTATCACAACGCGAATTTGACTATCACAACGGATAATCGCAATGCGAAAATGACTATCG
1 AAATGACTATCACAACGCGAATTTGACTATCACAACGGATAATCGCAATGCGAAAACGACTATCG
81672 CAA
66 CAA
81675 TGAGTTGCGA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
73 31 0.49
74 32 0.51
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (73 bp):
AAATGACTATCACAACGCGAATTTGACTATCACAACGGATAATCGCAATGCGAAAACGACTATCG
CAACGAGG
Found at i:81728 original size:33 final size:34
Alignment explanation
Indices: 81691--81771 Score: 119
Period size: 33 Copynumber: 2.4 Consensus size: 34
81681 GCGATTTTAG
* * *
81691 TTTCGCATTGCGATTTTCTTGTTGCGATAGTC-A
1 TTTCGCGTTGCGATTTTCTCGTTGCGATAATCAA
81724 TTTCGCGTTGCGATTTTCTCGTTGCGATAATCAA
1 TTTCGCGTTGCGATTTTCTCGTTGCGATAATCAA
*
81758 ATTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
81772 AATCATTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 29 0.67
34 14 0.33
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTTCTCGTTGCGATAATCAA
Found at i:81768 original size:20 final size:20
Alignment explanation
Indices: 81743--81791 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
81733 GCGATTTTCT
81743 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAATCAAATTCG
**
81763 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAATCAAATTCG
*
81783 TGTTGCGAT
1 CGTTGCGAT
81792 TTTAGTTTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:81802 original size:19 final size:20
Alignment explanation
Indices: 81778--81820 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
81768 CGATAATCAT
81778 TTTCGTGTTGCGATTTT-AG
1 TTTCGTGTTGCGATTTTAAG
81797 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
81817 TTTC
1 TTTC
81821 AGAAACTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.12, C:0.12, G:0.23, T:0.53
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:82388 original size:42 final size:42
Alignment explanation
Indices: 82296--82407 Score: 107
Period size: 42 Copynumber: 2.7 Consensus size: 42
82286 GCGTCACTCA
** * * *
82296 CCTGTCATCGTTCAAGAGGCCTCTCCTATCGTTAAAGAGGCC
1 CCTGTCATCCCTCAAGAGGCCCCTCCCACCGTTAAAGAGGCC
* * * *
82338 CATATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCCCTCAAGAGGCCCCTCCCACCGTTAAAGAGGCC
** * *
82380 CCTGTCATCGTTGAAGAGGTCCCTCCCA
1 CCTGTCATCCCTCAAGAGGCCCCTCCCA
82408 ACATTCTAGA
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (42 bp):
CCTGTCATCCCTCAAGAGGCCCCTCCCACCGTTAAAGAGGCC
Found at i:82391 original size:21 final size:21
Alignment explanation
Indices: 82296--82403 Score: 83
Period size: 21 Copynumber: 5.1 Consensus size: 21
82286 GCGTCACTCA
82296 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* * *
82317 TCT-CCTATCGTTAAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* * ** *
82338 CATATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
** *
82359 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
82380 CCTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
82401 CCT
1 CCT
82404 CCCAACATTC
Statistics
Matches: 63, Mismatches: 22, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 1 0.02
21 61 0.97
22 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.24
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:83799 original size:30 final size:30
Alignment explanation
Indices: 83765--83830 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
83755 ATAAGAGTTG
*
83765 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTAATGTGTAAATAATTCTT
83795 ATTTGTTTAATTAATGTGTAAATAATTCTT
1 ATTTGTTTAATTAATGTGTAAATAATTCTT
83825 ATTTGT
1 ATTTGT
83831 GCTTGTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTAATGTGTAAATAATTCTT
Found at i:84004 original size:20 final size:20
Alignment explanation
Indices: 83979--84162 Score: 169
Period size: 20 Copynumber: 9.8 Consensus size: 20
83969 TGCGATTTCT
83979 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
83999 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
84019 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
*
84038 CGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
84052 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
** *
84072 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCAAATTCG
* *
84092 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
84106 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
* *
84126 CGTTGCGATAGTCATATTCA
1 CGTTGCGATAGTCAAATTCG
84146 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
84163 AAATGTGTAA
Statistics
Matches: 134, Mismatches: 18, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
14 20 0.15
16 2 0.01
17 1 0.01
18 1 0.01
19 16 0.12
20 94 0.70
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:84060 original size:73 final size:73
Alignment explanation
Indices: 83936--84081 Score: 231
Period size: 73 Copynumber: 2.0 Consensus size: 73
83926 TTCAAACTGC
* *
83936 ATCATATTCGCGTTGCGATAGTCTAATACACTTTGCGATTTCTCGTTGCGATAGTCAAATTCGCG
1 ATCAAATTCGCGTTGCGATAGTCTAATACACGTTGCGATTTCTCGTTGCGATAGTCAAATTCGCG
84001 TTGCGATA
66 TTGCGATA
* * *
84009 ATCAAATTCGCGTTGCGATAGTC-ATTTCGCGTTGCGATTATCTCGTTGCGATAGTCAAATTCGC
1 ATCAAATTCGCGTTGCGATAGTCTAATACACGTTGCGATT-TCTCGTTGCGATAGTCAAATTCGC
84073 GTTGCGATA
65 GTTGCGATA
84082 GTCATTTTTG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
72 12 0.18
73 55 0.82
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (73 bp):
ATCAAATTCGCGTTGCGATAGTCTAATACACGTTGCGATTTCTCGTTGCGATAGTCAAATTCGCG
TTGCGATA
Found at i:84121 original size:54 final size:54
Alignment explanation
Indices: 83999--84154 Score: 224
Period size: 54 Copynumber: 2.9 Consensus size: 54
83989 GTCAAATTCG
* *
83999 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCA-TTTCGCGTTGCGATTATCT
1 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCC
* *
84052 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTTGCATTGCGATTATCC
1 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCC
* * * * *
84106 CGTTGCGATATTCAAATTCACGTTGCGATAGTCATATTCACGTTGCGAT
1 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGAT
84155 AGTCAAATAA
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 33 0.36
54 59 0.64
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (54 bp):
CGTTGCGATAATCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCC
Found at i:86447 original size:24 final size:24
Alignment explanation
Indices: 86413--86466 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
86403 CTGAAACATC
86413 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
86437 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
86461 ATCAAA
1 ATCAAA
86467 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:87346 original size:21 final size:21
Alignment explanation
Indices: 87320--87435 Score: 114
Period size: 21 Copynumber: 5.6 Consensus size: 21
87310 GATAGCCAGA
87320 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
* **
87341 ATCGCGTTGTGAT-A-GTCAGA
1 ATCGCGTTGCGATCACGT-ATT
*
87361 ATCACGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
**
87382 ATCGCGTTGCGAT-A-GTCAGA
1 ATCGCGTTGCGATCACGT-ATT
* *
87402 ATCGAGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCACGTATT
87423 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
87436 TTACATATTC
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
19 4 0.05
20 27 0.36
21 39 0.53
22 4 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (21 bp):
ATCGCGTTGCGATCACGTATT
Found at i:87410 original size:20 final size:20
Alignment explanation
Indices: 87287--87414 Score: 107
Period size: 20 Copynumber: 6.3 Consensus size: 20
87277 AATTCAGTAA
* *
87287 TGCGTTAGTCAGAATTGCGT
1 TGCGATAGTCAGAATCGCGT
* *
87307 TGAGATAGCCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
**
87327 TGCGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
* *
87348 TGTGATAGTCAGAATCACGT
1 TGCGATAGTCAGAATCGCGT
**
87368 TGCGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
*
87389 TGCGATAGTCAGAATCGAGT
1 TGCGATAGTCAGAATCGCGT
87409 TGCGAT
1 TGCGAT
87415 CACGTGTTAT
Statistics
Matches: 83, Mismatches: 19, Indels: 12
0.73 0.17 0.11
Matches are distributed among these distances:
19 4 0.05
20 48 0.58
21 28 0.34
22 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:87432 original size:41 final size:41
Alignment explanation
Indices: 87303--87435 Score: 205
Period size: 41 Copynumber: 3.2 Consensus size: 41
87293 AGTCAGAATT
* * *
87303 GCGTTGAGATAGCCAGAATCGCGTTGCGATCACGTATTATC
1 GCGTTGCGATAGTCAGAATCGAGTTGCGATCACGTATTATC
*
87344 GCGTTGTGATAGTCAGAATC-ACGTTGCGATCACGTATTATC
1 GCGTTGCGATAGTCAGAATCGA-GTTGCGATCACGTATTATC
*
87385 GCGTTGCGATAGTCAGAATCGAGTTGCGATCACGTGTTATC
1 GCGTTGCGATAGTCAGAATCGAGTTGCGATCACGTATTATC
87426 GCGTTGCGAT
1 GCGTTGCGAT
87436 TTACATATTC
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
41 84 0.99
42 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (41 bp):
GCGTTGCGATAGTCAGAATCGAGTTGCGATCACGTATTATC
Found at i:92729 original size:2 final size:2
Alignment explanation
Indices: 92722--92749 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
92712 TCATTTTCTG
92722 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
92750 TTTCATGCAA
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:109489 original size:182 final size:178
Alignment explanation
Indices: 109282--109649 Score: 585
Period size: 182 Copynumber: 2.0 Consensus size: 178
109272 ATTCCATTGA
* *
109282 AATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATAC
1 AATAAGTATCGACACTCTTGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATAC
* * *
109347 TTTATAAAATTGTATCAATCCATAACTATATAACAGATAAAAATATGATC-AAACCGGTCTCGAA
66 TTTATAAAAATATATCAATCCATAACAATATAACAGAT-AAAATATGA-CAAAACCGGTCTCGAA
* *
109411 ATGACAAAACCGGTAAAGAGCTATCGGATATGTTGAAAGTGTCAATACTTT
129 ATGACAAAACCGGTAAAGAGCTACCGGATATGCTGAAA-TGTCAATACTTT
*
109462 ACTATAAGTATCGACACTCTTGGAATTTAAAAGAGAAGCAATGATAGCGCCTATAAAGTGTCGAT
1 A--ATAAGTATCGACACTCTTGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGAT
* *
109527 ACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAATATGACAAAACCGGTCTCGAA
64 ACTTTATAAAAATATATCAATCCATAACAATATAACAGATAAAATATGACAAAACCGGTCTCGAA
*
109592 ATGACAAAACCGGTAAAGAGCTACCGGATATGCTGAAATGTCTATACTTT
129 ATGACAAAACCGGTAAAGAGCTACCGGATATGCTGAAATGTCAATACTTT
109642 AATAAGTA
1 AATAAGTA
109650 CGCGTAAAAT
Statistics
Matches: 174, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
178 7 0.04
180 14 0.08
181 59 0.34
182 94 0.54
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (178 bp):
AATAAGTATCGACACTCTTGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATAC
TTTATAAAAATATATCAATCCATAACAATATAACAGATAAAATATGACAAAACCGGTCTCGAAAT
GACAAAACCGGTAAAGAGCTACCGGATATGCTGAAATGTCAATACTTT
Found at i:111415 original size:23 final size:23
Alignment explanation
Indices: 111389--111449 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
111379 AGTTCTATTG
* *
111389 TACCTATTTTATTATATAAACGC
1 TACCTATTATATTATATAAACAC
*
111412 TACCTATTATATTATATAAGCAC
1 TACCTATTATATTATATAAACAC
* *
111435 TACCTAATATGTTAT
1 TACCTATTATATTAT
111450 TGTGCTTGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (23 bp):
TACCTATTATATTATATAAACAC
Found at i:111512 original size:23 final size:23
Alignment explanation
Indices: 111477--111524 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
111467 CCAGTAATTA
**
111477 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
111500 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
111523 AC
1 AC
111525 TAATATGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:113801 original size:3 final size:3
Alignment explanation
Indices: 113793--113825 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
113783 ATTGGGTCTG
*
113793 TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
113826 AAAAAAAGAG
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:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:113830 original size:12 final size:12
Alignment explanation
Indices: 113794--113843 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
113784 TTGGGTCTGT
*
113794 AATAATAATAAT
1 AATAATAATAAA
113806 AATAATAATAAA
1 AATAATAATAAA
113818 AATAATAA-AAA
1 AATAATAATAAA
*
113829 AA-AAGAGATAAA
1 AATAATA-ATAAA
113841 AAT
1 AAT
113844 TAGTGTAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
10 3 0.09
11 6 0.18
12 24 0.73
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:114644 original size:19 final size:18
Alignment explanation
Indices: 114616--114670 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
114606 AAATTGTTCA
*
114616 GAGTGTATCGATGCACAG
1 GAGTGCATCGATGCACAG
* *
114634 GAAGTGCATCGATGTATAAG
1 G-AGTGCATCGATGCA-CAG
114654 GAGTGCATCGATGCACA
1 GAGTGCATCGATGCACA
114671 TGTTAAGGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.07
19 25 0.83
20 3 0.10
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (18 bp):
GAGTGCATCGATGCACAG
Found at i:114677 original size:24 final size:24
Alignment explanation
Indices: 114645--114713 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
114635 AAGTGCATCG
114645 ATGTATAAGGAGTGCATCGATGCAC
1 ATGT-TAAGGAGTGCATCGATGCAC
*
114670 ATGTTAAGG-GATGCATCGATACAC
1 ATGTTAAGGAG-TGCATCGATGCAC
*
114694 -TG-T-A-GAATGCATCGATGCAC
1 ATGTTAAGGAGTGCATCGATGCAC
114714 TTCAAGGGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 13 0.33
21 1 0.03
22 1 0.03
23 3 0.08
24 17 0.44
25 4 0.10
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (24 bp):
ATGTTAAGGAGTGCATCGATGCAC
Found at i:127795 original size:2 final size:2
Alignment explanation
Indices: 127788--127847 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
127778 ACTAAAGTAA
127788 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
127830 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
127848 TTAGGATTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129416 original size:3 final size:3
Alignment explanation
Indices: 129402--129471 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
129392 ATTGGGCCTG
* * * * * * * *
129402 TAA TAT TAA TAA TAA TAT TTA TAA TAA TAT TAT TAT TAT TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
129450 TAA TAA TAA TAA -AA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
129472 AAAGACAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
2 4 0.07
3 52 0.93
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:129417 original size:12 final size:12
Alignment explanation
Indices: 129402--129461 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
129392 ATTGGGCCTG
129402 TAATATTAATAA
1 TAATATTAATAA
*
129414 TAATATTTATAA
1 TAATATTAATAA
129426 TAATATT-AT--
1 TAATATTAATAA
* *
129435 TATTATTTATAA
1 TAATATTAATAA
*
129447 TAATAATAATAA
1 TAATATTAATAA
129459 TAA
1 TAA
129462 AAAATAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
11 2 0.05
12 30 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:132175 original size:20 final size:20
Alignment explanation
Indices: 132150--132206 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
132140 TTTGGTTCAC
132150 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
132170 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
*
132190 AGAATGTAAGATTACCA
1 GGAATGTAAGATTACCA
132207 TAGAATAGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.25
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:132437 original size:38 final size:37
Alignment explanation
Indices: 132363--132438 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 37
132353 GTTGGAAAAT
* *
132363 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
132400 ATTTATATAATTTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-A-TTTTCTTTAAAAAATTGAAAATCATAAA
132438 A
1 A
132439 AGATTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 8 0.24
38 7 0.21
39 18 0.55
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:132889 original size:31 final size:32
Alignment explanation
Indices: 132854--132924 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 32
132844 AATTAAATAG
*
132854 TGAATCTGAGTTGTTTATTATTTTATAT-AAA
1 TGAATCTGAGTTGTTTATTACTTTATATCAAA
* *
132885 TGAATCTG-GTTTTTTATTGCTTTATATCAAA
1 TGAATCTGAGTTGTTTATTACTTTATATCAAA
132916 TGAATCTGA
1 TGAATCTGA
132925 TTTTGTTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 16 0.46
31 19 0.54
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (32 bp):
TGAATCTGAGTTGTTTATTACTTTATATCAAA
Found at i:141044 original size:21 final size:22
Alignment explanation
Indices: 141017--141074 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
141007 GATTGAAGAG
141017 AGAAAATCAAGAAGAAATG-AGT
1 AGAAAATCAAGAAGAAATGCA-T
* *
141039 A-AAAATCAATAACAAATGCAT
1 AGAAAATCAAGAAGAAATGCAT
*
141060 AGAAAATGAAGAAGA
1 AGAAAATCAAGAAGA
141075 GTTTCATCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.62, C:0.07, G:0.17, T:0.14
Consensus pattern (22 bp):
AGAAAATCAAGAAGAAATGCAT
Found at i:141116 original size:22 final size:22
Alignment explanation
Indices: 141088--141131 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
141078 TCATCCAATA
141088 GAGAAAACT-TAAGAGAGTTTGG
1 GAGAAAA-TATAAGAGAGTTTGG
*
141110 GAGAAAATATAAGAGTGTTTGG
1 GAGAAAATATAAGAGAGTTTGG
141132 ATGAGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.41, C:0.02, G:0.32, T:0.25
Consensus pattern (22 bp):
GAGAAAATATAAGAGAGTTTGG
Found at i:141746 original size:3 final size:3
Alignment explanation
Indices: 141740--141766 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
141730 GAAAGCATCA
141740 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
141767 GTTTCAGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:142293 original size:17 final size:17
Alignment explanation
Indices: 142269--142312 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
142259 AAAATATAAA
142269 TAAA-TTTATTTTTCTT
1 TAAATTTTATTTTTCTT
* *
142285 TGAATTTTAATTTTTTTT
1 TAAATTTT-ATTTTTCTT
142303 TAAATTTTAT
1 TAAATTTTAT
142313 CCACCTGAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 3 0.13
17 5 0.22
18 15 0.65
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (17 bp):
TAAATTTTATTTTTCTT
Found at i:153957 original size:29 final size:29
Alignment explanation
Indices: 153915--153970 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
153905 TCCCAGGGGT
* *
153915 AGGTCGCCATGCACGCCCAGCGACCTACC
1 AGGTCACCATGCACGCCAAGCGACCTACC
153944 AGGTCACCATGCACGCCAAGCGACCTA
1 AGGTCACCATGCACGCCAAGCGACCTA
153971 GGTAGGTCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.25, C:0.41, G:0.23, T:0.11
Consensus pattern (29 bp):
AGGTCACCATGCACGCCAAGCGACCTACC
Found at i:154328 original size:29 final size:28
Alignment explanation
Indices: 154286--154369 Score: 132
Period size: 29 Copynumber: 2.9 Consensus size: 28
154276 AGCAACGTGG
154286 GTAGGTCGCCAGGGAATCCCAGCGACATT
1 GTAGGTCGCCAGGG-ATCCCAGCGACATT
154315 GTAGGTCGCCAGGGCATCCCAGCGACATT
1 GTAGGTCGCCAGGG-ATCCCAGCGACATT
*
154344 GTAGGTCGCCAAGGGATCCCAACGAC
1 GTAGGTCGCC-AGGGATCCCAGCGAC
154370 CTATGCCTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 48 0.92
30 4 0.08
ACGTcount: A:0.24, C:0.30, G:0.31, T:0.15
Consensus pattern (28 bp):
GTAGGTCGCCAGGGATCCCAGCGACATT
Found at i:154464 original size:12 final size:11
Alignment explanation
Indices: 154444--154479 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
154434 GAAATCAGCT
154444 GCATTATTGCA
1 GCATTATTGCA
*
154455 GCACTTATTGCT
1 GCA-TTATTGCA
154467 GCATTATTGCA
1 GCATTATTGCA
154478 GC
1 GC
154480 CCGTGAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:154845 original size:27 final size:29
Alignment explanation
Indices: 154782--154845 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
154772 TATATTAAAA
154782 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
* *
154811 --ATATTTAATTAGTTTG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
154836 AAATAGTTAA
1 AAATAATTAA
154846 GTTATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 1 0.03
26 8 0.27
27 21 0.70
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:154943 original size:27 final size:27
Alignment explanation
Indices: 154901--154954 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
154891 TAGTAGTTTA
154901 AGTTTTATTATAATAAA-AATAGTTATT
1 AGTTTTATTATAATAAAGAATA-TTATT
154928 AGTTTTAGTTAT-ATAAAGAATATTATT
1 AGTTTTA-TTATAATAAAGAATATTATT
154955 TAAATTAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (27 bp):
AGTTTTATTATAATAAAGAATATTATT
Found at i:154978 original size:18 final size:18
Alignment explanation
Indices: 154955--155009 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
154945 GAATATTATT
154955 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
154973 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
154985 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
155002 TAAATTAG
1 TAAATTAG
155010 GGTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:154991 original size:29 final size:30
Alignment explanation
Indices: 154948--155008 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
154938 ATATAAAGAA
* *
154948 TATTATTTAAATTAGTTTATTGTTATAAAT
1 TATTAGTTAAATTAGTTTATTATTATAAAT
154978 TATTAGTT-AATTAGTTTATTATTATAAAT
1 TATTAGTTAAATTAGTTTATTATTATAAAT
155007 TA
1 TA
155009 GGGTAAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (30 bp):
TATTAGTTAAATTAGTTTATTATTATAAAT
Found at i:155314 original size:30 final size:30
Alignment explanation
Indices: 155280--155341 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
155270 ATTAAAATCA
*
155280 TTTATTAGTTTAA-TTTATATTAAAGAATAG
1 TTTATTAG-TTAACGTTATATTAAAGAATAG
155310 TTTATTAGTTAACGTTATATTAAAGAATAG
1 TTTATTAGTTAACGTTATATTAAAGAATAG
155340 TT
1 TT
155342 AAAGTTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (30 bp):
TTTATTAGTTAACGTTATATTAAAGAATAG
Found at i:155489 original size:364 final size:363
Alignment explanation
Indices: 154811--155716 Score: 1342
Period size: 364 Copynumber: 2.5 Consensus size: 363
154801 TAGTTAGTCT
*
154811 ATATTTAATTAGTTTGTAGTTAGTTAAATAGTTAAGTTATATTT-TGTTGTTGAATTTATATTAT
1 ATATATAATTAGTTTGT-G-TAGTTAAATAGTTAAGTTATATTTGT-TTGTTGAATTTATATTAT
* ** ** * * * *
154875 AT---AAAAATTAGTTTATTAGTAGTTTA--AGTTTTATTATAATAAAAAT-AGTTATTAGTTTT
63 ATAAAAAAAATTAGTTAATTAGTTTTTTAGTAG-TAAAGTATAATTAAAATCATTTATTAGTTTA
* * * *
154934 AGTTATA-TAAAGAATA--TTATTTAAATT-A-GTTTATTGTTATAA-ATTA-TT--AGTTA-AT
127 ATTTATATTAAAGAATAGTTTA-TT-AGTTAACG-TTA-TATTA-AAGAATAGTTAAAGTTATAT
154989 T-AGTTTATTATTATAAATTAGGGTAAAACAACAAATTAGTTAATTTTTTAGTTTAAGTTATATT
187 TAAGTTTATTATTATAAATTAGGGTAAAACAACAAATTAGTTAATTTTTTAGTTTAAGTTATATT
155053 ATTGGTTAGTTTAAGTTATCATATAGAAATAAAAATTATTTAATTAGCATGTTTGATAGTTACAT
252 ATTGGTTAGTTTAAGTTATCATATAGAAATAAAAA-TATTTAATTAGCATGTTTGATAGTTACAT
155118 ATTAATAAAAATATTTAGTTAGTTTGTTAGTCGTTAGTTATATATAAAA
316 ATTAATAAAAATATTTAGTTAGTTTGTTAGTCGTTAGTTATATA-AAAA
155167 A-ATATAATTAGTTTGTGTAGTTAAATAGTTAAGTTATATTTGTTTGTTGAATTTATATTATATA
1 ATATATAATTAGTTTGTGTAGTTAAATAGTTAAGTTATATTTGTTTGTTGAATTTATATTATATA
155231 AAAAAAATTAGTTAATTAGTTTTTTAGTAGTAAAGTATAATTAAAATCATTTATTAGTTTAATTT
66 AAAAAAATTAGTTAATTAGTTTTTTAGTAGTAAAGTATAATTAAAATCATTTATTAGTTTAATTT
155296 ATATTAAAGAATAGTTTATTAGTTAACGTTATATTAAAGAATAGTTAAAGTTATATTAAGTTTAT
131 ATATTAAAGAATAGTTTATTAGTTAACGTTATATTAAAGAATAGTTAAAGTTATATTAAGTTTAT
155361 TATTATAAATTAGGGTAAAACAA-AAATTAGTTATTAGTTTTGTTAGTTTAAGTTATATTATT-G
196 TATTATAAATTAGGGTAAAACAACAAATTAGTTA--A-TTTT-TTAGTTTAAGTTATATTATTGG
155424 TTAG-TTAAGTATATCATATAGAAATAAAAA-ATTTAATTAGCATGTTTGATAGTTACATATTAA
257 TTAGTTTAAGT-TATCATATAGAAATAAAAATATTTAATTAGCATGTTTGATAGTTACATATTAA
155487 TAAAAATATTTAGTTAGTTTGTTAGTCGTTAGTTATATAAAAA
321 TAAAAATATTTAGTTAGTTTGTTAGTCGTTAGTTATATAAAAA
*
155530 ATATGTAATTAGTTTGTGTAGTTAAATAGTTAAGTTATATTTGTTTGTTGAATTTATA-T-T-TA
1 ATATATAATTAGTTTGTGTAGTTAAATAGTTAAGTTATATTTGTTTGTTGAATTTATATTATATA
155592 AAAAAAATTAGTTAATTAGTTTTTTAGTAGTAAAGTATAATTAAAAATCATTTATTAGTTTAATT
66 AAAAAAATTAGTTAATTAGTTTTTTAGTAGTAAAGTATAATT-AAAATCATTTATTAGTTTAATT
155657 TATATTAAAGAATAGTTTATTAGTTAACGTTATATTAAAGAATAGTTAAAGTTATATTAA
130 TATATTAAAGAATAGTTTATTAGTTAACGTTATATTAAAGAATAGTTAAAGTTATATTAA
155717 AGAATAATTT
Statistics
Matches: 510, Mismatches: 15, Indels: 44
0.90 0.03 0.08
Matches are distributed among these distances:
353 44 0.09
354 2 0.00
355 14 0.03
356 22 0.04
357 13 0.03
358 21 0.04
359 19 0.04
360 8 0.02
361 48 0.09
362 88 0.17
363 19 0.04
364 157 0.31
365 7 0.01
366 28 0.05
367 20 0.04
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (363 bp):
ATATATAATTAGTTTGTGTAGTTAAATAGTTAAGTTATATTTGTTTGTTGAATTTATATTATATA
AAAAAAATTAGTTAATTAGTTTTTTAGTAGTAAAGTATAATTAAAATCATTTATTAGTTTAATTT
ATATTAAAGAATAGTTTATTAGTTAACGTTATATTAAAGAATAGTTAAAGTTATATTAAGTTTAT
TATTATAAATTAGGGTAAAACAACAAATTAGTTAATTTTTTAGTTTAAGTTATATTATTGGTTAG
TTTAAGTTATCATATAGAAATAAAAATATTTAATTAGCATGTTTGATAGTTACATATTAATAAAA
ATATTTAGTTAGTTTGTTAGTCGTTAGTTATATAAAAA
Found at i:155677 original size:30 final size:30
Alignment explanation
Indices: 155642--155703 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
155632 TTAAAAATCA
*
155642 TTTATTAGTTTAA-TTTATATTAAAGAATAG
1 TTTATTAG-TTAACGTTATATTAAAGAATAG
155672 TTTATTAGTTAACGTTATATTAAAGAATAG
1 TTTATTAGTTAACGTTATATTAAAGAATAG
155702 TT
1 TT
155704 AAAGTTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (30 bp):
TTTATTAGTTAACGTTATATTAAAGAATAG
Found at i:155702 original size:22 final size:22
Alignment explanation
Indices: 155677--155722 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
155667 AATAGTTTAT
*
155677 TAGTTAACGTTATATTAAAGAA
1 TAGTTAAAGTTATATTAAAGAA
155699 TAGTTAAAGTTATATTAAAGAA
1 TAGTTAAAGTTATATTAAAGAA
155721 TA
1 TA
155723 ATTTGTAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.13, T:0.37
Consensus pattern (22 bp):
TAGTTAAAGTTATATTAAAGAA
Found at i:157222 original size:25 final size:25
Alignment explanation
Indices: 157183--157231 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
157173 GTTCAAGTCG
*
157183 TAAATCAATACTATCAAATCATTAC
1 TAAATCAATAATATCAAATCATTAC
*
157208 TAAATCATTAATATCAAATCATTA
1 TAAATCAATAATATCAAATCATTA
157232 AATATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAATCAATAATATCAAATCATTAC
Found at i:157226 original size:14 final size:14
Alignment explanation
Indices: 157184--157232 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
157174 TTCAAGTCGT
* *
157184 AAATCAATACTATC
1 AAATCATTAATATC
*
157198 AAATCATT-A-CT-
1 AAATCATTAATATC
157209 AAATCATTAATATC
1 AAATCATTAATATC
157223 AAATCATTAA
1 AAATCATTAA
157233 ATATTAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
11 8 0.29
12 2 0.07
13 1 0.04
14 17 0.61
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATCATTAATATC
Found at i:157247 original size:21 final size:22
Alignment explanation
Indices: 157183--157241 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 22
157173 GTTCAAGTCG
* *
157183 TAAATCAATACTATCAAATCATT
1 TAAATCATTAATATCAAATCA-T
157206 ACTAAATCATTAATATCAAATCAT
1 --TAAATCATTAATATCAAATCAT
157230 TAAAT-ATTAATA
1 TAAATCATTAATA
157242 ATAAATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 7 0.22
22 5 0.16
24 1 0.03
25 19 0.59
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATCATTAATATCAAATCAT
Found at i:157252 original size:21 final size:22
Alignment explanation
Indices: 157203--157289 Score: 70
Period size: 22 Copynumber: 3.8 Consensus size: 22
157193 CTATCAAATC
*
157203 ATTACTAAATCATTAATATCAA
1 ATTATTAAATCATTAATATCAA
* *
157225 ATCATTAAAT-ATTAATAATAAA
1 ATTATTAAATCATTAAT-ATCAA
*
157247 TTATTATTACTAATCATTACTATCAA
1 --ATTATTA--AATCATTAATATCAA
*
157273 ATTATTAAA-AATTAATA
1 ATTATTAAATCATTAATA
157290 ATAATTTCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
21 12 0.24
22 14 0.27
24 13 0.25
26 7 0.14
27 5 0.10
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTATTAAATCATTAATATCAA
Found at i:157256 original size:49 final size:50
Alignment explanation
Indices: 157203--157551 Score: 341
Period size: 60 Copynumber: 6.5 Consensus size: 50
157193 CTATCAAATC
* *
157203 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAA-ATTATT
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATATTATT
*
157252 ATTACT-AATCATTACTATCAAATTATTAAAAATTAATAATAATTTCATTATTACTAAT
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAAT-A----A-TATTA-T--T
157310 CATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATT
1 -ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAA--T-ATTATT
*
157364 ACTAATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAAT-TTCATT
1 A-T--T-ACTA--AATCATTACTATCAAATCATTAAAAATTAATAATAATATT-ATT
157420 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAAT
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAAT-A----A-TATTA-T--T
157478 CATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAAT-TTCATT
1 -ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATATT-ATT
157529 ATTACT-AATCATTACTATCAAAT
1 ATTACTAAATCATTACTATCAAAT
157552 TACTATAAAA
Statistics
Matches: 260, Mismatches: 6, Indels: 68
0.78 0.02 0.20
Matches are distributed among these distances:
48 31 0.12
49 58 0.22
50 7 0.03
51 1 0.00
52 2 0.01
53 6 0.02
54 5 0.02
55 11 0.04
56 12 0.05
57 8 0.03
58 2 0.01
59 50 0.19
60 67 0.26
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (50 bp):
ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATATTATT
Found at i:157327 original size:60 final size:59
Alignment explanation
Indices: 157252--157606 Score: 561
Period size: 60 Copynumber: 6.1 Consensus size: 59
157242 ATAAATTATT
*
157252 ATTACTAATCATTACTATCAAATTATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
157311 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
157371 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T--T-
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
157420 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
157479 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* * *
157539 ATTACT-ATCAAATTACTATAAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
1 ATTACTAATC--ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
157599 ATTACTAA
1 ATTACTAA
157607 ATCTTATAAA
Statistics
Matches: 277, Mismatches: 4, Indels: 28
0.90 0.01 0.09
Matches are distributed among these distances:
49 46 0.17
50 1 0.00
52 1 0.00
53 1 0.00
55 1 0.00
56 1 0.00
58 4 0.01
59 52 0.19
60 169 0.61
61 1 0.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (59 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:157374 original size:10 final size:10
Alignment explanation
Indices: 157361--157387 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
157351 TAATTTCATT
157361 ATTACTAATC
1 ATTACTAATC
157371 ATTACTAATC
1 ATTACTAATC
157381 ATTACTA
1 ATTACTA
157388 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:157396 original size:24 final size:24
Alignment explanation
Indices: 157367--157447 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
157357 CATTATTACT
157367 AATCATTACTAATCATTACTATCA
1 AATCATTACTAATCATTACTATCA
** * * * **
157391 AATCATTAAAAATTAATAATAATTT
1 AATCATTACTAATCATTACT-ATCA
* *
157416 CATTATTACTAATCATTACTATCA
1 AATCATTACTAATCATTACTATCA
157440 AATCATTA
1 AATCATTA
157448 AAAATTAATA
Statistics
Matches: 38, Mismatches: 18, Indels: 2
0.66 0.31 0.03
Matches are distributed among these distances:
24 23 0.61
25 15 0.39
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.40
Consensus pattern (24 bp):
AATCATTACTAATCATTACTATCA
Found at i:157425 original size:39 final size:43
Alignment explanation
Indices: 157373--157465 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 43
157363 TACTAATCAT
157373 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
1 TACT-ATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
157417 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
1 -----TACT-ATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
157466 ATTATTACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (43 bp):
TACTATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
Found at i:157438 original size:168 final size:168
Alignment explanation
Indices: 157199--157605 Score: 719
Period size: 168 Copynumber: 2.4 Consensus size: 168
157189 AATACTATCA
* *
157199 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAATCA
1 AATCATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
*
157263 TTACTATCAAATTATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACT
65 TTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACT
157328 ATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
130 ATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
*
157367 AATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCAT
1 AATCATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCAT
157432 TACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTA
66 TACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTA
157497 TCAAATCATTAAAAATTAATAATAATTTCATTATTACT
131 TCAAATCATTAAAAATTAATAATAATTTCATTATTACT
* *
157535 AATCATTACT-ATCAAATTACTATAAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
1 AATCATTACTAATC--ATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
157599 ATTACTA
64 ATTACTA
157606 AATCTTATAA
Statistics
Matches: 229, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
167 39 0.17
168 137 0.60
169 53 0.23
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.41
Consensus pattern (168 bp):
AATCATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCAT
TACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTA
TCAAATCATTAAAAATTAATAATAATTTCATTATTACT
Found at i:160727 original size:26 final size:26
Alignment explanation
Indices: 160672--160728 Score: 93
Period size: 24 Copynumber: 2.3 Consensus size: 26
160662 TTTATATAAT
160672 CTAAT-ATATAACTTAAACTAACAAA
1 CTAATAATATAACTTAAACTAACAAA
160697 -T-ATAATATAACTTAAACTAACAAA
1 CTAATAATATAACTTAAACTAACAAA
160721 CTAATAAT
1 CTAATAAT
160729 TTACTAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 2 0.07
24 21 0.72
25 1 0.03
26 5 0.17
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (26 bp):
CTAATAATATAACTTAAACTAACAAA
Found at i:161596 original size:23 final size:23
Alignment explanation
Indices: 161566--161609 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
161556 TGTCCCATGC
161566 ACACGATCATATCATTCTCGATG
1 ACACGATCATATCATTCTCGATG
161589 ACACGATCATATCATTCTCGA
1 ACACGATCATATCATTCTCGA
161610 CCCTCGTCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (23 bp):
ACACGATCATATCATTCTCGATG
Found at i:163793 original size:2 final size:2
Alignment explanation
Indices: 163786--163822 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
163776 AGCTTAATCA
163786 AT AT AT AT AT AT A- 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 AT AT AT AT AT
163823 TCAATTTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:168274 original size:19 final size:19
Alignment explanation
Indices: 168240--168276 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
168230 TATGTAAAAC
*
168240 ATGCATGTATATATGATGT
1 ATGCATGTATACATGATGT
*
168259 ATGCATGTATGCATGATG
1 ATGCATGTATACATGATG
168277 CATGTTTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (19 bp):
ATGCATGTATACATGATGT
Found at i:168328 original size:19 final size:20
Alignment explanation
Indices: 168293--168339 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
168283 TACATGCGTG
*
168293 ACAT-TGTATGTATACATGT
1 ACATATGTATATATACATGT
168312 ACATATGTATATA-ACATGT
1 ACATATGTATATATACATGT
168331 ACATATGTA
1 ACATATGTA
168340 CATGCATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (20 bp):
ACATATGTATATATACATGT
Done.