Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 51
Found at i:6299 original size:27 final size:27
Alignment explanation
Indices: 6250--6304 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
6240 TATTGAATTT
*
6250 AAAATATTTTTTAAAATATAATAATAA
1 AAAATATTATTTAAAATATAATAATAA
* *
6277 AAAATATTAATTTAATATA-AATATTAA
1 AAAATATT-ATTTAAAATATAATAATAA
6304 A
1 A
6305 TCTATCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
AAAATATTATTTAAAATATAATAATAA
Found at i:10980 original size:22 final size:24
Alignment explanation
Indices: 10940--10990 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
10930 ATGATTACTT
*
10940 ATTTTTATATTAGTTAAAA-T-TA
1 ATTTATATATTAGTTAAAAGTATA
10962 ATTTATATATTA-TTAAAAAGTATA
1 ATTTATATATTAGTT-AAAAGTATA
10986 ATTTA
1 ATTTA
10991 ATTTAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 2 0.08
22 15 0.60
23 1 0.04
24 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTTATATATTAGTTAAAAGTATA
Found at i:12732 original size:21 final size:21
Alignment explanation
Indices: 12706--12750 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
12696 TCAGAAATAT
*
12706 TAAAAA-AATTAATGTTTTAGA
1 TAAAAATAA-TAATATTTTAGA
12727 TAAAAATAATAATATTTTAGA
1 TAAAAATAATAATATTTTAGA
12748 TAA
1 TAA
12751 TTTTTTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAGA
Found at i:17457 original size:22 final size:20
Alignment explanation
Indices: 17410--17469 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
17400 ATTCCCCTGT
17410 GGGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGGTT-CCC-TCAA
*
17432 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGGTTCCCTCAA
* *
17452 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
17470 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 19 0.54
21 3 0.09
22 13 0.37
ACGTcount: A:0.15, C:0.27, G:0.35, T:0.23
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:17468 original size:20 final size:20
Alignment explanation
Indices: 17390--17469 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 20
17380 ACAGAACCCA
*
17390 GGGGGTATCGATTCCC-C-T
1 GGGGGGATCGATTCCCTCAT
* *
17408 GTGGGGGAATCGGTTCCCCTTCAA
1 G-GGGGG-ATCGATT-CCC-TCAT
* *
17432 GGGGGAATCGGTTCCCTCAT
1 GGGGGGATCGATTCCCTCAT
17452 GGGGGGATCGATTCCCTC
1 GGGGGGATCGATTCCCTC
17470 TGCACCAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
18 1 0.02
19 4 0.08
20 25 0.51
21 6 0.12
22 7 0.14
23 5 0.10
24 1 0.02
ACGTcount: A:0.14, C:0.26, G:0.35, T:0.25
Consensus pattern (20 bp):
GGGGGGATCGATTCCCTCAT
Found at i:21226 original size:22 final size:21
Alignment explanation
Indices: 21184--21223 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21174 GAGTTTGTTT
*
21184 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
21205 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
21224 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:23706 original size:31 final size:31
Alignment explanation
Indices: 23670--23728 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
23660 AACTTAAAAG
* * *
23670 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTAAAATTTAAATAATTTT
23701 AGTTTTACAATACTAAAATTTAAATAAT
1 AGTTTTACAATACTAAAATTTAAATAAT
23729 CGATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTAAAATTTAAATAATTTT
Found at i:23776 original size:19 final size:20
Alignment explanation
Indices: 23752--23790 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
23742 ATATAAATTA
23752 TTTAAAATAAATC-ATCCAT
1 TTTAAAATAAATCAATCCAT
23771 TTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
23791 ACTAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTAAAATAAATCAATCCAT
Found at i:23799 original size:37 final size:32
Alignment explanation
Indices: 23771--24570 Score: 307
Period size: 31 Copynumber: 28.4 Consensus size: 32
23761 AATCATCCAT
23771 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
23803 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* *
23833 --T--AATAAATCAATCCATATTTTAAAATAAATCA
1 TTTAAAATAAATCAATCCATA--CT--AATAAATTA
** * * ** * * *
23865 TCCATAATAAAT-TATTTAAAATAGATCATCCAT-A
1 TTTAAAATAAATCAATCCATACTA-AT-A--AATTA
23899 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 TT-TAAAATAAATCAATCCATACTAATAAATTA
*
23932 TTTAAAATAAATCAATCCATACTAATACA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
** *
23962 TTT--AATAAATCAATCCATA-TTTTCAA-TA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
23990 TTT-GAAT-AATCAATCTATACTAAT-AATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24019 -TTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
24040 TTTAAAAT-AATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24071 TTT-AAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24092 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24124 TTT-AAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24145 TTTAAAAT-AATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24176 TTTAAAAT-AATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
24197 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
24229 TTTAAAATAAATCAATCTATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
24259 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
24277 TTTAAAATAAATCAATACATACTAAT-AATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
24308 TTTAAAATAAAT-AA---AT--TCAT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24330 TTTAAAAT-AATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
24361 TTTAAAATAAATCAATTCATACCAA-AAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
24392 TTTAAAATAAATCAATCCATAC-AGCTACA--A
1 TTTAAAATAAATCAATCCATACTA-ATAAATTA
* **
24422 --T--AATAAATCAATCTATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24447 -------TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24472 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24494 TTTAAAAT-AATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
24525 TTT-AAATAAATCAATCCATATTTATAATAATTTA
1 TTTAAAATAAATCAATCCATA---CTAATAAATTA
24559 TTTAAAATAAAT
1 TTTAAAATAAAT
24571 TATTTTATAA
Statistics
Matches: 592, Mismatches: 52, Indels: 245
0.67 0.06 0.28
Matches are distributed among these distances:
20 1 0.00
21 38 0.06
22 80 0.14
23 14 0.02
24 6 0.01
25 20 0.03
26 50 0.08
27 17 0.03
28 43 0.07
29 14 0.02
30 36 0.06
31 109 0.18
32 107 0.18
33 5 0.01
34 15 0.03
35 24 0.04
36 13 0.02
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:23869 original size:21 final size:22
Alignment explanation
Indices: 23834--23920 Score: 88
Period size: 21 Copynumber: 3.7 Consensus size: 22
23824 CAACTACAAT
23834 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
23856 AATAAATC-ATCCATAATAAATTATTTAA
1 AATAAATCAATCC---AT--A-T-TTTAA
*
23884 AATAGATC-ATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
23905 AATAAATCAATCCATA
1 AATAAATCAATCCATA
23921 CTAATAAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
21 16 0.29
22 16 0.29
23 1 0.02
24 2 0.04
25 2 0.04
26 1 0.02
27 1 0.02
28 16 0.29
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (22 bp):
AATAAATCAATCCATATTTTAA
Found at i:23883 original size:28 final size:29
Alignment explanation
Indices: 23851--24628 Score: 215
Period size: 28 Copynumber: 28.4 Consensus size: 29
23841 CAATCCATAT
23851 TTTAAAATAAATC-ATCCATAATAAATTA
1 TTTAAAATAAATCAATCCATAATAAATTA
*
23879 TTTAAAATAGATC-ATCC---AT--A-T-
1 TTTAAAATAAATCAATCCATAATAAATTA
23900 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCC--A-TAATAAATTA
* **
23932 TTTAAAATAAATCAATCCATACTAATACAA
1 TTTAAAATAAATCAATCCATAATAA-ATTA
* *
23962 TTT--AATAAATCAATCCATATTTTCAA-TA
1 TTTAAAATAAATCAATCCATA--ATAAATTA
* * *
23990 TTT-GAAT-AATCAATCTATACTAATAATTA
1 TTTAAAATAAATCAATCCATAAT-A-AATTA
24019 -TTAAAATAAATCAATCCAT-AT---TT-
1 TTTAAAATAAATCAATCCATAATAAATTA
** * * *
24042 TAAAATAATCAATCTATAC-TAATAAATTA
1 TTTAA-AATAAATCAATCCATAATAAATTA
24071 TTT-AAATAAATCAATCC---AT--A-T-
1 TTTAAAATAAATCAATCCATAATAAATTA
24092 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCC--A-TAATAAATTA
24124 TTT-AAATAAATCAATCCAT-AT---TT-
1 TTTAAAATAAATCAATCCATAATAAATTA
** * * *
24147 TAAAATAATCAATCCATAC-TAATAAATTA
1 TTTAA-AATAAATCAATCCATAATAAATTA
24176 TTTAAAAT-AATCAATCC---AT--A-T-
1 TTTAAAATAAATCAATCCATAATAAATTA
*
24197 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAA-TC-CA-TAATAAATTA
*
24229 TTTAAAATAAATCAAT-C-T-ATACAACTA
1 TTTAAAATAAATCAATCCATAATA-AATTA
*
24256 --CAATAATAAATCAATCC---AT--A-T-
1 TTTAA-AATAAATCAATCCATAATAAATTA
* *
24277 TTTAAAATAAATCAATACATACTAATAATTA
1 TTTAAAATAAATCAATCCATAAT-A-AATTA
* *
24308 TTTAAAATAAATAAATTCAT-AT---TT-
1 TTTAAAATAAATCAATCCATAATAAATTA
** * * *
24332 TAAAATAATCAATCCATAC-TAATAAATTA
1 TTTAA-AATAAATCAATCCATAATAAATTA
* *
24361 TTTAAAATAAATCAATTCATACCAAAAATTA
1 TTTAAAATAAATCAATCCATA--ATAAATTA
* **
24392 TTTAAAATAAATCAATCCAT-A-CAGCTA
1 TTTAAAATAAATCAATCCATAATAAATTA
*
24419 --CAATAATAAATCAAT-C-T-AT--A-T-
1 TTTAA-AATAAATCAATCCATAATAAATTA
24440 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCC--A-TAATAAATTA
24472 TTTAAAATAAATCAATCCAT-AT---TT-
1 TTTAAAATAAATCAATCCATAATAAATTA
** * * *
24496 TAAAATAATCAATCCATAC-TAATAAATTA
1 TTTAA-AATAAATCAATCCATAATAAATTA
24525 TTT-AAATAAATCAATCCATATTTATAATAATTTA
1 TTTAAAATAAATCAATCCATA---AT-A-AA-TTA
* * **
24559 TTTAAAATAAATTATTTTATAATAAA-TA
1 TTTAAAATAAATCAATCCATAATAAATTA
* * **
24587 TTTTAAAATAAATTATTTTATAATAAATTA
1 -TTTAAAATAAATCAATCCATAATAAATTA
*
24617 TTTTAAATAAAT
1 TTTAAAATAAAT
24629 AAACTTATTA
Statistics
Matches: 564, Mismatches: 77, Indels: 217
0.66 0.09 0.25
Matches are distributed among these distances:
21 23 0.04
22 52 0.09
23 12 0.02
24 19 0.03
25 63 0.11
26 28 0.05
27 39 0.07
28 90 0.16
29 65 0.12
30 29 0.05
31 66 0.12
32 57 0.10
33 2 0.00
34 6 0.01
35 13 0.02
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (29 bp):
TTTAAAATAAATCAATCCATAATAAATTA
Found at i:23884 original size:76 final size:75
Alignment explanation
Indices: 23757--23898 Score: 209
Period size: 76 Copynumber: 1.9 Consensus size: 75
23747 AATTATTTAA
23757 AATAAATCATCCATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA
1 AATAAATCATCCATTTTAAAATAAATCAATCCA-ACTAATAAATTATTTAAAATAAATC-ATCCA
23822 TACAACTACAAT
64 TACAACTACAAT
*
23834 AATAAATCAATCCATATTTTAAAATAAATC-ATCC-A-TAATAAATTATTTAAAATAGATCATCC
1 AATAAATC-ATCC--ATTTTAAAATAAATCAATCCAACTAATAAATTATTTAAAATAAATCATCC
23896 ATA
63 ATA
23899 TTTTAAAATA
Statistics
Matches: 61, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
75 7 0.11
76 22 0.36
77 9 0.15
78 4 0.07
79 4 0.07
80 15 0.25
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.32
Consensus pattern (75 bp):
AATAAATCATCCATTTTAAAATAAATCAATCCAACTAATAAATTATTTAAAATAAATCATCCATA
CAACTACAAT
Found at i:23905 original size:49 final size:53
Alignment explanation
Indices: 23834--23952 Score: 192
Period size: 53 Copynumber: 2.3 Consensus size: 53
23824 CAACTACAAT
23834 AATAAATCAATCCATATTTTAAAATAAATC-ATCC-A-TAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCAACTAATAAATTATTTAA
*
23884 AATAGATC-ATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCA-ACTAATAAATTATTTAA
23937 AATAAATCAATCCATA
1 AATAAATCAATCCATA
23953 CTAATACAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
49 21 0.34
50 11 0.18
52 1 0.02
53 22 0.35
54 7 0.11
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.34
Consensus pattern (53 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCAACTAATAAATTATTTAA
Found at i:23928 original size:18 final size:18
Alignment explanation
Indices: 23905--23958 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
23895 CATATTTTAA
23905 AATAAATCAATCCATACT
1 AATAAATCAATCCATACT
* * *
23923 AATAAAT-TAT--TTA-A
1 AATAAATCAATCCATACT
23937 AATAAATCAATCCATACT
1 AATAAATCAATCCATACT
23955 AATA
1 AATA
23959 CAATTTAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
14 7 0.27
15 4 0.15
17 4 0.15
18 11 0.42
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (18 bp):
AATAAATCAATCCATACT
Found at i:24014 original size:25 final size:25
Alignment explanation
Indices: 23986--24065 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 25
23976 CCATATTTTC
*
23986 AATATTTGAATAATCAATCTATACT
1 AATATTTAAATAATCAATCTATACT
*
24011 AATAATTATTAAAATAAATCAATCCATA-T
1 AAT-A-T-TT-AAAT-AATCAATCTATACT
*
24040 --T-TTAAAATAATCAATCTATACT
1 AATATTTAAATAATCAATCTATACT
24062 AATA
1 AATA
24066 AATTATTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 11 0.26
22 5 0.12
23 1 0.02
24 2 0.05
25 3 0.07
26 1 0.02
27 2 0.05
28 2 0.05
29 4 0.10
30 11 0.26
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (25 bp):
AATATTTAAATAATCAATCTATACT
Found at i:24114 original size:53 final size:53
Alignment explanation
Indices: 23932--24245 Score: 453
Period size: 52 Copynumber: 5.9 Consensus size: 53
23922 TAATAAATTA
*
23932 TTTAAAATAAATCAATCCATACTAATACA--ATTT-AATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATAT
* * *
23982 TTTCAATATTTGAATAATCAATCTATACTAAT-AATTATTAAAATAAATCAATCCATAT
1 TTT-AA-A-AT--A-AATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATAT
*
24040 TTTAAAAT-AATCAATCTATACTAATAAATTATTTAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATAT
24092 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATAT
24145 TTTAAAAT-AATCAATCCATACTAATAAATTATTTAAA-ATAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATA-AATCAATCCATAT
*
24197 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTT-AAATAAATCAATC
24246 TATACAACTA
Statistics
Matches: 241, Mismatches: 8, Indels: 26
0.88 0.03 0.09
Matches are distributed among these distances:
50 3 0.01
51 20 0.08
52 84 0.35
53 77 0.32
54 11 0.05
55 4 0.02
56 17 0.07
57 5 0.02
58 20 0.08
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (53 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATAT
Found at i:24121 original size:22 final size:21
Alignment explanation
Indices: 24073--24121 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
24063 ATAAATTATT
**
24073 TAAATAAATCAATCCATATTT
1 TAAATAAATCAATCCATATAA
24094 TAAAATAAATCAATCCATACTAA
1 T-AAATAAATCAATCCATA-TAA
24117 TAAAT
1 TAAAT
24122 TATTTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.88
23 2 0.08
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATAAATCAATCCATATAA
Found at i:24141 original size:105 final size:105
Alignment explanation
Indices: 23744--24245 Score: 462
Period size: 105 Copynumber: 4.7 Consensus size: 105
23734 CAACTACAAT
23744 ATAAATTATTTAAAATAAATC-ATCC--ATTTTAAAATAAATCAATCCATACTAATAAATTATTT
1 ATAAATTATTT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
*** * * * *
23806 AAAATAAATCAATCCATACAACTACAATAATAAATCAAT-C-C
65 -AAATAAATCAATCCATA-TTTTAAAATAATCAATCCATACTA
* * **
23847 AT--ATT-TTAAAATAAATC-ATCCATAATAAATTATTTAAAATAGATC-ATCCATA-TTTTAAA
1 ATAAATTATTTAAATAAATCAATCC---AT--A-T-TTTAAAATAAATCAATCCATACTAATAAA
* ** * ** **
23906 ATAAATCAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATACTA
59 TTATTTAAATAAAT-C-AATCCATAT-TTTAAAAT-AATCAATCCATACTA
* * *
23956 ATACA--ATTT-AATAAATCAATCCATATTTTCAATATTTGAATAATCAATCTATACTAAT-AAT
1 ATAAATTATTTAAATAAATCAATCCATATTTT-AA-A-AT--A-AATCAATCCATACTAATAAAT
* *
24017 TATTAAAATAAATCAATCCATATTTTAAAATAATCAATCTATACTA
60 TATTTAAATAAATCAATCCATATTTTAAAATAATCAATCCATACTA
24063 ATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
1 ATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
24128 AATAAATCAATCCATATTTTAAAATAATCAATCCATACTA
66 AATAAATCAATCCATATTTTAAAATAATCAATCCATACTA
*
24168 ATAAATTATTTAAA-ATAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTT
1 ATAAATTATTTAAATA-AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
24232 AAAATAAATCAATC
65 -AAATAAATCAATC
24246 TATACAACTA
Statistics
Matches: 324, Mismatches: 41, Indels: 65
0.75 0.10 0.15
Matches are distributed among these distances:
99 13 0.04
100 2 0.01
101 3 0.01
103 5 0.02
104 20 0.06
105 116 0.36
106 29 0.09
107 43 0.13
108 28 0.09
109 21 0.06
110 41 0.13
111 3 0.01
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (105 bp):
ATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
AATAAATCAATCCATATTTTAAAATAATCAATCCATACTA
Found at i:24173 original size:21 final size:21
Alignment explanation
Indices: 24126--24173 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
24116 ATAAATTATT
**
24126 TAAATAAATCAATCCATATTT
1 TAAATAAATCAATCCATATAA
24147 TAAA-ATAATCAATCCATACTAA
1 TAAATA-AATCAATCCATA-TAA
24169 TAAAT
1 TAAAT
24174 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATAAATCAATCCATATAA
Found at i:24201 original size:21 final size:22
Alignment explanation
Indices: 24176--24217 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24166 TAATAAATTA
24176 TTTAAAAT-AATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
24197 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
24218 CTAATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:24318 original size:185 final size:182
Alignment explanation
Indices: 23744--24381 Score: 638
Period size: 185 Copynumber: 3.5 Consensus size: 182
23734 CAACTACAAT
23744 ATAAATTATTTAAAATAAATC-ATCC--ATTTTAAAATAAATCAATCCATACTAATAAATTATTT
1 ATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
*** * * *
23806 AAAATAAATCAATCCATACAACTACAAT-AAT-AAATCAATCCATAT-TTTAAAATAAATC-ATC
66 AAAATAAATCAATCCATA-TTTTAAAATAAATCAATTC-ATCAATATATTTAAAATAAATCAATC
* *
23867 CAT--AATAAATTATTTAAAATAGATC-ATCCATATTTTAAAATAAATCAATCCATACTA
129 TATACAATAAA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTA
** ** *
23924 ATAAATTATTTAAAATAAATCAATCCATACTAATACAATTTAATAAATCAATCCATA-TTTTCAA
1 ATAAATTATTTAAAATAAATCAATCCATA-T--TTTAA---AATAAATCAATCCATACTAATAAA
* * *
23988 -TATTTGAATAATCAATCTATACTAATAATTATTAAAATAAATCAA-TC--C-ATAT-TTTAAAA
60 TTATTT-AA-AATAAATCAAT-C-CAT-ATT-TTAAAATAAATCAATTCATCAATATATTTAAAA
24047 T-AATCAATCTATACTAATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
119 TAAATCAATCTATAC-AATAAA--A--T-AATAAATCAATCCATATTTTAAAATAAATCAATCCA
24111 TACTA
178 TACTA
24116 ATAAATTATTT-AAATAAATCAATCCATATTTTAAAAT-AATCAATCCATACTAATAAATTATTT
1 ATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
24179 AAAAT-AATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA
66 AAAATAAATCAATCCATATTTTAAAATAAATCAATTCAT-C-AAT--A-TATTTAAAATAAATCA
* *
24243 ATCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATACATACTA
126 ATCTATACAA-TAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTA
* *
24301 AT-AATTATTTAAAATAAATAAATTCATATTTTAAAAT-AATCAATCCATACTAATAAATTATTT
1 ATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
*
24364 AAAATAAATCAATTCATA
66 AAAATAAATCAATCCATA
24382 CCAAAAATTA
Statistics
Matches: 394, Mismatches: 26, Indels: 70
0.80 0.05 0.14
Matches are distributed among these distances:
179 14 0.04
180 26 0.07
181 6 0.02
182 1 0.00
183 8 0.02
184 24 0.06
185 108 0.27
186 20 0.05
187 6 0.02
188 15 0.04
189 52 0.13
190 19 0.05
191 27 0.07
192 61 0.15
193 5 0.01
194 2 0.01
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (182 bp):
ATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
AAAATAAATCAATCCATATTTTAAAATAAATCAATTCATCAATATATTTAAAATAAATCAATCTA
TACAATAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTA
Found at i:24333 original size:53 final size:54
Alignment explanation
Indices: 24260--24547 Score: 346
Period size: 53 Copynumber: 5.4 Consensus size: 54
24250 CAACTACAAT
*
24260 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAAT-AATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
24313 AATAAATAAATTCATATTTTAAAAT-AATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * *
24366 AATAAATCAATTCATACCAAAAATTATTTAAAATAAATCAATCCATAC-AGCTACA--A--T--
1 AATAAATC-A---AT-CC--ATA-T-TTTAAAATAAATCAATCCATACTA-ATAAATTATTTAA
*
24423 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
24477 AATAAATCAATCCATATTTTAAAAT-AATCAATCCATACTAATAAATTATTT-A
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
24529 AATAAATCAATCCATATTT
1 AATAAATCAATCCATATTT
24548 ATAATAATTT
Statistics
Matches: 203, Mismatches: 13, Indels: 39
0.80 0.05 0.15
Matches are distributed among these distances:
48 25 0.12
49 2 0.01
50 3 0.01
52 38 0.19
53 68 0.33
54 25 0.12
56 1 0.00
57 10 0.05
58 1 0.00
59 1 0.00
60 2 0.01
61 2 0.01
62 9 0.04
63 16 0.08
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:24349 original size:21 final size:22
Alignment explanation
Indices: 24308--24349 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24298 CTAATAATTA
*
24308 TTTAAAATAAATAAATTCATAT
1 TTTAAAATAAATAAATCCATAT
*
24330 TTTAAAAT-AATCAATCCATA
1 TTTAAAATAAATAAATCCATA
24350 CTAATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATAAATCCATAT
Found at i:24442 original size:163 final size:165
Alignment explanation
Indices: 24197--24544 Score: 603
Period size: 163 Copynumber: 2.1 Consensus size: 165
24187 CAATCCATAT
* *
24197 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAA
1 TTTAAAATAAATCAATTCATACCAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
24262 TAAATCAATCCATATTTTAAAATAAATCAATACATACTAAT-AATTATTTAAAATAAATAAATTC
66 TAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATAAATCC
24326 ATATTTTAAAATAATCAATCCATACTAATAAATTA
131 ATATTTTAAAATAATCAATCCATACTAATAAATTA
*
24361 TTTAAAATAAATCAATTCATACCAA-AAATTATTTAAAATAAATCAATCCATACAGCTACAATAA
1 TTTAAAATAAATCAATTCATACCAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
* * *
24425 TAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
66 TAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATAAATCC
24490 ATATTTTAAAATAATCAATCCATACTAATAAATTA
131 ATATTTTAAAATAATCAATCCATACTAATAAATTA
*
24525 TTT-AAATAAATCAATCCATA
1 TTTAAAATAAATCAATTCATA
24545 TTTATAATAA
Statistics
Matches: 175, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
163 92 0.53
164 83 0.47
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (165 bp):
TTTAAAATAAATCAATTCATACCAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATAAATCC
ATATTTTAAAATAATCAATCCATACTAATAAATTA
Found at i:24444 original size:132 final size:137
Alignment explanation
Indices: 24092--24460 Score: 446
Period size: 132 Copynumber: 2.8 Consensus size: 137
24082 CAATCCATAT
* *
24092 TTTAAAATAAATCAATCCATACTAATAAATTATTT-AAATAAATCAATCCATATTTTAAAATAAT
1 TTTAAAATAAATCAATTCATACCAA-AAATTATTTAAAATAAATCAATCCATATTTTAAAATAAT
* *
24156 CAATCCATACTAATAAATTATTTAAAAT-AATCAATCCATATTTTAAAATAAATCAATTCATACT
65 CAATCAATACTAAT-AATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
24220 AATAAATTA
129 AATAAATTA
* *
24229 TTTAAAATAAATCAA-TCTATA-C---AACTA--CAATAATAAATCAATCCATATTTTAAAATAA
1 TTTAAAATAAATCAATTC-ATACCAAAAATTATTTAA-AATAAATCAATCCATATTTTAAAAT-A
* *
24287 ATCAAT-ACATACTAATAATTATTTAAAATAAATAAATTCATATTTTAAAAT-AATCAATCCATA
63 ATCAATCA-ATACTAATAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
24350 CTAATAAATTA
127 CTAATAAATTA
*** *
24361 TTTAAAATAAATCAATTCATACCAAAAATTATTTAAAATAAATCAATCCATACAGCTACAATAAT
1 TTTAAAATAAATCAATTCATACCAAAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAT
*
24426 AAATCAAT-CT-AT-A-T-TTTAAAATAAATCAATCCATA
65 CAATCAATACTAATAATTATTTAAAATAAATCAATCCATA
24461 CTAATAAATT
Statistics
Matches: 200, Mismatches: 17, Indels: 35
0.79 0.07 0.14
Matches are distributed among these distances:
131 1 0.00
132 101 0.50
133 38 0.19
134 1 0.00
135 2 0.01
136 7 0.04
137 42 0.21
138 8 0.04
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (137 bp):
TTTAAAATAAATCAATTCATACCAAAAATTATTTAAAATAAATCAATCCATATTTTAAAATAATC
AATCAATACTAATAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
TAAATTA
Found at i:24469 original size:22 final size:22
Alignment explanation
Indices: 24396--24469 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
24386 AAATTATTTA
24396 AAATAAATCAATCCATACAGCTACA-
1 AAATAAATCAATCCAT--A-CTA-AT
* **
24421 ATAATAAATCAATCTATA-TTTT
1 A-AATAAATCAATCCATACTAAT
24443 AAAATAAATCAATCCATACTAAT
1 -AAATAAATCAATCCATACTAAT
24466 AAAT
1 AAAT
24470 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
22 20 0.51
23 3 0.08
24 1 0.03
25 1 0.03
26 14 0.36
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.30
Consensus pattern (22 bp):
AAATAAATCAATCCATACTAAT
Found at i:24505 original size:21 final size:22
Alignment explanation
Indices: 24472--24513 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
24462 TAATAAATTA
24472 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
24494 TTTAAAAT-AATCAATCCATA
1 TTTAAAATAAATCAATCCATA
24514 CTAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:24522 original size:21 final size:22
Alignment explanation
Indices: 24474--24521 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
24464 ATAAATTATT
**
24474 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
24496 TAAAAT-AATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
24518 TAAA
1 TAAA
24522 TTATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:24562 original size:14 final size:15
Alignment explanation
Indices: 24545--24628 Score: 120
Period size: 14 Copynumber: 5.8 Consensus size: 15
24535 TCAATCCATA
*
24545 TTTATAATAATTTA-
1 TTTATAATAAATTAT
*
24559 TTTAAAATAAATTAT
1 TTTATAATAAATTAT
24574 TTTATAATAAA-TAT
1 TTTATAATAAATTAT
*
24588 TTTAAAATAAATTAT
1 TTTATAATAAATTAT
24603 TTTATAATAAATTAT
1 TTTATAATAAATTAT
24618 TTTA-AATAAAT
1 TTTATAATAAAT
24629 AAACTTATTA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
14 32 0.51
15 31 0.49
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTATAATAAATTAT
Found at i:24636 original size:29 final size:29
Alignment explanation
Indices: 24545--24650 Score: 137
Period size: 29 Copynumber: 3.7 Consensus size: 29
24535 TCAATCCATA
* *
24545 TTTATAATAATTTATTTAAAATAAATTAT
1 TTTATAATAAATTATTTTAAATAAATTAT
24574 TTTATAATAAA-TATTTTAAAATAAATTAT
1 TTTATAATAAATTATTTT-AAATAAATTAT
* *
24603 TTTATAATAAATTATTTTAAATAAATAAA
1 TTTATAATAAATTATTTTAAATAAATTAT
*
24632 CTTAT--TAAATTATTTTAAA
1 TTTATAATAAATTATTTTAAA
24651 ATTATTTTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
27 14 0.20
28 5 0.07
29 45 0.64
30 6 0.09
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTATAATAAATTATTTTAAATAAATTAT
Found at i:26010 original size:24 final size:24
Alignment explanation
Indices: 25967--26023 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
25957 ACGTTTGATA
* **
25967 TTTATATTTATATTATTATTTTTAT
1 TTTAT-TTTATATTAATATTTAAAT
*
25992 TTTATTTTATTTTAATATTTAAAT
1 TTTATTTTATATTAATATTTAAAT
26016 TTTATTTT
1 TTTATTTT
26024 TTAAAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTATTTTATATTAATATTTAAAT
Found at i:36813 original size:2 final size:2
Alignment explanation
Indices: 36806--36835 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36796 TTAGAATTCA
36806 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
36836 GATAGTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36997 original size:31 final size:31
Alignment explanation
Indices: 36962--37033 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
36952 TGTGAACACA
*
36962 TCACAAATTTGTGACAAATCCAGC-TATTTCG
1 TCACAAATTTGTGACAAATCCA-CATATTCCG
**
36993 TCACAAATTTGTGATGAATCCACATATTCCG
1 TCACAAATTTGTGACAAATCCACATATTCCG
*
37024 TCACAGATTT
1 TCACAAATTT
37034 TGAACCATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.33
Consensus pattern (31 bp):
TCACAAATTTGTGACAAATCCACATATTCCG
Found at i:40399 original size:22 final size:21
Alignment explanation
Indices: 40361--40401 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
40351 TGATCAAATA
40361 ATATTATTTTAGTATTTTTAT
1 ATATTATTTTAGTATTTTTAT
40382 ATATATATTTT-GTGATTTTT
1 ATAT-TATTTTAGT-ATTTTT
40402 TAGGTAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (21 bp):
ATATTATTTTAGTATTTTTAT
Found at i:41702 original size:25 final size:23
Alignment explanation
Indices: 41674--41738 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
41664 TATAAAAAGT
41674 AAAATAATATAAAATAAAGGGGAAG
1 AAAATAATATAAAATAAAGGGG--G
*
41699 AAAAAAATA-AAAAGTAAAAGGGGG
1 AAAATAATATAAAA-T-AAAGGGGG
41723 -AAATAA-ATAAAATAAA
1 AAAATAATATAAAATAAA
41739 AATGGAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
21 3 0.09
22 2 0.06
23 9 0.26
24 5 0.14
25 9 0.26
26 7 0.20
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (23 bp):
AAAATAATATAAAATAAAGGGGG
Found at i:43296 original size:18 final size:20
Alignment explanation
Indices: 43275--43320 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
43265 TATATTATAT
43275 AATATAAAT-TATAATG-TA
1 AATATAAATATATAATGTTA
*
43293 AATAT-ATTATATAATGTTA
1 AATATAAATATATAATGTTA
43312 AATGATAAA
1 AAT-ATAAA
43321 ATTTGGTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.09
18 12 0.55
19 5 0.23
20 2 0.09
21 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (20 bp):
AATATAAATATATAATGTTA
Found at i:43315 original size:25 final size:26
Alignment explanation
Indices: 43270--43320 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
43260 AAAAATATAT
43270 TATATAATATAAATTATAATG-TAAA
1 TATATAATATAAATTATAATGATAAA
* *
43295 TATATTATATAATGTTA-AATGATAAA
1 TATATAATATAA-ATTATAATGATAAA
43321 ATTTGGTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (26 bp):
TATATAATATAAATTATAATGATAAA
Found at i:47202 original size:30 final size:30
Alignment explanation
Indices: 47130--47204 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
47120 GAAAACCGAA
** *
47130 TTAAACGGGGACATGGAAAAACTGTTTATG
1 TTAAACGGGGACGGGGAAAAACCGTTTATG
* *
47160 CTAAATGGGGACGGGGAAAAACCGTTTATG
1 TTAAACGGGGACGGGGAAAAACCGTTTATG
47190 TTAAACGGGGACGGG
1 TTAAACGGGGACGGG
47205 TTTAGTAATC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21
Consensus pattern (30 bp):
TTAAACGGGGACGGGGAAAAACCGTTTATG
Found at i:47810 original size:2 final size:2
Alignment explanation
Indices: 47803--47890 Score: 176
Period size: 2 Copynumber: 44.0 Consensus size: 2
47793 TATGTTGGAA
47803 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
47845 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
47887 AT AT
1 AT AT
47891 TCTTTTAATG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51521 original size:43 final size:42
Alignment explanation
Indices: 51383--51542 Score: 105
Period size: 42 Copynumber: 3.8 Consensus size: 42
51373 AATGTTGCAG
* * * * *
51383 GTCATGTTATATAGC-A-GCATTTTCTCCCAAACGCCGCAAAAG
1 GTCATGTTATATAGCTACG-TTTTTATCCCAAAC-ACACAAAAA
* * * * *
51425 GTAATGTCATATAGCGACG-TTTTCTCCCAAACACA-ACAATA
1 GTCATGTTATATAGCTACGTTTTTATCCCAAACACACA-AAAA
* *
51466 GATCAAGCTATATAGCTACGTTTTTATCCCAAACATCACAAAAA
1 G-TCATGTTATATAGCTACGTTTTTATCCCAAACA-CACAAAAA
* *
51510 GTCATGTTATATAG-TGACGTTTTAATCACAAAC
1 GTCATGTTATATAGCT-ACGTTTTTATCCCAAAC
51543 GTCATAATTG
Statistics
Matches: 93, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
40 1 0.01
41 4 0.04
42 40 0.43
43 40 0.43
44 7 0.08
45 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.29
Consensus pattern (42 bp):
GTCATGTTATATAGCTACGTTTTTATCCCAAACACACAAAAA
Found at i:51685 original size:20 final size:20
Alignment explanation
Indices: 51660--51701 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
51650 ATATTCAAAA
51660 TCATTTCATTTT-CTTAATTT
1 TCATTTC-TTTTACTTAATTT
*
51680 TCATTTCTTTTACTTTATTT
1 TCATTTCTTTTACTTAATTT
51700 TC
1 TC
51702 TTTTTCCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (20 bp):
TCATTTCTTTTACTTAATTT
Found at i:56336 original size:14 final size:14
Alignment explanation
Indices: 56317--56352 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
56307 TAAGACTCCA
* *
56317 AAGAAAGAAAGAAG
1 AAGAAAAAAAGAAC
56331 AAGAAAAAAAGAAC
1 AAGAAAAAAAGAAC
56345 AAGAAAAA
1 AAGAAAAA
56353 GAATGAGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAGAAC
Found at i:57784 original size:22 final size:21
Alignment explanation
Indices: 57723--57798 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
57713 GAACTGGATA
* *
57723 GTATCGATAC-TCTTAGCTAG
1 GTATCGATACTTCTAAACTAG
* * *
57743 TGTATCGATATTTTTGAACTAG
1 -GTATCGATACTTCTAAACTAG
57765 GATATCGATACTTCTAAACTAGG
1 G-TATCGATACTTCTAAACTA-G
*
57788 GTACCGATACT
1 GTATCGATACT
57799 ACCCTGAGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
21 10 0.23
22 32 0.73
23 2 0.05
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (21 bp):
GTATCGATACTTCTAAACTAG
Found at i:59828 original size:54 final size:55
Alignment explanation
Indices: 59705--59848 Score: 254
Period size: 54 Copynumber: 2.6 Consensus size: 55
59695 ATTGTATGAG
* *
59705 TGTGTATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGCCATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGCAATT
59760 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTC-AAACATCGAATGCAATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGCAATT
*
59814 TGTGTATCGATACACTGAGGAGTGTATCGATACCC
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCC
59849 CTTGTTATGA
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
54 50 0.58
55 36 0.42
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (55 bp):
TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGCAATT
Found at i:66873 original size:54 final size:55
Alignment explanation
Indices: 66755--66888 Score: 200
Period size: 54 Copynumber: 2.5 Consensus size: 55
66745 TATGAGTGTG
* * *
66755 TACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGTCATTTGTGTATTGG
1 TACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGTCATTTGTGTATCGA
66810 TACACTGAGGAGTGTATCGATACCCTC-AAACATCGAATG-CAATTTGTGTATCGA
1 TACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGTC-ATTTGTGTATCGA
* *
66864 TACATTGAGGAGTGTATTGATACCC
1 TACACTGAGGAGTGTATCGATACCC
66889 CCTATTATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
53 1 0.01
54 46 0.63
55 26 0.36
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (55 bp):
TACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGTCATTTGTGTATCGA
Found at i:69401 original size:23 final size:21
Alignment explanation
Indices: 69375--69433 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
69365 CCCCTGTGGG
69375 GGGGGGATCGGTTCCCCTTCAAA
1 GGGGGGATCGGTTCCCC-TC-AA
* *
69398 GGGGGAATCGGTT-CCCTCAT
1 GGGGGGATCGGTTCCCCTCAA
*
69418 GGGGGGATCGATTCCC
1 GGGGGGATCGGTTCCC
69434 ACTGCACCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 12 0.39
21 4 0.13
22 3 0.10
23 12 0.39
ACGTcount: A:0.15, C:0.25, G:0.37, T:0.22
Consensus pattern (21 bp):
GGGGGGATCGGTTCCCCTCAA
Found at i:75799 original size:25 final size:25
Alignment explanation
Indices: 75764--75823 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
75754 CCCCGTCCCT
*
75764 GAACCCAACCCAAAATATTATACCC
1 GAACCCGACCCAAAATATTATACCC
* * * *
75789 GACCCCGACCCGAAATGTTGTACCC
1 GAACCCGACCCAAAATATTATACCC
75814 GAACCCGACC
1 GAACCCGACC
75824 TGATCCCGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.40, G:0.13, T:0.13
Consensus pattern (25 bp):
GAACCCGACCCAAAATATTATACCC
Found at i:76171 original size:2 final size:2
Alignment explanation
Indices: 76166--76192 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
76156 AAAATATAAA
76166 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
76193 ATCGGGGCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:77492 original size:20 final size:19
Alignment explanation
Indices: 77451--77494 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
77441 AATGATTTTC
*
77451 TTTTGAAAGAAAAAATAGA
1 TTTTGAAAGAAAAAATAAA
77470 TTTTGAAA-AACAAAATGAAA
1 TTTTGAAAGAA-AAAAT-AAA
77490 TTTTG
1 TTTTG
77495 GAGAATGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 2 0.09
19 13 0.59
20 7 0.32
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (19 bp):
TTTTGAAAGAAAAAATAAA
Found at i:79422 original size:19 final size:17
Alignment explanation
Indices: 79387--79426 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
79377 CACGAAAAGG
*
79387 AAAAAAATAGACTAAAT
1 AAAAAAATAGACAAAAT
79404 AAAAAAATAGAAACAAAAT
1 AAAAAAATAG--ACAAAAT
79423 AAAA
1 AAAA
79427 CATAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
19 10 0.50
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (17 bp):
AAAAAAATAGACAAAAT
Found at i:79545 original size:12 final size:12
Alignment explanation
Indices: 79528--79552 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79518 AGAAAATAAC
79528 AAATAAATAAAA
1 AAATAAATAAAA
79540 AAATAAATAAAA
1 AAATAAATAAAA
79552 A
1 A
79553 GAAAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAAATAAAA
Found at i:81584 original size:68 final size:67
Alignment explanation
Indices: 81457--81590 Score: 205
Period size: 68 Copynumber: 2.0 Consensus size: 67
81447 CTTTGTTGTG
* * * **
81457 AAGTTGAAATTGACTTTGAATGAAACTGAAAAGTTGTTTGTTAACAGTCAGTTGCCCCTTCGCTG
1 AAGTTAAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTAACAGTCAGCCGCCCCTTCGCTG
81522 TA
66 TA
*
81524 AAGTTAAAATTGACTCTGAATAAAACTGAAGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCT
1 AAGTTAAAATTGACTCTGAATAAAACTGAA-AAGTTGTTTGTTAACAGTCAGCCGCCCCTTCGCT
81589 GT
65 GT
81591 GAATTTGAGC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
67 27 0.45
68 33 0.55
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (67 bp):
AAGTTAAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTAACAGTCAGCCGCCCCTTCGCTG
TA
Found at i:90034 original size:20 final size:22
Alignment explanation
Indices: 89999--90038 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
89989 TACGAATGTA
89999 AAAACATGGAAAATATAAAAAT
1 AAAACATGGAAAATATAAAAAT
90021 AAAACAT-G-AAATATAAAA
1 AAAACATGGAAAATATAAAA
90039 TGCAAAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAACATGGAAAATATAAAAAT
Found at i:104153 original size:27 final size:25
Alignment explanation
Indices: 104091--104154 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 25
104081 TTAAAATTTA
*
104091 ATAAATAAATAAATAATAATAATAAT
1 ATAAATAAA-AAATAATAATAATAAC
*
104117 ATAACCT--AAAATAATAATAAATAAC
1 ATAA-ATAAAAAATAATAAT-AATAAC
104142 ATAAATAATAAAA
1 ATAAATAA-AAAA
104155 ACTATATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
24 11 0.37
25 10 0.33
26 4 0.13
27 5 0.17
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.27
Consensus pattern (25 bp):
ATAAATAAAAAATAATAATAATAAC
Found at i:104224 original size:2 final size:2
Alignment explanation
Indices: 104217--104244 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
104207 TTTTAAAAAC
104217 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
104245 GTTTTTTTAA
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):
TA
Found at i:104353 original size:15 final size:15
Alignment explanation
Indices: 104333--104361 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
104323 ATATATACTA
104333 AATAGACCCCAAACG
1 AATAGACCCCAAACG
104348 AATAGACCCCAAAC
1 AATAGACCCCAAAC
104362 AAAAATAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.34, G:0.10, T:0.07
Consensus pattern (15 bp):
AATAGACCCCAAACG
Found at i:104446 original size:12 final size:12
Alignment explanation
Indices: 104408--104457 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
104398 CAAATGTTGT
104408 TATATTATATAA
1 TATATTATATAA
104420 TATA-TAT-T--
1 TATATTATATAA
104428 TATATTATA-AA
1 TATATTATATAA
104439 TCATATTATATAA
1 T-ATATTATATAA
104452 TATATT
1 TATATT
104458 CATCTATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
8 4 0.12
9 3 0.09
10 1 0.03
11 4 0.12
12 17 0.53
13 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATTATATAA
Found at i:108682 original size:3 final size:3
Alignment explanation
Indices: 108674--108722 Score: 80
Period size: 3 Copynumber: 15.7 Consensus size: 3
108664 CTGTTTGTAT
108674 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA
108721 TT
1 TT
108723 TTTTTAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:108733 original size:3 final size:3
Alignment explanation
Indices: 108727--108791 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
108717 ATTATTTTTT
* * * *
108727 TAA TAA TAA TAC TATA TATA TAA TTA TAA TAA TAA TAA TTA TGA TAA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
108774 TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
108792 AATGGGTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:109054 original size:17 final size:17
Alignment explanation
Indices: 109032--109090 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
109022 TTGAATAAGC
109032 TCTTCTTATTATGAACT
1 TCTTCTTATTATGAACT
* *
109049 TCTTCTTCTCCTGATG-AGT
1 TCTTCTTAT--T-ATGAACT
*
109068 TCTTCTCATTATGAACT
1 TCTTCTTATTATGAACT
109085 TCTTCT
1 TCTTCT
109091 AGAAAAGTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 3 0.09
17 17 0.52
19 10 0.30
20 3 0.09
ACGTcount: A:0.17, C:0.24, G:0.08, T:0.51
Consensus pattern (17 bp):
TCTTCTTATTATGAACT
Found at i:109218 original size:113 final size:112
Alignment explanation
Indices: 109015--110360 Score: 2108
Period size: 113 Copynumber: 11.9 Consensus size: 112
109005 TAGAGTCATT
* ** * * *
109015 CAAAAGGTTGAATAAGCTCTTCTTATTATGAACTTC-T--T-CTTCTCCTGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* * * *
109076 TTATGAACTTCTTCTAGAAAAGTTGATCCATCAAGTGATGGATTTGAG
66 TTATGAAC-TCATCTGGAAAAGTTAATCCATCAAGTGATAGATTTGAG
* *
109124 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* * *
109189 TTATGAACTCGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTC-ATCTGGAAAAGTTAATCCATCAAGTGATAGATTTGAG
109237 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* * *
109302 TTATGAACTCGATTTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTC-ATCTGGAAAAGTTAATCCATCAAGTGATAGATTTGAG
*
109350 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* * *
109415 TTATGAACTCGATTTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTC-ATCTGGAAAAGTTAATCCATCAAGTGATAGATTTGAG
109463 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAAGTAATGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTC-AG--ATGAGTTCTTC
** *
109528 TCATTATGAACTC-TACTTGGAAATTTTAATCCATCAAGTGATAAATTTGAG
63 TCATTATGAACTCAT-C-TGGAAAAGTTAATCCATCAAGTGATAGATTTGAG
109579 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* *
109644 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTC-ATCTGGAAAAGTTAATCCATCAAGTGATAGATTTGAG
109692 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* *
109757 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTC-ATCTGGAAAAGTTAATCCATCAAGTGATAGATTTGAG
*
109805 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTTTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* * *
109870 TTATGAACTTCCTCTAGAAAAGTTGATCCATCAAGTGATAGATTTGAG
66 TTATGAAC-TCATCTGGAAAAGTTAATCCATCAAGTGATAGATTTGAG
109918 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* * * *
109983 TTATAAACTTCCTCTGGAAAATTTGATCCATCAAGTGATAGATTTGAG
66 TTATGAAC-TCATCTGGAAAAGTTAATCCATCAAGTGATAGATTTGAG
110031 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* *
110096 TTATGAACTTCCTCTGGAAAAGTTGATCCATCAAGTGATAGATTTGAG
66 TTATGAAC-TCATCTGGAAAAGTTAATCCATCAAGTGATAGATTTGAG
110144 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* *
110209 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTC-ATCTGGAAAAGTTAATCCATCAAGTGATAGATTTGAG
*
110257 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAAATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* * *
110322 TTATGAACTTCCTCTGGAAAAGCTGATCCATCAAGTGAT
66 TTATGAAC-TCATCTGGAAAAGTTAATCCATCAAGTGAT
110361 GAATTTAAAT
Statistics
Matches: 1172, Mismatches: 50, Indels: 26
0.94 0.04 0.02
Matches are distributed among these distances:
109 31 0.03
110 1 0.00
112 5 0.00
113 1023 0.87
114 8 0.01
115 2 0.00
116 102 0.09
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (112 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCATCTGGAAAAGTTAATCCATCAAGTGATAGATTTGAG
Found at i:111234 original size:83 final size:83
Alignment explanation
Indices: 111090--111723 Score: 1126
Period size: 83 Copynumber: 7.6 Consensus size: 83
111080 GGTTCCTACT
* * *
111090 AAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATT-ACTCTTCTAAA
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA-TCTTCCAAA
111154 TTCAATGATTGGTTCTGCC
65 TTCAATGATTGGTTCTGCC
* * * *
111173 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCTAATT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
111238 TCAATGATTGGTTCTGCC
66 TCAATGATTGGTTCTGCC
*
111256 AAACCATATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
111321 TCAATGATTGGTTCTGCC
66 TCAATGATTGGTTCTGCC
111339 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
111404 TCAATGATTGGTTCTGCC
66 TCAATGATTGGTTCTGCC
* * * *
111422 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGGGCATATTCATCTTCCAATT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
111487 TCAATGATTGGTTCTGCC
66 TCAATGATTGGTTCTGCC
111505 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
*
111570 TCAATGATTGGCTCTGCC
66 TCAATGATTGGTTCTGCC
111588 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
*
111653 TCAATGATTGGCTCTGCC
66 TCAATGATTGGTTCTGCC
111671 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
111724 GCATTTGTTC
Statistics
Matches: 532, Mismatches: 18, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
83 531 1.00
84 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (83 bp):
AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
TCAATGATTGGTTCTGCC
Found at i:124314 original size:15 final size:16
Alignment explanation
Indices: 124280--124312 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
124270 AAAAATATTT
124280 AAATATAAAACAAGTA
1 AAATATAAAACAAGTA
124296 AAAT-TAAAACAA-TA
1 AAATATAAAACAAGTA
124310 AAA
1 AAA
124313 ATACAACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 8 0.47
16 4 0.24
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (16 bp):
AAATATAAAACAAGTA
Found at i:125607 original size:3 final size:3
Alignment explanation
Indices: 125599--125639 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
125589 CTGTTTGTAT
125599 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
125640 TTTAATAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:125648 original size:3 final size:3
Alignment explanation
Indices: 125642--125706 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
125632 TTATTATTTT
* * * *
125642 TAA TAA TAA TAC TATA TATA TAA TTA TAA TAA TAA TAA TTA TGA TAA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
125689 TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
125707 AATGGGTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:130639 original size:39 final size:39
Alignment explanation
Indices: 130581--130660 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
130571 AATAAAAAAG
* *
130581 AAGATTTTGTCTCGTTTGAGATAGGTTCCGTCGAAACAA
1 AAGATTTTATCTCGTTTGAGATAGGTTCCCTCGAAACAA
* *
130620 AAGATTTTATCTC-TCTTGAGATAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGT-TTGAGATAGGTTCCCTCGAAACAA
130659 AA
1 AA
130661 TTTTGTCTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 35 0.97
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (39 bp):
AAGATTTTATCTCGTTTGAGATAGGTTCCCTCGAAACAA
Found at i:130770 original size:65 final size:65
Alignment explanation
Indices: 130643--131088 Score: 265
Period size: 65 Copynumber: 6.5 Consensus size: 65
130633 TCTTGAGATA
* * *
130643 GTTTCCCTTGAAACAAAATTTTGTCTCCCTAGAGACAATTTCTCTTGAAACATAAA-CATTGAAA
1 GTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAATCTTTGAAA
130707 AC
64 AC
* * * * *
130709 ATTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAAATCTTTGAATAT
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAAAAC
* * * * * * **
130774 GTTTTACATT-AAACAAATTTCGTCTCCCTTGGGACAGCTTCTTTTGAAACTAAGTTTTGTCTCT
1 G-TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AA------AATCT
*
130838 CTTG-AGAC
58 -TTGAAAAC
* * * * *
130846 TGTTTCTCTCGAAACAAATTTTGTCTTTGTCTTTCTTGAGACAGTTTCTCTTGAGATAAATTTTG
1 -GTTTCCCTTGAAACAAATTTTGTC----TC--CCTTGAGACAGTTTCTCTTGAAACAAA-----
*
130911 TCTCTCTTGAAATA-
54 -ATCT-TTGAAA-AC
* * *
130925 GTTTCTCTTGAAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACATAAA-CATTGAAA
1 GTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAATCTTTGAAA
130989 AC
64 AC
* * * * * *
130991 GTTTCCCTTGAAACAATTTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAAAAC
* * * *
131056 GTTTTACATT-AAACAAATTTCGTCTCCATTGAG
1 G-TTTCCCTTGAAACAAATTTTGTCTCCCTTGAG
131089 GCATCTTCTT
Statistics
Matches: 292, Mismatches: 57, Indels: 63
0.71 0.14 0.15
Matches are distributed among these distances:
64 6 0.02
65 133 0.46
66 46 0.16
67 1 0.00
72 9 0.03
73 38 0.13
74 2 0.01
75 2 0.01
77 2 0.01
78 23 0.08
79 29 0.10
80 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (65 bp):
GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAAAAC
Found at i:130893 original size:42 final size:42
Alignment explanation
Indices: 130829--130913 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
130819 GAAACTAAGT
*
130829 TTTGTCTCTCTTGAGACTGTTTCTCTCGAAACAAATTTTGTC
1 TTTGTCTCTCTTGAGACAGTTTCTCTCGAAACAAATTTTGTC
* * * *
130871 TTTGTCTTTCTTGAGACAGTTTCTCTTGAGATAAATTTTGTC
1 TTTGTCTCTCTTGAGACAGTTTCTCTCGAAACAAATTTTGTC
130913 T
1 T
130914 CTCTTGAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (42 bp):
TTTGTCTCTCTTGAGACAGTTTCTCTCGAAACAAATTTTGTC
Found at i:130920 original size:78 final size:80
Alignment explanation
Indices: 130801--130950 Score: 207
Period size: 78 Copynumber: 1.9 Consensus size: 80
130791 TTTCGTCTCC
* * * *
130801 CTTGGGACAGCTTCTTTTGAAACTAAGTTTTGTCTCTCTTGAGACT-GTTTCTCTCGAAAC-AAA
1 CTTGAGACAGCTTCTCTTGAAACTAAATTTTGTCTCTCTTGA-AATAGTTTCTCTCGAAACAAAA
130864 TTTTGTCTTTGTCTTT
65 TTTTGTCTTTGTCTTT
* * *
130880 CTTGAGACAGTTTCTCTTGAGA-TAAATTTTGTCTCTCTTGAAATAGTTTCTCTTGAAACAAAAT
1 CTTGAGACAGCTTCTCTTGAAACTAAATTTTGTCTCTCTTGAAATAGTTTCTCTCGAAACAAAAT
130944 TTTGTCT
66 TTTGTCT
130951 CCCTAGAGAC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
77 2 0.03
78 31 0.50
79 29 0.47
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (80 bp):
CTTGAGACAGCTTCTCTTGAAACTAAATTTTGTCTCTCTTGAAATAGTTTCTCTCGAAACAAAAT
TTTGTCTTTGTCTTT
Found at i:130976 original size:37 final size:36
Alignment explanation
Indices: 130784--130976 Score: 188
Period size: 37 Copynumber: 5.1 Consensus size: 36
130774 GTTTTACATT
* * * * *
130784 AAACAAATTTCGTCTCCCTTGGGACAGCTTCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
130820 AAACTAAGTTTTGTCTCTCTTGAGACTGTTTCTCTCG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
130857 AAACAAATTTTGTCTTTGTCTTTCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTC----TC--TCTTGAGACAGTTTCTCTTG
* * * *
130899 AGATAAATTTTGTCTCTCTTGAAATAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
130935 AAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
130972 AAACA
1 AAACA
130977 TAAACATTGA
Statistics
Matches: 128, Mismatches: 21, Indels: 16
0.78 0.13 0.10
Matches are distributed among these distances:
36 34 0.27
37 60 0.47
38 2 0.02
40 2 0.02
42 30 0.23
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.41
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:131144 original size:282 final size:282
Alignment explanation
Indices: 130623--131153 Score: 875
Period size: 282 Copynumber: 1.9 Consensus size: 282
130613 GAAACAAAAG
*
130623 ATTTTATCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTAGAGACAATTTCTCT
1 ATTTTATCTCTCTTGAAATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTAGAGACAATTTCTCT
*
130688 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCACT
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCACT
*
130753 TGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTGGGACAGCTTCTTT
131 TGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCATTGGGACAGCTTCTTT
* * * ** * *
130818 TGAAACTAAGTTTTGTCTCTCTTGAGACTGTTTCTCTCGAAACAAATTTTGTCTTTGTCTTTCTT
196 TGAAACTAAATTATGTATCTCTTGAGACAATTTCCCTCGAAACAAAATTTGTCTTTGTCTTTCTT
130883 GAGACAGTTTCTCTTGAGATAA
261 GAGACAGTTTCTCTTGAGATAA
* * *
130905 ATTTTGTCTCTCTTGAAATAGTTTCTCTTGAAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCT
1 ATTTTATCTCTCTTGAAATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTAGAGACAATTTCTCT
* * *
130970 TGAAACATAAACATTGAAAACGTTTCCCTTGAAACAATTTTTATCTCTCTTGAGACAGTTTCCCT
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCACT
*
131035 TGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCATTGAGG-CATCTTCTT
131 TGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCATTG-GGACAGCTTCTT
* *
131099 TTGGAACTAAATTATGTATCTCTTGAGACAATTTCCCTTGAAACAAAATTTGTCT
195 TTGAAACTAAATTATGTATCTCTTGAGACAATTTCCCTCGAAACAAAATTTGTCT
131154 CTCTTGAAAC
Statistics
Matches: 229, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
282 227 0.99
283 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.39
Consensus pattern (282 bp):
ATTTTATCTCTCTTGAAATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTAGAGACAATTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCACT
TGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCATTGGGACAGCTTCTTT
TGAAACTAAATTATGTATCTCTTGAGACAATTTCCCTCGAAACAAAATTTGTCTTTGTCTTTCTT
GAGACAGTTTCTCTTGAGATAA
Found at i:131196 original size:34 final size:34
Alignment explanation
Indices: 131144--131272 Score: 195
Period size: 34 Copynumber: 3.7 Consensus size: 34
131134 CCTTGAAACA
* *
131144 AAATTTGTCTCTCTTGAAACACAAAAAAACTTTTG
1 AAATTT-TTTCTCTTGAAACACAAAAAAACCTTTG
131179 AAATTTTTTCTCTTGAAACACAAAAAAAAACCTTTG
1 AAATTTTTTCTCTTGAAACAC--AAAAAAACCTTTG
*
131215 AAATTGTTTCTCTTGAAACACAAAAAAACCTTTG
1 AAATTTTTTCTCTTGAAACACAAAAAAACCTTTG
*
131249 AAAATTTTTCTCTTGAAACACAAA
1 AAATTTTTTCTCTTGAAACACAAA
131273 GACCTTCGAG
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
34 49 0.56
35 6 0.07
36 32 0.37
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (34 bp):
AAATTTTTTCTCTTGAAACACAAAAAAACCTTTG
Found at i:131835 original size:7 final size:7
Alignment explanation
Indices: 131820--131869 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
131810 CAAATGTTGT
*
131820 TATATTA
1 TATAATA
131827 TATAATA
1 TATAATA
*
131834 TAT-ATT
1 TATAATA
*
131840 TATCATA
1 TATAATA
131847 TA-AATA
1 TATAATA
*
131853 TATATTA
1 TATAATA
131860 TATAATA
1 TATAATA
131867 TAT
1 TAT
131870 TCATCTATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 10 0.29
7 25 0.71
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (7 bp):
TATAATA
Found at i:131853 original size:15 final size:16
Alignment explanation
Indices: 131833--131870 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
131823 ATTATATAAT
131833 ATATATTTATCATATA
1 ATATATTTATCATATA
* *
131849 A-ATATATATTATATA
1 ATATATTTATCATATA
131864 ATATATT
1 ATATATT
131871 CATCTATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 2
0.78 0.13 0.09
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATTTATCATATA
Found at i:133267 original size:23 final size:23
Alignment explanation
Indices: 133235--133286 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
133225 ATCATTTCCA
* * *
133235 ATTTATTTTTTTTAATTTTCTTTT
1 ATTTCTTTTATTTAATCTT-TTTT
*
133259 ATTTCTTTTATTTACTCTTTTTT
1 ATTTCTTTTATTTAATCTTTTTT
133282 ATTTC
1 ATTTC
133287 GGTTTTAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (23 bp):
ATTTCTTTTATTTAATCTTTTTT
Found at i:133598 original size:21 final size:21
Alignment explanation
Indices: 133568--133745 Score: 143
Period size: 21 Copynumber: 8.5 Consensus size: 21
133558 GATTTACATA
*
133568 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
133589 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
133610 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
133633 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
133652 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
133675 TT--CGTTGAGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
133694 TTCACGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
133717 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
133736 TTCGCGTTGC
1 TTCGCGTTGC
133746 TATTTATTCC
Statistics
Matches: 123, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
19 24 0.20
21 75 0.61
23 24 0.20
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:133620 original size:42 final size:41
Alignment explanation
Indices: 133593--133780 Score: 304
Period size: 42 Copynumber: 4.5 Consensus size: 41
133583 TCCAAGTTCG
133593 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
133635 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
* *
133677 CGTTGAGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
*
133719 CGTTGCGATAGTCGAAGTTCGCGTTGCTATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
*
133761 CGTTGTGATAGTCGAAGTTC
1 CGTTGCGATAGTCGAAGTTC
133781 ACATTTGTTT
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 140 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.36
Consensus pattern (41 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
Found at i:133681 original size:84 final size:84
Alignment explanation
Indices: 133593--133782 Score: 344
Period size: 84 Copynumber: 2.3 Consensus size: 84
133583 TCCAAGTTCG
* *
133593 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGAGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
133658 TTGCGATTTATTCCAAATT
66 TTGCGATTTATTCCAAATT
133677 CGTTGAGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
1 CGTTGAGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
*
133742 TTGCTATTTATTCCAAATT
66 TTGCGATTTATTCCAAATT
*
133761 CGTTGTGATAGTCGAAGTTCAC
1 CGTTGAGATAGTCGAAGTTCAC
133783 ATTTGTTTCT
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 102 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (84 bp):
CGTTGAGATAGTCGAAGTTCACGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
TTGCGATTTATTCCAAATT
Found at i:133764 original size:21 final size:21
Alignment explanation
Indices: 133614--133765 Score: 109
Period size: 21 Copynumber: 7.2 Consensus size: 21
133604 TCGAAGTTCG
133614 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* * *
133635 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
133654 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
* * * *
133677 CGTTGAGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
133696 CACGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
* * *
133719 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
*
133738 CGCGTTGCTATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
133761 CGTTG
1 CGTTG
133766 TGATAGTCGA
Statistics
Matches: 98, Mismatches: 21, Indels: 24
0.69 0.15 0.17
Matches are distributed among these distances:
19 24 0.24
21 50 0.51
23 24 0.24
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:134374 original size:6 final size:6
Alignment explanation
Indices: 134363--134395 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
134353 TCTCGTCTCG
134363 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
134396 AATACGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:134535 original size:21 final size:21
Alignment explanation
Indices: 134511--134559 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
134501 AATTTGGAAA
134511 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
134532 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
134553 ATCGCAA
1 ATCGCAA
134560 TGTGAATATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:134625 original size:21 final size:21
Alignment explanation
Indices: 134579--134626 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
134569 GTAAATAACA
*
134579 TTGCAATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
*
134600 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
134621 TTGCGA
1 TTGCGA
134627 ATCTGGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCGCG
Found at i:136168 original size:17 final size:17
Alignment explanation
Indices: 136141--136182 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
136131 ATTTTTTATA
*
136141 ATTTTTTTATTTCTATT
1 ATTTTTTTATTACTATT
136158 -TTTTATTTATTACTATT
1 ATTTT-TTTATTACTATT
136175 ATTTTTTT
1 ATTTTTTT
136183 TTAATACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTTTATTACTATT
Found at i:136179 original size:20 final size:20
Alignment explanation
Indices: 136154--136197 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
136144 TTTTTATTTC
*
136154 TATTTTTTATTTATTAC-TAT
1 TATTTTTT-TTTAATACTTAT
136174 TATTTTTTTTTAATACTTAT
1 TATTTTTTTTTAATACTTAT
136194 TATT
1 TATT
136198 ACTATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TATTTTTTTTTAATACTTAT
Found at i:136210 original size:17 final size:17
Alignment explanation
Indices: 136141--136210 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
136131 ATTTTTTATA
* *
136141 ATTTTTTTATTTCTATT
1 ATTTTATTATTACTATT
136158 -TTTTATTTATTACTATT
1 ATTTTA-TTATTACTATT
*
136175 ATTTT-TT-TT--TAAT
1 ATTTTATTATTACTATT
*
136188 A-CTTATTATTACTATT
1 ATTTTATTATTACTATT
136204 ATTTTAT
1 ATTTTAT
136211 ACCTTGTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
12 2 0.05
13 6 0.15
14 2 0.05
15 2 0.05
16 10 0.25
17 14 0.35
18 4 0.10
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTATTATTACTATT
Found at i:136234 original size:2 final size:2
Alignment explanation
Indices: 136227--136258 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
136217 TTTATAAGCT
136227 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
136259 ACTATTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:136372 original size:9 final size:9
Alignment explanation
Indices: 136358--136533 Score: 61
Period size: 9 Copynumber: 18.2 Consensus size: 9
136348 TAACTTACAT
136358 TTTTTTTTA
1 TTTTTTTTA
136367 TTTTTTTTA
1 TTTTTTTTA
136376 TTTTCTTTATA
1 TTTT-TTT-TA
*
136387 TTTTTTCTCA
1 TTTTTT-TTA
*
136397 TTATTTTTA
1 TTTTTTTTA
136406 TTATTGTTTTA
1 TT-TT-TTTTA
* **
136417 TTATGATTA
1 TTTTTTTTA
** **
136426 GATTCGTTA
1 TTTTTTTTA
136435 CTTCATTTTTT-
1 -TT--TTTTTTA
*
136446 TTCTTGTTTA
1 TT-TTTTTTA
136456 TTTTTATTT-
1 TTTTT-TTTA
136465 TTTTTTCTTA
1 TTTTTT-TTA
136475 TTTTTTATCTCA
1 TTTTTT-T-T-A
*
136487 TTTTGTTTA
1 TTTTTTTTA
** *
136496 TTCGTGTTA
1 TTTTTTTTA
*
136505 -TTTATTTA
1 TTTTTTTTA
136513 TTTTTTTTA
1 TTTTTTTTA
136522 TTTATTTTTA
1 TTT-TTTTTA
136532 TT
1 TT
136534 GTCTTTTTCC
Statistics
Matches: 121, Mismatches: 30, Indels: 31
0.66 0.16 0.17
Matches are distributed among these distances:
8 5 0.04
9 54 0.45
10 36 0.30
11 16 0.13
12 10 0.08
ACGTcount: A:0.15, C:0.06, G:0.05, T:0.74
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:136521 original size:13 final size:13
Alignment explanation
Indices: 136452--136530 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
136442 TTTTTTCTTG
136452 TTTATTT-TTATTT
1 TTTATTTATT-TTT
*
136465 TTT-TTTCTTATTT
1 TTTATTTATT-TTT
* *
136478 TTTATCTCATTTTG
1 TTTAT-TTATTTTT
** * *
136492 TTTATTCGTGTTA
1 TTTATTTATTTTT
136505 TTTATTTATTTTT
1 TTTATTTATTTTT
136518 TTTATTTATTTTT
1 TTTATTTATTTTT
136531 ATTGTCTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
12 3 0.06
13 39 0.74
14 8 0.15
15 3 0.06
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (13 bp):
TTTATTTATTTTT
Found at i:142125 original size:32 final size:31
Alignment explanation
Indices: 142084--142208 Score: 164
Period size: 32 Copynumber: 4.0 Consensus size: 31
142074 CCAAGAGTCG
142084 AGGATTACCTATGTCTTTCGGGACATATGGAC
1 AGGATTACCTATGTCTTT-GGGACATATGGAC
*
142116 AGGATTACCTATGCCCTTTGGGACATATGGAC
1 AGGATTACCTATG-TCTTTGGGACATATGGAC
*
142148 AGGATTACCTATATCCTTTGGGACATATGGAC
1 AGGATTACCTATGT-CTTTGGGACATATGGAC
* *
142180 A-G-TTACCTATGTTCTTCGGAACATATGGA
1 AGGATTACCTATG-TCTTTGGGACATATGGA
142209 TAGGTCCTTC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
30 22 0.26
31 2 0.02
32 56 0.67
33 4 0.05
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (31 bp):
AGGATTACCTATGTCTTTGGGACATATGGAC
Found at i:142505 original size:22 final size:23
Alignment explanation
Indices: 142465--142510 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
142455 ATAATTACAT
142465 ATGTGTATTTGTTATATGATATG
1 ATGTGTATTTGTTATATGATATG
*
142488 ATGTGTGTTTG-TATATGATATG
1 ATGTGTATTTGTTATATGATATG
142510 A
1 A
142511 CAATGGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (23 bp):
ATGTGTATTTGTTATATGATATG
Found at i:144533 original size:72 final size:73
Alignment explanation
Indices: 144444--144670 Score: 221
Period size: 72 Copynumber: 3.0 Consensus size: 73
144434 AGATAATTCC
*
144444 TAAAATAATATCTTAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCT-AAATA
1 TAAAATAATATCTTAAATCCTAATTAAAACAC-TAAAATCTATTTAAACTAAAATACCTAAAACA
144507 AAGATAAAA
65 AAGATAAAA
* * *
144516 TAAAATAATAT-TCTAAATCCTAATTGAAATACTAAAATCTATTTAAACTAAAATACTTAAAACA
1 TAAAATAATATCT-TAAATCCTAATTAAAACACTAAAATCTATTTAAACTAAAATACCTAAAACA
144580 AAGATAAAA
65 AAGATAAAA
* * * * *
144589 TATAATGTTTAAAATATT--ATCCTAAAACTTGAGAAATACTAAAACCTATTTAAACTAAAATAC
1 TA-AA---ATAATATCTTAAATCCT--AA-TT-A-AAACACTAAAATCTATTTAAACTAAAATAC
* *
144652 TTAAAACAAAGAAAAAA
57 CTAAAACAAAGATAAAA
144669 TA
1 TA
144671 TAATGTTTAA
Statistics
Matches: 133, Mismatches: 9, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
71 6 0.05
72 47 0.35
73 15 0.11
74 2 0.02
75 5 0.04
77 8 0.06
78 3 0.02
80 47 0.35
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (73 bp):
TAAAATAATATCTTAAATCCTAATTAAAACACTAAAATCTATTTAAACTAAAATACCTAAAACAA
AGATAAAA
Found at i:144638 original size:80 final size:80
Alignment explanation
Indices: 144541--144701 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
144531 AATCCTAATT
* *
144541 GAAATACTAAAATCTATTTAAACTAAAATACTTAAAACAAAGATAAAATATAATGTTTAAAATAT
1 GAAATACTAAAACCTATTTAAACTAAAATACTTAAAACAAAGAAAAAATATAATGTTTAAAATAT
144606 TATCCTAAAACTTGA
66 TATCCTAAAACTTGA
144621 GAAATACTAAAACCTATTTAAACTAAAATACTTAAAACAAAGAAAAAATATAATGTTTAAAATAT
1 GAAATACTAAAACCTATTTAAACTAAAATACTTAAAACAAAGAAAAAATATAATGTTTAAAATAT
144686 TATCCTAAAACTTGA
66 TATCCTAAAACTTGA
144701 G
1 G
144702 TTTAATTCAA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.30
Consensus pattern (80 bp):
GAAATACTAAAACCTATTTAAACTAAAATACTTAAAACAAAGAAAAAATATAATGTTTAAAATAT
TATCCTAAAACTTGA
Found at i:150053 original size:17 final size:17
Alignment explanation
Indices: 150031--150075 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
150021 ATGAAAAGTC
**
150031 TTTAATTAAAAATAACT
1 TTTAATTAAAAATAAAA
150048 TTTAATT-AAAATAAAA
1 TTTAATTAAAAATAAAA
150064 TTTAATTAAAAA
1 TTTAATTAAAAA
150076 ATTTCATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTAATTAAAAATAAAA
Found at i:150267 original size:31 final size:34
Alignment explanation
Indices: 150211--150278 Score: 97
Period size: 31 Copynumber: 2.1 Consensus size: 34
150201 GTAGTTTATA
150211 AAATTTGAAATTTAAAAAAATATGTTAATTTTTG
1 AAATTTGAAATTTAAAAAAATATGTTAATTTTTG
* *
150245 AAATTTG-TATTT-AAAAAA-ATGTTATTTTTTG
1 AAATTTGAAATTTAAAAAAATATGTTAATTTTTG
150276 AAA
1 AAA
150279 ATTAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 15 0.47
32 6 0.19
33 4 0.12
34 7 0.22
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (34 bp):
AAATTTGAAATTTAAAAAAATATGTTAATTTTTG
Found at i:151276 original size:23 final size:22
Alignment explanation
Indices: 151241--151285 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
151231 AATACAAGTT
151241 AAAAAAACATAGTTACAATACA
1 AAAAAAACATAGTTACAATACA
* *
151263 AAAAAATACCTAGTTACAGTACA
1 AAAAAA-ACATAGTTACAATACA
151286 TAATATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.58, C:0.16, G:0.07, T:0.20
Consensus pattern (22 bp):
AAAAAAACATAGTTACAATACA
Found at i:152351 original size:65 final size:64
Alignment explanation
Indices: 152282--152423 Score: 185
Period size: 65 Copynumber: 2.2 Consensus size: 64
152272 GAATAAATTG
* * * * *
152282 AACATCGAATGCAGTTTATGCATCGATGCACTCTCTATGCATCGATACACTCAGGTTTTAATGAA
1 AACATCGAATGCAGTTTATGCATCGATGCACACACTATGCATCAATACACTCAGG-CTTAATCAA
* * * * *
152347 AACATCGATTGCATTTTATGCATCGATGCACACACTATGCATCAATGCACTTAGGCTTATTCAA
1 AACATCGAATGCAGTTTATGCATCGATGCACACACTATGCATCAATACACTCAGGCTTAATCAA
152411 AACATCGAATGCA
1 AACATCGAATGCA
152424 TCGATGCACA
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
64 18 0.27
65 48 0.73
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCAGTTTATGCATCGATGCACACACTATGCATCAATACACTCAGGCTTAATCAA
Found at i:162573 original size:20 final size:20
Alignment explanation
Indices: 162535--162573 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
162525 AATGAAACTA
* *
162535 AAATAAAACAAGAATAAAAC
1 AAATAAAAAAAGAACAAAAC
*
162555 AAATAAAAAAATAACAAAA
1 AAATAAAAAAAGAACAAAA
162574 AGAAAAGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (20 bp):
AAATAAAAAAAGAACAAAAC
Found at i:162753 original size:9 final size:9
Alignment explanation
Indices: 162741--162784 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
162731 TAATGATATT
162741 AATAAAAAA
1 AATAAAAAA
*
162750 AATAAAAGA
1 AATAAAAAA
*
162759 AATAAATAA
1 AATAAAAAA
* *
162768 AGTAAAAAT
1 AATAAAAAA
162777 AATAAAAA
1 AATAAAAA
162785 GGACCAGATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (9 bp):
AATAAAAAA
Found at i:166717 original size:61 final size:60
Alignment explanation
Indices: 166599--166717 Score: 141
Period size: 61 Copynumber: 2.0 Consensus size: 60
166589 GTACTTTTCA
* * * ** **
166599 TTTTTAATTTATTTACTAAATTTTATATATAAATTTTTTTTGTCACTCTGCTTTTAAAAT
1 TTTTTAATTTATTCACTAAACTTTATAGATAAATTTTTTTTGTCACTCCACAATTAAAAT
*
166659 TTTTTAAATTTATTCACTGAACTTTATAGATAGAA-TTTTTTTGTCACTCCACAATTAAA
1 TTTTT-AATTTATTCACTAAACTTTATAGATA-AATTTTTTTTGTCACTCCACAATTAAA
166718 CAATGTTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
60 5 0.10
61 42 0.86
62 2 0.04
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.52
Consensus pattern (60 bp):
TTTTTAATTTATTCACTAAACTTTATAGATAAATTTTTTTTGTCACTCCACAATTAAAAT
Found at i:167604 original size:16 final size:17
Alignment explanation
Indices: 167577--167610 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
167567 TTCCCCATCA
*
167577 TCTTCTCCTTTTCTTCT
1 TCTTCTCCTTTTATTCT
167594 TCTTC-CCTTTTATTCT
1 TCTTCTCCTTTTATTCT
167610 T
1 T
167611 GACTAAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (17 bp):
TCTTCTCCTTTTATTCT
Found at i:169182 original size:14 final size:15
Alignment explanation
Indices: 169146--169186 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
169136 AATCAAGTAA
169146 TTTTTAAATATATAT
1 TTTTTAAATATATAT
* *
169161 TTTATAAATTTA-AT
1 TTTTTAAATATATAT
169175 TTTTTAAA-ATAT
1 TTTTTAAATATAT
169187 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 2 0.10
14 9 0.43
15 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTTAAATATATAT
Found at i:170343 original size:28 final size:29
Alignment explanation
Indices: 170302--170363 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
170292 AGATTCTCAT
170302 AGAG-ATGTTAAAAATTCTGGTTGAATTG
1 AGAGTATGTTAAAAATTCTGGTTGAATTG
170330 AGAGTATGTTAAAAATTCTGGTTGAATTG
1 AGAGTATGTTAAAAATTCTGGTTGAATTG
170359 A-AGTA
1 AGAGTA
170364 AGGGGCTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 8 0.24
29 25 0.76
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.35
Consensus pattern (29 bp):
AGAGTATGTTAAAAATTCTGGTTGAATTG
Found at i:174239 original size:20 final size:19
Alignment explanation
Indices: 174196--174250 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
174186 GGAAAGAAAC
* *
174196 ATATT-TATGAATAATATT
1 ATATTGTATGAATAGTATG
174214 ATATTGTATGAATAGTATCG
1 ATATTGTATGAATAGTAT-G
* *
174234 ATATTGTTTAAATAGTA
1 ATATTGTATGAATAGTA
174251 CTGTGAACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (19 bp):
ATATTGTATGAATAGTATG
Found at i:174375 original size:21 final size:21
Alignment explanation
Indices: 174349--174413 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
174339 AATTTAAAAT
174349 GTGTATCGATGCACTGCTACA
1 GTGTATCGATGCACTGCTACA
* * * *
174370 TTGTATCAATGAACTGCTATA
1 GTGTATCGATGCACTGCTACA
* **
174391 GTGTACCGATGCTTTGCTACA
1 GTGTATCGATGCACTGCTACA
174412 GT
1 GT
174414 AATTTCAGCA
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (21 bp):
GTGTATCGATGCACTGCTACA
Found at i:175224 original size:22 final size:22
Alignment explanation
Indices: 175199--175256 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
175189 ATGTGAAATT
175199 TGTCTTGAAGGACCTATGTATA
1 TGTCTTGAAGGACCTATGTATA
* *
175221 TGTCTCGAAGGACCTCTGTATA
1 TGTCTTGAAGGACCTATGTATA
* *
175243 TGTCCTGAATGACC
1 TGTCTTGAAGGACC
175257 ACGTAGAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (22 bp):
TGTCTTGAAGGACCTATGTATA
Found at i:175554 original size:21 final size:20
Alignment explanation
Indices: 175523--175566 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
175513 ATGTAACCAT
**
175523 ATATGTCATATATTGTTCAC
1 ATATGTCATATATTCATCAC
175543 ATATGTTCATATATTCATCAC
1 ATATG-TCATATATTCATCAC
175564 ATA
1 ATA
175567 GCACATAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (20 bp):
ATATGTCATATATTCATCAC
Found at i:179738 original size:31 final size:31
Alignment explanation
Indices: 179700--179791 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 31
179690 TCGAGGGTTT
179700 TACCTATG-TCTTTCGAGACATATGGACAGTA
1 TACCTATGTTCTTT-GAGACATATGGACAGTA
** * *
179731 TACCTATGTTCTAAG-GAACATATGGATAGTT
1 TACCTATGTTCTTTGAG-ACATATGGACAGTA
* * *
179762 TACCTAGGTTCTTTGGGACCTATGGACAGT
1 TACCTATGTTCTTTGAGACATATGGACAGT
179792 TGCCGAGGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
30 1 0.02
31 44 0.90
32 4 0.08
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (31 bp):
TACCTATGTTCTTTGAGACATATGGACAGTA
Found at i:179843 original size:29 final size:29
Alignment explanation
Indices: 179753--179849 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
179743 AAGGAACATA
* * *
179753 TGGATAGTTTACCTAGGTTCTTTGGGACCTA
1 TGGATAG-TTACC-GGGTTCTTTGTGACCTC
* * * *
179784 TGGACAGTTGCCGAGGTTCTTTATAACCTC
1 TGGATAGTTACCG-GGTTCTTTGTGACCTC
*
179814 TGGATAGTTACCGGGGTCTTTGTGACCTC
1 TGGATAGTTACCGGGTTCTTTGTGACCTC
179843 TGGATAG
1 TGGATAG
179850 GTCCTTCGGG
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
29 20 0.38
30 27 0.51
31 6 0.11
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.35
Consensus pattern (29 bp):
TGGATAGTTACCGGGTTCTTTGTGACCTC
Found at i:185917 original size:32 final size:32
Alignment explanation
Indices: 185810--185918 Score: 91
Period size: 32 Copynumber: 3.5 Consensus size: 32
185800 TGGTTTTCGA
* **
185810 GTCAGGTT-AATATCAGATTGATTGATTTTCGG
1 GTCAGGTTCAATATCAAATCAATTGATTTT-GG
** **
185842 GTC-GAATCAATATCAGGTCAATTGATTTTGG
1 GTCAGGTTCAATATCAAATCAATTGATTTTGG
* *
185873 GTCATGTT-AATATCAAATCATTTGATTTTTGG
1 GTCAGGTTCAATATCAAATCAATTGA-TTTTGG
185905 GT-AGGTTCAATATC
1 GTCAGGTTCAATATC
185919 GAATTGATCA
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
31 25 0.41
32 36 0.59
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (32 bp):
GTCAGGTTCAATATCAAATCAATTGATTTTGG
Found at i:186877 original size:15 final size:16
Alignment explanation
Indices: 186835--186925 Score: 51
Period size: 16 Copynumber: 5.8 Consensus size: 16
186825 AAATTAAATA
*
186835 CGGGTTGCTTTT-GGTT
1 CGGGTTG-TTTTCAGTT
*
186851 CAGGTTGTTTTCAGTT
1 CGGGTTGTTTTCAGTT
*
186867 CGGGTTG-TTTCGGTT
1 CGGGTTGTTTTCAGTT
* * *
186882 CGAGTTCTTTTTAGTT
1 CGGGTTGTTTTCAGTT
** * *
186898 TAGGTTGATTTCGGTT
1 CGGGTTGTTTTCAGTT
* *
186914 CGAGTTCTTTTC
1 CGGGTTGTTTTC
186926 GATTCATGTT
Statistics
Matches: 53, Mismatches: 20, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
15 16 0.30
16 37 0.70
ACGTcount: A:0.08, C:0.13, G:0.29, T:0.51
Consensus pattern (16 bp):
CGGGTTGTTTTCAGTT
Found at i:186942 original size:32 final size:32
Alignment explanation
Indices: 186858--186924 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
186848 GTTCAGGTTG
* *
186858 TTTTCAGTTCGGGTTG-TTTCGGTTCGAGTTC
1 TTTTGAGTTCAGGTTGATTTCGGTTCGAGTTC
* *
186889 TTTTTAGTTTAGGTTGATTTCGGTTCGAGTTC
1 TTTTGAGTTCAGGTTGATTTCGGTTCGAGTTC
186921 TTTT
1 TTTT
186925 CGATTCATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.54
Consensus pattern (32 bp):
TTTTGAGTTCAGGTTGATTTCGGTTCGAGTTC
Found at i:191321 original size:22 final size:23
Alignment explanation
Indices: 191276--191322 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
191266 AACCCTAAAC
191276 AAGCCCAAACATCATATCTGCTA
1 AAGCCCAAACATCATATCTGCTA
* *
191299 AAGCCCAAA-ATCGTATCTTCTA
1 AAGCCCAAACATCATATCTGCTA
191321 AA
1 AA
191323 CTCGTGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (23 bp):
AAGCCCAAACATCATATCTGCTA
Found at i:202590 original size:3 final size:3
Alignment explanation
Indices: 202582--202612 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
202572 GAATAGGGTT
202582 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
202613 ATTGAGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:208443 original size:3 final size:3
Alignment explanation
Indices: 208416--208488 Score: 80
Period size: 3 Copynumber: 24.7 Consensus size: 3
208406 TTGGGTTTTG
* * *
208416 TAA TAT TAA TAAA TAA T-A TAT TAA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
208461 TAA TAA T-A TAA TAA TTAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TA
208489 TAAATAACAT
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
2 6 0.10
3 47 0.80
4 6 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:208874 original size:18 final size:17
Alignment explanation
Indices: 208848--208930 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 17
208838 TCTTCTCATT
208848 ATGAATTTCTTCTTTCAG
1 ATGAATTTCTTC-TTCAG
* *
208866 ATGAGTTTCTTC-TCATT
1 ATGAATTTCTTCTTCA-G
*
208883 ATGAACTTCTTCTTCAG
1 ATGAATTTCTTCTTCAG
* *
208900 ATG-AGTTCTTC-TCATT
1 ATGAATTTCTTCTTCA-G
*
208916 ATGAACTTCTTCTTC
1 ATGAATTTCTTCTTC
208931 CTTTCAGATG
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
15 3 0.06
16 13 0.25
17 20 0.38
18 16 0.31
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (17 bp):
ATGAATTTCTTCTTCAG
Found at i:208961 original size:38 final size:35
Alignment explanation
Indices: 208837--208958 Score: 187
Period size: 38 Copynumber: 3.5 Consensus size: 35
208827 GTTGAACAAA
208837 TTCTTCTCATTATGAAT-TTCTTCTTTCAGATGAG
1 TTCTTCTCATTATGAATCTTCTTCTTTCAGATGAG
208871 TTTCTTCTCATTATGAA-CTTCTTC-TTCAGATGAG
1 -TTCTTCTCATTATGAATCTTCTTCTTTCAGATGAG
208905 TTCTTCTCATTATGAACTTCTTCTTCCTTTCAGATGAG
1 TTCTTCTCATTATGAA--TCTTCTT-CTTTCAGATGAG
208943 TTCTTCTCATTATGAA
1 TTCTTCTCATTATGAA
208959 CTTTCTCTGG
Statistics
Matches: 81, Mismatches: 0, Indels: 9
0.90 0.00 0.10
Matches are distributed among these distances:
33 16 0.20
34 10 0.12
35 22 0.27
36 6 0.07
37 1 0.01
38 26 0.32
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (35 bp):
TTCTTCTCATTATGAATCTTCTTCTTTCAGATGAG
Found at i:209300 original size:223 final size:224
Alignment explanation
Indices: 208906--209662 Score: 1322
Period size: 223 Copynumber: 3.4 Consensus size: 224
208896 TCAGATGAGT
208906 TCTTCTCATTATGAACTTCTTCTTCC-TTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
1 TCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
*
208970 AAAGCTGATCCATCGAGTGATGGA-TTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTT
66 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTT
209034 CTTCTTCC-TCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGT
131 CTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGT
209098 GATGGATTTGAGCAAAAGGTTGAACAAGC
196 GATGGATTTGAGCAAAAGGTTGAACAAGC
*
209127 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATG-A--TTCTTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTT-TTCAGATGAGTTCTTCTCATTATGAACTTTC-TCTG
*
209189 GAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
64 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
209254 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAA
129 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAA
209319 GTGATGGATTTGAGCAAAAGGTTGAACAAGC
194 GTGATGGATTTGAGCAAAAGGTTGAACAAGC
*
209350 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTT-TTCAGATGAGTTCTTCTCATTATGAACTTTC-TCTG
209414 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
64 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
*
209479 TTCTTCTTCCTTCTTCAGATGAG---TTCTTATTATGAACTTCTCTGGAAAA-ATGATCCATCAA
129 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAA
209540 GTGATGGATTTGAGC-AAAGGTTGAACAAGC
194 GTGATGGATTTGAGCAAAAGGTTGAACAAGC
*
209570 TCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAGA
1 TCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
*
209635 AAAGCTAATCCCATCAAGTGATGGATTT
66 AAAGCTGAT-CCATCAAGTGATGGATTT
209663 AAATTTGCTA
Statistics
Matches: 521, Mismatches: 6, Indels: 19
0.95 0.01 0.03
Matches are distributed among these distances:
219 39 0.07
220 67 0.13
221 82 0.16
222 76 0.15
223 161 0.31
224 1 0.00
225 95 0.18
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (224 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTT
CTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGAAAAGCTGATCCATCAAGT
GATGGATTTGAGCAAAAGGTTGAACAAGC
Found at i:209382 original size:112 final size:112
Alignment explanation
Indices: 208906--209662 Score: 1322
Period size: 111 Copynumber: 6.8 Consensus size: 112
208896 TCAGATGAGT
*
208906 TCTTCTCATTATGAACTTCTTCTTCC-T-TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTCTGG
*
208969 AAAAGCTGATCCATCGAGTGATGGA-TTGAGCAAAAGGTTGAACAAGC
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
209016 TCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGA
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGA
209080 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
66 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
209127 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATG-A-TTCTTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTC-TCTGG
*
209190 AAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
209238 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGA
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGA
209303 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
66 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
209350 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTC-TCTGG
209415 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
65 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
209463 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG---TTCTTATTATGAACTTCTCTGGA
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGA
*
209525 AAA-ATGATCCATCAAGTGATGGATTTGAGC-AAAGGTTGAACAAGC
66 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
* *
209570 TCTTCTCATTATGAACTTCTTCTTCCTT-TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAAC-TTCTCTGG
*
209634 AAAAGCTAATCCCATCAAGTGATGGATTT
65 AAAAGCTGAT-CCATCAAGTGATGGATTT
209663 AAATTTGCTA
Statistics
Matches: 625, Mismatches: 9, Indels: 24
0.95 0.01 0.04
Matches are distributed among these distances:
106 10 0.02
107 43 0.07
108 26 0.04
109 22 0.04
110 90 0.14
111 183 0.29
112 156 0.25
113 95 0.15
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (112 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTCTGGA
AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
Found at i:210030 original size:51 final size:51
Alignment explanation
Indices: 209953--210055 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
209943 CAACATGTTA
209953 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATC-TTCAAGATGATTTCAC
210005 ATTCTGATAAC-ACTCATCTGATTATGAAGTGATCTTCAAGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTCAAGATGATTTCAC
210055 A
1 A
210056 GATATCGATA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 17 0.33
51 23 0.45
52 11 0.22
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (51 bp):
ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTCAAGATGATTTCAC
Found at i:210762 original size:80 final size:81
Alignment explanation
Indices: 210510--210803 Score: 494
Period size: 79 Copynumber: 3.7 Consensus size: 81
210500 CTGTGGTTCA
*
210510 TACCAAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT-TCTTCCAA
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATATCTTCCAA
210574 ATTC-ATGATTGATTT
66 ATTCAATGATTGATTT
*
210589 TACCAAATCAGATCAGA-AACTCAAAGAACAC-TCCAGAAGATGCTATGAGCACATTATCTTCCA
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACA-TATCTTCCA
210652 AATTCAATGATTGA-TT
65 AATTCAATGATTGATTT
210668 TACCAAACCAGATCAGATAACTCAAAG-A-ACTTCCAGAAGATGCTATGAGCACATACTCTTCCA
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATA-TCTTCCA
210731 AATTCAATGATTGATTT
65 AATTCAATGATTGATTT
*
210748 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
210804 GACATTTGTT
Statistics
Matches: 203, Mismatches: 3, Indels: 15
0.92 0.01 0.07
Matches are distributed among these distances:
77 22 0.11
78 19 0.09
79 90 0.44
80 46 0.23
81 1 0.00
82 25 0.12
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (81 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATATCTTCCAA
ATTCAATGATTGATTT
Done.