Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007877.1 Hibiscus syriacus cultivar Beakdansim tig00110253_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: 614694
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:393502 original size:13 final size:13
Alignment explanation
Indices: 393478--393563 Score: 61
Period size: 13 Copynumber: 6.4 Consensus size: 13
393468 AAATTATACT
393478 ATATAGTATATATA
1 ATATA-TATATATA
*
393492 ATTTATATATATA
1 ATATATATATATA
*
393505 ATATATAGTTTAT-
1 ATATATA-TATATA
393518 ATATATAATATATA
1 ATATAT-ATATATA
* *
393532 GTATATGA-ATAAA
1 ATATAT-ATATATA
393545 ACTATAGTATATAT-
1 A-TATA-TATATATA
393559 ATATA
1 ATATA
393564 GGTCATATGC
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
13 32 0.56
14 21 0.37
15 4 0.07
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (13 bp):
ATATATATATATA
Found at i:393502 original size:20 final size:20
Alignment explanation
Indices: 393452--393531 Score: 88
Period size: 20 Copynumber: 3.9 Consensus size: 20
393442 AGGATTTTTA
* * * *
393452 TATATATTTCATATGTAAAT
1 TATATATATAATATATAATT
393472 TATACTATATAGTATATATAATT
1 TATA-TATATA--ATATATAATT
*
393495 TATATATATAATATATAGTT
1 TATATATATAATATATAATT
393515 TATATATATAATATATA
1 TATATATATAATATATA
393532 GTATATGAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
20 30 0.58
21 4 0.08
22 6 0.12
23 12 0.23
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (20 bp):
TATATATATAATATATAATT
Found at i:393532 original size:20 final size:20
Alignment explanation
Indices: 393471--393563 Score: 93
Period size: 20 Copynumber: 4.5 Consensus size: 20
393461 CATATGTAAA
*
393471 TTATACTATATAGTATATATAAT
1 TTATA-TATATA--ATATATAGT
393494 TTATATATATAATATATAGT
1 TTATATATATAATATATAGT
393514 TTATATATATAATATATAG-
1 TTATATATATAATATATAGT
*
393533 -TATATGA-ATAAAACTATAGT
1 TTATAT-ATATAATA-TATAGT
*
393553 ATATATATATA
1 TTATATATATA
393564 GGTCATATGC
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
18 10 0.16
19 6 0.10
20 28 0.44
21 8 0.13
22 6 0.10
23 5 0.08
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (20 bp):
TTATATATATAATATATAGT
Found at i:393584 original size:33 final size:33
Alignment explanation
Indices: 393547--393702 Score: 174
Period size: 33 Copynumber: 5.1 Consensus size: 33
393537 TGAATAAAAC
*
393547 TATAGTATATATATATAGGTCATATGCAAACTA
1 TATAGTATATATATATAGGTCATATGTAAACTA
393580 TATAGTATATA-A-ATA--TC-------AACTA
1 TATAGTATATATATATAGGTCATATGTAAACTA
393602 TAGTA-TATATATATATAGGTCATATGTAAACTA
1 TA-TAGTATATATATATAGGTCATATGTAAACTA
* *
393635 TATAGTTTATATATATAGTTCATATGTAAACTA
1 TATAGTATATATATATAGGTCATATGTAAACTA
* *
393668 TATAGTTTATATATATAGTTCATATGTAAACTA
1 TATAGTATATATATATAGGTCATATGTAAACTA
393701 TA
1 TA
393703 GTTCATATGT
Statistics
Matches: 108, Mismatches: 2, Indels: 26
0.79 0.01 0.19
Matches are distributed among these distances:
22 13 0.12
23 3 0.03
24 3 0.03
26 2 0.02
29 2 0.02
31 3 0.03
32 3 0.03
33 79 0.73
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (33 bp):
TATAGTATATATATATAGGTCATATGTAAACTA
Found at i:393600 original size:22 final size:22
Alignment explanation
Indices: 393575--393617 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
393565 GTCATATGCA
393575 AACTATA-TAGTATATAAATATC
1 AACTATAGTA-TATATAAATATC
*
393597 AACTATAGTATATATATATAT
1 AACTATAGTATATATAAATAT
393618 AGGTCATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (22 bp):
AACTATAGTATATATAAATATC
Found at i:393626 original size:55 final size:53
Alignment explanation
Indices: 393526--393651 Score: 182
Period size: 55 Copynumber: 2.4 Consensus size: 53
393516 ATATATATAA
*
393526 TATATAGTATATGAATA-AAACTATAGTATATATATATAGGTCATATGCAAAC
1 TATATAGTATATAAATATAAACTATAGTATATATATATAGGTCATATGCAAAC
* *
393578 TATATAGTATATAAATATCAACTATAGTATATATATATATAGGTCATATGTAAAC
1 TATATAGTATATAAATATAAACTATAG--TATATATATATAGGTCATATGCAAAC
* *
393633 TATATAGTTTATATATATA
1 TATATAGTATATAAATATA
393652 GTTCATATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
52 16 0.25
53 8 0.12
55 41 0.63
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (53 bp):
TATATAGTATATAAATATAAACTATAGTATATATATATAGGTCATATGCAAAC
Found at i:393646 original size:20 final size:20
Alignment explanation
Indices: 393646--393957 Score: 159
Period size: 20 Copynumber: 16.2 Consensus size: 20
393636 ATAGTTTATA
*
393646 TATATAGTTCATATGTAAAC
1 TATATAGTTTATATGTAAAC
393666 TATATAG-TT-TA--T--A-
1 TATATAGTTTATATGTAAAC
*
393679 TATATAGTTCATATGTAAAC
1 TATATAGTTTATATGTAAAC
* *
393699 --TATAGTTCATATGTAAATAT
1 TATATAGTTTATATGT-AA-AC
* *
393719 TAACTATAGTTTGTATATAAAC
1 T-A-TATAGTTTATATGTAAAC
393741 TATATAGTTTATATGTAAAC
1 TATATAGTTTATATGTAAAC
*
393761 --TATAG-TTAGTATATAAAC
1 TATATAGTTTA-TATGTAAAC
**
393779 TATATAGTTTATATACAAAC
1 TATATAGTTTATATGTAAAC
* *
393799 --TATAGTTAATAT-T-TAC
1 TATATAGTTTATATGTAAAC
** * *
393815 -ATAT-GAACTATAGTTTATA-
1 TATATAG-TTTATA-TGTAAAC
*
393834 TATATAGTTCATATGTAAAC
1 TATATAGTTTATATGTAAAC
* *
393854 --TATAGTTCATATGTAAATAT
1 TATATAGTTTATATGT-AA-AC
* *
393874 TAACTATAGTTTGTATATAAAC
1 T-A-TATAGTTTATATGTAAAC
393896 TATATAGTTTATATGTAAAC
1 TATATAGTTTATATGTAAAC
*
393916 --TATAG-TTAGTATATAAAC
1 TATATAGTTTA-TATGTAAAC
393934 TATATAGTTTATATGTAAAC
1 TATATAGTTTATATGTAAAC
393954 TATA
1 TATA
393958 GTTCATATTG
Statistics
Matches: 226, Mismatches: 31, Indels: 70
0.69 0.09 0.21
Matches are distributed among these distances:
13 7 0.03
14 2 0.01
15 2 0.01
16 4 0.02
17 13 0.06
18 68 0.30
19 11 0.05
20 80 0.35
21 9 0.04
22 4 0.02
23 4 0.02
24 22 0.10
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (20 bp):
TATATAGTTTATATGTAAAC
Found at i:393704 original size:18 final size:18
Alignment explanation
Indices: 393648--393965 Score: 125
Period size: 18 Copynumber: 16.7 Consensus size: 18
393638 AGTTTATATA
393648 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
*
393666 TATATAGTT--TA--TATA-
1 --TATAGTTCATATGTAAAC
393681 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
393699 TATAGTTCATATGTAAATATTAAC
1 TATAGTTCATATG----TA--AAC
** *
393723 TATAGTTTGTATATAAAC
1 TATAGTTCATATGTAAAC
*
393741 TATATAGTTTATATGTAAAC
1 --TATAGTTCATATGTAAAC
*
393761 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATGTAAAC
* **
393779 TATATAGTTTATATACAAAC
1 --TATAGTTCATATGTAAAC
* * *
393799 TATAGTTAATATTTACA-
1 TATAGTTCATATGTAAAC
** *
393816 TAT-GAACTATAGTTTATATA-
1 TATAGTTC-ATA-TGTA-A-AC
393836 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
393854 TATAGTTCATATGTAAATATTAAC
1 TATAGTTCATATG----TA--AAC
** *
393878 TATAGTTTGTATATAAAC
1 TATAGTTCATATGTAAAC
*
393896 TATATAGTTTATATGTAAAC
1 --TATAGTTCATATGTAAAC
*
393916 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATGTAAAC
*
393934 TATATAGTTTATATGTAAAC
1 --TATAGTTCATATGTAAAC
393954 TATAGTTCATAT
1 TATAGTTCATAT
393966 TGAAAAATAT
Statistics
Matches: 235, Mismatches: 28, Indels: 72
0.70 0.08 0.21
Matches are distributed among these distances:
13 7 0.03
15 2 0.01
16 4 0.02
17 12 0.05
18 93 0.40
19 3 0.01
20 80 0.34
21 4 0.02
22 4 0.02
24 26 0.11
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:393773 original size:38 final size:38
Alignment explanation
Indices: 393720--393960 Score: 239
Period size: 38 Copynumber: 6.3 Consensus size: 38
393710 TGTAAATATT
*
393720 AACTATAGTTTGTATATAAACTATATAGTTTATATGTA
1 AACTATAGTTAGTATATAAACTATATAGTTTATATGTA
**
393758 AACTATAGTTAGTATATAAACTATATAGTTTATATACA
1 AACTATAGTTAGTATATAAACTATATAGTTTATATGTA
* *
393796 AACTATAGTTAATATTTACATA-TGAACTATAGTTTATA--T-
1 AACTATAGTTAGTATATA-A-ACT--A-TATAGTTTATATGTA
* *
393835 -A-TATAGTTCA-TATGTAAAC--TATAGTTCATATGTAAATA
1 AACTATAGTT-AGTATATAAACTATATAGTTTATATG----TA
*
393873 TTAACTATAGTTTGTATATAAACTATATAGTTTATATGTA
1 --AACTATAGTTAGTATATAAACTATATAGTTTATATGTA
393913 AACTATAGTTAGTATATAAACTATATAGTTTATATGTA
1 AACTATAGTTAGTATATAAACTATATAGTTTATATGTA
393951 AACTATAGTT
1 AACTATAGTT
393961 CATATTGAAA
Statistics
Matches: 170, Mismatches: 12, Indels: 42
0.76 0.05 0.19
Matches are distributed among these distances:
31 10 0.06
35 1 0.01
36 1 0.01
37 13 0.08
38 100 0.59
39 2 0.01
40 3 0.02
41 2 0.01
42 26 0.15
44 12 0.07
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.43
Consensus pattern (38 bp):
AACTATAGTTAGTATATAAACTATATAGTTTATATGTA
Found at i:393823 original size:24 final size:24
Alignment explanation
Indices: 393796--393884 Score: 70
Period size: 24 Copynumber: 3.4 Consensus size: 24
393786 TTTATATACA
393796 AACTATAGTTAATATTTACATATG
1 AACTATAGTTAATATTTACATATG
*
393820 AACTATAGTTTATATATATAGTTCATATG
1 AACTATAG-TTA-ATAT-T--TACATATG
* * * *
393849 TAAACTATAGTTCATATGTAAATATT
1 --AACTATAGTTAATATTTACATATG
393875 AACTATAGTT
1 AACTATAGTT
393885 TGTATATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
24 18 0.35
25 3 0.06
26 9 0.17
27 1 0.02
29 11 0.21
30 2 0.04
31 8 0.15
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (24 bp):
AACTATAGTTAATATTTACATATG
Found at i:393831 original size:155 final size:155
Alignment explanation
Indices: 393668--393966 Score: 571
Period size: 155 Copynumber: 1.9 Consensus size: 155
393658 ATGTAAACTA
393668 TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTTTGT
1 TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTTTGT
393733 ATATAAACTATATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATACAAA
66 ATATAAACTATATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATACAAA
393798 CTATAGTTAATATTTACATATGAAC
131 CTATAGTTAATATTTACATATGAAC
393823 TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTTTGT
1 TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTTTGT
**
393888 ATATAAACTATATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTAAA
66 ATATAAACTATATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATACAAA
*
393953 CTATAGTTCATATT
131 CTATAGTTAATATT
393967 GAAAAATATC
Statistics
Matches: 141, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
155 141 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.43
Consensus pattern (155 bp):
TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTTTGT
ATATAAACTATATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATACAAA
CTATAGTTAATATTTACATATGAAC
Found at i:393854 original size:55 final size:55
Alignment explanation
Indices: 393779--393892 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 55
393769 GTATATAAAC
* * *
393779 TATATAGTTTATATACAAACTATAGTTAATATTTACATATGAACTATAGTTTATA
1 TATATAGTTCATATACAAACTATAGTTAATATGTAAATATGAACTATAGTTTATA
** * * *
393834 TATATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAACTATAGTTTGTA
1 TATATAGTTCATATACAAACTATAGTTAATATGTAAATATGAACTATAGTTTATA
393889 TATA
1 TATA
393893 AACTATATAG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (55 bp):
TATATAGTTCATATACAAACTATAGTTAATATGTAAATATGAACTATAGTTTATA
Found at i:394053 original size:33 final size:32
Alignment explanation
Indices: 394016--394081 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
394006 AGTTCATATG
*
394016 TAAACTATAGTTCACATATATAGTATATAAATA
1 TAAACTATAGTTCACATAAATAGTATA-AAATA
* *
394049 TAAACTATAGTTTATATAAATAGTATAAAATA
1 TAAACTATAGTTCACATAAATAGTATAAAATA
394081 T
1 T
394082 GGTATAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 6 0.20
33 24 0.80
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (32 bp):
TAAACTATAGTTCACATAAATAGTATAAAATA
Found at i:394183 original size:11 final size:11
Alignment explanation
Indices: 394167--394304 Score: 56
Period size: 11 Copynumber: 12.5 Consensus size: 11
394157 ACCCTAAACC
394167 ATATAATATAT
1 ATATAATATAT
*
394178 ATATAA-A-CT
1 ATATAATATAT
* *
394187 ATATAGTTTAT
1 ATATAATATAT
*
394198 AT-TAATAAATT
1 ATATAATATA-T
*
394209 ATATAATTTAT
1 ATATAATATAT
*
394220 ACAATATATATTAT
1 A-TATA-ATA-TAT
*
394234 TTATAAT-TAT
1 ATATAATATAT
*
394244 ACATAATATAT
1 ATATAATATAT
394255 AAATATAA-AT-T
1 --ATATAATATAT
* * *
394266 GTATAGTTTAT
1 ATATAATATAT
394277 ATATAAT-TCAT
1 ATATAATAT-AT
*
394288 ATATAATTTAT
1 ATATAATATAT
394299 ATATAA
1 ATATAA
394305 ACTATGTAGT
Statistics
Matches: 92, Mismatches: 21, Indels: 28
0.65 0.15 0.20
Matches are distributed among these distances:
9 10 0.11
10 15 0.16
11 41 0.45
12 13 0.14
13 10 0.11
14 3 0.03
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (11 bp):
ATATAATATAT
Found at i:394302 original size:13 final size:11
Alignment explanation
Indices: 394267--394304 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
394257 ATATAAATTG
*
394267 TATAGTTTATA
1 TATAATTTATA
*
394278 TATAATTCATA
1 TATAATTTATA
394289 TATAATTTATA
1 TATAATTTATA
394300 TATAA
1 TATAA
394305 ACTATGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:394424 original size:22 final size:21
Alignment explanation
Indices: 394399--394467 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 21
394389 TTATACATAA
394399 TATATAAATAAACTATATAGTT
1 TATAT-AATAAACTATATAGTT
*
394421 TATATATATAATAC-ATATACTT
1 TATATA-ATAA-ACTATATAGTT
394443 TATAT-ATAAACTATATAGTT
1 TATATAATAAACTATATAGTT
394463 TATAT
1 TATAT
394468 TATATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
19 2 0.05
20 16 0.38
21 1 0.02
22 21 0.50
23 2 0.05
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (21 bp):
TATATAATAAACTATATAGTT
Found at i:394448 original size:20 final size:20
Alignment explanation
Indices: 394401--394467 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
394391 ATACATAATA
* *
394401 TATAAATAAACTATATAGTT
1 TATATATAAACTATATACTT
394421 TATATATATAA-TACATATACTT
1 TATATATA-AACT--ATATACTT
*
394443 TATATATAAACTATATAGTT
1 TATATATAAACTATATACTT
394463 TATAT
1 TATAT
394468 TATATATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 20 0.50
21 4 0.10
22 16 0.40
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (20 bp):
TATATATAAACTATATACTT
Found at i:394461 original size:42 final size:41
Alignment explanation
Indices: 394374--394473 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 41
394364 ATACATGGTA
394374 TATATAGTTTATACT-T-T-ATACATAATATATAAATAAAC
1 TATATAGTTTATACTATATAATACATAATATATAAATAAAC
* *
394412 TATATAGTTTATA-TATATAATACATATACTTTATATATAAAC
1 TATATAGTTTATACTATATAATACATA-A-TATATAAATAAAC
*
394454 TATATAGTTTATATTATATA
1 TATATAGTTTATACTATATA
394474 TATATATGAC
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
37 1 0.02
38 14 0.26
39 1 0.02
40 7 0.13
41 1 0.02
42 24 0.44
43 6 0.11
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (41 bp):
TATATAGTTTATACTATATAATACATAATATATAAATAAAC
Found at i:394477 original size:20 final size:20
Alignment explanation
Indices: 394412--394479 Score: 75
Period size: 20 Copynumber: 3.3 Consensus size: 20
394402 ATAAATAAAC
394412 TATATAGTTTATATATATAATA
1 TATATAGTTTATAT-TAT-ATA
* * *
394434 CATATACTTTATA-TATAAA
1 TATATAGTTTATATTATATA
394453 CTATATAGTTTATATTATATA
1 -TATATAGTTTATATTATATA
394474 TATATA
1 TATATA
394480 TGACGATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.05
20 20 0.53
21 5 0.13
22 11 0.29
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATAGTTTATATTATATA
Found at i:394643 original size:51 final size:51
Alignment explanation
Indices: 394569--394703 Score: 164
Period size: 51 Copynumber: 2.6 Consensus size: 51
394559 CACCCGTAGC
* * * * * *
394569 AGTAAAGCGCGCCCCCTGAACCGCGCTATATACTGATTTGGCGCCACGTGG
1 AGTATAGCGCGCCCCCTGTACCGCGCTATACACTGACTGGGCGACACGTGG
* **
394620 AGTATAGCGTGCCCCCTGTACCGCGCTATACACTGACTGGGTTACACGTGG
1 AGTATAGCGCGCCCCCTGTACCGCGCTATACACTGACTGGGCGACACGTGG
*
394671 GGTATAGCGCGCCCCCTGCT-CCGCGCTATACAC
1 AGTATAGCGCGCCCCCTG-TACCGCGCTATACAC
394704 CACGTAGGGG
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 71 0.99
52 1 0.01
ACGTcount: A:0.19, C:0.33, G:0.27, T:0.21
Consensus pattern (51 bp):
AGTATAGCGCGCCCCCTGTACCGCGCTATACACTGACTGGGCGACACGTGG
Found at i:397784 original size:20 final size:21
Alignment explanation
Indices: 397746--397785 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
397736 CAAACCATTC
*
397746 AGGGGGGAATCGGTATCCCTT
1 AGGGGGGAATCAGTATCCCTT
397767 AGGGGGGAATCAGT-TCCCT
1 AGGGGGGAATCAGTATCCCT
397786 CTGAACAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.20, G:0.38, T:0.23
Consensus pattern (21 bp):
AGGGGGGAATCAGTATCCCTT
Found at i:400435 original size:20 final size:21
Alignment explanation
Indices: 400398--400450 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
400388 AGAACCCTAG
*
400398 GGGGGTATCGATTCCCCT-ATA
1 GGGGGAATCGATTCCCCTCA-A
*
400419 GGGGGAATCGGTT-CCCTCAA
1 GGGGGAATCGATTCCCCTCAA
400439 GGGGG-ATCGATT
1 GGGGGAATCGATT
400451 TCCTCTGCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 12 0.43
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGATTCCCCTCAA
Found at i:400453 original size:20 final size:21
Alignment explanation
Indices: 400398--400453 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
400388 AGAACCCTAG
* *
400398 GGGGGTATCGATTCCCCTATA
1 GGGGGAATCGATTTCCCTATA
*
400419 GGGGGAATCG-GTTCCCTCA-A
1 GGGGGAATCGATTTCCCT-ATA
400439 GGGGG-ATCGATTTCC
1 GGGGGAATCGATTTCC
400454 TCTGCACCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 4 0.14
20 15 0.52
21 10 0.34
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGATTTCCCTATA
Found at i:407287 original size:34 final size:35
Alignment explanation
Indices: 407248--407329 Score: 109
Period size: 34 Copynumber: 2.4 Consensus size: 35
407238 ATTTGGTATT
407248 TAAATATAACAAACTTACAATAA-GA-ATTAAATGG
1 TAAATATAACAAA-TTACAATAACGATATTAAATGG
407282 TAAATATAACCAAATTACAATAACTGATATTAAATGG
1 TAAATATAA-CAAATTACAATAAC-GATATTAAATGG
407319 T-AATA-AACAAA
1 TAAATATAACAAA
407330 ATTAACTGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
34 22 0.50
35 6 0.14
36 6 0.14
37 10 0.23
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.27
Consensus pattern (35 bp):
TAAATATAACAAATTACAATAACGATATTAAATGG
Found at i:407569 original size:18 final size:18
Alignment explanation
Indices: 407546--407602 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
407536 ACTCCTCACT
407546 GTCATCATCGTCGTCGTC
1 GTCATCATCGTCGTCGTC
**
407564 GTCATCATCGTCGTCACC
1 GTCATCATCGTCGTCGTC
* * *
407582 ATCGTCATCGCCGTCGTC
1 GTCATCATCGTCGTCGTC
407600 GTC
1 GTC
407603 GTCCTGAGCA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.12, C:0.37, G:0.21, T:0.30
Consensus pattern (18 bp):
GTCATCATCGTCGTCGTC
Found at i:407576 original size:12 final size:12
Alignment explanation
Indices: 407559--407602 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
407549 ATCATCGTCG
*
407559 TCGTCGTCATCA
1 TCGTCGTCACCA
407571 TCGTCGTCACCA
1 TCGTCGTCACCA
* * *
407583 TCGTCATCGCCG
1 TCGTCGTCACCA
407595 TCGTCGTC
1 TCGTCGTC
407603 GTCCTGAGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.11, C:0.39, G:0.20, T:0.30
Consensus pattern (12 bp):
TCGTCGTCACCA
Found at i:407605 original size:9 final size:9
Alignment explanation
Indices: 407550--407605 Score: 58
Period size: 9 Copynumber: 6.2 Consensus size: 9
407540 CTCACTGTCA
407550 TCATCGTCG
1 TCATCGTCG
* *
407559 TCGTCGTCA
1 TCATCGTCG
407568 TCATCGTCG
1 TCATCGTCG
* *
407577 TCACCATCG
1 TCATCGTCG
*
407586 TCATCGCCG
1 TCATCGTCG
*
407595 TCGTCGTCG
1 TCATCGTCG
407604 TC
1 TC
407606 CTGAGCAGGT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.11, C:0.38, G:0.21, T:0.30
Consensus pattern (9 bp):
TCATCGTCG
Found at i:407970 original size:18 final size:18
Alignment explanation
Indices: 407947--407984 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
407937 AGGCAATGGT
407947 GGCATCATATATGACTGC
1 GGCATCATATATGACTGC
*
407965 GGCATCATATATGGCTGC
1 GGCATCATATATGACTGC
407983 GG
1 GG
407985 TGGCTGCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (18 bp):
GGCATCATATATGACTGC
Found at i:409726 original size:111 final size:111
Alignment explanation
Indices: 409469--409795 Score: 549
Period size: 110 Copynumber: 3.0 Consensus size: 111
409459 ATTACAAAAA
*
409469 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
409534 AATTAAAATGTTAAAATGTTA-CGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
409579 TTAATTCTTAATCTAATAATCAAGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
409644 AATTAAAACGTTCAAATGTTACCGTATCAGTAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
409690 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAA--T---TTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
409750 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
409796 ATGATTTCCA
Statistics
Matches: 206, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
106 46 0.22
109 1 0.00
110 82 0.40
111 77 0.37
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:410689 original size:209 final size:211
Alignment explanation
Indices: 410328--411137 Score: 1195
Period size: 209 Copynumber: 3.8 Consensus size: 211
410318 TTTTTTCTCA
* * *
410328 ACTTATTACTTATTTCTATTTATT-AATTGGTCCATAACTTTTTAAATGAGTATAATTTAGTACA
1 ACTTATTACTTATTTCTATTT-TTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACT
*
410392 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATC-CCTTTTGTGTTGTTT
65 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCTCCTTGTGTGTTGTTT
** *
410456 AATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAACCTAGTCCTCCAAGTTTTATTTGC
130 AATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGC
*
410521 ACCTGAAATTGACCCAT
195 ATCTGAAATTGACCCAT
*
410538 ACTTATTACTTATTTATATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTA-TT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
* * *
410602 TTTTTTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATC-CCTTTTGTGTTGTTTA
66 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCTCCTTGTGTGTTGTTTA
* *
410666 ATATATTTATATTTGTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCA
131 ATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCA
410731 TCTGAAATTGACCCAT
196 TCTGAAATTGACCCAT
* * *
410747 ACTTATTACTTATTTCTATTTTTAAATTGACCCATAACTTTTTAAATTGATATAATTTAGTACTT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
* * *
410812 TTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATATCTCATCAATGTGTGTT
66 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTG--ATCTC--C-TTGTGTGTT
* * *
410877 ATTTAAT-TTTTTAAATTTTTATTTGTAATTTAATATTTGTTCAATTTAGTCCTCCAAATTTTAT
126 GTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTAT
* *
410941 TTGCATATGAAATTGATCCAT
191 TTGCATCTGAAATTGACCCAT
* *
410962 ACTTATTACTTAATTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
*
411027 TTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCTCTCCTCAATGTGTGTT
66 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGA--TCTCCT---TGTGTGTT
* *
411092 GTTTAATTTATTT-AA-TTTT-TTTGTAATTTTATATTTGTTCAATTTA
126 GTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
411138 ATTCTTAAAT
Statistics
Matches: 547, Mismatches: 39, Indels: 25
0.90 0.06 0.04
Matches are distributed among these distances:
209 198 0.36
210 99 0.18
212 3 0.01
213 29 0.05
214 4 0.01
215 197 0.36
216 17 0.03
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (211 bp):
ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCTCCTTGTGTGTTGTTTA
ATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCA
TCTGAAATTGACCCAT
Found at i:442464 original size:23 final size:23
Alignment explanation
Indices: 442437--442513 Score: 127
Period size: 23 Copynumber: 3.3 Consensus size: 23
442427 GGGAACATGA
442437 CGGCGGAGCAGTTGGAGTAGAGG
1 CGGCGGAGCAGTTGGAGTAGAGG
*
442460 CGGCGGAGTAGTTGGAGTAGAGG
1 CGGCGGAGCAGTTGGAGTAGAGG
*
442483 TGGCGGAGCAGTTGGAGTAGAGG
1 CGGCGGAGCAGTTGGAGTAGAGG
*
442506 CGGTGGAG
1 CGGCGGAG
442514 AAGATGCTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.21, C:0.10, G:0.53, T:0.16
Consensus pattern (23 bp):
CGGCGGAGCAGTTGGAGTAGAGG
Found at i:442598 original size:21 final size:21
Alignment explanation
Indices: 442550--442605 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
442540 TTGGGTCGGG
* *
442550 TCTAGATCTGGG-CTTCGGGT
1 TCTAGATCTGGGCCTCCAGGT
* *
442570 TTTGGATCTGGGCCTCCAGGT
1 TCTAGATCTGGGCCTCCAGGT
442591 TCTAGATCTGGGCCT
1 TCTAGATCTGGGCCT
442606 ATAAAATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 10 0.34
21 19 0.66
ACGTcount: A:0.11, C:0.23, G:0.32, T:0.34
Consensus pattern (21 bp):
TCTAGATCTGGGCCTCCAGGT
Found at i:442640 original size:3 final size:3
Alignment explanation
Indices: 442634--442680 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
442624 TTTATTATTT
442634 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
442680 A
1 A
442681 ATGGGACAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:443246 original size:136 final size:137
Alignment explanation
Indices: 442922--443279 Score: 544
Period size: 137 Copynumber: 2.6 Consensus size: 137
442912 AATCTAGCAA
* *
442922 AAGGTTGAACAAGTTCTTCTCATTATAAATTTCTTCTTCCTCTTCAGATGATTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * *
442987 GAACTCCTTCTGGAAATGCTGACCCTCAAAAGAGGTGTCATTGATTCAACTTCATATATGATGAA
66 GAACTCCTTCTGGAAATGTTGACCCTCAAAAGAGGGGTCATTAATTCAACTTCATATATAACGAA
443052 TTAAAGC
131 TTAAAGC
443059 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
** ** *
443124 GAACTCCTTCTGGAAATGTTGACCCTCAAAA-AGGGGTTGTTAATTTGACTTCATATGTAACGAA
66 GAACTCCTTCTGGAAATGTTGACCCTCAAAAGAGGGGTCATTAATTCAACTTCATATATAACGAA
*
443188 TTAAGGC
131 TTAAAGC
*
443195 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTT-TTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
*
443258 TGAAC-ACTTCTGGAAATGTTGA
65 TGAACTCCTTCTGGAAATGTTGA
443280 TGTATCTATC
Statistics
Matches: 205, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
134 16 0.08
135 17 0.08
136 79 0.39
137 93 0.45
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (137 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCCTTCTGGAAATGTTGACCCTCAAAAGAGGGGTCATTAATTCAACTTCATATATAACGAA
TTAAAGC
Found at i:443603 original size:244 final size:244
Alignment explanation
Indices: 443195--443867 Score: 828
Period size: 244 Copynumber: 2.8 Consensus size: 244
443185 GAATTAAGGC
443195 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTT-TTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
** *
443258 TGAACACT-TCTGGAAATGTTGATG-T-ATCTATCTCCT-TCTGTGATAGAGTCATAC-AAAGGT
66 TGAACTTTCTCTGGAAAAGTTGATGCTGAT-TATCT-CTATCTGTGATAGAGTCATACAAAAGGT
* *
443318 TAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACT
129 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACT
* * *
443383 TTCTTTGGAAAAATTGATGTTGATATGTCTCCTTC-TTGATAGAGTC-ATGC-A
194 TTC--TGGAAAAATTGATGCTGATATATCTCCTTCTTTGATAGAATCGA-GCAA
* *
443434 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* *
443498 TGAACTTTCTCTGGAAAAGTTGATGCTGATATATCTCTATCTGTAATAGAGTCATGCAAAAGGTT
66 TGAACTTTCTCTGGAAAAGTTGATGCTGAT-TATCTCTATCTGTGATAGAGTCATACAAAAGGTT
*
443563 GACCAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTC-TCTCATTATGAAAC-
130 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATG-AACT
** * *
443626 TTCTGGAAATTTTGATGCTGATCTATCTCTTTCTTTGATAGAATCGAGCAA
194 TTCTGGAAAAATTGATGCTGATATATCTCCTTCTTTGATAGAATCGAGCAA
* *
443677 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* *
443742 TGAACTCTTC-C-GG--AA----ATGCTG---ATC-C-ATCGAGTGAT-GAATTCA-ACCAAAAG
66 TGAACT-TTCTCTGGAAAAGTTGATGCTGATTATCTCTATC-TGTGATAG-AGTCATA-CAAAAG
*
443792 GTTGAACAAGTT-TTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGA
127 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTCTTCAGATGAGTTCTTCTCATTATGA
*
443856 ACTTTCCGGAAA
191 ACTTTCTGGAAA
443868 TGTTGATCCA
Statistics
Matches: 386, Mismatches: 29, Indels: 44
0.84 0.06 0.10
Matches are distributed among these distances:
231 27 0.07
232 44 0.11
233 21 0.05
237 6 0.02
239 48 0.12
240 18 0.05
241 41 0.11
242 15 0.04
243 77 0.20
244 86 0.22
245 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (244 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTTCTCTGGAAAAGTTGATGCTGATTATCTCTATCTGTGATAGAGTCATACAAAAGGTTG
AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTT
CTGGAAAAATTGATGCTGATATATCTCCTTCTTTGATAGAATCGAGCAA
Found at i:443679 original size:120 final size:120
Alignment explanation
Indices: 443195--443874 Score: 785
Period size: 121 Copynumber: 5.7 Consensus size: 120
443185 GAATTAAGGC
443195 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTT-TTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
* *
443258 TGAACACTTCTGGAAATGTTGATG-T-ATCTATCTCCTTCTGTGATAGAGTCA-TACA
65 TGAAC-TTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCAGCA-A
* *
443313 AAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
** * * *
443378 GAACTTTCTTTGGAAAAATTGATGTTGATATGTCTCCTTCT-TGATAGAGTCATGC-A
66 GAACTTTC--TGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCA-GCAA
* *
443434 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * *
443499 GAACTTTCTCTGGAAAAGTTGATGCTGATATATCT-CTATCTGTAATAGAGTCATGCAA
66 GAAC-TT-TCTGGAAATGTTGATGCTGATCTATCTCCT-TCTGTGATAGAGTCA-GCAA
*
443557 AAGGTTGACCAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTC-TCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
443621 GAAAC-TTCTGGAAATTTTGATGCTGATCTATCTCTTTCTTTGATAGAATCGAGCAA
66 G-AACTTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTC-AGCAA
* *
443677 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
* * ** * *
443742 TGAACTCTTCCGG-AA-----ATGCTGATCCA--T-C--GAGTGAT-GAATTCAACCAA
65 TGAACT-TTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAG-AGTC-AGCAA
*
443789 AAGGTTGAACAAGTT-TTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTCTTCAGATGAGTTCTTCTCATTA
*
443853 TGAACTTTCCGGAAATGTTGAT
65 TGAACTTTCTGGAAATGTTGAT
443875 CCATCGAGTG
Statistics
Matches: 495, Mismatches: 39, Indels: 58
0.84 0.07 0.10
Matches are distributed among these distances:
110 6 0.01
111 55 0.11
112 25 0.05
115 1 0.00
116 2 0.00
117 10 0.02
118 51 0.10
119 17 0.03
120 90 0.18
121 126 0.25
122 49 0.10
123 63 0.13
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (120 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCAGCAA
Found at i:443813 original size:111 final size:112
Alignment explanation
Indices: 443433--443891 Score: 425
Period size: 123 Copynumber: 3.9 Consensus size: 112
443423 AGAGTCATGC
* *
443433 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * **
443497 ATGAACT-TTCTCTGGAAAAGTTGATGCTGATATATCTCTATC-TGTAAT-AGAGTCATGCA
66 ATGAACTCTTC-C-GG--AA----ATGCTG----ATC-C-ATCGAGTGATGA-ATTCAACCA
*
443556 AAAGGTTGACCAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTC-TCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *** * *
443619 ATGAA-ACTTCTGGAAATTTTGATGCTGATCTATCTCTTTCTTTGATAGAA-TCGAGCA
66 ATGAACTCTTCCGG-AA-----ATGCTGATCCA--TC---GAGTGAT-GAATTCAACCA
* *
443676 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
443741 ATGAACTCTTCCGGAAATGCTGATCCATCGAGTGATGAATTCAACCA
66 ATGAACTCTTCCGGAAATGCTGATCCATCGAGTGATGAATTCAACCA
*
443788 AAAGGTTGAACAAGTT-TTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
443852 ATGAACT-TTCCGGAAATGTTGATCCATCGAGTGATGAATT
66 ATGAACTCTTCCGGAAATGCTGATCCATCGAGTGATGAATT
443892 AAATCTTTGC
Statistics
Matches: 296, Mismatches: 26, Indels: 41
0.82 0.07 0.11
Matches are distributed among these distances:
110 32 0.11
111 56 0.19
112 24 0.08
114 1 0.00
115 2 0.01
116 5 0.02
117 10 0.03
119 3 0.01
120 58 0.20
121 16 0.05
122 30 0.10
123 59 0.20
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (112 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTTCCGGAAATGCTGATCCATCGAGTGATGAATTCAACCA
Found at i:445450 original size:6 final size:6
Alignment explanation
Indices: 445441--445489 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
445431 TTATTATTAT
445441 TTTTCA TTTTCA TTTT-- TCTTTCA TTTTCA TTTT-- TTTTCA TTTTCA
1 TTTTCA TTTTCA TTTTCA T-TTTCA TTTTCA TTTTCA TTTTCA TTTTCA
445486 TTTT
1 TTTT
445490 TTTTCTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
4 5 0.13
5 3 0.08
6 29 0.76
7 1 0.03
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTCA
Found at i:445478 original size:16 final size:16
Alignment explanation
Indices: 445440--445494 Score: 101
Period size: 16 Copynumber: 3.4 Consensus size: 16
445430 ATTATTATTA
445440 TTTTTCATTTTCATTT
1 TTTTTCATTTTCATTT
445456 TTCTTTCATTTTCATTT
1 TT-TTTCATTTTCATTT
445473 TTTTTCATTTTCATTT
1 TTTTTCATTTTCATTT
445489 TTTTTC
1 TTTTTC
445495 TTCAAGCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 22 0.58
17 16 0.42
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTCATTTTCATTT
Found at i:458013 original size:23 final size:23
Alignment explanation
Indices: 457960--458013 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
457950 GGGAACATGA
457960 CGGCGGAGCAGTTGGAGTAGAGG
1 CGGCGGAGCAGTTGGAGTAGAGG
**
457983 CGATGGAGCAGTTGGAGTAGAGG
1 CGGCGGAGCAGTTGGAGTAGAGG
458006 CGGCGGAG
1 CGGCGGAG
458014 AAGATGCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.13, G:0.52, T:0.13
Consensus pattern (23 bp):
CGGCGGAGCAGTTGGAGTAGAGG
Found at i:458080 original size:21 final size:21
Alignment explanation
Indices: 458045--458106 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
458035 GGATGTTGGG
*
458045 TCGGG-TCTAGATCTGGGCTT
1 TCGGGTTCTAGATCTGGGCCT
* *
458065 TCGGGTTTTGGATCTGGGCCT
1 TCGGGTTCTAGATCTGGGCCT
*
458086 TCGGGTTCTAGATCTGAGCCT
1 TCGGGTTCTAGATCTGGGCCT
458107 ATAAAATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
20 5 0.14
21 30 0.86
ACGTcount: A:0.10, C:0.21, G:0.34, T:0.35
Consensus pattern (21 bp):
TCGGGTTCTAGATCTGGGCCT
Found at i:459822 original size:25 final size:25
Alignment explanation
Indices: 459786--459833 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
459776 TGTTTACAAA
*
459786 TTAAACCAAATTT-TTATTTTTTTC
1 TTAAACCAAATTTATTATGTTTTTC
*
459810 TTAAACCCTAATTTATTATGTTTT
1 TTAAA-CCAAATTTATTATGTTTT
459834 ATGGTATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 7 0.35
26 8 0.40
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.56
Consensus pattern (25 bp):
TTAAACCAAATTTATTATGTTTTTC
Found at i:463508 original size:63 final size:63
Alignment explanation
Indices: 463433--463553 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
463423 GATGCATCCC
* *
463433 TTAACGGGTGCATCGATGCACTACCTGTGCATCGGTACACAAATCCCATTCGATGTTTGAATA
1 TTAACGGGTGCATCGATGCACTACCTGTGCATCGATACACAAATCACATTCGATGTTTGAATA
* * * * *
463496 TTAAGGGGTGCATCGATGCACTACTTGTGTATCGATACACTAATGACATTCGATGTTT
1 TTAACGGGTGCATCGATGCACTACCTGTGCATCGATACACAAATCACATTCGATGTTT
463554 TTATTTTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (63 bp):
TTAACGGGTGCATCGATGCACTACCTGTGCATCGATACACAAATCACATTCGATGTTTGAATA
Found at i:465404 original size:84 final size:83
Alignment explanation
Indices: 465304--465471 Score: 327
Period size: 84 Copynumber: 2.0 Consensus size: 83
465294 GCACCGGTAT
465304 AAAATGGCTGATTTAATCAAAATATCTATAATCACCCAGATTAAATCCCTTTTGTTCGGAGTTAA
1 AAAATGGCTGATTTAATCAAAATATCTATAATCACCCAGATTAAATCCCTTTTGTTCGGAGTTAA
465369 AGAAAACCCAATCATAAA
66 AGAAAACCCAATCATAAA
465387 AAAATGGGCTGATTTAATCAAAATATCTATAATCACCCAGATTAAATCCCTTTTGTTCGGAGTTA
1 AAAAT-GGCTGATTTAATCAAAATATCTATAATCACCCAGATTAAATCCCTTTTGTTCGGAGTTA
465452 AAGAAAACCCAATCATAAA
65 AAGAAAACCCAATCATAAA
465471 A
1 A
465472 TCCATTGTTA
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 5 0.06
84 79 0.94
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (83 bp):
AAAATGGCTGATTTAATCAAAATATCTATAATCACCCAGATTAAATCCCTTTTGTTCGGAGTTAA
AGAAAACCCAATCATAAA
Found at i:469865 original size:22 final size:22
Alignment explanation
Indices: 469815--469978 Score: 130
Period size: 22 Copynumber: 7.8 Consensus size: 22
469805 AGTGAATATT
469815 TGTCCCGAAGGACCA-T---TA
1 TGTCCCGAAGGACCACTAGATA
* *
469833 CGTCCCTAAGGACCACTAGATA
1 TGTCCCGAAGGACCACTAGATA
*
469855 TGTCCCGAAGGACCACTACG-TC
1 TGTCCCGAAGGACCACTA-GATA
*
469877 T-T---GAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTAGATA
469895 TGTCCCGAAGGACCACTAGATA
1 TGTCCCGAAGGACCACTAGATA
* * *
469917 CGTCCTGAAGGACCTCTAGATA
1 TGTCCCGAAGGACCACTAGATA
** * * *
469939 CATCTCGAAGGATCACTGGATA
1 TGTCCCGAAGGACCACTAGATA
* *
469961 TGTCCCAAAGGATCACTA
1 TGTCCCGAAGGACCACTA
469979 TAAACCTTCG
Statistics
Matches: 114, Mismatches: 22, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
17 1 0.01
18 26 0.23
19 2 0.02
21 1 0.01
22 83 0.73
23 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTAGATA
Found at i:469875 original size:40 final size:40
Alignment explanation
Indices: 469815--469938 Score: 160
Period size: 40 Copynumber: 3.0 Consensus size: 40
469805 AGTGAATATT
*
469815 TGTCCCGAAGGACCATTACGTCCCT-AAGGACCACTAGATA
1 TGTCCCGAAGGACCACTACGT-CCTGAAGGACCACTAGATA
* *
469855 TGTCCCGAAGGACCACTACGTCTTGAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTACGTCCTGAAGGACCACTAGATA
*
469895 TGTCCCGAAGGACCACTAGATACGTCCTGAAGGACCTCTAGATA
1 TGTCCCGAAGGACCAC----TACGTCCTGAAGGACCACTAGATA
469939 CATCTCGAAG
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
39 2 0.03
40 50 0.68
44 21 0.29
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (40 bp):
TGTCCCGAAGGACCACTACGTCCTGAAGGACCACTAGATA
Found at i:469948 original size:44 final size:43
Alignment explanation
Indices: 469815--469965 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 43
469805 AGTGAATATT
469815 TGTCCCGAAGGACCA-T--TACGTCCCT-AAGGACCACTAGATA
1 TGTCCCGAAGGACCACTGATACGT-CCTGAAGGACCACTAGATA
* *
469855 TGTCCCGAAGGACCAC---TACGTCTTGAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTGATACGTCCTGAAGGACCACTAGATA
*
469895 TGTCCCGAAGGACCACTAGATACGTCCTGAAGGACCTCTAGATA
1 TGTCCCGAAGGACCACT-GATACGTCCTGAAGGACCACTAGATA
** * * *
469939 CATCTCGAAGGATCACTGGATATGTCC
1 TGTCCCGAAGGACCACT-GATACGTCC
469966 CAAAGGATCA
Statistics
Matches: 94, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 50 0.53
44 42 0.45
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (43 bp):
TGTCCCGAAGGACCACTGATACGTCCTGAAGGACCACTAGATA
Found at i:472555 original size:34 final size:34
Alignment explanation
Indices: 472510--472576 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
472500 AATAGGAATT
*
472510 ACAACTTCTCTC-AATCTAACAAGGAGAAAACAATG
1 ACAACTTCTCTCTAA--TAAAAAGGAGAAAACAATG
472545 ACAA-TTCTCTCTTAATAAAAAGGAGAAAACAA
1 ACAACTTCTCTC-TAATAAAAAGGAGAAAACAA
472577 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 23 0.79
35 4 0.14
36 2 0.07
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.21
Consensus pattern (34 bp):
ACAACTTCTCTCTAATAAAAAGGAGAAAACAATG
Found at i:477141 original size:34 final size:34
Alignment explanation
Indices: 477079--477146 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
477069 AGAAAATAGG
*
477079 AATTACAATTTCTCTTGATCTAACAAGGAGAAAAT
1 AATTACAATTTCTCTTGA-CTAAAAAGGAGAAAAT
477114 AATTACAATTCTCTCTTGA-TAAAAAGGAGAAAA
1 AATTACAATT-TCTCTTGACTAAAAAGGAGAAAA
477147 CAACTCTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
34 13 0.42
35 10 0.32
36 8 0.26
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (34 bp):
AATTACAATTTCTCTTGACTAAAAAGGAGAAAAT
Found at i:478422 original size:66 final size:66
Alignment explanation
Indices: 478341--478467 Score: 245
Period size: 66 Copynumber: 1.9 Consensus size: 66
478331 GATCCTGACC
478341 TTCCTTACAATAATTCTTTGTATGACCATAAACACCACAGTGAACACATACCTACTGCAAATTAC
1 TTCCTTACAATAATTCTTTGTATGACCATAAACACCACAGTGAACACATACCTACTGCAAATTAC
478406 A
66 A
*
478407 TTCCTTACAATAATTCTTTGTATGACCATAAACACCACATTGAACACATACCTACTGCAAA
1 TTCCTTACAATAATTCTTTGTATGACCATAAACACCACAGTGAACACATACCTACTGCAAA
478468 CCTTCATATT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (66 bp):
TTCCTTACAATAATTCTTTGTATGACCATAAACACCACAGTGAACACATACCTACTGCAAATTAC
A
Found at i:479486 original size:14 final size:14
Alignment explanation
Indices: 479467--479499 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
479457 CTCTACAAAA
479467 ATTATAATTAAATT
1 ATTATAATTAAATT
479481 ATTATAATTAAATT
1 ATTATAATTAAATT
479495 ATTAT
1 ATTAT
479500 GTGATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTATAATTAAATT
Found at i:481846 original size:16 final size:16
Alignment explanation
Indices: 481810--481840 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
481800 AATGCAGACC
481810 ATTTTTCTTTAAAATG
1 ATTTTTCTTTAAAATG
481826 ATTTTTCTTTAAAAT
1 ATTTTTCTTTAAAAT
481841 TGTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
ATTTTTCTTTAAAATG
Found at i:482935 original size:31 final size:32
Alignment explanation
Indices: 482900--482961 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
482890 ATTTTACATG
482900 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
482931 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
482962 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:485421 original size:26 final size:25
Alignment explanation
Indices: 485392--485470 Score: 78
Period size: 26 Copynumber: 3.3 Consensus size: 25
485382 AATTTTTGAC
485392 ATTCTATTTCTTTGAGACCTTGAAAT
1 ATTCT-TTTCTTTGAGACCTTGAAAT
*
485418 ATTCTTTTC-----GACCTTGAAAC
1 ATTCTTTTCTTTGAGACCTTGAAAT
* *
485438 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTTTCTTTGAGACCTTGAAAT
485464 ATTCTTT
1 ATTCTTT
485471 CTACCTTGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 13 0.32
21 4 0.10
25 6 0.15
26 18 0.44
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (25 bp):
ATTCTTTTCTTTGAGACCTTGAAAT
Found at i:485424 original size:20 final size:20
Alignment explanation
Indices: 485399--485470 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 20
485389 GACATTCTAT
485399 TTCTTTGAGACCTTGAAATA
1 TTCTTTGAGACCTTGAAATA
** *
485419 TTCTTTTCGACCTTGAAACATTCCC
1 TTCTTTGAGACCTTG-AA-A-T--A
485444 TCTCTTTGAGACCTTGAAATA
1 T-TCTTTGAGACCTTGAAATA
485465 TTCTTT
1 TTCTTT
485471 CTACCTTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
20 18 0.45
21 3 0.08
22 1 0.03
23 2 0.05
24 1 0.03
25 3 0.08
26 12 0.30
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (20 bp):
TTCTTTGAGACCTTGAAATA
Found at i:486115 original size:11 final size:11
Alignment explanation
Indices: 486087--486124 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
486077 AAGAGCAAAG
486087 AGAAAAATCAA
1 AGAAAAATCAA
486098 AGCAAAAATCAA
1 AG-AAAAATCAA
*
486110 AGAAAAAGCAA
1 AGAAAAATCAA
486121 AGAA
1 AGAA
486125 CAAAAGAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.71, C:0.11, G:0.13, T:0.05
Consensus pattern (11 bp):
AGAAAAATCAA
Found at i:487318 original size:4 final size:4
Alignment explanation
Indices: 487309--487346 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
487299 ATGCATCAAC
*
487309 ACAT ACAT ACAT ATAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
487347 GATACATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 2 0.07
4 28 0.93
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:487945 original size:36 final size:36
Alignment explanation
Indices: 487893--488010 Score: 159
Period size: 36 Copynumber: 3.3 Consensus size: 36
487883 TGAGAATTTT
*
487893 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTC
1 AAAACAAA-TTTTGTCTCGCTTGAGACAATTTCTTTA
* *
487930 AAAGCAAATTTTGTCTCGCTTGAGACAGCTTTC--TA
1 AAAACAAATTTTGTCTCGCTTGAGACA-ATTTCTTTA
* *
487965 AAAACAAATTTTGTCTCGTTTGAGACAATTTCTTGA
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTA
488001 AAAACAAATT
1 AAAACAAATT
488011 CCGTCTCACT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
34 4 0.06
35 26 0.37
36 30 0.42
37 11 0.15
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTA
Found at i:488017 original size:71 final size:72
Alignment explanation
Indices: 487893--488027 Score: 191
Period size: 71 Copynumber: 1.9 Consensus size: 72
487883 TGAGAATTTT
** * ** * *
487893 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTCAAAGCAAATTTTGTCTCGCTTGAGACAG
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGTCTCACTGGAGACAG
487958 CTTTCTA
66 CTTTCTA
*
487965 AAAACAAA-TTTTGTCTCGTTTGAGACAATTTCTTGAAAAACAAATTCCGTCTCACTGGAGACA
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGTCTCACTGGAGACA
488028 TTTTTCCTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
71 47 0.85
72 8 0.15
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (72 bp):
AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGTCTCACTGGAGACAG
CTTTCTA
Found at i:488174 original size:167 final size:166
Alignment explanation
Indices: 487934--488252 Score: 423
Period size: 167 Copynumber: 1.9 Consensus size: 166
487924 TCTTTCAAAG
* * * ** *
487934 CAAATTTTGTCTCGCTTGAGACAGCTTTCTAAAAACAAATTTTGTCTCGTTTGAGACAATTTCTT
1 CAAATTTTGTCTCGCTTGAGACAGATTTCTAAAAACAAAGTTTGTATCACTTAAGACAATTTCTT
487999 GAAAAACAAA-TTCCGTCTCACTGGAGACATTTTTCC-TTGAGATACAAATTTCGAATTTGATTC
66 -AAAAACAAACTT-CGTCTCACTGGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTC
* *
488062 ACATT-AAACAAAGTTGATCTCACTTGAGATCGTTTTCT
129 AC-TTAAAACAAAATTAATCTCACTTGAGATCGTTTTCT
* *
488100 CAAATTTTGTTTTGCTTGAGACA-ATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTC
1 CAAATTTTGTCTCGCTTGAGACAGATTTC--TAAAAACAAAGTTTGTATCACTTAAGAC-AATT-
* * *
488164 TCTT-AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGAT
62 TCTTAAAAACAAACTTCGTCTCACTGGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGAT
488228 TCACTTAAAACAAAATTAATCTCAC
127 TCACTTAAAACAAAATTAATCTCAC
488253 CTTAGATTGT
Statistics
Matches: 133, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
165 4 0.03
166 21 0.16
167 54 0.41
168 50 0.38
169 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (166 bp):
CAAATTTTGTCTCGCTTGAGACAGATTTCTAAAAACAAAGTTTGTATCACTTAAGACAATTTCTT
AAAAACAAACTTCGTCTCACTGGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATTCAC
TTAAAACAAAATTAATCTCACTTGAGATCGTTTTCT
Found at i:488194 original size:36 final size:36
Alignment explanation
Indices: 488113--488194 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
488103 ATTTTGTTTT
* * *
488113 GCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAACTTCGTATC
* * *
488149 ACTTAAGACAAATTCTCTT-AAAACAAACTTCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAACTTCGTATC
488185 GCTTGAGACA
1 GCTTGAGACA
488195 TTTTTCCTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
36 35 0.95
37 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAACTTCGTATC
Found at i:488293 original size:105 final size:102
Alignment explanation
Indices: 488168--488406 Score: 297
Period size: 105 Copynumber: 2.3 Consensus size: 102
488158 AAATTCTCTT
* * *
488168 AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
*
488232 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
488273 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
488338 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
488375 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
488407 TCTAAAAACA
Statistics
Matches: 119, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 4 0.03
105 78 0.66
106 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:488344 original size:273 final size:267
Alignment explanation
Indices: 488001--488633 Score: 810
Period size: 273 Copynumber: 2.3 Consensus size: 267
487991 AATTTCTTGA
* * * *
488001 AAAACAAATTCCGTCTCACTGGAGACATTTTTCC-TTGAGATACAAATTTCGAATTTGATTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACA-TTTTCCTTTGAGATACAAATTTCGAATTTGTTTCACA
* * *
488065 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT-CAAATTTTGTTTTGCTTGAGACAATTTCT
65 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTACAAACTTTGTCTCGCTTGAGACAATTTCT
* *
488129 TTAAAAACAAAGTTTGTATCACTTAAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGAC
130 CTAAAAACAAAGTTTGTATCACTTAAGAC-AA-TATCTTAAAACAAACTTCGTCTCGCTTGAGAC
488194 ATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTT-AG
193 ATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAAC--AA--AATCTCA-CTTGAG
*
488258 ATTGTTGTTTCTTTC
253 ATTGTTGTTTATTTC
* *
488273 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTT-CCTTTGAGATACAAATTTCGAATTTGTTTCACA
488338 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCAAAAACAAACTTTGTCTCGCTTGAGACAA
65 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT-----ACAAACTTTGTCTCGCTTGAGACAA
* * * * * * *
488403 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGACTATATCTTAAAGCAAATTTCGTCTCGCTTGA
125 TTTCTCTAAAAACAAAGTTTGTATCACTTAAGACAATATCTTAAAACAAACTTCGTCTCGCTTGA
* * *
488468 GACATTTTTCCTTTGAGATACTAATTTTGAATTTGTTTCACTTAAAACAAAATCTCACTTGATAT
190 GACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATCTCACTTGAGAT
488533 TGTTGTTTATTTC
255 TGTTGTTTATTTC
* * * * *
488546 GAAACAAATTTCGTTTCGCTTGAGACATTTTTCTCTGAGATACAAATTT-AAATTTGTTGT-AC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCTTTGAGATACAAATTTCGAATTTGTT-TCACA
* * *
488608 TTGAAACAAAATTAATATCACTTGAG
65 TT-AAACAAAGTTGATCTCACTTGAG
488634 TTTTTCAAAA
Statistics
Matches: 318, Mismatches: 32, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
270 2 0.01
271 34 0.11
272 44 0.14
273 113 0.36
275 2 0.01
277 72 0.23
278 1 0.00
279 50 0.16
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (267 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCTTTGAGATACAAATTTCGAATTTGTTTCACAT
TAAACAAAGTTGATCTCACTTGAGATCGTTTTCTACAAACTTTGTCTCGCTTGAGACAATTTCTC
TAAAAACAAAGTTTGTATCACTTAAGACAATATCTTAAAACAAACTTCGTCTCGCTTGAGACATT
TTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATCTCACTTGAGATTGTTGT
TTATTTC
Found at i:488397 original size:36 final size:36
Alignment explanation
Indices: 488352--488471 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
488342 ACAAAGTTGA
**
488352 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
488388 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
488424 TCTCATTTGAGACTATATCT-T-AAAGCAAA-TTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTT-G
*
488458 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
488472 TTTTTCCTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
33 3 0.04
34 19 0.27
35 8 0.11
36 40 0.57
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:488819 original size:29 final size:29
Alignment explanation
Indices: 488785--488882 Score: 139
Period size: 29 Copynumber: 3.5 Consensus size: 29
488775 CTCTTGAGAT
488785 AAATCTTTGAGTCTGTTCCTTTTGAATAA
1 AAATCTTTGAGTCTGTTCCTTTTGAATAA
* *
488814 AAATCTTGGAGTTTGTTCCTTTTGAATAA
1 AAATCTTTGAGTCTGTTCCTTTTGAATAA
* *
488843 ATATCTTTGAGT-TGTTTCTTTTG-A-AA
1 AAATCTTTGAGTCTGTTCCTTTTGAATAA
488869 AAATCTTTGAGTCT
1 AAATCTTTGAGTCT
488883 ATTTATTTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 13 0.21
27 2 0.03
28 10 0.16
29 37 0.60
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.47
Consensus pattern (29 bp):
AAATCTTTGAGTCTGTTCCTTTTGAATAA
Found at i:488866 original size:28 final size:28
Alignment explanation
Indices: 488771--488894 Score: 137
Period size: 29 Copynumber: 4.4 Consensus size: 28
488761 TCTGGAGACA
*
488771 GTTTCTCTTGAGAT-AAATCTTTGAGTCT
1 GTTTCTTTTGA-ATAAAATCTTTGAGTCT
* * *
488799 GTTCCTTTTGAATAAAAATCTTGGAGTTT
1 GTTTCTTTTGAAT-AAAATCTTTGAGTCT
*
488828 GTTCCTTTTGAATAAATATCTTTGAGT-T
1 GTTTCTTTTGAATAAA-ATCTTTGAGTCT
488856 GTTTCTTTTGAA-AAAATCTTTGAGTCT
1 GTTTCTTTTGAATAAAATCTTTGAGTCT
* *
488883 ATTTATTTTGAA
1 GTTTCTTTTGAA
488895 ACAAAGTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
26 10 0.12
27 16 0.19
28 24 0.29
29 34 0.40
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.48
Consensus pattern (28 bp):
GTTTCTTTTGAATAAAATCTTTGAGTCT
Found at i:488969 original size:52 final size:53
Alignment explanation
Indices: 488891--488993 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 53
488881 CTATTTATTT
*
488891 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAGTC
1 TGAAACAAAGTGTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
*
488943 TGAAACAAAGTGTTGTCTCTCTTGAGACAATTTTGTGAAAAAATCTTTGAG
1 TGAAACAAAGTGTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAG
488994 AGTGTTTCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 35 0.73
53 13 0.27
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (53 bp):
TGAAACAAAGTGTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
Found at i:489045 original size:29 final size:30
Alignment explanation
Indices: 488981--489044 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
488971 AATTTTGTGA
*
488981 AAAAATCTTTGAGAGTGTTTCTTTTGAAAC
1 AAAAATCTTTGAGAGTGTTTCTTTGGAAAC
**
489011 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGAGTGTTTCTTTGGAAAC
489041 AAAA
1 AAAA
489045 TTTTGTCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (30 bp):
AAAAATCTTTGAGAGTGTTTCTTTGGAAAC
Found at i:489945 original size:28 final size:28
Alignment explanation
Indices: 489867--489955 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 28
489857 GAAACAAAAC
* * *
489867 AAACAAAGTCTTTGAGTATGTTTTTCTTG
1 AAACAAA-TCTTTGAATTTGTTTCTCTTG
** *
489896 AAACAAATCTTTGGGTTTGTTTCTTTTG
1 AAACAAATCTTTGAATTTGTTTCTCTTG
489924 AAACAAATCTTT-AATTTGGTTTCTCTTG
1 AAACAAATCTTTGAATTT-GTTTCTCTTG
489952 AAAC
1 AAAC
489956 CATAACTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 3 0.06
28 42 0.81
29 7 0.13
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (28 bp):
AAACAAATCTTTGAATTTGTTTCTCTTG
Found at i:490035 original size:46 final size:45
Alignment explanation
Indices: 489984--490351 Score: 238
Period size: 46 Copynumber: 8.5 Consensus size: 45
489974 CCAGCCGTCC
* * *
489984 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCATAACTCT
1 TCATCACGTAGGAGCCGTGTCATCACC-TTAGATGGCCAGAACTCT
* * *
490030 TCATCACGTATGAGCCGTGTCATTC-CC-CAGA---CCAGATCTCT
1 TCATCACGTAGGAGCCGTGTCA-TCACCTTAGATGGCCAGAACTCT
* * ** * *
490071 TCATCACGTATGAGCCGTGTCA--ACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCACCTTAGATGGCCAGAAC-TCT
* *
490114 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATCACC-TTAGATGGCCAGAACTCT
* * * *
490160 TCATCACGTATGAGCCGTGTCAT-TCC-TCGA---CCAGACCTCT
1 TCATCACGTAGGAGCCGTGTCATCACCTTAGATGGCCAGAACTCT
** * *
490200 TCATCACGTAGGAGCCGTGTCA-C-CCTTAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCACCTTAGATGGCCAGAAC-TCT
* *
490243 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATCACC-TTAGATGGCC-AGAACTCT
* * *** *
490290 TCATCATGTATGAGTAATGTCATC-CCCT-GA---CCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATCACCTTAGATGGCCAGAACTCT
* *
490330 TCATCACGTATGAACCGTGTCA
1 TCATCACGTAGGAGCCGTGTCA
490352 ACCTCAGATA
Statistics
Matches: 255, Mismatches: 45, Indels: 50
0.73 0.13 0.14
Matches are distributed among these distances:
39 4 0.02
40 61 0.24
41 32 0.13
42 3 0.01
43 54 0.21
44 6 0.02
45 8 0.03
46 62 0.24
47 24 0.09
48 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
TCATCACGTAGGAGCCGTGTCATCACCTTAGATGGCCAGAACTCT
Found at i:490205 original size:40 final size:41
Alignment explanation
Indices: 490026--490355 Score: 197
Period size: 40 Copynumber: 7.8 Consensus size: 41
490016 ATGGCCATAA
* ** *
490026 CTCTTCATCACGTATGAGCCGTGTCATTCCCCAGACCAGAT
1 CTCTTCATCACGTATGAGCCGTGTCATACCTTAGACCAGAC
*
490067 CTCTTCATCACGTATGAGCCGTGTCA-ACCATAGATAACCAG-C
1 CTCTTCATCACGTATGAGCCGTGTCATACCTTAG---ACCAGAC
* * * * *
490109 CGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAA
1 C-TCTTCATCACGTATGAGCCGTGTCAT-ACC-TTAGA---CCAGAC
* *
490156 CTCTTCATCACGTATGAGCCGTGTCATTCC-TCGACCAGAC
1 CTCTTCATCACGTATGAGCCGTGTCATACCTTAGACCAGAC
* *
490196 CTCTTCATCACGTAGGAGCCGTGTCA-CCCTTAGATAACCAG-C
1 CTCTTCATCACGTATGAGCCGTGTCATACCTTAG---ACCAGAC
* * * * *
490238 CGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAA
1 C-TCTTCATCACGTATGAGCCGTGTCAT-ACC-TTAGA---CC-AGAC
* *** * * *
490286 CTCTTCATCATGTATGAGTAATGTCATCCCCT-GACCAGAA
1 CTCTTCATCACGTATGAGCCGTGTCATACCTTAGACCAGAC
*
490326 CTCTTCATCACGTATGAACCGTGTCA-ACCT
1 CTCTTCATCACGTATGAGCCGTGTCATACCT
490356 CAGATAACCA
Statistics
Matches: 223, Mismatches: 42, Indels: 50
0.71 0.13 0.16
Matches are distributed among these distances:
39 4 0.02
40 61 0.27
41 28 0.13
42 3 0.01
43 58 0.26
44 2 0.01
45 8 0.04
46 37 0.17
47 21 0.09
48 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (41 bp):
CTCTTCATCACGTATGAGCCGTGTCATACCTTAGACCAGAC
Found at i:490311 original size:130 final size:130
Alignment explanation
Indices: 489974--490446 Score: 655
Period size: 130 Copynumber: 3.6 Consensus size: 130
489964 CTAAAGATGG
*
489974 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCATAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
* *
490039 ATGAGCCGTGTCATTCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGATAA
66 ATGAGCCGTGTCATTCCCCAGACCAGAACTCTTCATCACGTATGAGCCGTGTCAACCTTAGATAA
490104 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
* * * *
490169 ATGAGCCGTGTCATTCCTC-GACCAGACCTCTTCATCACGTAGGAGCCGTGTCACCCTTAGATAA
66 ATGAGCCGTGTCATTCCCCAGACCAGAACTCTTCATCACGTATGAGCCGTGTCAACCTTAGATAA
*
490233 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCTTCATCATG
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCTTCATCACG
*** * * *
490298 TATGAGTAATGTCA-TCCCCTGACCAGAACTCTTCATCACGTATGAACCGTGTCAACCTCAGATA
65 TATGAGCCGTGTCATTCCCCAGACCAGAACTCTTCATCACGTATGAGCCGTGTCAACCTTAGATA
490362 A
130 A
* * * **
490363 CCAGCCGTCCGCAGCAGAGT-GGAACCGTGTTAGCATCATTCCTAAAGATGGCCAGAACTCTTCA
1 CCAGCCGTCCTCATCA-CGTAGGAACCGTGTT---ATCA--CCTTTAGATGGCCAGAACTCTTCA
* * **
490427 TCGCGGATGAGAAGTGTCAT
60 TCACGTATGAGCCGTGTCAT
490447 CCCTCGGCCA
Statistics
Matches: 308, Mismatches: 26, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
129 93 0.30
130 173 0.56
131 2 0.01
133 4 0.01
134 25 0.08
135 11 0.04
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (130 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
ATGAGCCGTGTCATTCCCCAGACCAGAACTCTTCATCACGTATGAGCCGTGTCAACCTTAGATAA
Found at i:490496 original size:91 final size:93
Alignment explanation
Indices: 490369--490537 Score: 270
Period size: 91 Copynumber: 1.8 Consensus size: 93
490359 ATAACCAGCC
* *
490369 GTCCGCAGCAGAGTGGAACCGTGTTAGCATCATTCCTAAAGATGGCC-AGA-ACTCTTCATCGCG
1 GTCCCCAGCAGAGTGGAACCATGTTAGCATCATTCCTAAAGATGGCCAAGATACTCTTCATCGCG
490432 GATGAGAAGTGTCATCCCTCGGCCAGAT
66 GATGAGAAGTGTCATCCCTCGGCCAGAT
* * *
490460 GTCCCCAGCAGAGTGGAACCATGTTATCATCTTTCCTAAAGATGGCCAAGATTCTCTTCATCGCG
1 GTCCCCAGCAGAGTGGAACCATGTTAGCATCATTCCTAAAGATGGCCAAGATACTCTTCATCGCG
*
490525 GATGAGCAGTGTC
66 GATGAGAAGTGTC
490538 GTCTTCAACA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
91 43 0.61
92 3 0.04
93 24 0.34
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (93 bp):
GTCCCCAGCAGAGTGGAACCATGTTAGCATCATTCCTAAAGATGGCCAAGATACTCTTCATCGCG
GATGAGAAGTGTCATCCCTCGGCCAGAT
Found at i:492843 original size:16 final size:16
Alignment explanation
Indices: 492807--492837 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
492797 AATGCAGACC
492807 ATTTTTCTTTAAAATG
1 ATTTTTCTTTAAAATG
492823 ATTTTTCTTTAAAAT
1 ATTTTTCTTTAAAAT
492838 TGTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
ATTTTTCTTTAAAATG
Found at i:493655 original size:2 final size:2
Alignment explanation
Indices: 493648--493676 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
493638 ATTGATATTA
493648 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
493677 TTGAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:493667 original size:13 final size:13
Alignment explanation
Indices: 493649--493674 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
493639 TTGATATTAA
493649 TATATATATATAT
1 TATATATATATAT
493662 TATATATATATAT
1 TATATATATATAT
493675 ATTTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:494612 original size:38 final size:37
Alignment explanation
Indices: 494554--494640 Score: 131
Period size: 38 Copynumber: 2.3 Consensus size: 37
494544 CCTAAACCCG
*
494554 AACCCGACCCGACCTGACCCAAATATCACACTTAAAAA
1 AACCCGACCCGACCTAACCCAAATATCACACTT-AAAA
494592 AACCCGACCCGA-CTCAACCCAAATATCACACTTAAAA
1 AACCCGACCCGACCT-AACCCAAATATCACACTTAAAA
*
494629 AACTCGACCCGA
1 AACCCGACCCGA
494641 ACAAAATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 17 0.37
38 29 0.63
ACGTcount: A:0.41, C:0.38, G:0.08, T:0.13
Consensus pattern (37 bp):
AACCCGACCCGACCTAACCCAAATATCACACTTAAAA
Found at i:494824 original size:243 final size:245
Alignment explanation
Indices: 494504--495066 Score: 766
Period size: 243 Copynumber: 2.2 Consensus size: 245
494494 ATATAAAGTA
*
494504 AAATTATATATATTTTTCGGGTCGGTCCAGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCT
1 AAATTATATATATTTTT-GGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCT
*
494569 GACCCAAATATCACACTTAAAAAAACCCGACCCGACTCAACCCAAATATCACACTT-AAAAAA-C
65 GAACCAAATATCACACTTAAAAAAACCCGA-CCGACTCAACCCAAATATCACACTTAAAAAAACC
494632 -T-CGACCCGAACAAAATAAAGTTTCATCCGA-C-CCGAATATATGAATTAGAAAT-CCGACCCG
129 TTCCGACCCGAACAAAATAAAGTTTCATCCGACCACCGAATATATGAATTAGAAATCCCGACCCG
494692 AAATAAT-AAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCC
194 AAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCC
* *
494743 GACCCGAATTATATATATTTTTGGGTCGGTCCGGTTTTTTTCACCGTAAACCCGAACCCGACTCG
1 -A----AATTATATATATTTTTGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCG
* * * *
494808 ATCC-GAACCGAATATCACATTTAAAAAAACCCGACCGACTCGACCCGAATATCACACTTAAAAA
61 A-CCTGAACCAAATATCACACTTAAAAAAACCCGACCGACTCAACCCAAATATCACACTTAAAAA
494872 AACCTTACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCGAATATATGAATTAGAAATC
125 AACCTT--CCGACCCGAACAAAATAAAGTTTCATCCGA-CC-ACCGAATATATGAATTAGAAAT-
*
494937 CGACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATTCG
185 --------CCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCG
495002 ACCC
242 ACCC
* * *
495006 AAATTATATATATTTTCGGGTCGGTCTGATTTTTTTCACCCTAAACCCGAACCCGACCCGA
1 AAATTATATATATTTTTGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGA
495067 ATATCACACT
Statistics
Matches: 283, Mismatches: 14, Indels: 34
0.85 0.04 0.10
Matches are distributed among these distances:
240 1 0.00
242 23 0.08
243 74 0.26
244 19 0.07
245 1 0.00
248 29 0.10
250 1 0.00
252 21 0.07
258 55 0.19
262 16 0.06
263 43 0.15
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (245 bp):
AAATTATATATATTTTTGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCTG
AACCAAATATCACACTTAAAAAAACCCGACCGACTCAACCCAAATATCACACTTAAAAAAACCTT
CCGACCCGAACAAAATAAAGTTTCATCCGACCACCGAATATATGAATTAGAAATCCCGACCCGAA
ATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCC
Found at i:494859 original size:37 final size:38
Alignment explanation
Indices: 494797--494875 Score: 117
Period size: 37 Copynumber: 2.1 Consensus size: 38
494787 CGTAAACCCG
*
494797 AACCCGACTCGATCCGAACCGAATATCACATTTAAAAA
1 AACCCGACTCGATCCGAACCGAATATCACACTTAAAAA
*
494835 AACCCGAC-CGA-CTCGACCCGAATATCACACTTAAAAA
1 AACCCGACTCGATC-CGAACCGAATATCACACTTAAAAA
494872 AACC
1 AACC
494876 TTACCCGACC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 1 0.03
37 29 0.76
38 8 0.21
ACGTcount: A:0.42, C:0.33, G:0.10, T:0.15
Consensus pattern (38 bp):
AACCCGACTCGATCCGAACCGAATATCACACTTAAAAA
Found at i:495958 original size:21 final size:21
Alignment explanation
Indices: 495929--495970 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
495919 AAGATGAATA
*
495929 ATTTTAAAA-TTAAATAATAAG
1 ATTTAAAAATTTAAA-AATAAG
495950 ATTTAAAAATTTAAAAATAAG
1 ATTTAAAAATTTAAAAATAAG
495971 TGATTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
ATTTAAAAATTTAAAAATAAG
Found at i:497102 original size:28 final size:28
Alignment explanation
Indices: 497071--497126 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
497061 TGACAATGAG
497071 AAATATTT-TATAATTTAAAAAAAATTAT
1 AAAT-TTTATATAATTTAAAAAAAATTAT
* *
497099 AAATTTTATATATTTTAAAAAAATTTAT
1 AAATTTTATATAATTTAAAAAAAATTAT
497127 TGACTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
AAATTTTATATAATTTAAAAAAAATTAT
Found at i:497422 original size:25 final size:25
Alignment explanation
Indices: 497394--497441 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
497384 TCAATAAATT
497394 TTTTAAAAATATATAAA-ATTTATAA
1 TTTTAAAAATATA-AAATATTTATAA
* *
497419 TTTTTAAATTATAAAATATTTAT
1 TTTTAAAAATATAAAATATTTAT
497442 CGTCATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTTAAAAATATAAAATATTTATAA
Found at i:512671 original size:35 final size:35
Alignment explanation
Indices: 512632--512752 Score: 102
Period size: 35 Copynumber: 3.4 Consensus size: 35
512622 CCTTAGGTCC
*
512632 ATAAGAAATTACCAATTGATCGGTGTTGAACATAT
1 ATAAGAAATTACCAATTGATCGGTGTTGAACCTAT
* * * * **
512667 ATAAGGAATTATCAGCTTGATC-ATAAATGAACCTGCA-
1 ATAAGAAATTACCA-ATTGATCGGT-GTTGAACCT--AT
* * *
512704 ATAAGGAATTACCAACTGATCGGTGTTAAACCTAT
1 ATAAGAAATTACCAATTGATCGGTGTTGAACCTAT
512739 ATAAGAAATTACCA
1 ATAAGAAATTACCA
512753 GCTTGATCAA
Statistics
Matches: 65, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
34 1 0.02
35 26 0.40
36 23 0.35
37 14 0.22
38 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (35 bp):
ATAAGAAATTACCAATTGATCGGTGTTGAACCTAT
Found at i:512749 original size:72 final size:72
Alignment explanation
Indices: 512632--512773 Score: 214
Period size: 72 Copynumber: 2.0 Consensus size: 72
512622 CCTTAGGTCC
* * * *
512632 ATAAGAAATTACCAATTGATCGGTGTTGAACATATATAAGGAATTATCAGCTTGATCATAAA-TG
1 ATAAGAAATTACCAACTGATCGGTGTTAAACATATATAAGAAATTACCAGCTTGATCA-AAACTG
512696 AACCTGCA
65 AACCTGCA
* *
512704 ATAAGGAATTACCAACTGATCGGTGTTAAACCTATATAAGAAATTACCAGCTTGATCAAAACTGA
1 ATAAGAAATTACCAACTGATCGGTGTTAAACATATATAAGAAATTACCAGCTTGATCAAAACTGA
512769 ACCTG
66 ACCTG
512774 TAGAGACTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 3 0.05
72 60 0.95
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (72 bp):
ATAAGAAATTACCAACTGATCGGTGTTAAACATATATAAGAAATTACCAGCTTGATCAAAACTGA
ACCTGCA
Found at i:512760 original size:36 final size:36
Alignment explanation
Indices: 512632--512760 Score: 113
Period size: 36 Copynumber: 3.6 Consensus size: 36
512622 CCTTAGGTCC
* *
512632 ATAAGAAATTACCA-ATTGATCGGTGTTGAACATAT
1 ATAAGAAATTACCAGCTTGATCGGTGTTGAACCTAT
* * * **
512667 ATAAGGAATTATCAGCTTGATC-ATAAATGAACCTGCA-
1 ATAAGAAATTACCAGCTTGATCGGT-GTTGAACCT--AT
* * *
512704 ATAAGGAATTACCAAC-TGATCGGTGTTAAACCTAT
1 ATAAGAAATTACCAGCTTGATCGGTGTTGAACCTAT
512739 ATAAGAAATTACCAGCTTGATC
1 ATAAGAAATTACCAGCTTGATC
512761 AAAACTGAAC
Statistics
Matches: 72, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
34 1 0.01
35 27 0.38
36 28 0.39
37 15 0.21
38 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (36 bp):
ATAAGAAATTACCAGCTTGATCGGTGTTGAACCTAT
Found at i:512772 original size:36 final size:35
Alignment explanation
Indices: 512658--512772 Score: 90
Period size: 36 Copynumber: 3.2 Consensus size: 35
512648 TGATCGGTGT
* *
512658 TGAACATATATAAGGAATTATCAGCTTGATCATAAA
1 TGAACCTATATAAGGAATTACCAGCTTGATCA-AAA
* ****
512694 TGAACCTGCA-ATAAGGAATTACCAAC-TGATCGGTGT
1 TGAACCT--ATATAAGGAATTACCAGCTTGATC-AAAA
* *
512730 TAAACCTATATAAGAAATTACCAGCTTGATCAAAA
1 TGAACCTATATAAGGAATTACCAGCTTGATCAAAA
512765 CTGAACCT
1 -TGAACCT
512773 GTAGAGACTT
Statistics
Matches: 58, Mismatches: 15, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
34 1 0.02
35 14 0.24
36 28 0.48
37 14 0.24
38 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (35 bp):
TGAACCTATATAAGGAATTACCAGCTTGATCAAAA
Found at i:515754 original size:17 final size:18
Alignment explanation
Indices: 515715--515755 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
515705 CTCAAATCAT
515715 CTCAAACCATCTCAAAGG
1 CTCAAACCATCTCAAAGG
* *
515733 C-CAAACCCTCTTAAA-G
1 CTCAAACCATCTCAAAGG
515749 CTCAAAC
1 CTCAAAC
515756 TCGGTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 17 0.85
18 1 0.05
ACGTcount: A:0.39, C:0.37, G:0.07, T:0.17
Consensus pattern (18 bp):
CTCAAACCATCTCAAAGG
Found at i:515986 original size:16 final size:16
Alignment explanation
Indices: 515945--515993 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
515935 TAATTTAAAT
*
515945 TTTATTTTA-ATTTTA
1 TTTATTTAATATTTTA
*
515960 ATTATTGTTAATATTTTA
1 TTTA-T-TTAATATTTTA
515978 TTTATTTAATATTTTA
1 TTTATTTAATATTTTA
515994 GTATTAGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.11
16 12 0.43
17 4 0.14
18 9 0.32
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTATTTAATATTTTA
Found at i:517868 original size:3 final size:3
Alignment explanation
Indices: 517860--517907 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
517850 TATCTACTCC
* * *
517860 TGA TGA TGA TGA TGA TGG TGA TGA TGA TGA TGA TGG CGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
517908 CAGTGAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.29, C:0.02, G:0.38, T:0.31
Consensus pattern (3 bp):
TGA
Found at i:517883 original size:18 final size:18
Alignment explanation
Indices: 517860--517907 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
517850 TATCTACTCC
517860 TGATGATGATGATGATGG
1 TGATGATGATGATGATGG
517878 TGATGATGATGATGATGG
1 TGATGATGATGATGATGG
*
517896 CGATGATGATGA
1 TGATGATGATGA
517908 CAGTGAAGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.38, T:0.31
Consensus pattern (18 bp):
TGATGATGATGATGATGG
Found at i:524350 original size:21 final size:20
Alignment explanation
Indices: 524297--524351 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
524287 CAGTTTCTAG
524297 ATTCGCAATGCGATTTTCCA
1 ATTCGCAATGCGATTTTCCA
* **
524317 ATTTTGCGTTGCGATTTTCCCA
1 A-TTCGCAATGCGATTTT-CCA
524339 ATTCGCAATGCGA
1 ATTCGCAATGCGA
524352 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTCGCAATGCGATTTTCCA
Found at i:524366 original size:20 final size:20
Alignment explanation
Indices: 524341--524514 Score: 88
Period size: 21 Copynumber: 8.7 Consensus size: 20
524331 TTTTCCCAAT
524341 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
** *
524361 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
** *
524382 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
* *
524403 TCGCAATGCG-AT-ACTGATTA
1 TCGCAATGCGAATAAGT-A-AA
* * *** *
524423 TCGCAACGC-ATTTTCTAAT
1 TCGCAATGCGAATAAGTAAA
* * *
524442 TCGCATTGCG-ATTACT-AA
1 TCGCAATGCGAATAAGTAAA
* *
524460 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
*
524481 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATAAGTAAA
524501 TCGCAATGCGAATA
1 TCGCAATGCGAATA
524515 TGACTATCGC
Statistics
Matches: 121, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
18 10 0.08
19 14 0.12
20 45 0.37
21 52 0.43
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:524384 original size:21 final size:21
Alignment explanation
Indices: 524341--524413 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
524331 TTTTCCCAAT
** *
524341 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTGGAAAA
524361 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
524382 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
524403 TCGCAATGCGA
1 TCGCAATGCGA
524414 TACTGATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 12 0.24
21 37 0.76
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:524485 original size:39 final size:39
Alignment explanation
Indices: 524379--524532 Score: 136
Period size: 39 Copynumber: 3.9 Consensus size: 39
524369 CGAATTTGGA
524379 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACT
1 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACT
* * *** * *
524418 GATTATCGCAA--CGCATTTTCTAATTCGCATTGCGATTACT
1 -A-AATCGCAATGCGAATTTGGAAAATCGCAATGCGA-TACT
*
524458 -AATCGCAATGCGAATTAGGAAAATCGCAATGCGAATACGT
1 AAATCGCAATGCGAATTTGGAAAATCGCAATGCG-ATAC-T
* **
524498 AAATCGCAATGCGAATAT-GACTATCGCAATGCGAT
1 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGAT
524533 TTACATAGCG
Statistics
Matches: 88, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
37 7 0.08
39 39 0.44
40 20 0.23
41 22 0.25
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (39 bp):
AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACT
Found at i:524523 original size:20 final size:19
Alignment explanation
Indices: 524341--524531 Score: 100
Period size: 20 Copynumber: 9.6 Consensus size: 19
524331 TTTTCCCAAT
*
524341 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATACG-AAA
**
524361 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACG-AAA
**
524382 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACG-AAA
*
524403 TCGCAATGCG-ATACTGATTA
1 TCGCAATGCGAATAC-GA-AA
* * * * *
524423 TCGCAACGC-ATTTTCTAAT
1 TCGCAATGCGA-ATACGAAA
* * *
524442 TCGCATTGCGATTAC-TAA
1 TCGCAATGCGAATACGAAA
*
524460 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACG-AAA
524481 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACG-AAA
* *
524501 TCGCAATGCGAATATGACTA
1 TCGCAATGCGAATACGA-AA
524521 TCGCAATGCGA
1 TCGCAATGCGA
524532 TTTACATAGC
Statistics
Matches: 136, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
18 11 0.08
19 15 0.11
20 58 0.43
21 52 0.38
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (19 bp):
TCGCAATGCGAATACGAAA
Found at i:525095 original size:14 final size:14
Alignment explanation
Indices: 525076--525112 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
525066 GGAAATGACT
525076 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
525090 ATCGCAACGAGATA
1 ATCGCAACGAGAGA
525104 ATCGCAACG
1 ATCGCAACG
525113 CGAAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:525151 original size:19 final size:18
Alignment explanation
Indices: 525129--525188 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
525119 CAAAATCGCA
525129 TTGCGATTTTCATTCCACG
1 TTGCGATTTTCATT-CACG
*
525148 TTGCGA--TTC--TCTCG
1 TTGCGATTTTCATTCACG
*
525162 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCA-TTCACG
525181 TTGCGATT
1 TTGCGATT
525189 CTCTCGTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 9 0.26
15 1 0.03
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (18 bp):
TTGCGATTTTCATTCACG
Found at i:525165 original size:14 final size:14
Alignment explanation
Indices: 525146--525201 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
525136 TTTCATTCCA
525146 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
525160 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
525179 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
525193 CGTTGCGAT
1 CGTTGCGAT
525202 AGTCATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:525171 original size:33 final size:33
Alignment explanation
Indices: 525129--525201 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
525119 CAAAATCGCA
525129 TTGCGATTTTCATTCCACGTTGCGATTCTCTCG
1 TTGCGATTTTCATTCCACGTTGCGATTCTCTCG
* *
525162 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTCCACGTTGCGATTCTCTCG
525195 TTGCGAT
1 TTGCGAT
525202 AGTCATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTCCACGTTGCGATTCTCTCG
Found at i:525208 original size:33 final size:34
Alignment explanation
Indices: 525146--525222 Score: 120
Period size: 33 Copynumber: 2.3 Consensus size: 34
525136 TTTCATTCCA
**
525146 CGTTGCGATTCTCTCGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTCTCTCGTTGCGATAGTCATTTTCG
*
525179 CGTTGCGATTCTCTCGTTGCGATAGTCATTTTTG
1 CGTTGCGATTCTCTCGTTGCGATAGTCATTTTCG
525213 CGTTGCGATT
1 CGTTGCGATT
525223 TTCATTCTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 26 0.65
34 14 0.35
ACGTcount: A:0.10, C:0.22, G:0.23, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTCTCTCGTTGCGATAGTCATTTTCG
Found at i:525227 original size:20 final size:19
Alignment explanation
Indices: 525129--525250 Score: 93
Period size: 20 Copynumber: 6.8 Consensus size: 19
525119 CAAAATCGCA
* *
525129 TTGCGATTTTCATTCCACG
1 TTGCGATTTTCATTTCTCG
525148 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCTCG
*
525162 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
525181 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCTCG
** *
525195 TTGCGATAGTCATTTTTGCG
1 TTGCGATTTTCATTTCT-CG
525215 TTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATT-TCTCG
*
525235 TTGCGGTTTTCATTTC
1 TTGCGATTTTCATTTC
525251 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
14 19 0.23
16 5 0.06
17 6 0.07
19 20 0.25
20 29 0.36
21 2 0.02
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCTCG
Found at i:527173 original size:93 final size:94
Alignment explanation
Indices: 526938--527242 Score: 496
Period size: 94 Copynumber: 3.3 Consensus size: 94
526928 TAGATTGCTT
* *
526938 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
526999 ATTTGTCTTTTGTTTTGTCTTTTGGTT-AA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
*
527028 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAATTTGTGTATTCTTTAACACTGT-AAGTTAG
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAA-CTGTGTATTCTTTAACACTGTGAAGTTAG
527092 TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
527122 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
527187 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
527216 AGTAAATTTGTTCGTTTGCTGCCAATT
1 AGTAAATTTATTCGGTTGCTGCCAATT
527243 GAAACTATTC
Statistics
Matches: 202, Mismatches: 6, Indels: 10
0.93 0.03 0.05
Matches are distributed among these distances:
90 34 0.17
93 42 0.21
94 116 0.57
95 10 0.05
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:529123 original size:14 final size:14
Alignment explanation
Indices: 529104--529139 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
529094 ATTGTTTAAT
529104 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
529118 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
529132 TGATTTGT
1 TGATTTGT
529140 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:529268 original size:19 final size:18
Alignment explanation
Indices: 529246--529331 Score: 62
Period size: 19 Copynumber: 5.1 Consensus size: 18
529236 AAAAATGACT
529246 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
529265 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
529279 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
* *
529298 ATCACAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
529312 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
529331 A
1 A
529332 GCACAACGAC
Statistics
Matches: 51, Mismatches: 6, Indels: 20
0.66 0.08 0.26
Matches are distributed among these distances:
14 19 0.37
15 2 0.04
16 4 0.08
17 4 0.08
18 2 0.04
19 20 0.39
ACGTcount: A:0.48, C:0.20, G:0.22, T:0.10
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:529283 original size:14 final size:14
Alignment explanation
Indices: 529264--529320 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
529254 GCGAAATGAA
529264 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
529278 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
529297 AATCACAACGAGAG
1 AATCGCAACGAGAG
529311 AATCGCAACG
1 AATCGCAACG
529321 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:529291 original size:33 final size:33
Alignment explanation
Indices: 529246--529366 Score: 181
Period size: 33 Copynumber: 3.7 Consensus size: 33
529236 AAAAATGACT
* *
529246 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCACAACGAGAGA
529279 ATCGCAACGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCACAACGAGAGA
* * *
529312 ATCGCAACGCGAAATGAAAAGCACAACGACAAA
1 ATCGCAACGCGAAATGAAAATCACAACGAGAGA
529345 ATCGCAACGCGAAACT-AAAATC
1 ATCGCAACGCGAAA-TGAAAATC
529367 GGAACGCGAA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
33 80 0.99
34 1 0.01
ACGTcount: A:0.48, C:0.22, G:0.20, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCACAACGAGAGA
Found at i:529366 original size:19 final size:19
Alignment explanation
Indices: 529342--529387 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
529332 GCACAACGAC
529342 AAAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
*
529361 AAAATCGGAACGCGAAACT
1 AAAATCGCAACGCGAAACT
*
529380 AAATTCGC
1 AAAATCGC
529388 GTTGCGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:529405 original size:19 final size:19
Alignment explanation
Indices: 529383--529519 Score: 114
Period size: 19 Copynumber: 7.7 Consensus size: 19
529373 CGAAACTAAA
529383 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
529402 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
529417 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
529435 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
529454 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
529469 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
** **
529487 TTCGTATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
529506 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
529520 AGACATTAAG
Statistics
Matches: 91, Mismatches: 16, Indels: 21
0.71 0.12 0.16
Matches are distributed among these distances:
14 17 0.19
16 6 0.07
17 6 0.07
19 53 0.58
20 9 0.10
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:529464 original size:52 final size:52
Alignment explanation
Indices: 529383--529519 Score: 202
Period size: 52 Copynumber: 2.6 Consensus size: 52
529373 CGAAACTAAA
*
529383 TTCGCGTTGCGATTTTCATTTCGCTTTGCGATTCCCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
*
529435 TTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
** ** *
529487 TTCGTATTGCGATAGTCATTTCCGCGTTGCGAT
1 TTCGCGTTGCGATTTTCATTT-CGCATTGCGAT
529520 AGACATTAAG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
52 67 0.87
53 10 0.13
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (52 bp):
TTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
Found at i:529518 original size:20 final size:20
Alignment explanation
Indices: 529473--529565 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
529463 CGATTCTCTC
**
529473 GTTGCGATTTTCATTT-CGT
1 GTTGCGATAGTCATTTCCGT
* *
529492 ATTGCGATAGTCATTTCCGC
1 GTTGCGATAGTCATTTCCGT
* **
529512 GTTGCGATAGACA-TTAAGAT
1 GTTGCGATAGTCATTTCCG-T
529532 GATTGCGA-ACGTCATTTCCGT
1 G-TTGCGATA-GTCATTTCCGT
529553 GTTGCGATAGTCA
1 GTTGCGATAGTCA
529566 AATGATTGCC
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
19 16 0.29
20 25 0.45
21 12 0.21
22 3 0.05
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:532920 original size:21 final size:21
Alignment explanation
Indices: 532894--532990 Score: 92
Period size: 21 Copynumber: 4.7 Consensus size: 21
532884 CGAAAGTCAG
532894 TATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATTTTGTAT
* *
532915 TATCGCGTTGCGA--TAGTCAG
1 TATCGCGTTGCGATTTTGT-AT
* **
532935 TATCGCATTGCGATTTTCCA-
1 TATCGCGTTGCGATTTTGTAT
* *
532955 AATTCGCATTGCGATTTTGTAT
1 TA-TCGCGTTGCGATTTTGTAT
532977 TATCGCGTTGCGAT
1 TATCGCGTTGCGAT
532991 AGTCAGTATC
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
19 3 0.05
20 14 0.23
21 41 0.68
22 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (21 bp):
TATCGCGTTGCGATTTTGTAT
Found at i:532933 original size:41 final size:42
Alignment explanation
Indices: 532839--532951 Score: 151
Period size: 41 Copynumber: 2.8 Consensus size: 42
532829 GTCAGAATCT
* **
532839 CGTTGCGAAAGTCAGAATCGCGTTGCGA--AAGTCAATATCG
1 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTCAATATCG
*
532879 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGT-ATTATCG
1 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTCAATATCG
* *
532920 CGTTGCGATAGTCAGTATCGCATTGCGATTTT
1 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTT
532952 CCAAATTCGC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 27 0.42
41 36 0.55
42 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (42 bp):
CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTCAATATCG
Found at i:532940 original size:20 final size:20
Alignment explanation
Indices: 532814--533010 Score: 157
Period size: 20 Copynumber: 9.7 Consensus size: 20
532804 AATTCTGTAT
*
532814 TATCTCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
532834 AATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
532854 AATCGCGTTGCGAAAGTCAA
1 TATCGCGTTGCGATAGTCAG
*
532874 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
532894 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
532915 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* **
532935 TATCGCATTGCGATTTTCCA-
1 TATCGCGTTGCGATAGT-CAG
* * * *
532955 AATTCGCATTGCGATTTTGT-AT
1 TA-TCGCGTTGCGA--TAGTCAG
532977 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
532997 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
533011 TTTCCAAATT
Statistics
Matches: 147, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
19 6 0.04
20 97 0.66
21 38 0.26
22 3 0.02
23 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:532967 original size:41 final size:41
Alignment explanation
Indices: 532841--533052 Score: 130
Period size: 41 Copynumber: 5.2 Consensus size: 41
532831 CAGAATCTCG
* * * *** *
532841 TTGCGAAAGTCAGAATCGCGTTGCGAAAGTC-AATATCGCG
1 TTGCGATAGTCAGTATCGCATTGCGATTTTCAAATATCGCA
* * ** * *
532881 TTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGCG
1 TTGCGATAGTCAGTATCGCATTGCGATTTTCAAATATCGCA
532922 TTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGTCAGTATCGCATTGCGATTTT-CAAATATCGCA
* * * ** *
532963 TTGCGATTTTGT-ATTATCGCGTTGCGATAGTC-AGTATCGCA
1 TTGCGA--TAGTCAGTATCGCATTGCGATTTTCAAATATCGCA
** *
533004 TTGCGATTTTCCA-AATTCGCATTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGT-CAGTA-TCGCATTGCGATTTT-CAAATATCGCA
533046 TTGCGAT
1 TTGCGAT
533053 TTACTTATTC
Statistics
Matches: 138, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
39 3 0.02
40 29 0.21
41 71 0.51
42 30 0.22
43 5 0.04
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (41 bp):
TTGCGATAGTCAGTATCGCATTGCGATTTTCAAATATCGCA
Found at i:532988 original size:62 final size:62
Alignment explanation
Indices: 532896--533034 Score: 269
Period size: 62 Copynumber: 2.2 Consensus size: 62
532886 AAAGTCAGTA
*
532896 TCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
532958 TCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
533020 TCGCATTGCGATTTT
1 TCGCATTGCGATTTT
533035 CCAAATTCGC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 76 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (62 bp):
TCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
Found at i:533050 original size:62 final size:62
Alignment explanation
Indices: 532896--533052 Score: 226
Period size: 62 Copynumber: 2.5 Consensus size: 62
532886 AAAGTCAGTA
* ** *
532896 TCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCAAATATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
** *
532958 TCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCAAATATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
*
533020 TCGCATTGCGATTTTCCAAAT-TCGCATTGCGAT
1 TCGCATTGCGATTTT-CAAATATCGCGTTGCGAT
533053 TTACTTATTC
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
62 87 0.98
63 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (62 bp):
TCGCATTGCGATTTTCAAATATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
Found at i:533063 original size:41 final size:40
Alignment explanation
Indices: 532937--533071 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 40
532927 ATAGTCAGTA
532937 TCGCATTGCGATTTTCCAAATTCGCATTGCGATTT-TGTATT
1 TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTCT-TA-T
* ** * **
532978 ATCGCGTTGCGATAGT-C-AGTATCGCATTGCGATTTTCCAAAT
1 -TCGCATTGCGATTTTCCAAAT-TCGCATTGCGA-TTT-CTTAT
533020 TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCAAATTCGCATTGCGATTT-CTTAT
533061 TCGCATTGCGA
1 TCGCATTGCGA
533072 ATTGGGAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
40 2 0.03
41 41 0.55
42 28 0.38
43 3 0.04
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (40 bp):
TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTCTTAT
Found at i:533064 original size:20 final size:21
Alignment explanation
Indices: 532937--533071 Score: 134
Period size: 21 Copynumber: 6.5 Consensus size: 21
532927 ATAGTCAGTA
532937 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
** *
532958 TCGCATTGCGATTTT-GTATT
1 TCGCATTGCGATTTTCCAAAT
* ** *
532978 ATCGCGTTGCGATAGT-C-AGT
1 -TCGCATTGCGATTTTCCAAAT
532998 ATCGCATTGCGATTTTCCAAAT
1 -TCGCATTGCGATTTTCCAAAT
533020 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* **
533041 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
533061 TCGCATTGCGA
1 TCGCATTGCGA
533072 ATTGGGAAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
20 34 0.35
21 60 0.62
22 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:533114 original size:22 final size:22
Alignment explanation
Indices: 533061--533114 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
533051 ATTTACTTAT
533061 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
533082 TCGCAACGCGAAATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
533104 TCGCATTGCGA
1 TCGCATTGCGA
533115 TAGTAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:533875 original size:30 final size:32
Alignment explanation
Indices: 533815--533883 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 32
533805 ACAAACAAAA
**
533815 TTCAGGTTGGATCTTACCGAATACGGATTGACT
1 TTCAGGTTGGATCTTACCGAATACAAATTGA-T
533848 TT-AGGTTGG-TCTTACC-AATACAAATTGAT
1 TTCAGGTTGGATCTTACCGAATACAAATTGAT
533877 TTCAGGT
1 TTCAGGT
533884 CGATCATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 3 0.09
30 14 0.42
31 7 0.21
32 7 0.21
33 2 0.06
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (32 bp):
TTCAGGTTGGATCTTACCGAATACAAATTGAT
Done.