Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001645.1 Hibiscus syriacus cultivar Beakdansim tig00003294_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: 88084
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:7649 original size:14 final size:14
Alignment explanation
Indices: 7611--7664 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
7601 CATAAAAATA
* *
7611 CAAATGCAAAGATG
1 CAAATGTAAATATG
7625 CCAAATGTAAATATG
1 -CAAATGTAAATATG
* *
7640 CAATTGTAAAAATG
1 CAAATGTAAATATG
*
7654 TAAATGTAAAT
1 CAAATGTAAAT
7665 TATTTAAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:10273 original size:23 final size:19
Alignment explanation
Indices: 10228--10278 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
10218 CTAAAAGCAG
*
10228 TAAAATAAATGAAAATATT
1 TAAAATAAATGAAAATATA
10247 TAAAATAAATGACTAAATTATAA
1 TAAAATAAATGA--AAA-TAT-A
10270 TAAAATAAA
1 TAAAATAAA
10279 ATTAAAAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 12 0.44
21 3 0.11
22 3 0.11
23 9 0.33
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
TAAAATAAATGAAAATATA
Found at i:11025 original size:15 final size:15
Alignment explanation
Indices: 11001--11032 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10991 CCTCGGTAAG
11001 TTTCTCTTCTTTCTT
1 TTTCTCTTCTTTCTT
*
11016 TTTCTTTTCTTTCTT
1 TTTCTCTTCTTTCTT
11031 TT
1 TT
11033 CTGCTGCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTCTTCTTTCTT
Found at i:11111 original size:19 final size:19
Alignment explanation
Indices: 11087--11123 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11077 TTTGTTTCTC
11087 TGTATTTCTCT-TCTCTCTG
1 TGTATTT-TCTGTCTCTCTG
11106 TGTATTTTCTGTCTCTCT
1 TGTATTTTCTGTCTCTCT
11124 TTGTCTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.05, C:0.24, G:0.11, T:0.59
Consensus pattern (19 bp):
TGTATTTTCTGTCTCTCTG
Found at i:11541 original size:3 final size:3
Alignment explanation
Indices: 11533--11643 Score: 159
Period size: 3 Copynumber: 37.0 Consensus size: 3
11523 TATATATATT
*
11533 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
11581 TAA TAA TAA TAA TAT TTA TAG TAA TTA TAA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
11629 TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA
11644 AAAATAAATC
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:14369 original size:3 final size:3
Alignment explanation
Indices: 14353--14444 Score: 50
Period size: 3 Copynumber: 31.0 Consensus size: 3
14343 AAATGTATAT
* * * * *
14353 ATA ATA TTA TTA ATA ATT A-A ATA TATA ATA AT- ATA ATA TTA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* *
14397 AAA ATAA ATA TATA ATA AT- ATA AT- ATA TTA ATA ATTA AT- ATA ATA
1 ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
14442 ATA
1 ATA
14445 TTATATATAT
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
2 9 0.13
3 49 0.70
4 12 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
ATA
Found at i:14386 original size:8 final size:8
Alignment explanation
Indices: 14351--14480 Score: 88
Period size: 8 Copynumber: 15.5 Consensus size: 8
14341 TTAAATGTAT
14351 ATATAATA
1 ATATAATA
*
14359 TTATTAATA
1 ATA-TAATA
14368 AT-TAA-A
1 ATATAATA
14374 TATATAATA
1 -ATATAATA
14383 ATATAATA
1 ATATAATA
* *
14391 TTATTAAAA
1 ATA-TAATA
14400 ATA-AAT-
1 ATATAATA
14406 ATATAATA
1 ATATAATA
14414 ATATAATA
1 ATATAATA
14422 TATTAATAATTA
1 -A-T-ATAA-TA
14434 ATATAATA
1 ATATAATA
14442 ATATTATATA
1 ATA-TA-ATA
**
14452 TATATGTTA
1 -ATATAATA
*
14461 TTATAATA
1 ATATAATA
14469 ATATAATA
1 ATATAATA
14477 ATAT
1 ATAT
14481 TTTATATAAA
Statistics
Matches: 96, Mismatches: 12, Indels: 28
0.71 0.09 0.21
Matches are distributed among these distances:
6 4 0.04
7 10 0.10
8 44 0.46
9 22 0.23
10 6 0.06
11 8 0.08
12 2 0.02
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (8 bp):
ATATAATA
Found at i:14408 original size:31 final size:31
Alignment explanation
Indices: 14351--14454 Score: 138
Period size: 31 Copynumber: 3.3 Consensus size: 31
14341 TTAAATGTAT
*
14351 ATATAATATTATTAATAATTAAATATATAATA
1 ATATAATATTATTAA-AAATAAATATATAATA
14383 ATATAATATTATTAAAAATAAATATATAATA
1 ATATAATATTATTAAAAATAAATATATAATA
* *
14414 ATATAATA-TATTAATAATTAATATAATAATA
1 ATATAATATTATTAAAAATAAATAT-ATAATA
*
14445 TTATATATAT
1 ATATA-ATAT
14455 ATGTTATTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
30 14 0.22
31 33 0.51
32 18 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
ATATAATATTATTAAAAATAAATATATAATA
Found at i:14442 original size:39 final size:36
Alignment explanation
Indices: 14361--14489 Score: 98
Period size: 35 Copynumber: 3.7 Consensus size: 36
14351 ATATAATATT
* * *
14361 ATTAATA-ATTAAATA-TATA-ATAATATAAT-ATT
1 ATTAATATAATAAATATTATATATAATATATTAATA
14393 ATTAA-A-AATAAATATATAATAATATAATATATTAATA
1 ATTAATATAATAAATAT-T-AT-ATATAATATATTAATA
*
14430 ATTAATATAAT-AATATTATATAT-ATATGTTATTATA
1 ATTAATATAATAAATATTATATATAATATATTA--ATA
*
14466 A-TAATATAAT-AATATTTTATATAA
1 ATTAATATAATAAATATTATATATAA
14490 AAAAAATTCC
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
31 8 0.10
32 5 0.06
33 1 0.01
34 9 0.11
35 25 0.31
36 16 0.20
37 8 0.10
38 6 0.07
39 3 0.04
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (36 bp):
ATTAATATAATAAATATTATATATAATATATTAATA
Found at i:17425 original size:60 final size:60
Alignment explanation
Indices: 17298--17425 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 60
17288 ATTTGTCCCT
* * * * *
17298 AAACTTTTAGATATTTCAATTTCATCCCTAAACTACAACTATCATTCTAAACTAGTTCTT
1 AAACTTTTAGATATTTCAATTTCACCCCCAAACTACAACAATCATTCTAAACTAGTCCTC
* * * *
17358 AAGCTTTT-GAATATTTCAATTTCACCCCCAAACTATGAA-AATCATTCTAAATTGGTCCTC
1 AAACTTTTAG-ATATTTCAATTTCACCCCCAAACTA-CAACAATCATTCTAAACTAGTCCTC
17418 AAACTTTT
1 AAACTTTT
17426 TTGAACATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
59 1 0.02
60 53 0.95
61 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.38
Consensus pattern (60 bp):
AAACTTTTAGATATTTCAATTTCACCCCCAAACTACAACAATCATTCTAAACTAGTCCTC
Found at i:18249 original size:13 final size:13
Alignment explanation
Indices: 18231--18255 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18221 TTGTTGGTTA
18231 ATTTTTATAAATT
1 ATTTTTATAAATT
18244 ATTTTTATAAAT
1 ATTTTTATAAAT
18256 ATAGTATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTTATAAATT
Found at i:18289 original size:35 final size:33
Alignment explanation
Indices: 18237--18302 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 33
18227 GTTAATTTTT
*
18237 ATAAATTATTTTTATAAATATAGT-ATATAATGA
1 ATAAATTATTTTTATAAAAATA-TAATATAATGA
18270 ATAATATTATTTATTATAAAAATATAATATAAT
1 ATAA-ATTATTT-TTATAAAAATATAATATAAT
18303 TATTTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 4 0.14
34 8 0.28
35 17 0.59
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (33 bp):
ATAAATTATTTTTATAAAAATATAATATAATGA
Found at i:18297 original size:23 final size:22
Alignment explanation
Indices: 18270--18332 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
18260 TATATAATGA
18270 ATAATATTATTTATTATAAAAAT
1 ATAATATTATTTATT-TAAAAAT
* *
18293 ATAATA-TAATTATTTTAAAAT
1 ATAATATTATTTATTTAAAAAT
* *
18314 ATTAAAATAATTTATTTAA
1 A-TAATATTATTTATTTAA
18333 TATATTAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 7 0.22
22 11 0.34
23 14 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAATATTATTTATTTAAAAAT
Found at i:18305 original size:22 final size:21
Alignment explanation
Indices: 18270--18332 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 21
18260 TATATAATGA
*
18270 ATAATATTATTTATTATAAAAAT
1 ATAATA-TAATTATT-TAAAAAT
*
18293 ATAATATAATTATTTTAAAAT
1 ATAATATAATTATTTAAAAAT
*
18314 ATTAAAATAATTTATTTAA
1 A-TAATATAA-TTATTTAA
18333 TATATTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 7 0.21
22 14 0.41
23 13 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAATATAATTATTTAAAAAT
Found at i:19088 original size:21 final size:21
Alignment explanation
Indices: 19051--19090 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19041 ACTTTACCCT
19051 AAAAATTATAATATTAAAATA
1 AAAAATTATAATATTAAAATA
*
19072 AAAACATTAT-ATTTTAAAA
1 AAAA-ATTATAATATTAAAA
19091 ATTATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATTATAATATTAAAATA
Found at i:19105 original size:22 final size:23
Alignment explanation
Indices: 19080--19122 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
19070 TAAAAACATT
19080 ATATTTTAAA-AATTATTAATAA
1 ATATTTTAAATAATTATTAATAA
*
19102 ATATTTTAAATATTTATTAAT
1 ATATTTTAAATAATTATTAAT
19123 TCAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATAATTATTAATAA
Found at i:19148 original size:17 final size:17
Alignment explanation
Indices: 19128--19161 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19118 TTAATTCAAT
*
19128 AATATTATTTTCTAATA
1 AATAATATTTTCTAATA
*
19145 AATAATATTTTTTAATA
1 AATAATATTTTCTAATA
19162 TTTTACTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAATATTTTCTAATA
Found at i:19312 original size:30 final size:29
Alignment explanation
Indices: 19261--19319 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
19251 TATATTAAAA
* *
19261 TTATTAAAAATATATTTAAAAATTAATATT
1 TTATTAAAAATATACTAAAAAATT-ATATT
19291 TTATT-AAAATGATACTAAAAAATTATATT
1 TTATTAAAAAT-ATACTAAAAAATTATATT
19320 ATTACATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (29 bp):
TTATTAAAAATATACTAAAAAATTATATT
Found at i:25651 original size:59 final size:60
Alignment explanation
Indices: 25582--25715 Score: 189
Period size: 59 Copynumber: 2.2 Consensus size: 60
25572 AACGATCATT
* *
25582 TTGTAACTTTTAATAGTTGAGGGACTCGACAAAACAACATCCTAT-AGTCGGAGACCATA
1 TTGTAACTTTTAATAGTTGAGGGACTCAACAAAACAACATCCTATAAGTAGGAGACCATA
* * * * * *
25641 TTGTAACTTTTAATAGTTGTGGGACTCAACAAAATAACGTCCTATAATTAGGGGACCATT
1 TTGTAACTTTTAATAGTTGAGGGACTCAACAAAACAACATCCTATAAGTAGGAGACCATA
25701 TTGTAACTTTTAATA
1 TTGTAACTTTTAATA
25716 ATAATTGAGG
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 41 0.62
60 25 0.38
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (60 bp):
TTGTAACTTTTAATAGTTGAGGGACTCAACAAAACAACATCCTATAAGTAGGAGACCATA
Found at i:27917 original size:12 final size:12
Alignment explanation
Indices: 27900--27924 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27890 ATATTTTCGG
27900 TAAAATATTATT
1 TAAAATATTATT
27912 TAAAATATTATT
1 TAAAATATTATT
27924 T
1 T
27925 TTTATCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:27945 original size:25 final size:26
Alignment explanation
Indices: 27915--27971 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
27905 TATTATTTAA
* *
27915 AATATTATTTTTTATCAAAAATA-TT
1 AATATTATATGTTATCAAAAATATTT
**
27940 AATATTATATGTTATTTAAAATATTT
1 AATATTATATGTTATCAAAAATATTT
27966 AATATT
1 AATATT
27972 TTCGATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (26 bp):
AATATTATATGTTATCAAAAATATTT
Found at i:31741 original size:37 final size:37
Alignment explanation
Indices: 31700--31805 Score: 100
Period size: 37 Copynumber: 3.0 Consensus size: 37
31690 ATTATATTAG
31700 ATAATATATAAGTGACCAAATAGGTAGTTTACCCTAA
1 ATAATATATAAGTGACCAAATAGGTAGTTTACCCTAA
* * *** *
31737 ATAATA-ATCGAGTGACCAAA-A--CA---TAAATTAG
1 ATAATATAT-AAGTGACCAAATAGGTAGTTTACCCTAA
31768 ATAATATATAAGTGACCAAATAGGTAGTTTACCCTAA
1 ATAATATATAAGTGACCAAATAGGTAGTTTACCCTAA
31805 A
1 A
31806 AAAATCCCTA
Statistics
Matches: 49, Mismatches: 12, Indels: 16
0.64 0.16 0.21
Matches are distributed among these distances:
31 20 0.41
32 3 0.06
34 2 0.04
36 3 0.06
37 21 0.43
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.27
Consensus pattern (37 bp):
ATAATATATAAGTGACCAAATAGGTAGTTTACCCTAA
Found at i:31796 original size:68 final size:68
Alignment explanation
Indices: 31604--31805 Score: 299
Period size: 68 Copynumber: 3.0 Consensus size: 68
31594 ATTTTGAAAA
*
31604 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATACATAAGTGACCAAATAGGTAGTTTAC
1 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAC
31669 CCT
66 CCT
* * * * *
31672 AAATAAAAAT--A-T-A-TATGAA-TTATATTAGATAATATATAAGTGACCAAATAGGTAGTTTA
1 AAATAATAATCGAGTGACCA-AAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTA
31731 CCCT
65 CCCT
31735 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAC
1 AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAC
31800 CCT
66 CCT
31803 AAA
1 AAA
31806 AAAATCCCTA
Statistics
Matches: 116, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
63 51 0.44
64 3 0.03
65 2 0.02
66 2 0.02
67 3 0.03
68 55 0.47
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (68 bp):
AAATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAC
CCT
Found at i:32568 original size:2 final size:2
Alignment explanation
Indices: 32563--32625 Score: 53
Period size: 2 Copynumber: 32.0 Consensus size: 2
32553 AATTCTTTTT
*
32563 TA TA TA T- TA -A TA GTA TA TA TA TA TA TA TA TA AA TCA T- TA -A
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
*
32603 TA GTA TA TA AA TA TA TA TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA
32626 GGGACGAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
1 4 0.08
2 40 0.80
3 6 0.12
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:32710 original size:33 final size:31
Alignment explanation
Indices: 32662--32787 Score: 119
Period size: 30 Copynumber: 4.0 Consensus size: 31
32652 GGGGTAACGA
32662 ATAATTAACCATAGAAAATAAGAGGGACAAAAT
1 ATAATTAACCATAGAAAATAA-AGGG-CAAAAT
* *
32695 ATAATTGACCCTAGAAAATAAAGGGCAAAAT
1 ATAATTAACCATAGAAAATAAAGGGCAAAAT
** * * * *
32726 ATAATTAAATATAAAAAAT-GAGGGTATAAT
1 ATAATTAACCATAGAAAATAAAGGGCAAAAT
* * *
32756 ATAATTAATCAAAGAAAATAAGAGGACAAAAT
1 ATAATTAACCATAGAAAATAA-AGGGCAAAAT
32788 CAAAATAAAC
Statistics
Matches: 73, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
30 23 0.32
31 20 0.27
32 11 0.15
33 19 0.26
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (31 bp):
ATAATTAACCATAGAAAATAAAGGGCAAAAT
Found at i:32727 original size:31 final size:33
Alignment explanation
Indices: 32662--32787 Score: 131
Period size: 33 Copynumber: 4.0 Consensus size: 33
32652 GGGGTAACGA
32662 ATAATTAACCATAGAAAATAAGAGGGACAAAAT
1 ATAATTAACCATAGAAAATAAGAGGGACAAAAT
* *
32695 ATAATTGACCCTAGAAAATAA-AGGG-CAAAAT
1 ATAATTAACCATAGAAAATAAGAGGGACAAAAT
* * *
32726 ATAATTAA--ATATAAAA-AATGAGGG-TATAAT
1 ATAATTAACCATAGAAAATAA-GAGGGACAAAAT
* *
32756 ATAATTAATCAAAGAAAATAAGA-GGACAAAAT
1 ATAATTAACCATAGAAAATAAGAGGGACAAAAT
32788 CAAAATAAAC
Statistics
Matches: 76, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
28 2 0.03
29 6 0.08
30 16 0.21
31 15 0.20
32 16 0.21
33 21 0.28
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (33 bp):
ATAATTAACCATAGAAAATAAGAGGGACAAAAT
Found at i:33002 original size:17 final size:17
Alignment explanation
Indices: 32977--33024 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
32967 TTTTTATTTT
32977 TTTAGAAAAAAATAAAC
1 TTTAGAAAAAAATAAAC
* * *
32994 TTTATAAAAATATAAAA
1 TTTAGAAAAAAATAAAC
33011 TATTAGGAAAAAAA
1 T-TTA-GAAAAAAA
33025 CTTATTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 15 0.62
18 3 0.12
19 6 0.25
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (17 bp):
TTTAGAAAAAAATAAAC
Found at i:35003 original size:3 final size:3
Alignment explanation
Indices: 34987--35035 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
34977 ATTTATTACA
* * * *
34987 ATT ATT AGT CTT ATT ATTT ATT ATT ATT ATT ATT ATT AAT ATT TTT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
35033 ATT
1 ATT
35036 TATTTGTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:35011 original size:19 final size:19
Alignment explanation
Indices: 34987--35023 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34977 ATTTATTACA
*
34987 ATTATTAGTCTTATTATTT
1 ATTATTAGTATTATTATTT
*
35006 ATTATTATTATTATTATT
1 ATTATTAGTATTATTATT
35024 AATATTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTATTAGTATTATTATTT
Found at i:36680 original size:13 final size:13
Alignment explanation
Indices: 36647--36691 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
36637 TCAGAGGTAA
36647 TTAA-TTTAAA-T
1 TTAATTTTAAATT
*
36658 TGAATCTTTAAATT
1 TTAAT-TTTAAATT
36672 TTAATTTT-AATT
1 TTAATTTTAAATT
36684 TTAATTTT
1 TTAATTTT
36692 CGCTACTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 3 0.10
12 12 0.41
13 9 0.31
14 5 0.17
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (13 bp):
TTAATTTTAAATT
Found at i:40829 original size:100 final size:100
Alignment explanation
Indices: 40650--40834 Score: 264
Period size: 100 Copynumber: 1.9 Consensus size: 100
40640 GGGGCTTCCC
*
40650 AATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCACGACGAAGG
* *
40715 GGCGGTTGATTGTCAACAAAATTTCATTCAGAGTT
66 GGCGGCTGACTGTCAACAAAATTTCATTCAGAGTT
* * * * * * *
40750 AATTTTAAGTTCACAACGAAGGTTATTAGACTCGAGATAGCACAAGCTCAACTTCAC-AGCGAAG
1 AATTTCAACTTCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCACGA-CGAAG
40814 GGGCGGCTGACTGTCAACAAA
65 GGGCGGCTGACTGTCAACAAA
40835 CAATTTCCCA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 1 0.01
100 73 0.99
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (100 bp):
AATTTCAACTTCACAACGAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCACGACGAAGG
GGCGGCTGACTGTCAACAAAATTTCATTCAGAGTT
Found at i:41934 original size:36 final size:36
Alignment explanation
Indices: 41829--41946 Score: 139
Period size: 36 Copynumber: 3.2 Consensus size: 36
41819 TTGAATATGT
* *
41829 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * * *
41864 TTTTTTTTTGGAACTAAGTTTTATCTCTCTTGAGACAG
1 -TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
41902 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
41938 TTTCCCTTG
1 TTTCTCTTG
41947 TGTTGAAAAC
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
36 32 0.48
37 16 0.24
38 19 0.28
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:51557 original size:22 final size:22
Alignment explanation
Indices: 51529--51599 Score: 142
Period size: 22 Copynumber: 3.2 Consensus size: 22
51519 AACTCAACAC
51529 CTTGAAACAAAGTTTTGTCTCT
1 CTTGAAACAAAGTTTTGTCTCT
51551 CTTGAAACAAAGTTTTGTCTCT
1 CTTGAAACAAAGTTTTGTCTCT
51573 CTTGAAACAAAGTTTTGTCTCT
1 CTTGAAACAAAGTTTTGTCTCT
51595 CTTGA
1 CTTGA
51600 GACATTTTCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (22 bp):
CTTGAAACAAAGTTTTGTCTCT
Found at i:52038 original size:15 final size:16
Alignment explanation
Indices: 52007--52047 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
51997 ATTATTAGTC
*
52007 TTATTATTTATTATTT
1 TTATTATTTAATATTT
52023 TTATTA-TTAATATTT
1 TTATTATTTAATATTT
52038 TTATTTATTT
1 TTA-TTATTT
52048 GTTTTTAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 11 0.50
16 9 0.41
17 2 0.09
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTATTTAATATTT
Found at i:58451 original size:20 final size:20
Alignment explanation
Indices: 58357--58725 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
58347 GATTTTCCAT
* ** *
58357 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
58377 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
58397 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
58417 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
58437 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
58457 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
58477 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
58497 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
58517 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
58537 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
58557 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
58577 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
58597 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
58617 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
58637 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
58657 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
58677 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
58697 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
58717 AATCACAAC
1 AATCGCAAC
58726 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:59438 original size:24 final size:24
Alignment explanation
Indices: 59399--59445 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
59389 AAATTTGGTC
59399 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
59423 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
59446 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:59637 original size:12 final size:12
Alignment explanation
Indices: 59620--59644 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59610 ATATAATCCT
59620 GAAGAAGAAAAA
1 GAAGAAGAAAAA
59632 GAAGAAGAAAAA
1 GAAGAAGAAAAA
59644 G
1 G
59645 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:61973 original size:19 final size:19
Alignment explanation
Indices: 61951--62257 Score: 358
Period size: 19 Copynumber: 17.4 Consensus size: 19
61941 CGGAAAATAC
*
61951 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
61970 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
61984 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
62004 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
62018 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62037 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
62056 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
62070 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62089 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
62108 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
62122 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
62141 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
62160 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62179 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62198 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
62212 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62231 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62250 AATCGCAA
1 AATCGCAA
62258 CGAGATAATC
Statistics
Matches: 249, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
14 45 0.18
15 4 0.02
16 16 0.06
17 15 0.06
18 5 0.02
19 151 0.61
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:62066 original size:52 final size:53
Alignment explanation
Indices: 61979--62257 Score: 358
Period size: 52 Copynumber: 5.2 Consensus size: 53
61969 AAATCCCAAC
*
61979 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
*
62032 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* * *
62084 ATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* *
62136 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
62193 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
62245 ATGAAAATCGCAA
1 ATGAAAATCGCAA
62258 CGAGATAATC
Statistics
Matches: 212, Mismatches: 8, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
51 2 0.01
52 156 0.74
53 18 0.08
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
Found at i:62102 original size:71 final size:71
Alignment explanation
Indices: 62018--62257 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
62008 GCAACGAGAG
*
62018 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
62083 AATGAA
66 AATGAA
* * *
62089 AATCGCAATGCGAAATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
*
62149 TACGAAATGAA
61 TGCGAAATGAA
62160 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
62225 AATGAA
66 AATGAA
62231 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
62258 CGAGATAATC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 8 0.05
68 2 0.01
69 6 0.04
70 2 0.01
71 113 0.75
72 2 0.01
73 7 0.05
74 2 0.01
76 8 0.05
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:62203 original size:142 final size:137
Alignment explanation
Indices: 61951--62289 Score: 497
Period size: 142 Copynumber: 2.4 Consensus size: 137
61941 CGGAAAATAC
* * * *
61951 AATCGCAACGCGAAATGAAAATCCCAACATGAA-AATCGCAATGCGGAAATGAAAATCGC-AACG
1 AATCGCAATGCGAAATGAAAAT-CGAAC-CGAATAATCGCAATGC-GAAATTAAAATCGCAAACG
* *
62014 AGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAAT
63 AGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAAT
62079 GCGAAATGAA
128 GCGAAATGAA
62089 AATCGCAATGCGAAATGAAAATCGAACCGACATAATCGCAATGCGAAATTAAAATCGCAATACGA
1 AATCGCAATGCGAAATGAAAATCGAACCGA-ATAATCGCAATGCGAAATTAAAATCGCAA-ACG-
62154 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
63 -A-GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
62219 ATGCGAAATGAA
126 ATGCGAAATGAA
62231 AATCGCAATGCGAAATGAAAATCGCAA-CGAGATAATCGCAATGCGAAATTATAAA-CGCA
1 AATCGCAATGCGAAATGAAAATCG-AACCGA-ATAATCGCAATGCGAAATTA-AAATCGCA
62290 TTGCGATTTT
Statistics
Matches: 185, Mismatches: 7, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
136 2 0.01
137 18 0.10
138 33 0.18
139 3 0.02
141 1 0.01
142 123 0.66
143 5 0.03
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (137 bp):
AATCGCAATGCGAAATGAAAATCGAACCGAATAATCGCAATGCGAAATTAAAATCGCAAACGAGA
AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCG
AAATGAA
Found at i:62395 original size:19 final size:19
Alignment explanation
Indices: 62286--62387 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
62276 AAATTATAAA
62286 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
62305 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
62325 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
62341 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
62358 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
62377 CGCATTGCGAT
1 CGCATTGCGAT
62388 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:62513 original size:14 final size:14
Alignment explanation
Indices: 62494--62530 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
62484 CATCAATTAC
62494 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
62508 ACAAATCATCTTTT
1 ACAAATCAACTTTT
62522 ACAAATCAA
1 ACAAATCAA
62531 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:62542 original size:12 final size:12
Alignment explanation
Indices: 62525--62597 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
62515 ATCTTTTACA
62525 AATCAATTAAAC
1 AATCAATTAAAC
*
62537 AATCAA--AAATTG
1 AATCAATTAAA--C
**
62549 AATCAACTTTTAC
1 AATCAA-TTAAAC
62562 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
62575 AATCAA-AAAAC
1 AATCAATTAAAC
62586 AATCAATTAAAC
1 AATCAATTAAAC
62598 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:62559 original size:38 final size:38
Alignment explanation
Indices: 62511--62583 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
62501 AACTTTTACA
*
62511 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
62549 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
62584 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:64474 original size:14 final size:14
Alignment explanation
Indices: 64455--64511 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
64445 GCGAAATGAA
*
64455 AATCGCAACGACAG
1 AATCGCAACGAAAG
64469 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
64486 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
64502 AATCGCAACG
1 AATCGCAACG
64512 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:64482 original size:33 final size:33
Alignment explanation
Indices: 64436--64528 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
64426 GCGAAACCAA
*
64436 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
64469 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
64502 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
64529 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:64493 original size:19 final size:19
Alignment explanation
Indices: 64399--64533 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
64389 TAGTTTACTT
* *
64399 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
64419 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
64438 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
64457 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
64471 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
64490 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
64504 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
64523 TCGCAATGCGA
1 TCGCAACGCGA
64534 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:64551 original size:19 final size:19
Alignment explanation
Indices: 64529--64657 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
64519 AAAATCGCAA
64529 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
64548 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
64562 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
64581 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
64595 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
64614 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
64633 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
64653 TGCGA
1 TGCGA
64658 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:64571 original size:33 final size:33
Alignment explanation
Indices: 64529--64620 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
64519 AAAATCGCAA
64529 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
64562 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
64595 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
64621 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:64860 original size:93 final size:93
Alignment explanation
Indices: 64701--65080 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
64691 TTGAATGGAT
64701 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
64766 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
64794 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
64859 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
64887 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
64951 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
64979 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
65044 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
65072 AAATTTACT
1 AAATTTACT
65081 AAGCAATCTA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:65014 original size:185 final size:186
Alignment explanation
Indices: 64701--65080 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
64691 TTGAATGGAT
64701 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
64766 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
64831 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
64887 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
64951 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
65016 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
65072 AAATTTACT
1 AAATTTACT
65081 AAGCAATCTA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:66805 original size:14 final size:14
Alignment explanation
Indices: 66786--66875 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
66776 TTGAAATGAA
66786 AATCGCAACGAGAG
1 AATCGCAACGAGAG
66800 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
66817 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
66833 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
66852 AATCGCAACGAGAG
1 AATCGCAACGAGAG
66866 AATCGCAACG
1 AATCGCAACG
66876 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:66823 original size:33 final size:33
Alignment explanation
Indices: 66778--66892 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
66768 TCTTTTGGTT
66778 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
66811 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
66844 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
66877 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
66893 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:66824 original size:19 final size:18
Alignment explanation
Indices: 66785--66897 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
66775 GTTGAAATGA
66785 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
66800 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
66817 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
66833 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
66850 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
66866 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
66883 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
66898 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:66928 original size:14 final size:14
Alignment explanation
Indices: 66909--66963 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
66899 TTTGGTTTCG
66909 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
66923 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
66942 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
66956 CGTTGCGA
1 CGTTGCGA
66964 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:67126 original size:33 final size:33
Alignment explanation
Indices: 67084--67154 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
67074 AATACTAACT
*
67084 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
67117 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
67150 TGAAA
1 TGAAA
67155 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:67388 original size:22 final size:22
Alignment explanation
Indices: 67336--67390 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
67326 TGGTTGTGAG
**
67336 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
67358 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
67380 GGATTTCTTCG
1 GGATTTCTTCG
67391 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:67561 original size:20 final size:20
Alignment explanation
Indices: 67536--67729 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
67526 CTTTAAATAT
67536 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
67556 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
67578 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
67597 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
67617 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
67637 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
67657 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
67677 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
67697 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
67717 CGCGTTGCGATTT
1 CGCGTTGCGATTT
67730 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:67723 original size:60 final size:60
Alignment explanation
Indices: 67536--67729 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
67526 CTTTAAATAT
**
67536 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
67597 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
67657 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
67717 CGCGTTGCGATTT
1 CGCGTTGCGATTT
67730 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:67746 original size:21 final size:20
Alignment explanation
Indices: 67722--67799 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 20
67712 ATATTCGCGT
67722 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* **
67743 TGCGAATTTTGTACTATCGCA
1 TGCG-ATTTTGGAAAATCGCA
* *
67764 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
67786 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
67800 CTGATTTGCG
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
20 1 0.02
21 25 0.57
22 18 0.41
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:67810 original size:20 final size:20
Alignment explanation
Indices: 67785--67836 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
67775 AAGAATCGCG
*
67785 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
67805 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
67825 TTGCGATTCTGG
1 TTGCGATTCTGG
67837 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:72253 original size:20 final size:21
Alignment explanation
Indices: 72208--72253 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
72198 GAGATTTGGG
* * *
72208 ATTTTGCGAGTTTTAAATTGA
1 ATTTTACGAATTTTAAAATGA
72229 ATTTTACGAATTTTAAAAT-A
1 ATTTTACGAATTTTAAAATGA
72249 ATTTT
1 ATTTT
72254 TAAAAAACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.50
Consensus pattern (21 bp):
ATTTTACGAATTTTAAAATGA
Found at i:73252 original size:210 final size:208
Alignment explanation
Indices: 72810--73427 Score: 763
Period size: 210 Copynumber: 3.0 Consensus size: 208
72800 CAGAATTGTC
* * * * * * **
72810 CATGTGATAAAACCCATTTCTAAGTAATTTAGAGCAAATACTGTAGAGTTCTATTACATGAGTGA
1 CATGTGATAAAACCTATTTCTGAGTAATCTAGAGCGAATACTGCAGAGTTCCATTACATGAACGA
* ** * *
72875 ACCTC-TCAATCGAGTTTTCTCAA-TTTATAATTGTTAGAATTCGAACATTTTCTCCATAAGATT
66 ACCTCTTC-ATCCAGTTTTCT-AAGTTTA-AAACGCTAGAATTCG-ATATTTTCTCCATAAGATT
** * * *
72938 C-GA-----AACC--CTTAAGACACCTAACGACTCATTCCGCTACACCGATTACAAGAGAGCTAA
127 CGGAGCTCTAACCTTCTTAAGACACCTAACGACTCATTCCGCTACACTAATTATAAGAGAACTAT
* * *
72995 CTTTTACAAAAAACTGTT
192 TTTTTA-ACACAACTGTT
* * * * *
73013 CATGTTATAAAGCCTATTTATGAGTAATCTAGAGCGAATTCTGCAGAGTTCCATTACACGAACGA
1 CATGTGATAAAACCTATTTCTGAGTAATCTAGAGCGAATACTGCAGAGTTCCATTACATGAACGA
73078 ACCTCTTCATCCAGTTTTCTAAGTTTAAAACGCTAGAATCTCGATATTTTCTCCATAAGATTCGG
66 ACCTCTTCATCCAGTTTTCTAAGTTTAAAACGCTAGAAT-TCGATATTTTCTCCATAAGATTCGG
*
73143 AGCTCTAACCTTGCTTAAGACACCTAACGACTCATTCCACTACACTAATTATAAGAGAACTATTT
130 AGCTCTAACCTT-CTTAAGACACCTAACGACTCATTCCGCTACACTAATTATAAGAGAACTATTT
73208 TTTAACACAACTGTT
194 TTTAACACAACTGTT
* *
73223 CATGTGATAAAACCTATTTCTGTGTAATCTAGAGCGAATACTGCAGAGTTCCGTTACATGAACGA
1 CATGTGATAAAACCTATTTCTGAGTAATCTAGAGCGAATACTGCAGAGTTCCATTACATGAACGA
* * *
73288 ACCTCTTCGTCCAGTTTTCTATGTTTAAAACGCTAGAATTTC-ATTGTTTTCTCCATAAGATTCG
66 ACCTCTTCATCCAGTTTTCTAAGTTTAAAACGCTAGAA-TTCGA-TATTTTCTCCATAAGATTCG
* *
73352 GAGCTCTAACCTTACTTAAGACACCTAAGGACTCATTCCGCTACACTAAATATAAGAGAACTATT
129 GAGCTCTAACCTT-CTTAAGACACCTAACGACTCATTCCGCTACACTAATTATAAGAGAACTATT
73417 TTTTAACACAA
193 TTTTAACACAA
73428 AATTGTTTAT
Statistics
Matches: 360, Mismatches: 41, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
202 30 0.08
203 77 0.21
204 2 0.01
208 4 0.01
209 1 0.00
210 196 0.54
211 50 0.14
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (208 bp):
CATGTGATAAAACCTATTTCTGAGTAATCTAGAGCGAATACTGCAGAGTTCCATTACATGAACGA
ACCTCTTCATCCAGTTTTCTAAGTTTAAAACGCTAGAATTCGATATTTTCTCCATAAGATTCGGA
GCTCTAACCTTCTTAAGACACCTAACGACTCATTCCGCTACACTAATTATAAGAGAACTATTTTT
TAACACAACTGTT
Found at i:83766 original size:2 final size:2
Alignment explanation
Indices: 83761--83791 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
83751 GTTATATTGT
83761 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
83792 TCATTCTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:84966 original size:22 final size:22
Alignment explanation
Indices: 84941--85022 Score: 96
Period size: 22 Copynumber: 3.7 Consensus size: 22
84931 TATATCACGG
*
84941 AAGTGCCTTAGCACTAATACTA
1 AAGTGCCTTAGCACTGATACTA
84963 AAGTGCCTTAGCACTGATAC-A
1 AAGTGCCTTAGCACTGATACTA
*
84984 GAAGTG-CATACGCACTGATACTA
1 -AAGTGCCTTA-GCACTGATACTA
* *
85007 AAGTGGCTTAGTACTG
1 AAGTGCCTTAGCACTG
85023 GGAGAGAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
21 4 0.08
22 44 0.85
23 4 0.08
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (22 bp):
AAGTGCCTTAGCACTGATACTA
Found at i:85339 original size:17 final size:18
Alignment explanation
Indices: 85293--85340 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
85283 CTGGGTATGA
* *
85293 CAGTATCGGTACTGGCCT
1 CAGTATCGATACTGGCCC
*
85311 CATGTATTGATACT-GCCC
1 CA-GTATCGATACTGGCCC
85329 CAGTATCGATAC
1 CAGTATCGATAC
85341 CAAAATTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 9 0.36
18 7 0.28
19 9 0.36
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (18 bp):
CAGTATCGATACTGGCCC
Found at i:87405 original size:3 final size:3
Alignment explanation
Indices: 87397--87423 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
87387 GAAGGCGGAG
87397 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
87424 GGACGAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:87890 original size:2 final size:2
Alignment explanation
Indices: 87883--87936 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
87873 ACTATTTAAC
*
87883 AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87924 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
87937 GTTTGTTAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.