Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008014.1 Hibiscus syriacus cultivar Beakdansim tig00110480_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: 624021
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:12350 original size:32 final size:32
Alignment explanation
Indices: 12314--12378 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
12304 ATATGTTATT
* *
12314 ATTTTTTGTGATGTGATGTATATT-TCATCATC
1 ATTTTTTGTGACGTGATATATATTAT-ATCATC
12346 ATTTTTTGTGACGTGATATATATTATATCATC
1 ATTTTTTGTGACGTGATATATATTATATCATC
12378 A
1 A
12379 CTTTAGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (32 bp):
ATTTTTTGTGACGTGATATATATTATATCATC
Found at i:13826 original size:27 final size:29
Alignment explanation
Indices: 13796--13865 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 29
13786 AAAATATAAA
*
13796 GATGAATTTAGAATGTTAAAAA-TTT-TG
1 GATGAATTTAGAATGTTAAAAAGTTTGAG
*
13823 GATGAAATT-GAAATGTTAAAAAGTTTGAG
1 GATGAATTTAG-AATGTTAAAAAGTTTGAG
*
13852 GATTAATTTAGAAT
1 GATGAATTTAGAAT
13866 AAAAATTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.03
27 19 0.54
28 3 0.09
29 11 0.31
30 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (29 bp):
GATGAATTTAGAATGTTAAAAAGTTTGAG
Found at i:18016 original size:15 final size:15
Alignment explanation
Indices: 17992--18034 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
17982 ATATTATTAA
*
17992 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
*
18007 GTTAAATTATAAAAT
1 ATTAAATTATAAAAT
18022 ATTAAATATATAA
1 ATTAAAT-TATAA
18035 TTATAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:18549 original size:16 final size:17
Alignment explanation
Indices: 18517--18557 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
18507 ATAAAAACTA
18517 ATATTTT-ATAAATATT
1 ATATTTTAATAAATATT
*
18533 ATATTTTAATTAA-ATT
1 ATATTTTAATAAATATT
*
18549 ACATTTTAA
1 ATATTTTAA
18558 ATTTTAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTTTAATAAATATT
Found at i:19021 original size:19 final size:19
Alignment explanation
Indices: 18997--19045 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
18987 ATAATTATTG
18997 AATTTTATAT-ACATTTTTA
1 AATTTTATATAAC-TTTTTA
19016 AATTTTTCATATAACTTTTTA
1 AA-TTTT-ATATAACTTTTTA
*
19037 AAATTTATA
1 AATTTTATA
19046 ATTTTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 5 0.19
20 7 0.27
21 12 0.46
22 2 0.08
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTATATAACTTTTTA
Found at i:20044 original size:22 final size:22
Alignment explanation
Indices: 20019--20076 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
20009 CTACGGCGAC
20019 ATCCGTCCTCATCTCCGACGAA
1 ATCCGTCCTCATCTCCGACGAA
*
20041 ATCCGTCCTCATCTCCGGCGAA
1 ATCCGTCCTCATCTCCGACGAA
20063 ATCCGT-CT-ATCTCC
1 ATCCGTCCTCATCTCC
20077 ATCTCTCAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 6 0.17
21 2 0.06
22 27 0.77
ACGTcount: A:0.19, C:0.41, G:0.14, T:0.26
Consensus pattern (22 bp):
ATCCGTCCTCATCTCCGACGAA
Found at i:20484 original size:14 final size:14
Alignment explanation
Indices: 20467--20498 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
20457 GCGATTTTAG
20467 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
*
20481 TTTCTCGTTGCGAT
1 TTTCGCGTTGCGAT
20495 TTTC
1 TTTC
20499 ATTTCGCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.22, G:0.22, T:0.50
Consensus pattern (14 bp):
TTTCGCGTTGCGAT
Found at i:20529 original size:20 final size:20
Alignment explanation
Indices: 20487--20556 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
20477 CGATTTTCTC
*
20487 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
**
20506 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
20526 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
*
20546 GTTGAGATTTT
1 GTTGCGATTTT
20557 AAGTTTCAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 11 0.25
20 33 0.75
ACGTcount: A:0.13, C:0.14, G:0.23, T:0.50
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:20563 original size:20 final size:20
Alignment explanation
Indices: 20520--20563 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
20510 CGATAGTCAT
* * *
20520 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGAGATTTTAAG
20540 TTTCGTGTTGAGATTTTAAG
1 TTTCGTGTTGAGATTTTAAG
20560 TTTC
1 TTTC
20564 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.11, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGAGATTTTAAG
Found at i:27638 original size:20 final size:21
Alignment explanation
Indices: 27615--27693 Score: 81
Period size: 20 Copynumber: 3.8 Consensus size: 21
27605 TTGGTGCAGA
*
27615 GGGAATCGATACCCCCATGA-
1 GGGAACCGATACCCCCATGAG
* *
27635 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC-ATG-AG
*
27658 GGGAACCGATTCCCCCAT-AG
1 GGGAACCGATACCCCCATGAG
*
27678 GGGAATCGATACCCCC
1 GGGAACCGATACCCCC
27694 TAGGGTTCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
20 30 0.60
21 2 0.04
22 2 0.04
23 16 0.32
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.16
Consensus pattern (21 bp):
GGGAACCGATACCCCCATGAG
Found at i:31743 original size:14 final size:14
Alignment explanation
Indices: 31724--31757 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
31714 TTGTTTAATT
31724 ATTTGTAAAAGTTG
1 ATTTGTAAAAGTTG
31738 ATTTGTAAAAGTTG
1 ATTTGTAAAAGTTG
31752 ATTTGT
1 ATTTGT
31758 TTAATTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTGTAAAAGTTG
Found at i:31916 original size:20 final size:20
Alignment explanation
Indices: 31891--31954 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
31881 AACGCTAAAC
31891 TCAAAATCGCAATGCGAAAG
1 TCAAAATCGCAATGCGAAAG
*
31911 TCAAAATCGCAATACGAAAG
1 TCAAAATCGCAATGCGAAAG
* *
31931 CCAAAATCGCAACGCGAAAG
1 TCAAAATCGCAATGCGAAAG
31951 TCAA
1 TCAA
31955 TTTGCATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.12
Consensus pattern (20 bp):
TCAAAATCGCAATGCGAAAG
Found at i:32020 original size:20 final size:20
Alignment explanation
Indices: 31995--32103 Score: 115
Period size: 20 Copynumber: 5.8 Consensus size: 20
31985 GATTTTCTCT
*
31995 TTGCGATAGTCAAATTCCCG
1 TTGCGATAGTCAAATTCGCG
*
32015 TTGCGATAATCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* *
32035 TTGCGAT--T----TTTGCA
1 TTGCGATAGTCAAATTCGCG
32049 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
32069 TTGCGATAGTCAAATTCGC-
1 TTGCGATAGTCAAATTCGCG
*
32088 TATGCGATATTCAAAT
1 T-TGCGATAGTCAAAT
32104 GAATGTGTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
14 11 0.15
16 1 0.01
18 1 0.01
19 1 0.01
20 61 0.81
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:32020 original size:54 final size:54
Alignment explanation
Indices: 31961--32095 Score: 191
Period size: 54 Copynumber: 2.5 Consensus size: 54
31951 TCAATTTGCA
* * *
31961 TTGCGATAGTCTAATACGCTTTGCGATTTTCT-CTTTGCGATAGTCAAATTCCCG
1 TTGCGATAGTCAAATTCGCTTTGCGATTTT-TGCATTGCGATAGTCAAATTCCCG
* * *
32015 TTGCGATAATCAAATTCGCGTTGCGATTTTTGCATTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCTTTGCGATTTTTGCATTGCGATAGTCAAATTCCCG
*
32069 TTGCGATAGTCAAATTCGCTATGCGAT
1 TTGCGATAGTCAAATTCGCTTTGCGAT
32096 ATTCAAATGA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 70 0.99
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (54 bp):
TTGCGATAGTCAAATTCGCTTTGCGATTTTTGCATTGCGATAGTCAAATTCCCG
Found at i:32297 original size:18 final size:18
Alignment explanation
Indices: 32274--32308 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
32264 AAGCCGGTTA
*
32274 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
32292 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
32309 GTCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:34597 original size:24 final size:24
Alignment explanation
Indices: 34570--34623 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
34560 TTGAAACATC
34570 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
* *
34594 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
34618 ATCAAA
1 ATCAAA
34624 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCTGAGTATTGACCAAG
Found at i:35474 original size:20 final size:20
Alignment explanation
Indices: 35449--35512 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
35439 TTCAGTGTTA
*
35449 CGATAGTTAGAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
**
35469 CGATAGTCAGAATCGTATTG
1 CGATAGTCAGAATCGCGTTG
35489 CGATAGTCAGAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
35509 CGAT
1 CGAT
35513 TTACATATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
CGATAGTCAGAATCGCGTTG
Found at i:37053 original size:2 final size:2
Alignment explanation
Indices: 37046--37071 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37036 TCCCAACAAG
37046 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
37072 CGTTATCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37957 original size:15 final size:15
Alignment explanation
Indices: 37937--37970 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
37927 GAAACATGAT
37937 TACATCAAGCAGGGG
1 TACATCAAGCAGGGG
37952 TACATCAAGCAGGGG
1 TACATCAAGCAGGGG
37967 TACA
1 TACA
37971 AAAGGGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.29, T:0.15
Consensus pattern (15 bp):
TACATCAAGCAGGGG
Found at i:44254 original size:20 final size:20
Alignment explanation
Indices: 44229--44269 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
44219 CTTTTTGGAG
44229 TACTGAACTTTTATCGAGCA
1 TACTGAACTTTTATCGAGCA
44249 TACTGAACTTTTATCGAGCA
1 TACTGAACTTTTATCGAGCA
44269 T
1 T
44270 CTAGTTGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (20 bp):
TACTGAACTTTTATCGAGCA
Found at i:44829 original size:57 final size:57
Alignment explanation
Indices: 44741--44851 Score: 222
Period size: 57 Copynumber: 1.9 Consensus size: 57
44731 GTAACTCGAA
44741 AAGCAGGTATCTGGATATGTCATACTACTAGTAGTACTAGCAAATGATAAAAAAATC
1 AAGCAGGTATCTGGATATGTCATACTACTAGTAGTACTAGCAAATGATAAAAAAATC
44798 AAGCAGGTATCTGGATATGTCATACTACTAGTAGTACTAGCAAATGATAAAAAA
1 AAGCAGGTATCTGGATATGTCATACTACTAGTAGTACTAGCAAATGATAAAAAA
44852 TCAGTCTTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (57 bp):
AAGCAGGTATCTGGATATGTCATACTACTAGTAGTACTAGCAAATGATAAAAAAATC
Found at i:55454 original size:15 final size:16
Alignment explanation
Indices: 55431--55460 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
55421 CTTGTAAATA
55431 TTTTATTTTTAAAAAC
1 TTTTATTTTTAAAAAC
55447 TTTT-TTTTTAAAAA
1 TTTTATTTTTAAAAA
55461 TAATTAGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTATTTTTAAAAAC
Found at i:55669 original size:2 final size:2
Alignment explanation
Indices: 55662--55729 Score: 58
Period size: 2 Copynumber: 37.0 Consensus size: 2
55652 TCGGGCCAGG
* * * *
55662 TA TA TA TA TA TA TA TA TA T- TA -A TT TA AA T- TA AA TT TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55700 TA -A TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55730 ATAATTATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
1 6 0.12
2 46 0.88
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:55938 original size:19 final size:20
Alignment explanation
Indices: 55888--55941 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
55878 CCTAAAGATA
*
55888 ATATTA-TAAAT-ATATTTT
1 ATATTATTAAATAATATTTG
*
55906 ATATTTTTAAATAATATTTG
1 ATATTATTAAATAATATTTG
55926 AT-TTATTAAATAATAT
1 ATATTATTAAATAATAT
55942 AATTTATACG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.16
19 18 0.58
20 8 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATATTATTAAATAATATTTG
Found at i:55948 original size:17 final size:18
Alignment explanation
Indices: 55894--55948 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 18
55884 GATAATATTA
*
55894 TAAATATATTTTATATTT-T
1 TAAATA-ATATTA-ATTTAT
*
55913 TAAATAATATTTGATTTAT
1 TAAATAATA-TTAATTTAT
55932 TAAATAATA-TAATTTAT
1 TAAATAATATTAATTTAT
55949 ACGATTAGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 7 0.23
18 6 0.19
19 18 0.58
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TAAATAATATTAATTTAT
Found at i:59411 original size:24 final size:24
Alignment explanation
Indices: 59365--59412 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
59355 TAATTACAAC
* *
59365 TATAATTTGATCCTTTTTAATTTA
1 TATAATTTGAACCTTTTGAATTTA
*
59389 TATAATTTGAACCTTTTGGATTTA
1 TATAATTTGAACCTTTTGAATTTA
59413 ATCCTTCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.54
Consensus pattern (24 bp):
TATAATTTGAACCTTTTGAATTTA
Found at i:60151 original size:41 final size:41
Alignment explanation
Indices: 60100--60177 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
60090 CATTAATATT
60100 TTGTTTTTGTTCTCTTATATCATATCTTAATTTTTTTAATG
1 TTGTTTTTGTTCTCTTATATCATATCTTAATTTTTTTAATG
*
60141 TTGTTTTTGTTCTCTTATATCATATCTTATTTTTTTT
1 TTGTTTTTGTTCTCTTATATCATATCTTAATTTTTTT
60178 TAATTTTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.17, C:0.10, G:0.06, T:0.67
Consensus pattern (41 bp):
TTGTTTTTGTTCTCTTATATCATATCTTAATTTTTTTAATG
Found at i:70959 original size:29 final size:29
Alignment explanation
Indices: 70926--71097 Score: 326
Period size: 29 Copynumber: 5.9 Consensus size: 29
70916 CAGAAATATC
70926 AATACTGTTCAAAATACCAGACATCTATA
1 AATACTGTTCAAAATACCAGACATCTATA
70955 AATACTGTTCAAAATACCAGACATCTATA
1 AATACTGTTCAAAATACCAGACATCTATA
70984 AATACTGTTCAAAATACCAGACATCTATA
1 AATACTGTTCAAAATACCAGACATCTATA
*
71013 AATACTGTTCAAAATACCATACATCTATA
1 AATACTGTTCAAAATACCAGACATCTATA
71042 AATACTGTTCAAAATACCAGACATCTATA
1 AATACTGTTCAAAATACCAGACATCTATA
*
71071 AATACTGTTCAAAATACCAGACCTCTA
1 AATACTGTTCAAAATACCAGACATCTA
71098 AAGCATGATA
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 140 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (29 bp):
AATACTGTTCAAAATACCAGACATCTATA
Found at i:76785 original size:35 final size:35
Alignment explanation
Indices: 76739--76806 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
76729 TGGACATGGA
*
76739 TTTTAGATTCGAGTATTGTAAACAGAGAAAGAAGG
1 TTTTAGATTCGAGTATTGTAAACAAAGAAAGAAGG
76774 TTTTAGATTCGAGTATTGTAAACAAAGAAAGAA
1 TTTTAGATTCGAGTATTGTAAACAAAGAAAGAA
76807 TCCGGGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.29
Consensus pattern (35 bp):
TTTTAGATTCGAGTATTGTAAACAAAGAAAGAAGG
Found at i:78735 original size:64 final size:64
Alignment explanation
Indices: 78667--78887 Score: 212
Period size: 64 Copynumber: 3.5 Consensus size: 64
78657 TTGAAGGTGT
* * * **
78667 ATCGATGCACAGGGAGTGTATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTCATG
1 ATCGATGCATAAGGAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTCATG
78730 C
64 C
* * * * **
78731 ATCGATGCATAAGTAGTGCATCGATACATCCCATTAATAATGAAACATTGAATGCAATTGGTGC
1 ATCGATGCATAAGGAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
** ** * ** *
78795 ATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATATTACATCGAATACCTTTTATGC
1 ATCGATGCATAAGGAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
* * *
78859 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGGAGTGCATCGATGCAT
78888 ACCTTCATTA
Statistics
Matches: 128, Mismatches: 27, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
64 122 0.95
65 6 0.05
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGGAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
Found at i:79582 original size:31 final size:31
Alignment explanation
Indices: 79544--79668 Score: 200
Period size: 31 Copynumber: 4.0 Consensus size: 31
79534 AGGGTCGAGA
79544 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
79575 GTTTACCTATGTTCTTCGGGACGTATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
79606 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
79637 GTTTACCTA-GATTTTTCGGGATC-TATGGACT
1 GTTTACCTATG-TTCTTCGGGA-CATATGGACT
79668 G
1 G
79669 GTCCTTCGGG
Statistics
Matches: 89, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
30 1 0.01
31 87 0.98
32 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:81070 original size:31 final size:31
Alignment explanation
Indices: 81024--81088 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
81014 TGGGTCTGAA
* * **
81024 TAATATTTCATTTAAAATTTAGGGGCCAAAT
1 TAATATTTCAATTAAAATTCAACGGCCAAAT
* *
81055 TAATATTTTAATTAAAGTTCAACGGCCAAAT
1 TAATATTTCAATTAAAATTCAACGGCCAAAT
81086 TAA
1 TAA
81089 AAAAAAACTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (31 bp):
TAATATTTCAATTAAAATTCAACGGCCAAAT
Found at i:85455 original size:21 final size:20
Alignment explanation
Indices: 85369--85526 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
85359 AAATGACCAA
**
85369 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
85388 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
85408 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
85428 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
85449 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
85470 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
85490 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
85511 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
85527 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:85517 original size:20 final size:20
Alignment explanation
Indices: 85493--85802 Score: 352
Period size: 20 Copynumber: 15.5 Consensus size: 20
85483 CGATTTTCCA
* ** *
85493 AAATCGCAACGCGAATATGA
1 AAATCGCAACGAGAATCCGT
* *
85513 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
* *
85533 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* *
85553 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
85573 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
85593 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
85613 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
*
85633 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
85653 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
85673 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
85693 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
85713 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
85733 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
85753 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
85773 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
85793 AAATCACAAC
1 AAATCGCAAC
85803 ACTGAAATTT
Statistics
Matches: 256, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
20 255 1.00
21 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:86522 original size:24 final size:24
Alignment explanation
Indices: 86483--86529 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
86473 AAATTTGGTC
86483 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
86507 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
86530 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:89010 original size:19 final size:19
Alignment explanation
Indices: 88941--89110 Score: 181
Period size: 19 Copynumber: 9.7 Consensus size: 19
88931 GCAACGAGAG
88941 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
88960 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
88974 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
88994 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
89013 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
89027 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
89046 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
89065 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
89079 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
89098 AATCGCATTGCGA
1 AATCGCAATGCGA
89111 TTCTCCCGTT
Statistics
Matches: 127, Mismatches: 8, Indels: 32
0.76 0.05 0.19
Matches are distributed among these distances:
14 32 0.25
15 2 0.02
16 5 0.04
17 5 0.04
18 2 0.02
19 65 0.51
20 16 0.13
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:89064 original size:52 final size:52
Alignment explanation
Indices: 88941--89110 Score: 279
Period size: 52 Copynumber: 3.2 Consensus size: 52
88931 GCAACGAGAG
* *
88941 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
88994 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
89046 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
89098 AATCGCATTGCGA
1 AATCGCAATGCGA
89111 TTCTCCCGTT
Statistics
Matches: 112, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
52 71 0.63
53 40 0.36
54 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:89102 original size:33 final size:33
Alignment explanation
Indices: 88927--89104 Score: 161
Period size: 33 Copynumber: 5.2 Consensus size: 33
88917 CGGAAATTAC
*
88927 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
*
88960 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAAAATCGCAATGC-GAAATGAA
*
88994 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
89027 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
* *
89065 AATCGCAACGAGAGAATCGCAATGCGAAATTAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAA
89098 AATCGCA
1 AATCGCA
89105 TTGCGATTCT
Statistics
Matches: 126, Mismatches: 7, Indels: 24
0.80 0.04 0.15
Matches are distributed among these distances:
32 1 0.01
33 77 0.61
34 17 0.13
35 2 0.02
36 4 0.03
37 2 0.02
38 10 0.08
39 13 0.10
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (33 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:89159 original size:19 final size:19
Alignment explanation
Indices: 89119--89216 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
89109 GATTCTCCCG
89119 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
89139 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
89158 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
89172 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
89191 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
89210 TTGCGAT
1 TTGCGAT
89217 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:89213 original size:52 final size:53
Alignment explanation
Indices: 89100--89216 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
89090 GAAATTAAAA
89100 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
89153 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
89205 TCGCATTGCGAT
1 TCGCATTGCGAT
89217 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:89342 original size:14 final size:14
Alignment explanation
Indices: 89323--89359 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
89313 CATCAATTAC
89323 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
89337 ACAAATCATCTTTT
1 ACAAATCAACTTTT
89351 ACAAATCAA
1 ACAAATCAA
89360 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:91292 original size:19 final size:19
Alignment explanation
Indices: 91270--91319 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
91260 AACGAAACTT
*
91270 AAAATCGCAACGTGAAACC
1 AAAATCGCAACGCGAAACC
**
91289 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACC
*
91308 AAAATCACAACG
1 AAAATCGCAACG
91320 ACGGAATCGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.50, C:0.24, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:91348 original size:19 final size:19
Alignment explanation
Indices: 91324--91388 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
91314 ACAACGACGG
*
91324 AATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAA
91343 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
*
91357 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
91376 AATCGCAATGCGA
1 AATCGCAATGCGA
91389 TTTTGGTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 8 0.21
16 6 0.15
17 5 0.13
19 20 0.51
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:91380 original size:33 final size:33
Alignment explanation
Indices: 91291--91383 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
91281 GTGAAACCAA
* **
91291 AATCGCAACGCGAAATGAAAATCACAACGACGG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
* *
91324 AATCGCAATGTGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
91357 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
91384 TGCGATTTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:91406 original size:19 final size:19
Alignment explanation
Indices: 91384--91511 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
91374 AAAATCGCAA
91384 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
91403 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
91417 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
91436 TGCGA--TT--CTT--CGT
1 TGCGATTTTGGTTTCGCGT
**
91449 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
91468 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
91487 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
91507 TGCGA
1 TGCGA
91512 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
13 8 0.09
14 11 0.12
15 5 0.06
16 1 0.01
17 5 0.06
18 1 0.01
19 45 0.51
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:91454 original size:32 final size:34
Alignment explanation
Indices: 91384--91474 Score: 143
Period size: 32 Copynumber: 2.8 Consensus size: 34
91374 AAAATCGCAA
91384 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
91417 TGCGATTTTGGTTTCGCGTTGCGATTC-T-TCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
**
91449 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
91475 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 28 0.51
33 25 0.45
34 2 0.04
ACGTcount: A:0.08, C:0.19, G:0.27, T:0.46
Consensus pattern (34 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
Found at i:91675 original size:93 final size:93
Alignment explanation
Indices: 91559--92027 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
91549 ATGGATTGCA
91559 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
91623 TTGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
91651 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
91716 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
91744 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
91809 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
91837 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
91902 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
91930 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
91995 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
92023 TTACT
1 TTACT
92028 AAGCAATCTA
Statistics
Matches: 374, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 370 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:93745 original size:14 final size:14
Alignment explanation
Indices: 93726--93815 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
93716 TTGAAATGAA
93726 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
93740 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
93759 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
93773 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
93792 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
93806 AATAGCAACG
1 AATCGCAACG
93816 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 29 0.49
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.34
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:93758 original size:33 final size:33
Alignment explanation
Indices: 93718--93832 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
93708 TCTTTTGGTT
93718 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
93751 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
93784 GAAATGAAAATCGCAACGAGAGAATAGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
93817 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
93833 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.48, C:0.19, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:93764 original size:19 final size:19
Alignment explanation
Indices: 93740--93837 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
93730 GCAACGAGAG
93740 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
93759 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
93773 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
93792 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
93806 AATAGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
93825 AATCGCAATGCGA
1 AATCGCAACGCGA
93838 TTTTGGTTTC
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 19 0.32
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 31 0.52
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:93868 original size:14 final size:14
Alignment explanation
Indices: 93849--93905 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
93839 TTTGGTTTCG
93849 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
93863 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
93882 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
93896 CGTTGCGATT
1 CGTTGCGATT
93906 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:93881 original size:33 final size:33
Alignment explanation
Indices: 93833--93913 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
93823 AAAATCGCAA
**
93833 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
93866 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
93899 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
93914 TCTCGTTGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:93916 original size:21 final size:21
Alignment explanation
Indices: 93890--93965 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
93880 CGCGTTGCGA
93890 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
* ***
93911 TTCTCTCGTTGTGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
93931 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
93952 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
93966 CTCTTCTGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:94087 original size:33 final size:33
Alignment explanation
Indices: 94045--94115 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
94035 AATACTAACT
*
94045 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
94078 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
94111 TGAAA
1 TGAAA
94116 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:94349 original size:22 final size:22
Alignment explanation
Indices: 94297--94351 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
94287 TGGTTGTGAG
**
94297 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
94319 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
94341 GGATTTCTTCG
1 GGATTTCTTCG
94352 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:94523 original size:20 final size:20
Alignment explanation
Indices: 94498--94651 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
94488 CTTTAAATAT
94498 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
94518 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
94540 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
94559 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
94579 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
94599 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
94619 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
94639 CGCGTTGCGATTT
1 CGCGTTGCGATTT
94652 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:94625 original size:40 final size:40
Alignment explanation
Indices: 94497--94651 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
94487 GCTTTAAATA
*
94497 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
94538 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
94578 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
94618 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
94652 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:94668 original size:21 final size:21
Alignment explanation
Indices: 94638--94720 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
94628 ATTTTCATAT
*
94638 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
94659 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
94680 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
94701 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
94721 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:94711 original size:42 final size:43
Alignment explanation
Indices: 94618--94716 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
94608 ATTTATGTGT
* *
94618 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
94659 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
94701 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
94717 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:95210 original size:6 final size:6
Alignment explanation
Indices: 95199--95247 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
95189 GACACGTATT
95199 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
95245 ACC
1 ACC
95248 CGAGACGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.23
6 33 0.77
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:95770 original size:6 final size:6
Alignment explanation
Indices: 95749--95780 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
95739 GTCCGTCTCG
95749 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
95781 CGCGCGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.00, C:0.19, G:0.53, T:0.28
Consensus pattern (6 bp):
GGTCGT
Found at i:108761 original size:35 final size:35
Alignment explanation
Indices: 108616--108792 Score: 173
Period size: 36 Copynumber: 5.1 Consensus size: 35
108606 TAGCATATAA
** *
108616 CATTTTAATATTATTTGATTTAATACTCTTCTAACC
1 CATTTT-ATATTATTCAATTTAATCCTCTTCTAACC
* ** *
108652 CATTTTACATTTATTCAATTTAATTATCTTCTAACT
1 CATTTTATA-TTATTCAATTTAATCCTCTTCTAACC
*
108688 CATTTTAATATTATTCAATTTAATCCT-GT-T--CC
1 CATTTT-ATATTATTCAATTTAATCCTCTTCTAACC
* * *
108720 CATTTTATAATATTCAATTCAACCCTCTTCTAACC
1 CATTTTATATTATTCAATTTAATCCTCTTCTAACC
* * *
108755 CATTTTAGATTATCCAATTGAATCCTCTTCTAACC
1 CATTTTATATTATTCAATTTAATCCTCTTCTAACC
108790 CAT
1 CAT
108793 AATTCAACCT
Statistics
Matches: 115, Mismatches: 20, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
31 17 0.15
32 8 0.07
33 1 0.01
34 1 0.01
35 38 0.33
36 48 0.42
37 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.02, T:0.46
Consensus pattern (35 bp):
CATTTTATATTATTCAATTTAATCCTCTTCTAACC
Found at i:115965 original size:18 final size:17
Alignment explanation
Indices: 115932--115964 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
115922 GAAAATTTTA
*
115932 AAAAATTTATTTAAAAT
1 AAAAATATATTTAAAAT
115949 AAAAATATATTTAAAA
1 AAAAATATATTTAAAA
115965 AAACTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATATATTTAAAAT
Found at i:119712 original size:13 final size:13
Alignment explanation
Indices: 119694--119719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119684 CCCACACGTG
119694 GCTAATAACATAT
1 GCTAATAACATAT
119707 GCTAATAACATAT
1 GCTAATAACATAT
119720 ATTATGATTT
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:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
GCTAATAACATAT
Found at i:133024 original size:29 final size:29
Alignment explanation
Indices: 132982--133064 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 29
132972 ACAGTGGCCG
**
132982 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACTCCCAGCGACCAAC
* * *
133011 TAGGTCGCCATGCACGCCCGGCGACCAAG
1 TAGGTCGCCATGCACTCCCAGCGACCAAC
* *
133040 GAGGTCGCCATGCACTCGCAGCGAC
1 TAGGTCGCCATGCACTCCCAGCGAC
133065 ATCCCCTGCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.19, C:0.40, G:0.28, T:0.13
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCCAGCGACCAAC
Found at i:134174 original size:20 final size:20
Alignment explanation
Indices: 134145--134183 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
134135 TCATTTATTG
*
134145 TGTTCGTTTACATTCGTTTA
1 TGTTCATTTACATTCGTTTA
*
134165 TGTTCATTTACATTTGTTT
1 TGTTCATTTACATTCGTTT
134184 GTTCATATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.59
Consensus pattern (20 bp):
TGTTCATTTACATTCGTTTA
Found at i:134778 original size:35 final size:35
Alignment explanation
Indices: 134732--134807 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
134722 AAAGCAGTCC
*
134732 TCAATTTCATTCTAAACCCCAATTTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
134767 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
134802 TCAATT
1 TCAATT
134808 AAATTCAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:135357 original size:130 final size:130
Alignment explanation
Indices: 135204--135451 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
135194 TATTTATATA
* * **
135204 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAAATAATCATTTAACCAGGATCTGACATGTG
* * *
135269 TTAGCACATGATCATGACATGTGTCATTGGTGACACATGTCACCACGTAATTATTTATATATGCT
66 TTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
135334 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAAATAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAAATAATCATTTAACCAGGATCTGACATGTG
* *
135399 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTA
135452 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAAATAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:135482 original size:130 final size:129
Alignment explanation
Indices: 135218--135482 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 129
135208 ATTTGGTCCT
* * ** *
135218 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAAATAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * *** * **** *
135283 TGACATGTGTCATTGGTGACACATGTCACCACGTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACATATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATATGCTATCAAAGAAGT-CA
135348 AAATTAAATAAAATTTAATAAAATAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAAATAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * *
135413 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTATGTTA-CAAAGAAGT
66 TGACATATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TATGCTATCAAAGAAGT
135477 -A
128 CA
135478 AAATT
1 AAATT
135483 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 6 0.05
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAAATAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACATATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATATGCTATCAAAGAAGTCA
Found at i:135810 original size:28 final size:27
Alignment explanation
Indices: 135779--135841 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
135769 AGTTGATACA
*
135779 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
135807 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
135835 ATATTTT
1 ATATTTT
135842 TCGTATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:135942 original size:16 final size:18
Alignment explanation
Indices: 135921--135954 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
135911 ATTTCTTATT
135921 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
135937 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
135955 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:136629 original size:32 final size:32
Alignment explanation
Indices: 136593--136658 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
136583 ATGTACTTTA
*
136593 AATCCTCAAAATCAATCCCACCTTTATAAAGT
1 AATCCCCAAAATCAATCCCACCTTTATAAAGT
136625 AATCCCCAAAATCAATCCCACCTTTATAAAGT
1 AATCCCCAAAATCAATCCCACCTTTATAAAGT
136657 AA
1 AA
136659 ATGTATGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (32 bp):
AATCCCCAAAATCAATCCCACCTTTATAAAGT
Found at i:138589 original size:2 final size:2
Alignment explanation
Indices: 138582--138616 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
138572 TATAATACCT
138582 TA TA 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 TA TA T
138617 TTTTAAGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:144575 original size:24 final size:24
Alignment explanation
Indices: 144548--144598 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
144538 TATTATAATG
*
144548 ACATGTTTTC-CTTATTGTTGTGGC
1 ACATGTTTTCTC-TACTGTTGTGGC
144572 ACATGTTTTCTCTACTGTTGTGGC
1 ACATGTTTTCTCTACTGTTGTGGC
144596 ACA
1 ACA
144599 ATCCTTATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.45
Consensus pattern (24 bp):
ACATGTTTTCTCTACTGTTGTGGC
Found at i:151059 original size:21 final size:21
Alignment explanation
Indices: 151033--151072 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
151023 CTGTAATCTT
151033 AAACCTCAAATCTCTAAATTC
1 AAACCTCAAATCTCTAAATTC
*
151054 AAACCTTAAATCTCTAAAT
1 AAACCTCAAATCTCTAAAT
151073 CCTAATACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (21 bp):
AAACCTCAAATCTCTAAATTC
Found at i:151218 original size:17 final size:19
Alignment explanation
Indices: 151195--151239 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
151185 TTTAAGAGTA
151195 TTTTTTTTTAAAA-ATGAG
1 TTTTTTTTTAAAATATGAG
*
151213 TTTTTTTTTAAAATATGTG
1 TTTTTTTTTAAAATATGAG
151232 TTTTTTTT
1 TTTTTTTT
151240 AAATTGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTTTTTTTAAAATATGAG
Found at i:156279 original size:2 final size:2
Alignment explanation
Indices: 156272--156312 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
156262 TAAATACGAT
156272 TA TA TA TA TA 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 TA TA TA TA TA T
156313 CCGATATCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:156887 original size:24 final size:26
Alignment explanation
Indices: 156860--156907 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
156850 TGTATTTTAA
156860 ATAA-TTTTTAAAAAA-TATAAAATT
1 ATAATTTTTTAAAAAATTATAAAATT
156884 ATAATTTTTTAAAAAATTATAAAA
1 ATAATTTTTTAAAAAATTATAAAA
156908 ATGTTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.18
25 11 0.50
26 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATAATTTTTTAAAAAATTATAAAATT
Found at i:157377 original size:3 final size:3
Alignment explanation
Indices: 157371--157401 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
157361 TAATTTCTTC
157371 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
157402 GTTCGATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:164107 original size:16 final size:16
Alignment explanation
Indices: 164070--164103 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
164060 TTTATATTTA
*
164070 TTTATAATTTAGGTAT
1 TTTAGAATTTAGGTAT
164086 TTTAGAATTTAGG-AT
1 TTTAGAATTTAGGTAT
164101 TTT
1 TTT
164104 TAGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (16 bp):
TTTAGAATTTAGGTAT
Found at i:170933 original size:45 final size:45
Alignment explanation
Indices: 170884--170979 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
170874 TTTACTTTAA
* *
170884 TTAATTAAATATGTATAGGTGATTTATTTATTTAAGAATGGTTAT
1 TTAATTAAACATGTATAGGTGATTTATTTATCTAAGAATGGTTAT
* *
170929 TTAATTAAACATGTATTGGTGATTTATTTATCTAAGAATGTTTAT
1 TTAATTAAACATGTATAGGTGATTTATTTATCTAAGAATGGTTAT
170974 TTAATT
1 TTAATT
170980 TGATCGGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (45 bp):
TTAATTAAACATGTATAGGTGATTTATTTATCTAAGAATGGTTAT
Found at i:178346 original size:22 final size:21
Alignment explanation
Indices: 178318--178374 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
178308 TTATTCAGTA
178318 AAATGTTGTTATTACTAAGATG
1 AAATGTTGTTATTACTAAG-TG
* * *
178340 AAATGTTCGTTTTTATTCAGTG
1 AAATGTT-GTTATTACTAAGTG
*
178362 AAATTTTGTTATT
1 AAATGTTGTTATT
178375 TTTTTTTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 5 0.17
22 15 0.52
23 9 0.31
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (21 bp):
AAATGTTGTTATTACTAAGTG
Found at i:180490 original size:28 final size:27
Alignment explanation
Indices: 180459--180553 Score: 85
Period size: 28 Copynumber: 3.7 Consensus size: 27
180449 TGTTATAAGG
*
180459 TTTAGGGTTTAGAGTTTATGTGATATGA
1 TTTAAGGTTTAGAGTTTATGTGATA-GA
*
180487 TTTAAGATTTAGAGTTTA-G-G---G-
1 TTTAAGGTTTAGAGTTTATGTGATAGA
* *
180508 TTTATGGTTTAGAGTTTTTGTGATAGGA
1 TTTAAGGTTTAGAGTTTATGTGATA-GA
*
180536 TTTAAGGTTTATAGTTTA
1 TTTAAGGTTTAGAGTTTA
180554 GGGTTTAGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
21 15 0.29
22 2 0.04
23 1 0.02
26 1 0.02
27 2 0.04
28 31 0.60
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.48
Consensus pattern (27 bp):
TTTAAGGTTTAGAGTTTATGTGATAGA
Found at i:180530 original size:49 final size:49
Alignment explanation
Indices: 180457--180562 Score: 167
Period size: 49 Copynumber: 2.2 Consensus size: 49
180447 TATGTTATAA
*
180457 GGTTTAGGGTTTAGAGTTTATGTGATATGATTTAAGATTTAGAGTTTAG
1 GGTTTAGGGTTTAGAGTTTATGTGATAGGATTTAAGATTTAGAGTTTAG
* * * *
180506 GGTTTATGGTTTAGAGTTTTTGTGATAGGATTTAAGGTTTATAGTTTAG
1 GGTTTAGGGTTTAGAGTTTATGTGATAGGATTTAAGATTTAGAGTTTAG
180555 GGTTTAGG
1 GGTTTAGG
180563 TATTAAGGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (49 bp):
GGTTTAGGGTTTAGAGTTTATGTGATAGGATTTAAGATTTAGAGTTTAG
Found at i:180559 original size:7 final size:7
Alignment explanation
Indices: 180549--180666 Score: 64
Period size: 7 Copynumber: 16.7 Consensus size: 7
180539 AAGGTTTATA
180549 GTTTAGG
1 GTTTAGG
180556 GTTTA-G
1 GTTTAGG
180562 GTATTAAGG
1 GT-TT-AGG
180571 G-TTAGG
1 GTTTAGG
*
180577 GGTTAGG
1 GTTTAGG
180584 GTTTAGG
1 GTTTAGG
*
180591 GTTTA-T
1 GTTTAGG
*
180597 GTTATATG
1 GTT-TAGG
* *
180605 ATTTAAG
1 GTTTAGG
**
180612 GTTTATA
1 GTTTAGG
180619 GTTTATGG
1 GTTTA-GG
*
180627 TTTTAGG
1 GTTTAGG
*
180634 GTTTA-T
1 GTTTAGG
180640 GTGTTAGG
1 GT-TTAGG
*
180648 GTTTAGA
1 GTTTAGG
*
180655 GTTTAGA
1 GTTTAGG
180662 GTTTA
1 GTTTA
180667 TGCGATATGA
Statistics
Matches: 87, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
6 12 0.14
7 64 0.74
8 9 0.10
9 2 0.02
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:180562 original size:28 final size:27
Alignment explanation
Indices: 180531--180595 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
180521 GTTTTTGTGA
* * *
180531 TAGGATTTAAGGTTTATAGTTTAGGGTT
1 TAGG-TTTAAGGGTTAGAGGTTAGGGTT
*
180559 TAGGTATTAAGGGTTAGGGGTTAGGGTT
1 TAGGT-TTAAGGGTTAGAGGTTAGGGTT
180587 TAGGGTTTA
1 TA-GGTTTA
180596 TGTTATATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 27 0.87
29 3 0.10
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (27 bp):
TAGGTTTAAGGGTTAGAGGTTAGGGTT
Found at i:180614 original size:21 final size:21
Alignment explanation
Indices: 180585--180668 Score: 73
Period size: 21 Copynumber: 3.9 Consensus size: 21
180575 GGGGTTAGGG
180585 TTTAGGGTTTATGTTATAT-GA
1 TTTAGGGTTTATGTT-TATGGA
* *
180606 TTTAAGGTTTATAGTTTATGGT
1 TTTAGGGTTTAT-GTTTATGGA
*
180628 TTTAGGGTTTATGTGTTA-GGG
1 TTTAGGGTTTATGT-TTATGGA
* *
180649 TTTAGAGTTTAGAGTTTATG
1 TTTAGGGTTTA-TGTTTATG
180669 CGATATGATT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
21 31 0.60
22 21 0.40
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.51
Consensus pattern (21 bp):
TTTAGGGTTTATGTTTATGGA
Found at i:180646 original size:14 final size:15
Alignment explanation
Indices: 180502--180652 Score: 54
Period size: 14 Copynumber: 10.7 Consensus size: 15
180492 GATTTAGAGT
180502 TTAGGGTTTATGGT-
1 TTAGGGTTTATGGTG
* *
180516 TTAGAGTTT-TTGTG
1 TTAGGGTTTATGGTG
* * *
180530 ATAGGATTTAAGGT-
1 TTAGGGTTTATGGTG
** *
180544 TTATAGTTTAGGGT-
1 TTAGGGTTTATGGTG
*
180558 TTA-GGTATTAAGG-G
1 TTAGGGT-TTATGGTG
* *
180572 TTAGGGGTTAGGGT-
1 TTAGGGTTTATGGTG
180586 TTAGGGTTTAT-GT-
1 TTAGGGTTTATGGTG
* * *
180599 TATATGATTTAAGGT-
1 T-TAGGGTTTATGGTG
** *
180614 TTATAGTTTATGGTT
1 TTAGGGTTTATGGTG
180629 TTAGGGTTTAT-GTG
1 TTAGGGTTTATGGTG
180643 TTAGGGTTTA
1 TTAGGGTTTA
180653 GAGTTTAGAG
Statistics
Matches: 101, Mismatches: 27, Indels: 18
0.69 0.18 0.12
Matches are distributed among these distances:
13 8 0.08
14 77 0.76
15 16 0.16
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (15 bp):
TTAGGGTTTATGGTG
Found at i:180659 original size:43 final size:43
Alignment explanation
Indices: 180585--180668 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
180575 GGGGTTAGGG
* *
180585 TTTAGGGTTTATGTTATATGATTTAAGGTTTATAGTTTATGGT
1 TTTAGGGTTTATGTTATAGGATTTAAGGTTTAGAGTTTATGGT
*
180628 TTTAGGGTTTATGTGT-TAGGGTTT-AGAGTTTAGAGTTTATG
1 TTTAGGGTTTATGT-TATAGGATTTAAG-GTTTAGAGTTTATG
180669 CGATATGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.06
43 33 0.92
44 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.51
Consensus pattern (43 bp):
TTTAGGGTTTATGTTATAGGATTTAAGGTTTAGAGTTTATGGT
Found at i:180709 original size:14 final size:13
Alignment explanation
Indices: 180692--180742 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
180682 GGTTTTAGAC
180692 TTTAGAGTTTAGGG
1 TTTAGA-TTTAGGG
*
180706 TTTATATGTTAGGG
1 TTTAGAT-TTAGGG
*
180720 -TTAGTGTTTAGGG
1 TTTAG-ATTTAGGG
180733 TTTAGATTTA
1 TTTAGATTTA
180743 AGTTATGCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 14 0.47
14 16 0.53
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (13 bp):
TTTAGATTTAGGG
Found at i:183214 original size:17 final size:17
Alignment explanation
Indices: 183192--183295 Score: 163
Period size: 17 Copynumber: 6.1 Consensus size: 17
183182 AGGTTCGAAT
*
183192 TCGAGCTTGAATCGAGT
1 TCGAGCTTGAATCGAGC
* *
183209 TTGAGCTTGAATCGAGT
1 TCGAGCTTGAATCGAGC
*
183226 TCGAGCTTGAATCGGGC
1 TCGAGCTTGAATCGAGC
*
183243 TCGAGCTTGAATCGGGC
1 TCGAGCTTGAATCGAGC
183260 TCGAGCTTGAATCGAGC
1 TCGAGCTTGAATCGAGC
183277 TCGAGCTTGAATCGAGC
1 TCGAGCTTGAATCGAGC
183294 TC
1 TC
183296 AAATTCGAGT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 82 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (17 bp):
TCGAGCTTGAATCGAGC
Found at i:183268 original size:51 final size:51
Alignment explanation
Indices: 183192--183330 Score: 163
Period size: 51 Copynumber: 2.7 Consensus size: 51
183182 AGGTTCGAAT
* * * *
183192 TCGAGCTTGAATCGAGTTTGAGCTTGAATCGAGTTCGAGCTTGAATCGGGC
1 TCGAGCTTGAATCGAGCTCGAGCTTGAATCGAGCTCGAGCTTGAATCGAGC
*
183243 TCGAGCTTGAATCGGGCTCGAGCTTGAATCGAGCTCGAGCTTGAATCGAGC
1 TCGAGCTTGAATCGAGCTCGAGCTTGAATCGAGCTCGAGCTTGAATCGAGC
** * * *
183294 TC-AAATTCGAGTTTGAGTTCGAGCTTGAATCGAGCTC
1 TCGAGCTT-GA-ATCGAGCTCGAGCTTGAATCGAGCTC
183331 AAAATCGAGC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
50 3 0.04
51 50 0.67
52 22 0.29
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (51 bp):
TCGAGCTTGAATCGAGCTCGAGCTTGAATCGAGCTCGAGCTTGAATCGAGC
Found at i:183276 original size:11 final size:11
Alignment explanation
Indices: 183277--183360 Score: 69
Period size: 11 Copynumber: 7.4 Consensus size: 11
183267 TGAATCGAGC
183277 TCGAGCTTGAA
1 TCGAGCTTGAA
**
183288 TCGAGCTCAAA
1 TCGAGCTTGAA
* *
183299 TTCGAGTTTGAGT
1 -TCGAGCTTGA-A
183312 TCGAGCTTGAA
1 TCGAGCTTGAA
**
183323 TCGAGCTCAAAA
1 TCGAGCT-TGAA
*
183335 TCGAGCTTCAA
1 TCGAGCTTGAA
*
183346 TCGAGCTTCAA
1 TCGAGCTTGAA
183357 TCGA
1 TCGA
183361 TCTCTTGAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
11 33 0.57
12 25 0.43
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:183627 original size:7 final size:7
Alignment explanation
Indices: 183615--183654 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
183605 ATCTACTTAG
183615 AATTTTT
1 AATTTTT
183622 AATTTTT
1 AATTTTT
183629 AA-TTTT
1 AATTTTT
183635 -ATCTTTT
1 AAT-TTTT
183642 AATTTTT
1 AATTTTT
183649 AATTTT
1 AATTTT
183655 ATCTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 1 0.03
6 4 0.13
7 23 0.77
8 2 0.07
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
AATTTTT
Found at i:183643 original size:20 final size:20
Alignment explanation
Indices: 183618--183661 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
183608 TACTTAGAAT
183618 TTTTAATTTTTAATTTTATC
1 TTTTAATTTTTAATTTTATC
183638 TTTTAATTTTTAATTTTATC
1 TTTTAATTTTTAATTTTATC
183658 TTTT
1 TTTT
183662 TTTAATTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTAATTTTTAATTTTATC
Found at i:183655 original size:13 final size:14
Alignment explanation
Indices: 183615--183654 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
183605 ATCTACTTAG
183615 AATTTTTAATTTTT
1 AATTTTTAATTTTT
183629 AA-TTTT-ATCTTTT
1 AATTTTTAAT-TTTT
183642 AATTTTTAATTTT
1 AATTTTTAATTTT
183655 ATCTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.09
13 10 0.43
14 9 0.39
15 2 0.09
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
AATTTTTAATTTTT
Found at i:189345 original size:22 final size:22
Alignment explanation
Indices: 189319--189361 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
189309 TAATAAATTA
*
189319 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
189341 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
189362 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:189367 original size:18 final size:18
Alignment explanation
Indices: 189346--189402 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
189336 CATATTTTAA
189346 AATAAATCAATACATACT
1 AATAAATCAATACATACT
** *
189364 AATAAAT---TATTTA-A
1 AATAAATCAATACATACT
189378 AATAAATCAATACATACT
1 AATAAATCAATACATACT
189396 AATAAAT
1 AATAAAT
189403 TATTTAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 7 0.24
15 4 0.14
17 4 0.14
18 14 0.48
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATCAATACATACT
Found at i:189370 original size:22 final size:22
Alignment explanation
Indices: 189321--189369 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
189311 ATAAATTATT
* **
189321 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATACATATAA
189343 TAAAATAAATCAATACATACTAA
1 TAAAATAAATCAATACATA-TAA
189366 TAAA
1 TAAA
189370 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:189373 original size:54 final size:54
Alignment explanation
Indices: 189309--189721 Score: 332
Period size: 54 Copynumber: 7.5 Consensus size: 54
189299 ACAACTACAA
*
189309 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
189363 TAATAAATTATTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* *
189427 -AACTACA--A--T--AATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * ** * ** * **
189475 TAATAAATTATTTAAAATAAATCAAACTATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** ** * *
189530 -AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATAC
* * *
189588 T-ATGCAACTA--CAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAAT-AAATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
189641 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
189695 TAATAAATTATTTAAAATAAATCAATC
1 TAATAAATTATTTAAAATAAATCAATC
189722 TATACAACTA
Statistics
Matches: 295, Mismatches: 30, Indels: 68
0.75 0.08 0.17
Matches are distributed among these distances:
48 25 0.08
49 3 0.01
50 2 0.01
52 13 0.04
53 9 0.03
54 140 0.47
55 13 0.04
56 5 0.02
57 8 0.03
58 39 0.13
59 4 0.01
60 5 0.02
62 2 0.01
63 3 0.01
64 24 0.08
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:189379 original size:32 final size:32
Alignment explanation
Indices: 189341--189426 Score: 163
Period size: 32 Copynumber: 2.7 Consensus size: 32
189331 CAATCCATAT
189341 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATACATACTAATAAATTA
189373 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATACATACTAATAAATTA
*
189405 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATACATAC
189427 AACTACAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATACATACTAATAAATTA
Found at i:189453 original size:112 final size:112
Alignment explanation
Indices: 189324--189537 Score: 394
Period size: 112 Copynumber: 1.9 Consensus size: 112
189314 AATTATTTAA
189324 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAA-
189389 AC-ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
65 ACTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
* *
189436 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAAA
189501 CTATACTAATAAATTATTTAAAATAAATCAATCCATA
66 CTATACTAATAAATTATTTAAAATAAATCAATCCATA
189538 TTTTAAAATA
Statistics
Matches: 99, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
111 2 0.02
112 97 0.98
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (112 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAAA
CTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
Found at i:189482 original size:22 final size:23
Alignment explanation
Indices: 189407--189481 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
189397 ATAAATTATT
189407 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
* **
189429 CTACAATAATAAATCAATCTATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
189455 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
189478 TAAA
1 TAAA
189482 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:189484 original size:80 final size:80
Alignment explanation
Indices: 189373--189671 Score: 465
Period size: 80 Copynumber: 3.7 Consensus size: 80
189363 TAATAAATTA
*
189373 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
189438 TAAATCAATCTATAT
66 TAAATCAATCCATAT
* * *
189453 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAACTATACTAA-TAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A
189517 TTTAAAATAAATCAATCCATAT
63 --T--AATAAATCAATCCATAT
* *
189539 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATGCAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
189604 TAAATCAATCCATAT
66 TAAATCAATCCATAT
189619 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
189672 TTTTAAAATA
Statistics
Matches: 201, Mismatches: 10, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
80 122 0.61
81 2 0.01
82 2 0.01
84 2 0.01
85 2 0.01
86 71 0.35
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (80 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATAT
Found at i:189543 original size:22 final size:22
Alignment explanation
Indices: 189517--189559 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
189507 TAATAAATTA
189517 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
189539 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
189560 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:189556 original size:134 final size:134
Alignment explanation
Indices: 189405--189796 Score: 492
Period size: 134 Copynumber: 2.9 Consensus size: 134
189395 TAATAAATTA
* * * *
189405 TTTAAAATAAATCAATCCATAC-AACTACAA-TA-AT-AAATCAATCTATATTTTAAAATA-AAT
1 TTTAAAATAAATCAATCCATACTAA-TA-AATTATATAAAATAAATCAATATATGAAAATACAAT
** *
189465 CAATCCATACTAATAAAT-TATTTAAAATAAATCAAACTATACTAATAAATTATTTAAAATAAAT
64 -AATAAAT-C-AATAAATAT-TTTAAAATAAATCAAACCATACTAATAAATTATTTAAAATAAAT
189529 CAATCCATAT
125 CAATCCATAT
* * * *
189539 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATGCAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAATCAATATATGAAAATACAATAA
** *
189604 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
66 TAAATCAATAAATATTTTAAAATAAATCAAACCATACTAATAAATTATTTAAAATAAATCAATCC
189669 ATAT
131 ATAT
* * *
189673 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTAT-ACAACTACAATA
1 TTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAATCAATATATGA-AAATACAATA
** *
189737 ATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
65 ATAAATCAATAAATATTTTAAAATAAATCAAACCATACTAATAAATTATTTAAAATAAAT
189797 TATTTTAAAA
Statistics
Matches: 236, Mismatches: 15, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
133 2 0.01
134 205 0.87
135 5 0.02
136 21 0.09
137 3 0.01
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (134 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAATCAATATATGAAAATACAATAA
TAAATCAATAAATATTTTAAAATAAATCAAACCATACTAATAAATTATTTAAAATAAATCAATCC
ATAT
Found at i:189568 original size:22 final size:22
Alignment explanation
Indices: 189519--189567 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
189509 ATAAATTATT
**
189519 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
189541 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
189564 TAAA
1 TAAA
189568 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:189648 original size:22 final size:22
Alignment explanation
Indices: 189602--189647 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
189592 CAACTACAAT
**
189602 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATAATAA
189624 AATAAATCAATCCATACTAATAA
1 AATAAATCAATCCATA-TAATAA
189647 A
1 A
189648 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAATCAATCCATATAATAA
Found at i:189677 original size:22 final size:22
Alignment explanation
Indices: 189651--189693 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
189641 TAATAAATTA
189651 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
189673 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
189694 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:189702 original size:22 final size:22
Alignment explanation
Indices: 189653--189701 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
189643 ATAAATTATT
**
189653 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
189675 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
189698 TAAA
1 TAAA
189702 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:189711 original size:166 final size:166
Alignment explanation
Indices: 189309--189726 Score: 635
Period size: 166 Copynumber: 2.5 Consensus size: 166
189299 ACAACTACAA
189309 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
*
189374 TTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAAT
66 TTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAAT
*
189439 AAATCAATCTATATTTTAAAATAAATCAATCCATAC
131 AAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * ** * ** * * **
189475 TAATAAATTATTTAAAATAAATCAAACTATACTAATAAATTATTTAAAATAAAT-C-AATCCA-T
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATACATACTAATAAATT
* *
189537 ATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATGCAACTACAAT
64 A-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
189602 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
128 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
189641 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
*
189706 TTAAAATAAATCAATCTATAC
66 TTAAAATAAATCAATCCATAC
189727 AACTACAATA
Statistics
Matches: 218, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
164 5 0.02
165 11 0.05
166 185 0.85
167 11 0.05
168 6 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (166 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
TTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAAT
AAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:189761 original size:22 final size:22
Alignment explanation
Indices: 189736--189824 Score: 79
Period size: 22 Copynumber: 3.9 Consensus size: 22
189726 CAACTACAAT
189736 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
**
189758 AATAAATCAATCCATACTAATAA
1 AATAAATCAATCCATA-TTTTAA
* ** * **
189781 ATTATTTAAAATAAATTATTTTAA
1 AATAAAT-CAATCCA-TATTTTAA
189805 AATAAATCAATCCATATTTT
1 AATAAATCAATCCATATTTT
189825 TTAATAATTT
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
22 22 0.46
23 12 0.25
24 12 0.25
25 2 0.04
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAAATCAATCCATATTTTAA
Found at i:189791 original size:166 final size:160
Alignment explanation
Indices: 189309--189796 Score: 445
Period size: 166 Copynumber: 2.9 Consensus size: 160
189299 ACAACTACAA
189309 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
* * *
189374 TTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AA
66 TTAAAATAAATCAAT-CATACTAAT-AA--A-TT--AATAAATCAATCCATA-TATTAAAATAAA
189438 TAAATCAATCT-ATAT-TTTAAAATAAATCAATCCATAC
123 T-AATCAATCTAATATATTTAAAATAAATCAATCCATAC
* * ** * ** * * **
189475 TAATAAATTATTTAAAATAAATCAAACTATACTAATAAATTATTTAAAATAAAT-C-AATCCA-T
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATACATACTAATAAATT
* * * * ** *
189537 ATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATGCAACTACAAT
64 A-TTTAAAATAAATCAAT-CATACTAATAAATTA-AT-AAATCAATCCATATATTAAAATA-AAT
*
189602 AATAAATC-AATCCATATTTTAAAATAAATCAATCCATAC
124 AATCAATCTAAT--ATA-TTTAAAATAAATCAATCCATAC
*
189641 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
*
189706 TTAAAATAAATCAATCTATAC-AACTACAA-TAATAAATCAATCCATATTTTAAAATAAATCAAT
66 TTAAAATAAATCAATC-ATACTAA-TA-AATTAATAAATCAATCCATATATTAAAATAAAT-AAT
*
189769 CCATACTAATAAATTATTTAAAATAAAT
127 CAAT-CTAAT--A-TATTTAAAATAAAT
189797 TATTTTAAAA
Statistics
Matches: 253, Mismatches: 47, Indels: 44
0.74 0.14 0.13
Matches are distributed among these distances:
160 1 0.00
161 4 0.02
162 21 0.08
163 7 0.03
164 28 0.11
165 18 0.07
166 153 0.60
167 15 0.06
168 6 0.02
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (160 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
TTAAAATAAATCAATCATACTAATAAATTAATAAATCAATCCATATATTAAAATAAATAATCAAT
CTAATATATTTAAAATAAATCAATCCATAC
Found at i:189805 original size:15 final size:15
Alignment explanation
Indices: 189776--189893 Score: 121
Period size: 15 Copynumber: 7.5 Consensus size: 15
189766 AATCCATACT
189776 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
189790 AATAAATTATTTTAA
1 AATAAATTATTTTAA
**
189805 AATAAATCAATCCATATTTTTT
1 AAT--A--AAT---TATTTTAA
*
189827 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
189842 AATAAATTATTTTAT
1 AATAAATTATTTTAA
189857 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
189872 AATAGATTATTTTAA
1 AATAAATTATTTTAA
189887 AATAAAT
1 AATAAAT
189894 AAACTTATTA
Statistics
Matches: 86, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
14 9 0.10
15 61 0.71
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 9 0.10
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:189818 original size:69 final size:67
Alignment explanation
Indices: 189736--189875 Score: 174
Period size: 67 Copynumber: 2.1 Consensus size: 67
189726 CAACTACAAT
*
189736 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATAAATTAT
1 AATAAATCAATCCATATTTTAAAAT-AATCAAT-CATA-AAATAAATTATTTTAAAATAAATTAT
189800 TTTAA
63 TTTAA
** ** ** *
189805 AATAAATCAATCCATATTTTTTAATAATTTATTTTAAAATAAATTATTTTATAATAAATTATTTT
1 AATAAATCAATCCATATTTTAAAATAATCAATCATAAAATAAATTATTTTAAAATAAATTATTTT
189870 AA
66 AA
189872 AATA
1 AATA
189876 GATTATTTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
66 9 0.15
67 25 0.40
68 5 0.08
69 23 0.37
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (67 bp):
AATAAATCAATCCATATTTTAAAATAATCAATCATAAAATAAATTATTTTAAAATAAATTATTTT
AA
Found at i:189863 original size:52 final size:47
Alignment explanation
Indices: 189696--189863 Score: 157
Period size: 47 Copynumber: 3.5 Consensus size: 47
189686 AATCCATACT
* *
189696 AATAAATTA-TTTAAAATAAATCAATCTATAC-AACTACAA-TA-AT-A
1 AATAAATTATTTTAAAATAAATCAATCCATACTAA-TA-AATTATTTAA
*
189740 AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAAT---TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
189790 AATAAATTATTTTAAAATAAATCAATCCATATTTTTTAATAATTTATTTTAA
1 AATAAATTATTTTAAAATAAATCAATCCATA----CTAATAAATTA-TTTAA
*
189842 AATAAATTATTTTATAATAAAT
1 AATAAATTATTTTAAAATAAAT
189864 TATTTTAAAA
Statistics
Matches: 104, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
44 6 0.06
47 28 0.27
48 25 0.24
49 3 0.03
50 7 0.07
51 9 0.09
52 26 0.25
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (47 bp):
AATAAATTATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:189919 original size:82 final size:84
Alignment explanation
Indices: 189775--189944 Score: 210
Period size: 82 Copynumber: 2.0 Consensus size: 84
189765 CAATCCATAC
*
189775 TAATAAATTATTTAAAATAAATTATTTTAAAATAAATCAATCCATATTTTTTAATAATTTATTTT
1 TAATAAATTATTTAAAATAAATTATTTTAAAATAAATCAATACATATTTTTTAATAATTTATTTT
189840 -A-AAATAAAT-TATTTTA
66 AATAAATAAATATATTTTA
* *
189856 TAATAAATTATTTTAAAATAGATTATTTTAAAATAAAT-AA-ACTTATTAAATATTTAA-AA-TT
1 TAATAAATTA-TTTAAAATAAATTATTTTAAAATAAATCAATACATATT---T-TTTAATAATTT
*
189917 ATTTTAATAAATAACTATATTTTA
61 ATTTTAATAAATAAATATATTTTA
189941 TAAT
1 TAAT
189945 TGTTCTTGAA
Statistics
Matches: 77, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
80 5 0.06
81 12 0.16
82 33 0.43
83 4 0.05
84 12 0.16
85 11 0.14
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (84 bp):
TAATAAATTATTTAAAATAAATTATTTTAAAATAAATCAATACATATTTTTTAATAATTTATTTT
AATAAATAAATATATTTTA
Found at i:193123 original size:14 final size:15
Alignment explanation
Indices: 193092--193124 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
193082 CTTTAAAAAA
*
193092 TTTAAATTATTATAT
1 TTTAAAATATTATAT
193107 TTTAAAATATTAT-T
1 TTTAAAATATTATAT
193121 TTTA
1 TTTA
193125 TACATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTAAAATATTATAT
Found at i:196402 original size:37 final size:37
Alignment explanation
Indices: 196305--196423 Score: 174
Period size: 35 Copynumber: 3.3 Consensus size: 37
196295 TGATAACCAA
*
196305 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GTTTTTCAAAGTTTGGTAAATGTTT
196342 CTTTG-AAAAT-GTTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
*
196377 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
*
196414 -GTTGAAAAAT
1 CTTTGAAAAAT
196424 GATAATGAGA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
35 29 0.38
36 18 0.24
37 29 0.38
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (37 bp):
CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:201029 original size:37 final size:37
Alignment explanation
Indices: 200932--201050 Score: 174
Period size: 35 Copynumber: 3.3 Consensus size: 37
200922 TGGTAACCAA
*
200932 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GTTTTTCAAAGTTTGGTAAATGTTT
200969 CTTTG-AAAAT-GTTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
*
201004 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
*
201041 -GTTGAAAAAT
1 CTTTGAAAAAT
201051 GATAATGGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
35 29 0.38
36 18 0.24
37 29 0.38
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (37 bp):
CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
Done.