Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000934.1 Hibiscus syriacus cultivar Beakdansim tig00001865_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: 40576
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Found at i:619 original size:23 final size:23
Alignment explanation
Indices: 593--645 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
583 GAACGTTCGA
*
593 TTATGTTCGTTTATATGCTTTAG
1 TTATGTTCGTTTATATGCTTCAG
* *
616 TTATGTTCGTTTATGTGCTTCAT
1 TTATGTTCGTTTATATGCTTCAG
639 TTATGTT
1 TTATGTT
646 TAACCTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.15, C:0.09, G:0.17, T:0.58
Consensus pattern (23 bp):
TTATGTTCGTTTATATGCTTCAG
Found at i:2118 original size:16 final size:16
Alignment explanation
Indices: 2097--2147 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
2087 TTTCATGTTC
*
2097 TATGTTCGTGTTCATT
1 TATGTTCGTGTTCGTT
2113 TATGTTCGTGTTCGTT
1 TATGTTCGTGTTCGTT
*
2129 TATGTTTGTGTTCGTT
1 TATGTTCGTGTTCGTT
2145 TAT
1 TAT
2148 TTATTAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.10, C:0.10, G:0.22, T:0.59
Consensus pattern (16 bp):
TATGTTCGTGTTCGTT
Found at i:2234 original size:16 final size:16
Alignment explanation
Indices: 2213--2245 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2203 AAAAAATTTT
2213 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2229 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2245 T
1 T
2246 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:2766 original size:9 final size:9
Alignment explanation
Indices: 2750--2804 Score: 64
Period size: 9 Copynumber: 6.3 Consensus size: 9
2740 TCTTTTTTTC
2750 ATTTAT-TT
1 ATTTATATT
2758 ATATTAT-TT
1 AT-TTATATT
2767 ATTT-TATT
1 ATTTATATT
2775 ATTTATATT
1 ATTTATATT
2784 ATTTATATT
1 ATTTATATT
2793 A-TTATTATT
1 ATTTA-TATT
2802 ATT
1 ATT
2805 ACTAATTACA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
7 1 0.02
8 13 0.31
9 27 0.64
10 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTATATT
Found at i:2776 original size:12 final size:12
Alignment explanation
Indices: 2750--2804 Score: 65
Period size: 12 Copynumber: 4.2 Consensus size: 12
2740 TCTTTTTTTC
2750 ATTTATTTATATT
1 ATTTATTT-TATT
2763 ATTTATTTTATT
1 ATTTATTTTATT
*
2775 ATTTATATTATTT
1 ATTTATTTTA-TT
2788 ATATTATTATTATT
1 AT-TTATT-TTATT
2802 ATT
1 ATT
2805 ACTAATTACA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 13 0.35
13 13 0.35
14 8 0.22
15 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTATTTTATT
Found at i:2805 original size:21 final size:21
Alignment explanation
Indices: 2752--2798 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
2742 TTTTTTTCAT
*
2752 TTATTTATATTATTTATTTTA
1 TTATTTATATTATTTATATTA
2773 TTATTTATATTATTTATATTA
1 TTATTTATATTATTTATATTA
2794 TTATT
1 TTATT
2799 ATTATTACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTATTTATATTATTTATATTA
Found at i:4665 original size:25 final size:24
Alignment explanation
Indices: 4637--4684 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
4627 TGTTTAACTT
4637 TATATGTTATAAATATTTTGTTTCG
1 TATATGTTATAAATA-TTTGTTTCG
* **
4662 TATATTTTATTTATATTTGTTTC
1 TATATGTTATAAATATTTGTTTC
4685 CATTGTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.62
Consensus pattern (24 bp):
TATATGTTATAAATATTTGTTTCG
Found at i:7826 original size:20 final size:20
Alignment explanation
Indices: 7801--7841 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
7791 ACATTCTTTC
7801 TCTTTGAGACCATGAAACAT
1 TCTTTGAGACCATGAAACAT
*
7821 TCTTTGAGACCTTGAAACAT
1 TCTTTGAGACCATGAAACAT
7841 T
1 T
7842 GCATTTATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (20 bp):
TCTTTGAGACCATGAAACAT
Found at i:8481 original size:33 final size:31
Alignment explanation
Indices: 8434--8523 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 31
8424 CATATCAAAG
*
8434 AGAAAAGAAACAAAGAAAAAATAAAGAAAAA
1 AGAAAAGAAACAAAGAAAAAACAAAGAAAAA
* *
8465 AGAAAAGCAAAGCAAAGCAAAAACAAAGAAAAG
1 AGAAAAG-AAA-CAAAGAAAAAACAAAGAAAAA
* *
8498 AGCAAAG-AACAAA-AAAATGACAAAGA
1 AGAAAAGAAACAAAGAAAA-AACAAAGA
8524 GCACAGACAA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 3 0.06
30 11 0.22
31 9 0.18
32 3 0.06
33 24 0.48
ACGTcount: A:0.73, C:0.09, G:0.16, T:0.02
Consensus pattern (31 bp):
AGAAAAGAAACAAAGAAAAAACAAAGAAAAA
Found at i:8486 original size:16 final size:15
Alignment explanation
Indices: 8441--8498 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
8431 AAGAGAAAAG
8441 AAACAAAGAAAA-AA
1 AAACAAAGAAAAGAA
*
8455 TAAA-GAA-AAAAGAA
1 -AAACAAAGAAAAGAA
* *
8469 AAGCAAAGCAAAGCAA
1 AAACAAAGAAAAG-AA
8485 AAACAAAGAAAAGA
1 AAACAAAGAAAAGA
8499 GCAAAGAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
13 6 0.18
14 6 0.18
15 8 0.24
16 13 0.39
ACGTcount: A:0.76, C:0.09, G:0.14, T:0.02
Consensus pattern (15 bp):
AAACAAAGAAAAGAA
Found at i:8521 original size:18 final size:19
Alignment explanation
Indices: 8480--8523 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
8470 AGCAAAGCAA
8480 AGCAAA-AACAAAGAAAAG
1 AGCAAAGAACAAAGAAAAG
8498 AGCAAAGAACAAA-AAAATG
1 AGCAAAGAACAAAGAAAA-G
8517 A-CAAAGA
1 AGCAAAGA
8524 GCACAGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.70, C:0.11, G:0.16, T:0.02
Consensus pattern (19 bp):
AGCAAAGAACAAAGAAAAG
Found at i:8716 original size:15 final size:15
Alignment explanation
Indices: 8696--8725 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8686 AAGGCATCCG
8696 AGTAAATTGATCCTT
1 AGTAAATTGATCCTT
8711 AGTAAATTGATCCTT
1 AGTAAATTGATCCTT
8726 GGTTCAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
AGTAAATTGATCCTT
Found at i:9592 original size:21 final size:23
Alignment explanation
Indices: 9551--9593 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9541 AGAATCGAAG
*
9551 TTGGGGCAAGAGAAGCTAAATTT
1 TTGGGGCAAGAGAAACTAAATTT
9574 TTGGGGCAAGA-AAAC-AAATT
1 TTGGGGCAAGAGAAACTAAATT
9594 GTCTCAGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (23 bp):
TTGGGGCAAGAGAAACTAAATTT
Found at i:9723 original size:4 final size:4
Alignment explanation
Indices: 9716--12933 Score: 5604
Period size: 4 Copynumber: 808.0 Consensus size: 4
9706 ATACATCAAC
9716 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
9764 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
9812 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
9860 GCAT GCAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * * *
9908 GCAT GCAT GCAT GCAT GCAT GCAT GA-AT GCAT TCAT ACAT ACAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT -ACAT ACAT ACAT ACAT ACAT ACAT
* * *
9956 ACAT ACAT GCAT GCAT ACAT ACAT GCAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10004 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10052 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10100 ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10146 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10194 -CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10241 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10287 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10335 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10383 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10431 ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10477 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10525 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10573 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10621 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10669 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10717 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10765 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10813 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10861 ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * *
10909 ACAT GCAT GCAT GCAT GCAT GCAT GCAT GA-AT GCAT TCAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT -ACAT ACAT ACAT ACAT ACAT
* * * *
10957 GCAT ACAT ACAT GCAT GCAT ACAT ACAT ACAT GCAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11005 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11053 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11101 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11149 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11197 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11245 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11293 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11341 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11389 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11437 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11485 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11533 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11581 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
11629 ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT GCAT GCAT GCAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
11677 GCAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * *
11725 GCAT GCAT GCAT GCAT GCAT GCAT GCAT GCAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11773 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11821 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * *
11869 GCAT GCAT GCAT GCAT GCAT GCAT GCAT GCAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
11917 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11965 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12013 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
12059 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * *
12107 GCAT GCAT GCAT GCAT GCAT GCAT GCAT GCAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12155 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12203 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC--
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12249 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12297 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12345 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12393 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12441 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12489 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12537 ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12584 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
12632 ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT GCAT GCAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12680 ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
12726 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
12774 ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT GCAT GCAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
12822 GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12870 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12918 ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT
12934 GACACATAAA
Statistics
Matches: 3154, Mismatches: 42, Indels: 36
0.98 0.01 0.01
Matches are distributed among these distances:
2 12 0.00
3 6 0.00
4 3136 0.99
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:13328 original size:35 final size:37
Alignment explanation
Indices: 13240--13405 Score: 151
Period size: 35 Copynumber: 4.5 Consensus size: 37
13230 ATGTTGTTTC
* * * * *
13240 TCTTGAAACA-AAATGTCGTCTCGCTAGAGACAGTTT
1 TCTTGAAAAACAAATTTTGTCTCGCTTGAGACAATTT
*
13276 CTTTTGAAAAACAAATTTTGTCTCGCTTGAGACAATTT
1 -TCTTGAAAAACAAATTTTGTCTCGCTTGAGACAATTT
*
13314 TC-T-AAAAACAAATTTTGTCTCGTTTGAGACAA-TT
1 TCTTGAAAAACAAATTTTGTCTCGCTTGAGACAATTT
* * * * *
13348 TCTTGAAAAATAAATTTCGACTCGCTAGAGACATTTT
1 TCTTGAAAAACAAATTTTGTCTCGCTTGAGACAATTT
* *
13385 TCCTTTGAGATACAAATTTTG
1 T-C-TTGAAAAACAAATTTTG
13406 AATTTGTTTC
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
34 4 0.04
35 29 0.28
36 24 0.23
37 12 0.11
38 23 0.22
39 13 0.12
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (37 bp):
TCTTGAAAAACAAATTTTGTCTCGCTTGAGACAATTT
Found at i:14192 original size:66 final size:63
Alignment explanation
Indices: 14116--14236 Score: 163
Period size: 66 Copynumber: 1.9 Consensus size: 63
14106 CTATAAGAAC
*
14116 AAAAATCTTTGAGTATGTTTC-TCTGAAAACAAATTTTTTGTCTCTTGAGACAATTTCTGTGGAA
1 AAAAATCTTTGAGTATGTTTCTTCTG-AAACAAA-ATTTTGTCTC--GAGACAATTTCTGTGGAA
14180 AA
62 AA
* * *
14182 AAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCGAGATAATTTCT
1 AAAAATCTTTGAGTATGTTTCTTCTGAAACAAAATTTTGTCTCGAGACAATTTCT
14237 TTTGAAACAC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
63 11 0.22
65 9 0.18
66 27 0.54
67 3 0.06
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (63 bp):
AAAAATCTTTGAGTATGTTTCTTCTGAAACAAAATTTTGTCTCGAGACAATTTCTGTGGAAAA
Found at i:14781 original size:30 final size:31
Alignment explanation
Indices: 14710--14769 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
14700 AAATAAACAA
* *
14710 AATCTTTGAGTATGTTTTTCTTGAAACAAAG
1 AATCTTTGAGTATGTTTCTCTCGAAACAAAG
*
14741 ACATCTTTGAGTTTGTTTCTCTCGAAACA
1 A-ATCTTTGAGTATGTTTCTCTCGAAACA
14770 TCGATCTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 1 0.04
32 24 0.96
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (31 bp):
AATCTTTGAGTATGTTTCTCTCGAAACAAAG
Found at i:15073 original size:42 final size:40
Alignment explanation
Indices: 14982--15081 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
14972 ATGGCCAACA
* *
14982 GTCCTCATAACGTAGGAACCGTGTCATCCCCTGACCAGAC
1 GTCCTCATCACGTAGGAACCGTGTCATACCCTGACCAGAC
* * *
15022 CTCCTCATCACGTAGGAGCCGTGTCA-ACCTTGATAACCAGAC
1 GTCCTCATCACGTAGGAACCGTGTCATACCCTG---ACCAGAC
*
15064 GTCCTCATCATGTAGGAA
1 GTCCTCATCACGTAGGAA
15082 TCGAGTTATC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 4 0.08
40 23 0.47
42 22 0.45
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (40 bp):
GTCCTCATCACGTAGGAACCGTGTCATACCCTGACCAGAC
Found at i:15590 original size:3 final size:3
Alignment explanation
Indices: 15584--15636 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
15574 CATTTATTTA
15584 TAT TAT T-T ATAT TAT TAT T-T ATAT TAT T-T ATAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT
15629 TAT TAT TA
1 TAT TAT TA
15637 CTAATTACAA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:15591 original size:9 final size:9
Alignment explanation
Indices: 15577--15629 Score: 63
Period size: 9 Copynumber: 5.6 Consensus size: 9
15567 TTTTTTTCAT
15577 TTATTTATA
1 TTATTTATA
15586 TTATTTATATTA
1 TTA-TT-TA-TA
15598 TTATTTATA
1 TTATTTATA
15607 TTATTTATA
1 TTATTTATA
15616 TTA-TTATTA
1 TTATTTA-TA
15625 TTATT
1 TTATT
15630 ATTATTACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
8 3 0.08
9 22 0.56
10 5 0.13
11 4 0.10
12 5 0.13
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTATTTATA
Found at i:15602 original size:21 final size:21
Alignment explanation
Indices: 15577--15632 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
15567 TTTTTTTCAT
15577 TTATTTATATTATTTATATTA
1 TTATTTATATTATTTATATTA
15598 TTATTTATATTATTTATATTA
1 TTATTTATATTATTTATATTA
15619 TTA-TTATTATTATT
1 TTATTTA-TATTATT
15633 ATTACTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 3 0.09
21 31 0.91
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTTATATTATTTATATTA
Found at i:15636 original size:12 final size:12
Alignment explanation
Indices: 15584--15635 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
15574 CATTTATTTA
15584 TATTATTTATAT
1 TATTATTTATAT
15596 TATTA-TT-TA-
1 TATTATTTATAT
15605 TATTATTTATAT
1 TATTATTTATAT
15617 TATTA-TTATTAT
1 TATTATTTA-TAT
15629 TATTATT
1 TATTATT
15636 ACTAATTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 5 0.14
10 4 0.11
11 7 0.20
12 18 0.51
13 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTATTTATAT
Found at i:17519 original size:25 final size:24
Alignment explanation
Indices: 17491--17538 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
17481 TGTTTAACTT
17491 TATATGTTATAAATATTTTGTTTCG
1 TATATGTTATAAATA-TTTGTTTCG
* **
17516 TATATTTTATTTATATTTGTTTC
1 TATATGTTATAAATATTTGTTTC
17539 CATTGTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.62
Consensus pattern (24 bp):
TATATGTTATAAATATTTGTTTCG
Found at i:18650 original size:37 final size:39
Alignment explanation
Indices: 18596--18671 Score: 138
Period size: 37 Copynumber: 2.0 Consensus size: 39
18586 TAAATCTACT
18596 TAATTATATTTCTAATTGTAATTATATAGACATTATTTA
1 TAATTATATTTCTAATTGTAATTATATAGACATTATTTA
18635 TAATTA-ATTT-TAATTGTAATTATATAGACATTATTTA
1 TAATTATATTTCTAATTGTAATTATATAGACATTATTTA
18672 AGTTTAGAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 27 0.73
38 4 0.11
39 6 0.16
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.51
Consensus pattern (39 bp):
TAATTATATTTCTAATTGTAATTATATAGACATTATTTA
Found at i:21761 original size:14 final size:14
Alignment explanation
Indices: 21742--21769 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21732 AAGTGAAAGA
21742 ATAGTTATATAATT
1 ATAGTTATATAATT
21756 ATAGTTATATAATT
1 ATAGTTATATAATT
21770 TTGTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:31860 original size:3 final size:3
Alignment explanation
Indices: 31852--31930 Score: 133
Period size: 3 Copynumber: 26.7 Consensus size: 3
31842 TTAATATATT
*
31852 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
31900 TAA TAA TAA TAA TAA TAT TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
31931 TGGATAAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 69 0.97
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:32520 original size:112 final size:113
Alignment explanation
Indices: 32274--33100 Score: 1319
Period size: 112 Copynumber: 7.5 Consensus size: 113
32264 TATATTTCTT
* * *
32274 CTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATG-ACTTCTCTCCGG-AAAGATAATCCAT
1 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TCTCTGGAAAAGCTGATCCAT
* * *
32336 CAATTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTAATTA-GAA
65 CAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
* *
32384 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCCTC
1 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATC
32449 AAATGATGGATTCAGGT-AAAGGTTGAACAAATTCTTCTCATTATGAA
66 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
*
32496 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCCTC
1 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATC
32561 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
66 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
32609 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA---T-TCT-GAAAAGCTGATCCATC
1 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATC
32669 AAATGATGGATTCAGGT-AAAGGTTGAACAAATTCTTCTCATTATGAA
66 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
*
32716 CTTCTTC-T--TTCTTCAGATGAGTTCTTCTTATTATGAAC---CTCTGGAAAAGCTGATCCATC
1 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATC
32775 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
66 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
*
32823 CTTCTTCTTCCTTCTTCAGATGAG-TCTTCTTATTATGAACTTTCTCTGGAAAAGCTGATCCATC
1 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATC
32887 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
66 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
*
32935 CTTCTTCTT-CTTCTTCTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGAAAAGCTGATCCA
1 CTTCTTCTTCCTTC-T-TCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCA
32999 TCAAA--ATGGATTTCA-GT-AAAGGTTGAACAAATTCTTCTCATTATG-A
64 TCAAATGATGGA-TTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
33045 CTTCTTC-TCCTTCTTC-GATGAGTTTCTTCTCATTATGAACTTTCTCTGGAAAAGCT
1 CTTCTTCTTCCTTCTTCAGATGAG-TTCTTCTCATTATGAACTTTCTCTGGAAAAGCT
33101 AACCTTTCAA
Statistics
Matches: 686, Mismatches: 10, Indels: 44
0.93 0.01 0.06
Matches are distributed among these distances:
104 28 0.04
105 3 0.00
106 34 0.05
107 80 0.12
108 67 0.10
109 21 0.03
110 35 0.05
111 91 0.13
112 201 0.29
113 83 0.12
114 43 0.06
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATC
AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
Found at i:32868 original size:326 final size:329
Alignment explanation
Indices: 32274--33100 Score: 1280
Period size: 326 Copynumber: 2.5 Consensus size: 329
32264 TATATTTCTT
* * * *
32274 CTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGACTTCTCTCCGGAAAGATAATCCATCAA
1 CTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGA-ATCTCT-CGAAAAGCTGATCCATCAA
* * *
32339 TTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTAATTA-GAACTTCTTCTTCCTTCTTCAG
64 ATGATGGATTCAGGT-AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-T-CTTCTTCAG
* *
32403 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGTAA
126 ATGAGTTCTTCTCATTATGAAC--TCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTAA
32468 AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
189 AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
*
32533 GAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTT
254 GAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTT
32598 CTCATTATGAA
319 CTCATTATGAA
32609 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAT-TCT-GAAAAGCTGATCCATCAAA
1 CTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAATCTCTCGAAAAGCTGATCCATCAAA
32672 TGATGGATTCAGGTAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT-TTCTTCAGATGA
65 TGATGGATTCAGGTAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTCTTCTTCAGATGA
*
32736 GTTCTTCTTATTATGAAC-CTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTAAAAGGTT
130 GTTCTTCTCATTATGAACTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT-AAAGGTT
*
32800 GAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG-TCTTCTTATTATGAACT
194 GAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
32864 TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCAT
259 TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCAT
32929 TATGAA
324 TATGAA
* *
32935 CTTCTTCTTCTTCTTCTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGAAAAGCTGATCCAT
1 CTTCTTCTTCTTC-T-TCAGATGAGTTCTTCTCATTATGAA---TCTCTCGAAAAGCTGATCCAT
33000 CAAA--ATGGATTTCA-GTAAAGGTTGAACAAATTCTTCTCATTATG-ACTTCTTCTCCTTCTTC
61 CAAATGATGGA-TTCAGGTAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT-CTTCTTC
33061 -GATGAGTTTCTTCTCATTATGAACTTTCTCTGGAAAAGCT
124 AGATGAG-TTCTTCTCATTATGAAC--TCTCTGGAAAAGCT
33101 AACCTTTCAA
Statistics
Matches: 461, Mismatches: 14, Indels: 35
0.90 0.03 0.07
Matches are distributed among these distances:
325 4 0.01
326 132 0.29
327 78 0.17
329 38 0.08
330 42 0.09
331 55 0.12
332 57 0.12
334 16 0.03
335 10 0.02
336 29 0.06
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (329 bp):
CTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAATCTCTCGAAAAGCTGATCCATCAAAT
GATGGATTCAGGTAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTCTTCTTCAGATGAG
TTCTTCTCATTATGAACTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTAAAGGTTGA
ACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT
CTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTA
TGAA
Found at i:34113 original size:83 final size:83
Alignment explanation
Indices: 33937--34400 Score: 839
Period size: 83 Copynumber: 5.6 Consensus size: 83
33927 CATACCAAAC
33937 CAGATAACTC-AAGAACACTTCCAGAAGATGCTATTGGC-AATTCATCTTCTAAACTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
34000 G-TTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
*
34017 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCT-AATTCAATGCT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT-CTAAACTCAATGCT
34081 TGATTCTGTCCAATCAGAT
65 TGATTCTGTCCAATCAGAT
* *
34100 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
34165 GATTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
*
34183 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGAAAATTCATCTTCTAAACTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
34248 GATTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
34266 CAGATAACTCAAAGAACACTTCCA-AAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
34330 GATTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
*
34348 CAGATAACTCAAAGAACACTTACAGAAGATGCTATTGGCAAATTCATCTTCTA
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTA
34401 TTTAATGTTT
Statistics
Matches: 371, Mismatches: 7, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
80 10 0.03
81 28 0.08
82 103 0.28
83 230 0.62
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (83 bp):
CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
GATTCTGTCCAATCAGAT
Found at i:34312 original size:165 final size:166
Alignment explanation
Indices: 33937--34400 Score: 839
Period size: 165 Copynumber: 2.8 Consensus size: 166
33927 CATACCAAAC
33937 CAGATAACTC-AAGAACACTTCCAGAAGATGCTATTGGC-AATTCATCTTCTAAACTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
34000 G-TTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
66 GATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
*
34064 CTTCCT-AATTCAATGCTTGATTCTGTCCAATCAGAT
131 CTT-CTAAACTCAATGCTTGATTCTGTCCAATCAGAT
* *
34100 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
*
34165 GATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGAAAATTCAT
66 GATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
34230 CTTCTAAACTCAATGCTTGATTCTGTCCAATCAGAT
131 CTTCTAAACTCAATGCTTGATTCTGTCCAATCAGAT
34266 CAGATAACTCAAAGAACACTTCCA-AAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
*
34330 GATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATTGGCAAATTCAT
66 GATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
34395 CTTCTA
131 CTTCTA
34401 TTTAATGTTT
Statistics
Matches: 289, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
163 10 0.03
164 28 0.10
165 133 0.46
166 118 0.41
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (166 bp):
CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
GATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
CTTCTAAACTCAATGCTTGATTCTGTCCAATCAGAT
Found at i:34327 original size:248 final size:246
Alignment explanation
Indices: 33937--34398 Score: 847
Period size: 248 Copynumber: 1.9 Consensus size: 246
33927 CATACCAAAC
*
33937 CAGATAACTCAAGAACACTTCCAGAAGATGCTATTGGCAATTCATCTTCTAAACTCAATGCTTGT
1 CAGATAACTCAAGAACACTTCCAGAAGATGCTATTGGAAATTCATCTTCTAAACTCAATGCTTGT
34002 TCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
66 TCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
* *
34067 CCTAATTCAATGCTTGATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
131 CCTAACTCAATGCTTGATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTACAGAAGATGC
34132 TATTGGCAAATTCATCTTCCAAATTCAATGCTTGATTCTGTCCAATCAGAT
196 TATTGGCAAATTCATCTTCCAAATTCAATGCTTGATTCTGTCCAATCAGAT
34183 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGAAAATTCATCTTCTAAACTCAATGCTT
1 CAGATAACTC-AAGAACACTTCCAGAAGATGCTATTGG-AAATTCATCTTCTAAACTCAATGCTT
34248 GATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCA-AAGATGCTATTGGCAAATTCAT
64 G-TTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
34312 CTT-CTAAACTCAATGCTTGATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTACAGAAG
128 CTTCCT-AACTCAATGCTTGATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTACAGAAG
34376 ATGCTATTGGCAAATTCATCTTC
192 ATGCTATTGGCAAATTCATCTTC
34399 TATTTAATGT
Statistics
Matches: 209, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
246 10 0.05
247 29 0.14
248 130 0.62
249 40 0.19
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (246 bp):
CAGATAACTCAAGAACACTTCCAGAAGATGCTATTGGAAATTCATCTTCTAAACTCAATGCTTGT
TCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
CCTAACTCAATGCTTGATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTACAGAAGATGC
TATTGGCAAATTCATCTTCCAAATTCAATGCTTGATTCTGTCCAATCAGAT
Found at i:35067 original size:16 final size:16
Alignment explanation
Indices: 35032--35074 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
35022 TTCAATAGAA
*
35032 AAATAAA-TGAATTTC
1 AAATAAATTGAATCTC
*
35047 CAATAAATTGAATCTC
1 AAATAAATTGAATCTC
35063 AAATAAATTGAA
1 AAATAAATTGAA
35075 CTTGCTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.30
Consensus pattern (16 bp):
AAATAAATTGAATCTC
Found at i:35408 original size:1 final size:1
Alignment explanation
Indices: 35397--35450 Score: 81
Period size: 1 Copynumber: 54.0 Consensus size: 1
35387 CTTGACCTCC
* * *
35397 TTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
35451 CTTTCTTTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:35417 original size:12 final size:12
Alignment explanation
Indices: 35396--35459 Score: 87
Period size: 12 Copynumber: 5.4 Consensus size: 12
35386 CCTTGACCTC
35396 CTTTTCTTTTTTT
1 CTTTT-TTTTTTT
35409 -TTTTTTTTTTT
1 CTTTTTTTTTTT
*
35420 TTTTTTTTTTTT
1 CTTTTTTTTTTT
35432 CTTTTTTTTTTT
1 CTTTTTTTTTTT
*
35444 C-TTTTTTCTTT
1 CTTTTTTTTTTT
35455 CTTTT
1 CTTTT
35460 CTTCAAGCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
11 17 0.36
12 30 0.64
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:35451 original size:19 final size:18
Alignment explanation
Indices: 35396--35459 Score: 94
Period size: 18 Copynumber: 3.4 Consensus size: 18
35386 CCTTGACCTC
35396 CTTTTCTTTTTTTTTTTTT
1 CTTTT-TTTTTTTTTTTTT
35415 -TTTTTTTTTTTTTTTTT
1 CTTTTTTTTTTTTTTTTT
35432 CTTTTTTTTTTTCTTTTTT
1 CTTTTTTTTTTT-TTTTTT
35451 CTTTCTTTT
1 CTTT-TTTT
35460 CTTCAAGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.31
18 15 0.36
19 10 0.24
20 4 0.10
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (18 bp):
CTTTTTTTTTTTTTTTTT
Done.