Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 41 of 344
Found at i:13670842 original size:19 final size:19
Alignment explanation
Indices: 13670818--13670858 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
13670808 AAAAGGAGAT
13670818 AGTATTCCTGGGTTATCTA
1 AGTATTCCTGGGTTATCTA
*
13670837 AGTATTCTTGGGTTATCTA
1 AGTATTCCTGGGTTATCTA
13670856 AGT
1 AGT
13670859 TCAAGTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (19 bp):
AGTATTCCTGGGTTATCTA
Found at i:13674889 original size:17 final size:17
Alignment explanation
Indices: 13674867--13674903 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
13674857 AATTAAATAG
13674867 TAATAATTATTGTATAA
1 TAATAATTATTGTATAA
13674884 TAATAATTATTGTATAA
1 TAATAATTATTGTATAA
13674901 TAA
1 TAA
13674904 CTCATGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
TAATAATTATTGTATAA
Found at i:13677557 original size:14 final size:14
Alignment explanation
Indices: 13677540--13677570 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13677530 TACGAAAGAG
13677540 AGTTTGTGAAACTA
1 AGTTTGTGAAACTA
13677554 AGTTTGTGAAACTA
1 AGTTTGTGAAACTA
13677568 AGT
1 AGT
13677571 CAGTATGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.35
Consensus pattern (14 bp):
AGTTTGTGAAACTA
Found at i:13679152 original size:9 final size:9
Alignment explanation
Indices: 13679135--13679180 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
13679125 TGAGTTTTCG
13679135 AATTCGAAT
1 AATTCGAAT
*
13679144 AACTCGAAT
1 AATTCGAAT
13679153 AATTCGAAT
1 AATTCGAAT
13679162 AATTCGAAT
1 AATTCGAAT
13679171 AATTCGAAT
1 AATTCGAAT
13679180 A
1 A
13679181 TCAAACTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13679430 original size:30 final size:31
Alignment explanation
Indices: 13679394--13679451 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
13679384 AAACTTTTTA
13679394 TTTCCCC-CAATAATTTTTAC-TCCTTCCTAC
1 TTTCCCCTCAA-AATTTTTACTTCCTTCCTAC
*
13679424 TTTCCCCTTAAAATTTTTACTTCCTTCC
1 TTTCCCCTCAAAATTTTTACTTCCTTCC
13679452 AATCTCACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (31 bp):
TTTCCCCTCAAAATTTTTACTTCCTTCCTAC
Found at i:13686570 original size:18 final size:18
Alignment explanation
Indices: 13686528--13686571 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13686518 TGTTTATTTC
*
13686528 TTGTTTGTAGTTTTAGTTT
1 TTGTTT-TAGTTTAAGTTT
**
13686547 CGGTTTTAGTTTAAGTTT
1 TTGTTTTAGTTTAAGTTT
13686565 TTGTTTT
1 TTGTTTT
13686572 TGGGTAGTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.11, C:0.02, G:0.20, T:0.66
Consensus pattern (18 bp):
TTGTTTTAGTTTAAGTTT
Found at i:13689529 original size:21 final size:21
Alignment explanation
Indices: 13689471--13689532 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
13689461 ATCAAACTAA
*
13689471 TAAAATATCATAAAAAT--ATT
1 TAAAAT-TTATAAAAATAAATT
13689491 TAAAATTTATAAAAAAATAAATT
1 TAAAATTTAT--AAAAATAAATT
*
13689514 TATAATTTATAAAAATAAA
1 TAAAATTTATAAAAATAAA
13689533 AAATATTCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
19 3 0.08
20 6 0.17
21 15 0.42
23 12 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATTTATAAAAATAAATT
Found at i:13690900 original size:3 final size:3
Alignment explanation
Indices: 13690888--13690992 Score: 133
Period size: 3 Copynumber: 35.7 Consensus size: 3
13690878 GCATCTCTAT
13690888 TTC TTC -TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * * * * *
13690935 TTC TTA TTC -TC CTC CTC CTC CTC CTC TTC TTC TTC TTC TTC TTT TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
13690982 TTC TTC TTC TT
1 TTC TTC TTC TT
13690993 TTACTGTTAA
Statistics
Matches: 95, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
2 4 0.04
3 91 0.96
ACGTcount: A:0.01, C:0.36, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:13691887 original size:18 final size:19
Alignment explanation
Indices: 13691866--13691906 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
13691856 TTTTTACAAT
13691866 TAAATAATA-ATTTTTTTA
1 TAAATAATATATTTTTTTA
**
13691884 TAAATTTTATATTTTTTTA
1 TAAATAATATATTTTTTTA
13691903 -AAAT
1 TAAAT
13691907 CATTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TAAATAATATATTTTTTTA
Found at i:13691911 original size:21 final size:21
Alignment explanation
Indices: 13691875--13691941 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
13691865 TTAAATAATA
*
13691875 ATTTTTTTATAA--ATTTTAT
1 ATTTTTTTAAAATCATTTTAT
13691894 ATTTTTTTAAAATCATTTT-T
1 ATTTTTTTAAAATCATTTTAT
* * *
13691914 AATATTTTTATAATTCATTTTAA
1 -ATTTTTTTA-AAATCATTTTAT
13691937 ATTTT
1 ATTTT
13691942 AAAAATTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 11 0.29
20 1 0.03
21 13 0.34
22 13 0.34
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTTTTAAAATCATTTTAT
Found at i:13691931 original size:22 final size:22
Alignment explanation
Indices: 13691887--13691941 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
13691877 TTTTTTATAA
*
13691887 ATTTT-ATATTTTTTTAAAATC
1 ATTTTAATATTTTTATAAAATC
*
13691908 ATTTTTAATATTTTTAT-AATTC
1 A-TTTTAATATTTTTATAAAATC
13691930 ATTTTAA-ATTTT
1 ATTTTAATATTTT
13691942 AAAAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 5 0.17
21 7 0.23
22 9 0.30
23 9 0.30
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTTAATATTTTTATAAAATC
Found at i:13699510 original size:22 final size:22
Alignment explanation
Indices: 13699482--13699523 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
13699472 TTCGCGCACG
*
13699482 GCCTGGCCTCATCGTTCACACA
1 GCCTGGCCTCATCATTCACACA
13699504 GCCTGGCCTCATCATTCACA
1 GCCTGGCCTCATCATTCACA
13699524 TGGCTTACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.40, G:0.17, T:0.24
Consensus pattern (22 bp):
GCCTGGCCTCATCATTCACACA
Found at i:13702236 original size:69 final size:68
Alignment explanation
Indices: 13702128--13702420 Score: 280
Period size: 69 Copynumber: 4.2 Consensus size: 68
13702118 ACAGCTCACA
* * * * *
13702128 GACCTATGCTCCTGACTGATATTGTAAAGGCTCGCTGATTTAAGATTATAGCTTCAAAAATAGCT
1 GACCTACGCTCCAG-CTGATATTGTAAAGGCTCGTTGATTTAAGATTACAGCCTCAAAAATAGCT
13702193 CGCG
65 CGCG
* * * *
13702197 GACCTATGCTCTCAGCTGATATTGTAAAGGCTCGTTGATTTAAGATTGCAACCTCCAAAATAGCT
1 GACCTACGCTC-CAGCTGATATTGTAAAGGCTCGTTGATTTAAGATTACAGCCTCAAAAATAGCT
*
13702262 CGTG
65 CGCG
* * * * * * *
13702266 GACCTACACTTCCAGTTGATATTGTAAAGGCTTGTTGATATAAGGTAACAGCCTCGAAAATAGCT
1 GACCTACGC-TCCAGCTGATATTGTAAAGGCTCGTTGATTTAAGATTACAGCCTCAAAAATAGCT
*
13702331 CGCT
65 CGCG
* * * * *** **
13702335 AACCTACGCTCCTAGTTGATATTGTAAATGCTCATTGATTTAAGATCGTAGCCTCTGAAATAGCT
1 GACCTACGCTCC-AGCTGATATTGTAAAGGCTCGTTGATTTAAGATTACAGCCTCAAAAATAGCT
*
13702400 CGCA
65 CGCG
*
13702404 GACCTACGTTCCTAGCT
1 GACCTACGCTCC-AGCT
13702421 AATGATTAAA
Statistics
Matches: 185, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
68 3 0.02
69 178 0.96
70 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (68 bp):
GACCTACGCTCCAGCTGATATTGTAAAGGCTCGTTGATTTAAGATTACAGCCTCAAAAATAGCTC
GCG
Found at i:13702396 original size:138 final size:138
Alignment explanation
Indices: 13702144--13702410 Score: 329
Period size: 138 Copynumber: 1.9 Consensus size: 138
13702134 TGCTCCTGAC
* * * * * *
13702144 TGATATTGTAAAGGCTCGCTGATTTAAGATTATAGCTTCAAAAATAGCTCGCGGACCTATGCTCT
1 TGATATTGTAAAGGCTCGCTGATATAAGATAACAGCCTCAAAAATAGCTCGCGAACCTACGCTCT
* * **
13702209 CAGCTGATATTGTAAAGGCTCGTTGATTTAAGATTGCAACCTCCAAAATAGCTCGTGGACCTACA
66 CAGCTGATATTGTAAAGGCTCATTGATTTAAGATCGCAACCTCCAAAATAGCTCGCAGACCTACA
13702274 CTTCCAGT
131 CTTCCAGT
* * * * *
13702282 TGATATTGTAAAGGCTTGTTGATATAAGGTAACAGCCTCGAAAATAGCTCGCTAACCTACGCTC-
1 TGATATTGTAAAGGCTCGCTGATATAAGATAACAGCCTCAAAAATAGCTCGCGAACCTACGCTCT
* * * * **
13702346 CTAGTTGATATTGTAAATGCTCATTGATTTAAGATCGTAGCCTCTGAAATAGCTCGCAGACCTAC
66 C-AGCTGATATTGTAAAGGCTCATTGATTTAAGATCGCAACCTCCAAAATAGCTCGCAGACCTAC
13702411 GTTCCTAGCT
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
137 1 0.01
138 106 0.99
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (138 bp):
TGATATTGTAAAGGCTCGCTGATATAAGATAACAGCCTCAAAAATAGCTCGCGAACCTACGCTCT
CAGCTGATATTGTAAAGGCTCATTGATTTAAGATCGCAACCTCCAAAATAGCTCGCAGACCTACA
CTTCCAGT
Found at i:13702515 original size:37 final size:37
Alignment explanation
Indices: 13702452--13702532 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
13702442 TTGAGCTCGT
* * *
13702452 AACCTCTAATTATTTGGGCTCACTGATTTAAGATCGC
1 AACCTCCAATTATTTGAGCTCACTGATTGAAGATCGC
* *
13702489 AACCTCCAATTATTTGAG-TTAGCTGATTGAATATCGC
1 AACCTCCAATTATTTGAGCTCA-CTGATTGAAGATCGC
13702526 AA-CTCCA
1 AACCTCCA
13702533 CACAGCTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
36 7 0.18
37 31 0.82
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (37 bp):
AACCTCCAATTATTTGAGCTCACTGATTGAAGATCGC
Found at i:13714661 original size:47 final size:46
Alignment explanation
Indices: 13714586--13714903 Score: 272
Period size: 47 Copynumber: 6.7 Consensus size: 46
13714576 GATTTCTTGT
*
13714586 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGA
*
13714632 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGA
** *
13714680 GTGCCAGTGTAAGACATGTCTGGGACATGCATCTACCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGA
* * * *
13714727 -TAGCCAGTGTAAGATATGTCTGGGACATGCATCGGCTAAGAG-T-T
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
* * * *
13714771 GTGCTAGTGTAAGACATGTTTGGGACATGCATCAG-CACGTATATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACG-AGAT--GA
* * * * * *
13714819 GAGCTAGTATAAGACCATGTCTAGGACATGGCATCGGCCTCGACAGTGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGA-TGA
*
13714868 -TAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
13714904 ACAACTTATC
Statistics
Matches: 221, Mismatches: 33, Indels: 33
0.77 0.11 0.11
Matches are distributed among these distances:
43 2 0.01
44 30 0.14
45 3 0.01
46 23 0.10
47 69 0.31
48 37 0.17
49 45 0.20
50 8 0.04
51 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
Found at i:13714853 original size:141 final size:141
Alignment explanation
Indices: 13714588--13714903 Score: 365
Period size: 141 Copynumber: 2.2 Consensus size: 141
13714578 TTTCTTGTGT
*
13714588 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCCAGTGTAAGACCATGTC
* * * * * *
13714653 TGGGACATGGCATCGGCATAGAGATGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCTACCT
66 TGGGACATGGCATCAGCATAGAGACGAGAGCCAGTATAAGACATGTCTAGGACATGCATCGACCT
13714718 CGAC-GATGATA
131 CGACAG-TGATA
* * * *
13714729 GCCAGTGTAAGATATGTCTGGGACATGCATCGGCTA-A-GA-GTTGTGCTAGTGTAAGA-CATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG-AGTGCCAGTGTAAGACCATGT
* * * *
13714790 TTGGGACAT-GCATCAGCACGTATATACGAGAGCTAGTATAAGACCATGTCTAGGACATGGCATC
65 CTGGGACATGGCATCAGCA--TAGAGACGAGAGCCAGTATAAGA-CATGTCTAGGACAT-GCATC
*
13714854 GGCCTCGACAGTGATA
126 GACCTCGACAGTGATA
*
13714870 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
13714904 ACAACTTATC
Statistics
Matches: 149, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
137 8 0.05
138 14 0.09
139 31 0.21
140 14 0.09
141 63 0.42
142 13 0.09
143 6 0.04
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (141 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAGCATAGAGACGAGAGCCAGTATAAGACATGTCTAGGACATGCATCGACCT
CGACAGTGATA
Found at i:13718718 original size:28 final size:27
Alignment explanation
Indices: 13718665--13718771 Score: 123
Period size: 28 Copynumber: 4.0 Consensus size: 27
13718655 CACTTTGTGC
13718665 TATTCTAGTGTGTTTTGGATGGATTATA
1 TATTCTAGTGTGTTTTGGA-GGATTATA
* *
13718693 TCATTCTGGTGTGTTTGGGAGGATTATA
1 T-ATTCTAGTGTGTTTTGGAGGATTATA
*
13718721 TGATACTAGTGTGTTTTGGAGGA-T-TA
1 T-ATTCTAGTGTGTTTTGGAGGATTATA
*
13718747 TA--CTGGTGTGTTTTGGAGGATTATA
1 TATTCTAGTGTGTTTTGGAGGATTATA
13718772 CTGGTGTGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
23 17 0.25
24 1 0.01
25 3 0.04
26 3 0.04
27 1 0.01
28 28 0.41
29 16 0.23
ACGTcount: A:0.21, C:0.05, G:0.30, T:0.45
Consensus pattern (27 bp):
TATTCTAGTGTGTTTTGGAGGATTATA
Found at i:13718766 original size:51 final size:56
Alignment explanation
Indices: 13718669--13718771 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 56
13718659 TTGTGCTATT
13718669 CTAGTGTGTTTTGGATGGATTATATCATTCTGGTGTGTTTGGGAGGATTATATGATA
1 CTAGTGTGTTTTGGATGGATTATATCA-TCTGGTGTGTTTGGGAGGATTATATGATA
*
13718726 CTAGTGTGTTTTGGA-GGA-T-TAT-A-CTGGTGTGTTTTGGAGGATTATA
1 CTAGTGTGTTTTGGATGGATTATATCATCTGGTGTGTTTGGGAGGATTATA
13718772 CTGGTGTGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
51 22 0.49
53 1 0.02
54 3 0.07
55 1 0.02
56 3 0.07
57 15 0.33
ACGTcount: A:0.20, C:0.05, G:0.31, T:0.44
Consensus pattern (56 bp):
CTAGTGTGTTTTGGATGGATTATATCATCTGGTGTGTTTGGGAGGATTATATGATA
Found at i:13718780 original size:25 final size:23
Alignment explanation
Indices: 13718723--13718783 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
13718713 GGATTATATG
*
13718723 ATACTAGTGTGTTTTGGAGGATT
1 ATACTGGTGTGTTTTGGAGGATT
13718746 ATACTGGTGTGTTTTGGAGGATT
1 ATACTGGTGTGTTTTGGAGGATT
13718769 ATACTGGTGTGTTTT
1 ATACTGGTGTGTTTT
13718784 AGTTGGACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.18, C:0.05, G:0.31, T:0.46
Consensus pattern (23 bp):
ATACTGGTGTGTTTTGGAGGATT
Found at i:13718813 original size:23 final size:24
Alignment explanation
Indices: 13718723--13718813 Score: 98
Period size: 23 Copynumber: 3.9 Consensus size: 24
13718713 GGATTATATG
* *
13718723 ATACTAGTGTGTTTTGGA-GGATT
1 ATACTGGTGTGTTTTGGATGGATC
*
13718746 ATACTGGTGTGTTTTGGA-GGATT
1 ATACTGGTGTGTTTTGGATGGATC
* *
13718769 ATACTGGTGTGTTTTAGTTGGA-C
1 ATACTGGTGTGTTTTGGATGGATC
**
13718792 ATTTTGGTGTGTTTTGGATGGA
1 ATACTGGTGTGTTTTGGATGGA
13718814 ATCCATGTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
23 56 0.95
24 3 0.05
ACGTcount: A:0.18, C:0.04, G:0.33, T:0.45
Consensus pattern (24 bp):
ATACTGGTGTGTTTTGGATGGATC
Found at i:13719014 original size:22 final size:23
Alignment explanation
Indices: 13718977--13719021 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
13718967 GCTTTATTGA
13718977 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
13719000 TCAGGCAC-TTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
13719022 CTGATCAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:13720938 original size:28 final size:28
Alignment explanation
Indices: 13720870--13720939 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
13720860 GAATCATTCG
*
13720870 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
13720898 ATATCTCACACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
13720926 ATATTTCGTACACT
1 ATATTTCGCACACT
13720940 GAGTACCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:13728854 original size:22 final size:22
Alignment explanation
Indices: 13728828--13728913 Score: 111
Period size: 22 Copynumber: 3.9 Consensus size: 22
13728818 AATGGGGTAG
*
13728828 GATATGCTCTGATATTTTATAT
1 GATATGCTCTGATATATTATAT
* *
13728850 GATATGCT-TCGATATGTTATAC
1 GATATGCTCT-GATATATTATAT
* *
13728872 AATATGCTCCGATATATTATAT
1 GATATGCTCTGATATATTATAT
13728894 GATATGCTCTGATATATTAT
1 GATATGCTCTGATATATTAT
13728914 GATACAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 1 0.02
22 53 0.98
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (22 bp):
GATATGCTCTGATATATTATAT
Found at i:13728908 original size:44 final size:44
Alignment explanation
Indices: 13728829--13728913 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
13728819 ATGGGGTAGG
* * *
13728829 ATATGCTCTGATATTTTATATGATATGCTTCGATATGTTATACA
1 ATATGCTCCGATATATTATATGATATGCTTCGATATATTATACA
13728873 ATATGCTCCGATATATTATATGATATGC-TCTGATATATTAT
1 ATATGCTCCGATATATTATATGATATGCTTC-GATATATTAT
13728914 GATACAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (44 bp):
ATATGCTCCGATATATTATATGATATGCTTCGATATATTATACA
Found at i:13730312 original size:46 final size:45
Alignment explanation
Indices: 13730259--13730349 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 45
13730249 TGGGTGATAA
13730259 TGATAGTGATAGTGAACTTTGTAACAGGAAAAAAGTTGATAGTGAG
1 TGATAGTGATAGTGAACTTTGTAACAGG-AAAAAGTTGATAGTGAG
13730305 TGATAGTGATAGTGAACTTTGTAACAGGAAAAAGTTGATAGTGAG
1 TGATAGTGATAGTGAACTTTGTAACAGGAAAAAGTTGATAGTGAG
13730350 AATTATTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 17 0.38
46 28 0.62
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.29
Consensus pattern (45 bp):
TGATAGTGATAGTGAACTTTGTAACAGGAAAAAGTTGATAGTGAG
Found at i:13734017 original size:18 final size:17
Alignment explanation
Indices: 13733938--13734017 Score: 81
Period size: 18 Copynumber: 4.5 Consensus size: 17
13733928 GAAGGCGTAT
*
13733938 GTGAGGAAGAAGATGCG
1 GTGAGGAAGAAGATGCA
13733955 GCTGAGGAAGAAGATGCA
1 G-TGAGGAAGAAGATGCA
*
13733973 G-GTAAGAAGTAAGATGCA
1 GTG-AGGAAG-AAGATGCA
*
13733991 GTCGTGGAAGAAGATGCA
1 GT-GAGGAAGAAGATGCA
13734009 GATGAGGAA
1 G-TGAGGAA
13734018 CAAGGGACAG
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
16 1 0.02
17 6 0.12
18 39 0.75
19 5 0.10
20 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.40, T:0.14
Consensus pattern (17 bp):
GTGAGGAAGAAGATGCA
Found at i:13735311 original size:12 final size:13
Alignment explanation
Indices: 13735294--13735331 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
13735284 ATCCTGGAAT
13735294 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
13735306 ATTAAGAACACATA
1 ATTAAGAACA-AGA
13735320 ATTAAGAACAAG
1 ATTAAGAACAAG
13735332 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:13755208 original size:46 final size:46
Alignment explanation
Indices: 13755156--13755317 Score: 306
Period size: 46 Copynumber: 3.5 Consensus size: 46
13755146 ATTTCCCCGT
13755156 TATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGG
*
13755202 TATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCTTGG
1 TATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGG
*
13755248 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGG
13755294 TATCTTTCAACCATGGTCTTACAC
1 TATCTTTCAACCATGGTCTTACAC
13755318 ATTTTCTATC
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 113 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGG
Found at i:13757467 original size:10 final size:10
Alignment explanation
Indices: 13757452--13757504 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
13757442 TTATATACTA
13757452 AATAAATAAT
1 AATAAATAAT
13757462 AATAAATAAT
1 AATAAATAAT
* *
13757472 ATTAAATATCT
1 AATAAATA-AT
* *
13757483 CATAAAATATT
1 AAT-AAATAAT
13757494 AATAAATAAT
1 AATAAATAAT
13757504 A
1 A
13757505 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
10 24 0.71
11 5 0.15
12 5 0.15
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (10 bp):
AATAAATAAT
Found at i:13772602 original size:17 final size:19
Alignment explanation
Indices: 13772572--13772609 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
13772562 TTTATAATGA
*
13772572 AAAAGAAT-ATTTTAATTT
1 AAAAGAATAATTTAAATTT
13772590 AAAA-AATAATTTAAATTT
1 AAAAGAATAATTTAAATTT
13772608 AA
1 AA
13772610 CATAATCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAAGAATAATTTAAATTT
Found at i:13774364 original size:6 final size:6
Alignment explanation
Indices: 13774350--13774438 Score: 64
Period size: 6 Copynumber: 15.7 Consensus size: 6
13774340 TTCCATTTTC
* * * *
13774350 TCTTAT TCTTTT TCTCCT -CTTCT TCTT-T TCTTTT TCTTCT TCTTCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * *
13774396 TCTTC- TCTAT-T TCTTC- TCTTAT TCTTTT TATTC- TCTTCT TCTT
1 TCTTCT TCT-TCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTT
13774439 TTACTGCCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
5 21 0.32
6 45 0.68
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (6 bp):
TCTTCT
Found at i:13774375 original size:3 final size:3
Alignment explanation
Indices: 13774367--13774438 Score: 64
Period size: 3 Copynumber: 25.3 Consensus size: 3
13774357 CTTTTTCTCC
*
13774367 TCT TCT TCT T-T TCT TTT TCT TCT TCT TCT TCT TC- TCT AT-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT
* * *
13774410 TC- TCT TAT TCT TTT TAT TC- TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
13774439 TTACTGCCCA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
2 9 0.16
3 46 0.82
4 1 0.02
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:13774375 original size:17 final size:16
Alignment explanation
Indices: 13774348--13774440 Score: 77
Period size: 17 Copynumber: 5.9 Consensus size: 16
13774338 CCTTCCATTT
*
13774348 TCTCTTATTCTTTTTC
1 TCTCTTCTTCTTTTTC
13774364 TCCTCTTCTTC-TTTTC
1 T-CTCTTCTTCTTTTTC
* *
13774380 T-TTTTCTTCTTCTTC
1 TCTCTTCTTCTTTTTC
*
13774395 T-TCTTC-TCTATTTC
1 TCTCTTCTTCTTTTTC
* *
13774409 TTCTCTTATTCTTTTTAT
1 -TCTCTTCTTCTTTTT-C
13774427 TCTCTTCTTCTTTT
1 TCTCTTCTTCTTTT
13774441 ACTGCCCAGG
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
14 13 0.21
15 10 0.16
16 11 0.18
17 27 0.44
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (16 bp):
TCTCTTCTTCTTTTTC
Found at i:13774410 original size:34 final size:34
Alignment explanation
Indices: 13774345--13774434 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 34
13774335 GACCCTTCCA
* * *
13774345 TTTTCTCTTATTCTTTTTCTCCTCTTCTTCTTTTC
1 TTTT-TCTTATTCTTCTTCTTCTCTTCTTCTTCTC
*
13774380 TTTTTCTTCTTCTTCTTCTTCTCTAT-TTCTTCTC
1 TTTTTCTTATTCTTCTTCTTCTCT-TCTTCTTCTC
* * *
13774414 TTATTCTTTTTATTC-TCTTCT
1 TTTTTCTTATTCTTCTTCTTCT
13774435 TCTTTTACTG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
33 6 0.13
34 36 0.77
35 5 0.11
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (34 bp):
TTTTTCTTATTCTTCTTCTTCTCTTCTTCTTCTC
Found at i:13778601 original size:40 final size:40
Alignment explanation
Indices: 13778510--13778700 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
13778500 TGGATGATAA
* ** * *
13778510 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
13778549 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
13778589 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
13778629 CCGGGCTAAGTCCCGCAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
13778669 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
13778701 AGTTATATCC
Statistics
Matches: 136, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 31 0.23
40 103 0.76
41 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:13786715 original size:40 final size:40
Alignment explanation
Indices: 13786624--13786814 Score: 269
Period size: 40 Copynumber: 4.8 Consensus size: 40
13786614 TGGATGATAA
* * * *
13786624 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
13786663 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
13786703 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
13786743 CCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
13786783 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
13786815 AGTTATATCC
Statistics
Matches: 137, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 31 0.23
40 104 0.76
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:13788894 original size:25 final size:25
Alignment explanation
Indices: 13788866--13788924 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
13788856 AATCGGAAGT
13788866 TCAAGAGAGCC-ATATCAGGAAGCTC
1 TCAA-AGAGCCTATATCAGGAAGCTC
*
13788891 TCAAAGAGCCTATATCAGGACGCTC
1 TCAAAGAGCCTATATCAGGAAGCTC
13788916 AT-AAAGAGC
1 -TCAAAGAGC
13788925 TGTGGTATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 6 0.19
25 24 0.77
26 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (25 bp):
TCAAAGAGCCTATATCAGGAAGCTC
Found at i:13795838 original size:21 final size:20
Alignment explanation
Indices: 13795775--13795851 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
13795765 TATACATATT
13795775 AAAAAAATATA-AAAATGTA-
1 AAAAAAATATATAAAAT-TAG
* *
13795794 AATAAATATATAAAAAATTCAG
1 AA-AAAAATATATAAAATT-AG
*
13795816 AAAAATATATATAAAATCTAG
1 AAAAAAATATATAAAAT-TAG
*
13795837 AAAAAAAAATATAAA
1 AAAAAAATATATAAA
13795852 TTTTGAAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.04
20 9 0.18
21 35 0.71
22 3 0.06
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (20 bp):
AAAAAAATATATAAAATTAG
Found at i:13795982 original size:25 final size:27
Alignment explanation
Indices: 13795945--13795997 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
13795935 AAAAAATGTA
13795945 AAAAAATTGT-AAAA-AAAATATTTTT
1 AAAAAATTGTAAAAATAAAATATTTTT
*
13795970 AAAAAATTTTAAAAATAAAATATTTTT
1 AAAAAATTGTAAAAATAAAATATTTTT
13795997 A
1 A
13795998 TAAATTCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 4 0.16
27 12 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
AAAAAATTGTAAAAATAAAATATTTTT
Found at i:13796002 original size:26 final size:26
Alignment explanation
Indices: 13795945--13796009 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
13795935 AAAAAATGTA
*
13795945 AAAAAATTGT-AAAAAAAATATTTTT
1 AAAAAATTCTAAAAAAAAATATTTTT
*
13795970 AAAAAATTTTAAAAATAAAATATTTTT
1 AAAAAATTCTAAAAA-AAAATATTTTT
*
13795997 -ATAAATTCTAAAA
1 AAAAAATTCTAAAA
13796010 CATACAATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.26
26 15 0.43
27 11 0.31
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
AAAAAATTCTAAAAAAAAATATTTTT
Found at i:13800402 original size:16 final size:16
Alignment explanation
Indices: 13800381--13800417 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
13800371 TGAATCCTTG
13800381 AAATCTTAAAATCCCC
1 AAATCTTAAAATCCCC
* *
13800397 AAATCTTGAAATCCCT
1 AAATCTTAAAATCCCC
13800413 AAATC
1 AAATC
13800418 GTTAGCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (16 bp):
AAATCTTAAAATCCCC
Found at i:13801537 original size:26 final size:26
Alignment explanation
Indices: 13801501--13801554 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
13801491 TTGCCGATGA
*
13801501 ATATGCTGGTGATTTCGTAACATCAG
1 ATATGCTGGTGATTTCGCAACATCAG
*
13801527 ATATGCTGGTGATTTTGCAACATCAG
1 ATATGCTGGTGATTTCGCAACATCAG
13801553 AT
1 AT
13801555 GGAGTGGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (26 bp):
ATATGCTGGTGATTTCGCAACATCAG
Found at i:13804943 original size:16 final size:16
Alignment explanation
Indices: 13804889--13804944 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
13804879 AATGTTATGG
* *
13804889 ATTTGGGGATTTCACA
1 ATTTGGGAATTTCAGA
*
13804905 ATTTAGGGAATTTGATGA
1 ATTT-GGGAATTTCA-GA
*
13804923 A-TTGGGAATTTTAGA
1 ATTTGGGAATTTCAGA
13804938 ATTTGGG
1 ATTTGGG
13804945 GAAAGTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 3 0.09
16 18 0.55
17 10 0.30
18 2 0.06
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (16 bp):
ATTTGGGAATTTCAGA
Found at i:13810527 original size:19 final size:19
Alignment explanation
Indices: 13810503--13810541 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13810493 AAATTAGTAG
13810503 TATATGTCAATTTTTTTAA
1 TATATGTCAATTTTTTTAA
*
13810522 TATATGTCGATTTTTTTAA
1 TATATGTCAATTTTTTTAA
13810541 T
1 T
13810542 TGGCTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (19 bp):
TATATGTCAATTTTTTTAA
Found at i:13815566 original size:10 final size:11
Alignment explanation
Indices: 13815550--13815574 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13815540 AAAATTGTTC
13815550 TTTTTTTTGTA
1 TTTTTTTTGTA
13815561 TTTTTTTTGTA
1 TTTTTTTTGTA
13815572 TTT
1 TTT
13815575 GCCATCGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (11 bp):
TTTTTTTTGTA
Found at i:13819269 original size:23 final size:23
Alignment explanation
Indices: 13819239--13819293 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
13819229 CCACTGTGTC
13819239 TGATGAGAAAAGGGTTCGCGGAT
1 TGATGAGAAAAGGGTTCGCGGAT
13819262 TGATGAGAAAAGGGTTCGCGGAT
1 TGATGAGAAAAGGGTTCGCGGAT
* *
13819285 GGATAAGAA
1 TGATGAGAA
13819294 TTCCATCCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.35, C:0.07, G:0.38, T:0.20
Consensus pattern (23 bp):
TGATGAGAAAAGGGTTCGCGGAT
Found at i:13821397 original size:26 final size:24
Alignment explanation
Indices: 13821367--13821414 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
13821357 ATAAAAAAAA
*
13821367 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAA-CAAATATAT
13821393 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
13821415 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAT
Found at i:13821426 original size:22 final size:21
Alignment explanation
Indices: 13821355--13821443 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
13821345 TTATTTCATT
* *
13821355 AAATAAAAAAAAT-TAAAAAT
1 AAATAAAAAAAATATTAAAAC
*
13821375 ATAATAAATCAAATATATTTAAAA-
1 A-AATAAA--AAAAATA-TTAAAAC
*
13821399 ACATAAAAACAAATATTAAAAC
1 AAATAAAAA-AAATATTAAAAC
* *
13821421 AAATAAAAATAATACTAAAAC
1 AAATAAAAAAAATATTAAAAC
13821442 AA
1 AA
13821444 TTCTTAAAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 26 0.47
22 12 0.22
23 10 0.18
24 1 0.02
25 5 0.09
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAAAAAAAATATTAAAAC
Found at i:13821520 original size:15 final size:16
Alignment explanation
Indices: 13821490--13821522 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13821480 AAATGGTTAT
13821490 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
13821507 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
13821522 A
1 A
13821523 AAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:13822824 original size:20 final size:21
Alignment explanation
Indices: 13822786--13822826 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
13822776 AAATAGTATC
*
13822786 TAAATATTAATTAAATAAAAT
1 TAAATATTAAATAAATAAAAT
*
13822807 TAAA-ATTAAATAATTAAAAT
1 TAAATATTAAATAAATAAAAT
13822827 ATCTCATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAATATTAAATAAATAAAAT
Found at i:13825295 original size:21 final size:21
Alignment explanation
Indices: 13825219--13825387 Score: 83
Period size: 21 Copynumber: 7.8 Consensus size: 21
13825209 GAATTTGTTG
*
13825219 TTTTGAATTGATTTTTTTCTT
1 TTTTGAATTGATTCTTTTCTT
* * * *
13825240 CTTTGAATAGATTGTTTGT-TG
1 TTTTGAATTGATTCTTT-TCTT
* *
13825261 TTTTAAATTAATTCTTTTCTT
1 TTTTGAATTGATTCTTTTCTT
*
13825282 TTTTGAATTGATTCATTGTTGTT
1 TTTTGAATTGATTC-TT-TTCTT
* *
13825305 GTTTTAAACTT-ATTATTTTCTT
1 -TTTTGAA-TTGATTCTTTTCTT
* * * *
13825327 TTTTGTATCGATTCATGATTATT
1 TTTTGAATTGATTC-T-TTTCTT
* * *
13825350 GTTTTAAATTGATTC-ATTATT
1 -TTTTGAATTGATTCTTTTCTT
*
13825371 GTTTGAATTGATTCTTT
1 TTTTGAATTGATTCTTT
13825388 GTTGTTTAAC
Statistics
Matches: 109, Mismatches: 28, Indels: 22
0.69 0.18 0.14
Matches are distributed among these distances:
20 14 0.13
21 55 0.50
22 8 0.07
23 10 0.09
24 20 0.18
25 2 0.02
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.61
Consensus pattern (21 bp):
TTTTGAATTGATTCTTTTCTT
Found at i:13825306 original size:45 final size:45
Alignment explanation
Indices: 13825213--13825393 Score: 176
Period size: 45 Copynumber: 4.1 Consensus size: 45
13825203 GTTACTGAAT
* * * * *
13825213 TTGTTGTTTTGAATTGATTTTTTTCTTCTTTGAATAGATT--GT-
1 TTGTTGTTTTAAATTGATTCTTTTCTTTTTTGAATTGATTCATTG
*
13825255 TTGTTGTTTTAAATTAATTCTTTTCTTTTTTGAATTGATTCATTG
1 TTGTTGTTTTAAATTGATTCTTTTCTTTTTTGAATTGATTCATTG
* * *
13825300 TTGTTGTTTTAAACTT-ATTATTTTCTTTTTTGTATCGATTCA-TG
1 TTGTTGTTTTAAA-TTGATTCTTTTCTTTTTTGAATTGATTCATTG
* * * * *
13825344 ATTATTGTTTTAAATTGATTC-ATTATTGTTTGAATTGATTCTTTG
1 -TTGTTGTTTTAAATTGATTCTTTTCTTTTTTGAATTGATTCATTG
13825389 TTGTT
1 TTGTT
13825394 TAACTCAATT
Statistics
Matches: 114, Mismatches: 18, Indels: 12
0.79 0.12 0.08
Matches are distributed among these distances:
42 35 0.31
44 24 0.21
45 53 0.46
46 2 0.02
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (45 bp):
TTGTTGTTTTAAATTGATTCTTTTCTTTTTTGAATTGATTCATTG
Found at i:13825381 original size:20 final size:20
Alignment explanation
Indices: 13825344--13825396 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
13825334 TCGATTCATG
13825344 ATTATTGTTTTAAATTGATTC
1 ATTATTG-TTTAAATTGATTC
*
13825365 ATTATTGTTTGAATTGATTC
1 ATTATTGTTTAAATTGATTC
* *
13825385 TTTGTTGTTTAA
1 ATTATTGTTTAA
13825397 CTCAATTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.25, C:0.04, G:0.13, T:0.58
Consensus pattern (20 bp):
ATTATTGTTTAAATTGATTC
Found at i:13827009 original size:25 final size:25
Alignment explanation
Indices: 13826980--13827035 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
13826970 TTCGTAATGC
*
13826980 TTTATTTCTTTACAATAAAATTATA
1 TTTATATCTTTACAATAAAATTATA
13827005 TTTATATCTTTACAATAAAATTATA
1 TTTATATCTTTACAATAAAATTATA
13827030 TTTATA
1 TTTATA
13827036 CATTATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTATATCTTTACAATAAAATTATA
Found at i:13830047 original size:35 final size:35
Alignment explanation
Indices: 13829993--13830059 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
13829983 ACTTTGGTGT
*
13829993 TGTTAATATAGGCTAAAATATTCGGTCTTAGATAC
1 TGTTAATAAAGGCTAAAATATTCGGTCTTAGATAC
* * *
13830028 TGTTAATAAAGGTTGAAATATTGGGTCTTAGA
1 TGTTAATAAAGGCTAAAATATTCGGTCTTAGA
13830060 GTATCTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.37
Consensus pattern (35 bp):
TGTTAATAAAGGCTAAAATATTCGGTCTTAGATAC
Found at i:13835109 original size:65 final size:67
Alignment explanation
Indices: 13835020--13835161 Score: 173
Period size: 72 Copynumber: 2.1 Consensus size: 67
13835010 TTTTTTAAGG
* * *
13835020 AAAAAATTAATTAAATTAGGGTTTA-G-A-GTTTTTAAGGTTTATTAATTAAATTAACTATTAAT
1 AAAAAATAAATTAAATTAGGGTTTAGGTAGGTTATTAAGGTTAATTAATTAAATTAACTATTAAT
13835082 TT
66 TT
* *
13835084 AAAAGAATAAATTAAATTAGTGTTTAGGGTATAGGGTTATTAGGGTTAATTAATTAAATTAACTA
1 AAAA-AATAAATTAAATTAGGGTTTA-GG--TA-GGTTATTAAGGTTAATTAATTAAATTAACTA
13835149 TTAATTT
61 TTAATTT
13835156 AAAAAA
1 AAAAAA
13835162 ATCAATATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
64 4 0.06
65 19 0.29
67 1 0.02
70 1 0.02
71 2 0.03
72 38 0.58
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.41
Consensus pattern (67 bp):
AAAAAATAAATTAAATTAGGGTTTAGGTAGGTTATTAAGGTTAATTAATTAAATTAACTATTAAT
TT
Found at i:13835411 original size:126 final size:126
Alignment explanation
Indices: 13835186--13835452 Score: 376
Period size: 126 Copynumber: 2.1 Consensus size: 126
13835176 TTTTTATTTT
* * * *
13835186 TTTTGCTGCAGTAGTATTAGAGAAAATAATTTTGAGAAGACGTTCCTGAACAAATAGTGTCAAAA
1 TTTTGCTACAGTAGTATTAGAAAAAATAATTTTGAGAAGACGTTCCTAAACAAATAGTATCAAAA
* **
13835251 ACGCTTCAAGCAGGATGCACTGTCAGTTAAATTACGGAAAAAAGCTCTCAT-GTGGAAGCTC
66 ACGCTTCAAGCAGGATACACTGTCAGGAAAATTACGGAAAAAAGCTC-CATCGTGGAAGCTC
* * * *
13835312 TTTTGCTACAGTAGTATCT-GAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATATTATCCAT
1 TTTTGCTACAGTAGTAT-TAGAAAAAATAATTTTGAGAAGACGTTCCTAAACAAATAGTATCAAA
* * *
13835376 AACGCTTCAAGCAGGATACATTGTCAGGAAAATTACGGAAAAAAGCTCCCTCGTGGACGCTC
65 AACGCTTCAAGCAGGATACACTGTCAGGAAAATTACGGAAAAAAGCTCCATCGTGGAAGCTC
13835438 TTTTGCTACAGTAGT
1 TTTTGCTACAGTAGT
13835453 TACTATTTGG
Statistics
Matches: 125, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
125 2 0.02
126 122 0.98
127 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (126 bp):
TTTTGCTACAGTAGTATTAGAAAAAATAATTTTGAGAAGACGTTCCTAAACAAATAGTATCAAAA
ACGCTTCAAGCAGGATACACTGTCAGGAAAATTACGGAAAAAAGCTCCATCGTGGAAGCTC
Found at i:13838516 original size:9 final size:9
Alignment explanation
Indices: 13838486--13838517 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
13838476 ATTTATATTT
13838486 TATTAAAAA
1 TATTAAAAA
*
13838495 TATAAAAAA
1 TATTAAAAA
13838504 TATTAAAAA
1 TATTAAAAA
13838513 TATTA
1 TATTA
13838518 TCGTATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TATTAAAAA
Found at i:13838552 original size:39 final size:39
Alignment explanation
Indices: 13838508--13838588 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
13838498 AAAAAATATT
* *
13838508 AAAAATATTATCGT-ATTCAAAATAACATTTATTTTAATA
1 AAAAATATTAGC-TAATTCAAAAGAACATTTATTTTAATA
* * *
13838547 AAAAATATTGGCTAATTTAAAAGAACATTTATTTTATTA
1 AAAAATATTAGCTAATTCAAAAGAACATTTATTTTAATA
13838586 AAA
1 AAA
13838589 TTATAAAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
38 1 0.03
39 35 0.97
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (39 bp):
AAAAATATTAGCTAATTCAAAAGAACATTTATTTTAATA
Found at i:13839227 original size:30 final size:30
Alignment explanation
Indices: 13839193--13839284 Score: 130
Period size: 30 Copynumber: 3.1 Consensus size: 30
13839183 GAAGTATTGA
13839193 GCCCGATGACTGTGTGGGCACTGTTGATGG
1 GCCCGATGACTGTGTGGGCACTGTTGATGG
* * **
13839223 GCCCGGTGACTGTGTGAGTGCTGTTGATGG
1 GCCCGATGACTGTGTGGGCACTGTTGATGG
* *
13839253 GCCTGATGACTGTGTGGCCACTGTTGATGG
1 GCCCGATGACTGTGTGGGCACTGTTGATGG
13839283 GC
1 GC
13839285 TCGCGTCATC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.12, C:0.20, G:0.40, T:0.28
Consensus pattern (30 bp):
GCCCGATGACTGTGTGGGCACTGTTGATGG
Found at i:13841032 original size:11 final size:11
Alignment explanation
Indices: 13840984--13841026 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
13840974 TGACAAAAAC
13840984 TTAGAGA-AAT
1 TTAGAGAGAAT
13840994 TT-GAGAGAAT
1 TTAGAGAGAAT
* *
13841004 TTGGAGAGGAT
1 TTAGAGAGAAT
13841015 TTAGAGAGAAT
1 TTAGAGAGAAT
13841026 T
1 T
13841027 GTGAGATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 4 0.14
10 7 0.25
11 17 0.61
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (11 bp):
TTAGAGAGAAT
Found at i:13841533 original size:17 final size:17
Alignment explanation
Indices: 13841511--13841543 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13841501 TTAATTTAAA
13841511 TAAATTAATTTCTCAAT
1 TAAATTAATTTCTCAAT
*
13841528 TAAATTATTTTCTCAA
1 TAAATTAATTTCTCAA
13841544 CCCAATTCCA
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:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATTAATTTCTCAAT
Found at i:13851161 original size:47 final size:47
Alignment explanation
Indices: 13851005--13851273 Score: 173
Period size: 47 Copynumber: 5.7 Consensus size: 47
13850995 GAATAAATTT
* * * * * *
13851005 TCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATATACGTGC
1 TCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGT-CGAGG
* * * *
13851056 T-GATGCATGTCCCAGACATGTCTTACAGTAGCACAACTCT-T--A-G
1 TCGATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTCGAGG
* * *
13851099 CCGATGCTTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGG
1 TCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTCGAGG
* * *
13851146 TCGATGCATGTCCCAGACATGTCTTACTCTGGC-A-CTC-ATCATATGG
1 TCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTC-GA-GG
* * ** *
13851192 -CTGAAGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTG--GATG
1 TC-GATGCATGTCCCAGACATGTCTTACACTGGCTATC-TCTGTCGAGG
13851238 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 TCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT
13851274 CACAAATCAC
Statistics
Matches: 170, Mismatches: 32, Indels: 35
0.72 0.14 0.15
Matches are distributed among these distances:
43 5 0.03
44 30 0.18
45 5 0.03
46 36 0.21
47 47 0.28
48 25 0.15
49 17 0.10
50 4 0.02
51 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (47 bp):
TCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTCGAGG
Found at i:13852030 original size:18 final size:17
Alignment explanation
Indices: 13852000--13852034 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13851990 GAGAAAGGAG
*
13852000 TTTTAGCTCAAAAATCT
1 TTTTAGCTAAAAAATCT
13852017 TTTTCAGCTAAAAAATCT
1 TTTT-AGCTAAAAAATCT
13852035 GACTTAATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (17 bp):
TTTTAGCTAAAAAATCT
Found at i:13853270 original size:16 final size:16
Alignment explanation
Indices: 13853249--13853280 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13853239 AGTTAATTAA
13853249 ATTAGTTAATTTTAGT
1 ATTAGTTAATTTTAGT
13853265 ATTAGTTAATTTTAGT
1 ATTAGTTAATTTTAGT
13853281 TTCAATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
ATTAGTTAATTTTAGT
Found at i:13868107 original size:27 final size:27
Alignment explanation
Indices: 13868040--13868121 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
13868030 GGAGCAAAAT
* * * * *
13868040 GGTAATTTTACCCCACAAGAGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
13868067 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
13868094 GGTAATTCTACCCTACAGGGCTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
13868121 G
1 G
13868122 ATATTTTATA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:13868170 original size:27 final size:27
Alignment explanation
Indices: 13868140--13868290 Score: 185
Period size: 27 Copynumber: 5.6 Consensus size: 27
13868130 TAAATCGAGA
** * *
13868140 GTATTTTAAAAATTTCACAAATCAGGG
1 GTATTTTAGTAATTTTACAAACCAGGG
* *
13868167 GTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTAGTAATTTTACAAACCAGGG
* *
13868194 GTATTTTGGTAATTTTACAAACCAAGG
1 GTATTTTAGTAATTTTACAAACCAGGG
13868221 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTAGTAATTTTACAAACCAGGG
* ** * *
13868248 GTATTTTGGTAATTTTGTAAACTAAGG
1 GTATTTTAGTAATTTTACAAACCAGGG
13868275 GTATTTTAGTAATTTT
1 GTATTTTAGTAATTTT
13868291 GGAAATCGAG
Statistics
Matches: 108, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GTATTTTAGTAATTTTACAAACCAGGG
Found at i:13868303 original size:81 final size:81
Alignment explanation
Indices: 13868124--13868304 Score: 218
Period size: 81 Copynumber: 2.2 Consensus size: 81
13868114 CTATTTCGAT
* * * *
13868124 ATTTTATAAATCGAGAGTATTTTAAAAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGC
1 ATTTTACAAATCGAGGGTATTTTAAAAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAAC
* *
13868189 CAGGGGTATTTTGGTA
66 CAAGGGTATTTTAGTA
* * ** * **
13868205 ATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
1 ATTTTACAAATCGAGGGTATTTTAAAAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAAC
*
13868270 TAAGGGTATTTTAGTA
66 CAAGGGTATTTTAGTA
**
13868286 ATTTTGGAAATCGAGGGTA
1 ATTTTACAAATCGAGGGTA
13868305 AAACGGTAAT
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.38
Consensus pattern (81 bp):
ATTTTACAAATCGAGGGTATTTTAAAAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAAC
CAAGGGTATTTTAGTA
Found at i:13868304 original size:54 final size:54
Alignment explanation
Indices: 13868150--13868290 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 54
13868140 GTATTTTAAA
* * * * *
13868150 AATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
13868204 AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
** *
13868258 AATTTTGTAAACTAAGGGTATTTTAGTAATTTT
1 AATTTTACAAACCAAGGGTATTTTAGTAATTTT
13868291 GGAAATCGAG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 79 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
Found at i:13868313 original size:27 final size:27
Alignment explanation
Indices: 13868283--13868369 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
13868273 GGGTATTTTA
* * *
13868283 GTAATTTTGGAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
13868310 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
13868337 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
13868364 GTAATT
1 GTAATT
13868370 TTACAAGTCG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:13868313 original size:54 final size:54
Alignment explanation
Indices: 13868150--13868315 Score: 145
Period size: 54 Copynumber: 3.1 Consensus size: 54
13868140 GTATTTTAAA
* * * * * ****
13868150 AATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTAAAACGGT
****
13868204 AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
1 AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTAAAACGGT
** * ** *
13868258 AATTTTGTAAACTAAGGGTATTTTAGTAATTTTGGAAATC-GAGGGTAAAACGGT
1 AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAG-GGGTAAAACGGT
13868312 AATT
1 AATT
13868316 CTATAAATCG
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 95 0.99
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.37
Consensus pattern (54 bp):
AATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTAAAACGGT
Found at i:13875582 original size:6 final size:6
Alignment explanation
Indices: 13875571--13875609 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
13875561 AAAATTGAAA
13875571 ATAAAT ATAAAT ATAAAT ATAAAATT ATAAAT A-AAAT AT
1 ATAAAT ATAAAT ATAAAT AT-AAA-T ATAAAT ATAAAT AT
13875610 GATCACATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.17
6 16 0.53
7 6 0.20
8 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:13883202 original size:21 final size:22
Alignment explanation
Indices: 13883176--13883230 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
13883166 ACGGCCTCTA
**
13883176 ACACGGGCGTGTCC-TAGGGTC
1 ACACGGGCGTGTCCGTAGGACC
* *
13883197 ACACGGGCATGTCCGTTGGACC
1 ACACGGGCGTGTCCGTAGGACC
13883219 ACACGGGCGTGT
1 ACACGGGCGTGT
13883231 GAGCCCTGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.16, C:0.29, G:0.36, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCCGTAGGACC
Found at i:13884152 original size:17 final size:17
Alignment explanation
Indices: 13884125--13884169 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 17
13884115 TTTATTACAA
13884125 AAAGTATAAAAATATAAT
1 AAAG-ATAAAAATATAAT
13884143 AAAGATAAAAATATAAT
1 AAAGATAAAAATATAAT
13884160 AAAGACTAAA
1 AAAGA-TAAA
13884170 GTTAAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (17 bp):
AAAGATAAAAATATAAT
Found at i:13885582 original size:9 final size:10
Alignment explanation
Indices: 13885562--13885590 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
13885552 ATTGCTTGTT
13885562 TGAATAGAAA
1 TGAATAGAAA
13885572 TGAAT-GAAA
1 TGAATAGAAA
13885581 TGAATAGAAA
1 TGAATAGAAA
13885591 ATAGAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:13885897 original size:26 final size:26
Alignment explanation
Indices: 13885853--13885924 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
13885843 AATTTTCTCG
*
13885853 AAATTTTACTCGGGGTAAAATCATTA
1 AAATTTTACTCGGGGTAAAATCATCA
*
13885879 AAATTTTA-TCGGGGTTAAAATCGTCA
1 AAATTTTACTCGGGG-TAAAATCATCA
*
13885905 AAATTTTACT-GGAGTAAAAT
1 AAATTTTACTCGGGGTAAAAT
13885925 TGGGATGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 12 0.29
26 28 0.68
27 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (26 bp):
AAATTTTACTCGGGGTAAAATCATCA
Found at i:13901545 original size:21 final size:21
Alignment explanation
Indices: 13901519--13901560 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13901509 CTTTTAGACT
13901519 TAATTAATTACTTGTACTTAA
1 TAATTAATTACTTGTACTTAA
13901540 TAATTAATTACTTGTACTTAA
1 TAATTAATTACTTGTACTTAA
13901561 GTAAAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (21 bp):
TAATTAATTACTTGTACTTAA
Found at i:13906712 original size:11 final size:12
Alignment explanation
Indices: 13906682--13906714 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
13906672 GTCACAAGTG
13906682 AATTAATTCAGA
1 AATTAATTCAGA
*
13906694 AATGAATTCA-A
1 AATTAATTCAGA
13906705 AATTAATTCA
1 AATTAATTCA
13906715 CTTGGGTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (12 bp):
AATTAATTCAGA
Found at i:13909702 original size:48 final size:48
Alignment explanation
Indices: 13909645--13909875 Score: 217
Period size: 48 Copynumber: 4.9 Consensus size: 48
13909635 CACATGATAG
* * * *
13909645 GATGCCAATGCCATATCCCGGATATGGTCTTACATGGGATCACATATT
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATAGGATCACATATC
* ** *
13909693 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCGTAGATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATAGGATCACATATC
* *
13909741 GATGCCAATGCTATATCCCAGACATGGTCTTACATAAGATCACATATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATAGGATCACATATC
* * * *
13909789 GATGCC---G--ATAACCCAG-CTATGGTCTTACA-CGAAATTACATATC
1 GATGCCAATGCCATATCCCAGAC-ATGGTCTTACATAG-GATCACATATC
* * * *
13909832 GATGCCATAT-TCATGTCCCAGACATGGTCTTAAATGGGATCACA
1 GATGCCA-ATGCCATATCCCAGACATGGTCTTACATAGGATCACA
13909876 CATGACCCTA
Statistics
Matches: 148, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
42 1 0.01
43 34 0.23
45 1 0.01
48 110 0.74
49 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTACATAGGATCACATATC
Found at i:13910732 original size:13 final size:13
Alignment explanation
Indices: 13910716--13910776 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
13910706 ACCAAAATTT
13910716 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
13910729 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
13910742 TCCACAGCACTTC
1 TCAAAAGCACTTC
*
13910755 TCAAAAGCACTTT
1 TCAAAAGCACTTC
13910768 TCAAAAGCA
1 TCAAAAGCA
13910777 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:13910776 original size:26 final size:26
Alignment explanation
Indices: 13910713--13910776 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
13910703 TAAACCAAAA
13910713 TTTTCAAAAGCACTTCTCAAAAGCAC
1 TTTTCAAAAGCACTTCTCAAAAGCAC
* *
13910739 TTTTCCACAGCACTTCTCAAAAGCAC
1 TTTTCAAAAGCACTTCTCAAAAGCAC
13910765 TTTTCAAAAGCA
1 TTTTCAAAAGCA
13910777 TTGCCAAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (26 bp):
TTTTCAAAAGCACTTCTCAAAAGCAC
Found at i:13912278 original size:43 final size:44
Alignment explanation
Indices: 13912231--13912355 Score: 152
Period size: 43 Copynumber: 2.9 Consensus size: 44
13912221 ATAACATATC
*
13912231 GATGCCAATGTCCTAGACATGGTCTTACACGA-AA-C-CATATA-A
1 GATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCACA-ATACA
13912273 TGATGCCAATGTCCCAGACATGGTCTTACACATAATCACAATACA
1 -GATGCCAATGTCCCAGACATGGTCTTACACATAATCACAATACA
* **
13912318 -ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACA
1 GATGCCAATGTCCCAGACATGGTCTTACACATAATCACA
13912356 TCTAGGTAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
42 1 0.01
43 66 0.89
44 4 0.05
45 3 0.04
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (44 bp):
GATGCCAATGTCCCAGACATGGTCTTACACATAATCACAATACA
Found at i:13913668 original size:15 final size:15
Alignment explanation
Indices: 13913644--13913675 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13913634 TATACATGCA
*
13913644 AAATATAAAAGACAT
1 AAATACAAAAGACAT
13913659 AAATACAAAAGACAT
1 AAATACAAAAGACAT
13913674 AA
1 AA
13913676 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:13917873 original size:8 final size:8
Alignment explanation
Indices: 13917860--13917894 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
13917850 CATTTTCATG
13917860 TTTATTTT
1 TTTATTTT
13917868 TTTATTTT
1 TTTATTTT
13917876 TTTATTTT
1 TTTATTTT
* *
13917884 CTCATTTT
1 TTTATTTT
13917892 TTT
1 TTT
13917895 TCAATATATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTATTTT
Found at i:13920013 original size:29 final size:28
Alignment explanation
Indices: 13919947--13920033 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
13919937 AATTTCACAT
* * *
13919947 ACCTGTATCTGGCCCATTAAGCCC-AATC
1 ACCTGTATAT-GCCAATTAGGCCCAAATC
*
13919975 ACAT-TCATATGACCAATTAGGCCCAAATC
1 ACCTGT-ATATG-CCAATTAGGCCCAAATC
*
13920004 ACCTGTATATGGCACATTAGGCCCAAATC
1 ACCTGTATATGCCA-ATTAGGCCCAAATC
13920033 A
1 A
13920034 AATTTATATG
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.04
28 18 0.38
29 27 0.56
30 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (28 bp):
ACCTGTATATGCCAATTAGGCCCAAATC
Found at i:13920022 original size:57 final size:58
Alignment explanation
Indices: 13919947--13920057 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
13919937 AATTTCACAT
* * *
13919947 ACCTGTATCTGGCCCATTAAGCCC-AATCACATTCATATGACCAATTAGGCCCAAATC
1 ACCTGTATATGGCACATTAAGCCCAAATCAAATTCATATGACCAATTAGGCCCAAATC
* * * **
13920004 ACCTGTATATGGCACATTAGGCCCAAATCAAATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCACATTAAGCCCAAATCAAATTCATATGACCAATTAGGCCCA
13920058 GTCACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 21 0.47
58 24 0.53
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (58 bp):
ACCTGTATATGGCACATTAAGCCCAAATCAAATTCATATGACCAATTAGGCCCAAATC
Found at i:13920041 original size:29 final size:29
Alignment explanation
Indices: 13919956--13920070 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
13919946 TACCTGTATC
* *
13919956 TGGCCCATTAAGCCC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * * *
13919984 TGACCAATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
13920013 TGGCACATTAGGCCCAAATCAAATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * *
13920042 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
13920070 T
1 T
13920071 TCATGCTCAC
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
28 23 0.33
29 46 0.67
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:13922849 original size:19 final size:18
Alignment explanation
Indices: 13922807--13922849 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
13922797 ATGCAAGTAG
*
13922807 TTTGGTTTGTAATGTGGA
1 TTTGGTTTGTAATGTGAA
13922825 TTTGGTTTGATAAT-TGAA
1 TTTGGTTTG-TAATGTGAA
13922843 TTGTGGT
1 TT-TGGT
13922850 ACCAATGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (18 bp):
TTTGGTTTGTAATGTGAA
Found at i:13933622 original size:120 final size:120
Alignment explanation
Indices: 13933395--13933626 Score: 401
Period size: 120 Copynumber: 1.9 Consensus size: 120
13933385 ACTTTAACAC
*
13933395 ATGCCTATACTCATATTCTAAGCCTCATATTAATCATAAAATAAATATTTTAATGTCAGATTTGT
1 ATGCATATACTCATATTCTAAGCCTCATATTAATCATAAAATAAATATTTTAATGTCAGATTTGT
13933460 GGTCCCGAAACCACTATTCTGACTAGGCCCTATGTCGCGATGTTACATTTCTCCT
66 GGTCCCGAAACCACTATTCTGACTAGGCCCTATGTCGCGATGTTACATTTCTCCT
* *
13933515 ATGCATATACTCATATTCTAGGCCTCATATTAATCATAAAATAAATATTTTGATGTCAGATTTGT
1 ATGCATATACTCATATTCTAAGCCTCATATTAATCATAAAATAAATATTTTAATGTCAGATTTGT
* * * *
13933580 GGTTCTGAAACCACTATTCTGACTAGGCCCTATTTCGGGATGTTACA
66 GGTCCCGAAACCACTATTCTGACTAGGCCCTATGTCGCGATGTTACA
13933627 GAGCCTTTTT
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 105 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (120 bp):
ATGCATATACTCATATTCTAAGCCTCATATTAATCATAAAATAAATATTTTAATGTCAGATTTGT
GGTCCCGAAACCACTATTCTGACTAGGCCCTATGTCGCGATGTTACATTTCTCCT
Found at i:13951840 original size:48 final size:48
Alignment explanation
Indices: 13951774--13952003 Score: 240
Period size: 48 Copynumber: 4.9 Consensus size: 48
13951764 ACATAGTTGG
* * * *
13951774 ATGCCAATGCTATATCCCAGATATGGTCTTACATGGGATCACATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATCA
*
13951822 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCATGCACATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCA--CATATCA
* * * * **
13951872 AAGCCGAT---A-G-CCCAG-CTATGGTCTTACACGATG-TCTCATATTT
1 ATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGA-GATCACATATCA
* *
13951915 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCACATTTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATCA
* *
13951963 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCA
13952004 TGCATATCCT
Statistics
Matches: 150, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
43 10 0.07
44 1 0.01
45 20 0.13
46 3 0.02
47 3 0.02
48 100 0.67
49 1 0.01
50 12 0.08
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATCA
Found at i:13954676 original size:27 final size:26
Alignment explanation
Indices: 13954639--13954753 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
13954629 AGCATGGCTG
* *
13954639 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
13954665 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
13954693 CTAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
13954720 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
13954747 CCAGAAC
1 CCAGAAC
13954754 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.73
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:13954700 original size:54 final size:54
Alignment explanation
Indices: 13954639--13954753 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
13954629 AGCATGGCTG
*
13954639 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
13954693 CTAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
13954747 CCAGAAC
1 CCAGAAC
13954754 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:13956408 original size:26 final size:26
Alignment explanation
Indices: 13956371--13956428 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
13956361 CATGAAATTC
13956371 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
* *
13956397 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
13956423 TTATCA
1 TTATCA
13956429 ATTTGTACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:13959641 original size:57 final size:57
Alignment explanation
Indices: 13959563--13959703 Score: 230
Period size: 57 Copynumber: 2.5 Consensus size: 57
13959553 ACCAGTCCAA
**
13959563 GCTAAATCCTTTTTATAACATATGCTCTAAGGAGCTTGATCTGGATTACCTGTTCGG
1 GCTAAATCCTTCCTATAACATATGCTCTAAGGAGCTTGATCTGGATTACCTGTTCGG
*
13959620 GCTAAATCCTTCCTATGACATATGCTCTAAGGAGCTTGATCTGGATTACCTGTTCGG
1 GCTAAATCCTTCCTATAACATATGCTCTAAGGAGCTTGATCTGGATTACCTGTTCGG
*
13959677 GCTAAATCCAATCC-ATAACATATGCTC
1 GCTAAATCC-TTCCTATAACATATGCTC
13959704 AAGAGGACTT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
57 75 0.96
58 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (57 bp):
GCTAAATCCTTCCTATAACATATGCTCTAAGGAGCTTGATCTGGATTACCTGTTCGG
Found at i:13968039 original size:28 final size:28
Alignment explanation
Indices: 13967999--13968076 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
13967989 GGGAAGGAGT
* * *
13967999 TGGGCTTGATGGGTCGTATGAATGTGAC
1 TGGGCCTGATGGGCCATATGAATGTGAC
*
13968027 TGGGCCTGATGGGCCATATGAATGTGAT
1 TGGGCCTGATGGGCCATATGAATGTGAC
* * *
13968055 TAGGCCTGATAGGCCATGTGAA
1 TGGGCCTGATGGGCCATATGAA
13968077 CGAGTTGGGC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.22, C:0.14, G:0.36, T:0.28
Consensus pattern (28 bp):
TGGGCCTGATGGGCCATATGAATGTGAC
Found at i:13968389 original size:27 final size:27
Alignment explanation
Indices: 13968359--13968616 Score: 286
Period size: 27 Copynumber: 9.6 Consensus size: 27
13968349 TAATAAAGAG
* *
13968359 AAATTATCGAAATACCCCCGGTTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
13968386 AAATTA-CCAAAGTACCCCCGATTTGTG
1 AAATTATCGAAA-TACCCTCGATTTGTA
* **
13968413 AAATTATCGAAATACCTTTAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
** * **
13968440 AAATTATAAAAACACCCTTAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
13968467 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
13968494 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* **
13968521 AAATTATCGAAACACCCTTAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
13968548 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
13968575 AAATTACCGAAACAGCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
13968602 AAATTATCGAAATAC
1 AAATTATCGAAATAC
13968617 TCTTATAGTG
Statistics
Matches: 196, Mismatches: 31, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
26 5 0.03
27 186 0.95
28 5 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:13968609 original size:81 final size:79
Alignment explanation
Indices: 13968380--13968645 Score: 309
Period size: 81 Copynumber: 3.3 Consensus size: 79
13968370 ATACCCCCGG
* * * * **
13968380 TTTGTAAAATTACCAAAGTACCCCCGATTTGTGAAATTATCGAAATACCTTTAATTTGTAAAATT
1 TTTGTAAAATTACGAAA-TACCCTCGATTTGTAAAATTACCGAAATACC-TCGATTTGTAAAATT
**
13968445 ATAAAAACACCCTTAA
64 ATCGAAACACCCTTAA
* *
13968461 TTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATT
1 TTTGTAAAATTA-CGAAATACCCTCGATTTGTAAAATTACCGAAATA-CCTCGATTTGTAAAATT
13968526 ATCGAAACACCCTTAA
64 ATCGAAACACCCTTAA
* *
13968542 TTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCGAAACAGCCTCGATTTGTAAAATT
1 TTTGTAAAATTA-CGAAATACCCTCGATTTGTAAAATTACCGAAATA-CCTCGATTTGTAAAATT
* *
13968607 ATCGAAATACTCTT-A
64 ATCGAAACACCCTTAA
* *
13968622 TAGTGTAAAATGAACGAAATACCC
1 T-TTGTAAAAT-TACGAAATACCC
13968646 CTATAGGGTA
Statistics
Matches: 161, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.01
81 152 0.94
82 7 0.04
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (79 bp):
TTTGTAAAATTACGAAATACCCTCGATTTGTAAAATTACCGAAATACCTCGATTTGTAAAATTAT
CGAAACACCCTTAA
Found at i:13968628 original size:27 final size:27
Alignment explanation
Indices: 13968408--13968659 Score: 178
Period size: 27 Copynumber: 9.3 Consensus size: 27
13968398 TACCCCCGAT
* *
13968408 TTGTGAAATTATCGAAATACCTTTA-A
1 TTGTAAAATTATCGAAATACCCTTATA
** *
13968434 TTTGTAAAATTATAAAAACACCCTTA-A
1 -TTGTAAAATTATCGAAATACCCTTATA
* * *
13968461 TTTGTAAAATTACCGAAACACCCTCGAT-
1 -TTGTAAAATTATCGAAATACCCT-TATA
*
13968489 TTGTAAAATTA-CTGAAATACCCTCGAT-
1 TTGTAAAATTATC-GAAATACCCT-TATA
*
13968516 TTGTAAAATTATCGAAACACCCTTA-A
1 TTGTAAAATTATCGAAATACCCTTATA
*
13968542 TTTGTAAAATTATCGAAATACCCTCA-A
1 -TTGTAAAATTATCGAAATACCCTTATA
* * * *
13968569 TTTGTAAAATTACCGAAACAGCCTCGAT-
1 -TTGTAAAATTATCGAAATACCCT-TATA
*
13968597 TTGTAAAATTATCGAAATACTCTTATA
1 TTGTAAAATTATCGAAATACCCTTATA
* * * *
13968624 GTGTAAAATGAACGAAATACCCCTATA
1 TTGTAAAATTATCGAAATACCCTTATA
**
13968651 GGGTAAAAT
1 TTGTAAAAT
13968660 GATTGTTTTG
Statistics
Matches: 187, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
26 4 0.02
27 180 0.96
28 3 0.02
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTATCGAAATACCCTTATA
Found at i:13976960 original size:30 final size:30
Alignment explanation
Indices: 13976915--13976974 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
13976905 GATACGAAAA
13976915 AATTGAATCAAAATTAAAGTTTTATGTATAT
1 AATTGAATCAAAATTAAAG-TTTATGTATAT
*
13976946 AATTGAAT-AAAATTAAAGTTTGTGTATAT
1 AATTGAATCAAAATTAAAGTTTATGTATAT
13976975 GATTACACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 10 0.36
31 8 0.29
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.42
Consensus pattern (30 bp):
AATTGAATCAAAATTAAAGTTTATGTATAT
Found at i:13977528 original size:3 final size:3
Alignment explanation
Indices: 13977522--13977548 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13977512 TGCTGCTACT
13977522 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
13977549 AGAAATAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13984182 original size:26 final size:26
Alignment explanation
Indices: 13984138--13984201 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
13984128 CCATGTTATT
* *
13984138 TTATATGTATAATTTCTTTTAAATCTA
1 TTATATATAT-ATTTCTTTCAAATCTA
13984165 TT-TATATATATTTCCTTTCAAATCTA
1 TTATATATATATTT-CTTTCAAATCTA
*
13984191 TTATGTATATA
1 TTATATATATA
13984202 GTTTATTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 4 0.12
26 19 0.59
27 9 0.28
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (26 bp):
TTATATATATATTTCTTTCAAATCTA
Found at i:13985691 original size:30 final size:31
Alignment explanation
Indices: 13985646--13985708 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
13985636 TAAACTTATA
* * *
13985646 TTTTTAAATTCGAAAATTAAAAAAATTAAAT
1 TTTTTAAAATCGAAAAATAAAAAAACTAAAT
*
13985677 TTTTTAAAAT-GAAAAATAAAATAACTAAAT
1 TTTTTAAAATCGAAAAATAAAAAAACTAAAT
13985707 TT
1 TT
13985709 CAAATATGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (31 bp):
TTTTTAAAATCGAAAAATAAAAAAACTAAAT
Found at i:13989622 original size:52 final size:52
Alignment explanation
Indices: 13989544--13989645 Score: 152
Period size: 52 Copynumber: 2.0 Consensus size: 52
13989534 TATTATTCTA
**
13989544 AACAACATAACAATTAACTATTTAAAATTAAATAATTTGATAATATTTTCCT
1 AACAACATAACAATTAACTATTTAAAATTAAATAATTAAATAATATTTTCCT
* *
13989596 AACATCATAATAATTAAC-ATATTAAAATTAAATAATTAAATAATATTTTC
1 AACAACATAACAATTAACTAT-TTAAAATTAAATAATTAAATAATATTTTC
13989646 TTACCATTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.04
52 43 0.96
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (52 bp):
AACAACATAACAATTAACTATTTAAAATTAAATAATTAAATAATATTTTCCT
Found at i:13992938 original size:11 final size:10
Alignment explanation
Indices: 13992916--13992961 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
13992906 TAAAAAATTT
*
13992916 AATTTTTTAA
1 AATTTTTAAA
13992926 AATATTTTAAA
1 AAT-TTTTAAA
13992937 AATTTTTAAA
1 AATTTTTAAA
*
13992947 AATTAATTAAA
1 AATT-TTTAAA
13992958 AATT
1 AATT
13992962 GAGATGTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 14 0.44
11 18 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:13992941 original size:21 final size:21
Alignment explanation
Indices: 13992916--13992961 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
13992906 TAAAAAATTT
13992916 AATTTTTTAAAATATT-TTAAA
1 AATTTTTTAAAA-ATTATTAAA
13992937 AA-TTTTTAAAAATTAATTAAA
1 AATTTTTTAAAAATT-ATTAAA
13992958 AATT
1 AATT
13992962 GAGATGTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 9 0.41
22 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTTTTTAAAAATTATTAAA
Found at i:13997186 original size:24 final size:24
Alignment explanation
Indices: 13997154--13997205 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
13997144 ACCACTTGGA
13997154 ATACTGAGGATACTTAGGATTATC
1 ATACTGAGGATACTTAGGATTATC
13997178 ATACTGAGGATACTTAGGATTATC
1 ATACTGAGGATACTTAGGATTATC
13997202 ATAC
1 ATAC
13997206 ACACAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (24 bp):
ATACTGAGGATACTTAGGATTATC
Found at i:13998077 original size:35 final size:33
Alignment explanation
Indices: 13998038--13998142 Score: 83
Period size: 35 Copynumber: 3.1 Consensus size: 33
13998028 AAACAAATAT
13998038 GAATAATATCGAATTTAAATATTTTAAAAGTAAAA
1 GAATAATAT--AATTTAAATATTTTAAAAGTAAAA
* ** *
13998073 GAATAA-ATAA-GTAAATA-GATAAAA-TAAAT
1 GAATAATATAATTTAAATATTTTAAAAGTAAAA
*
13998102 GTACATAATATTAAATTTAAATATTTTAAAAGTAAGA
1 G-A-ATAATA-T-AATTTAAATATTTTAAAAGTAAAA
13998139 GAAT
1 GAAT
13998143 GAAAAATAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
29 5 0.09
30 6 0.11
31 10 0.19
32 3 0.06
33 1 0.02
34 4 0.08
35 14 0.26
36 6 0.11
37 4 0.08
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (33 bp):
GAATAATATAATTTAAATATTTTAAAAGTAAAA
Found at i:13998110 original size:66 final size:65
Alignment explanation
Indices: 13997993--13998160 Score: 196
Period size: 66 Copynumber: 2.5 Consensus size: 65
13997983 GAAGTATTCA
*
13997993 AAAAGTAAAAGAATAAATAAATAAATAAATTGATAAAACAAATATGAATAATATCGAATTTAAAT
1 AAAAGTAAAAGAATAAAT-AATAAAT--A--GATAAAACAAATATGAATAATATCAAATTTAAAT
13998058 ATTTT
61 ATTTT
* * *
13998063 AAAAGTAAAAGAATAAATAAGTAAATAGATAAAATAAATGT-ACATAATATTAAATTTAAATATT
1 AAAAGTAAAAGAATAAATAA-TAAATAGATAAAACAAATATGA-ATAATATCAAATTTAAATATT
13998127 TT
64 TT
* *
13998129 AAAAGTAAGAGAATGAAA-AATAAATAAATAAA
1 AAAAGTAAAAGAAT-AAATAATAAATAGATAAA
13998161 TTGATAACAC
Statistics
Matches: 89, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
65 12 0.13
66 48 0.54
67 3 0.03
68 1 0.01
69 2 0.02
70 23 0.26
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (65 bp):
AAAAGTAAAAGAATAAATAATAAATAGATAAAACAAATATGAATAATATCAAATTTAAATATTTT
Found at i:13998161 original size:73 final size:72
Alignment explanation
Indices: 13998074--13998266 Score: 192
Period size: 73 Copynumber: 2.6 Consensus size: 72
13998064 AAAGTAAAAG
* * *
13998074 AATAAATAAGTAAATAGATAAAATAAATGTACATAATATTAAATTTAAATATTTTAAAAG-TAAG
1 AATAAATAAATAAATAGATAAAATAAATATA-ATAATATTAAATTTAAATA-TTTAAAAGATAAA
13998138 AGAATGAA-A
64 AGAAT-AACA
* * * * * *
13998147 AATAAATAAATAAATTGATAACACAACTATAAATAATATTACATTTAAATATTTGAAAGATAAAA
1 AATAAATAAATAAATAGATAAAATAAATAT-AATAATATTAAATTTAAATATTTAAAAGATAAAA
*
13998212 GAATAACG
65 GAATAACA
* * * * *
13998220 AACAAATAAATAAATAAATATAATAGATTTGAATAATATTAAATTTA
1 AATAAATAAATAAATAGATAAAATAAATAT-AATAATATTAAATTTA
13998267 GGTATTAAAA
Statistics
Matches: 96, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
72 9 0.09
73 86 0.90
74 1 0.01
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.31
Consensus pattern (72 bp):
AATAAATAAATAAATAGATAAAATAAATATAATAATATTAAATTTAAATATTTAAAAGATAAAAG
AATAACA
Found at i:13999840 original size:44 final size:44
Alignment explanation
Indices: 13999694--13999994 Score: 188
Period size: 44 Copynumber: 6.7 Consensus size: 44
13999684 ACTTCAACCC
* * * * * * * *
13999694 GCTCCACTACAACTTTAGGAAGATAAGGTTTATAGCTTTATTTT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTGTAACTTTAATCT
* * * * * * * * *
13999738 ACTCTACTGCAACTTCAGAGAGATAAAATTTGCTATCTTCAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTG-TAACTTTAATCT
* * *
13999783 ACTCCACTACAACTTCAGGGAGGTAAGATCTGTAACTTTAATTT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTGTAACTTTAATCT
* * *
13999827 TCTCCACTGCAACTTCAGGGAGATAAAATTTTTAATCTGTAACTTTAATCT
1 GCTCCACTACAACTTCAGGGAGAT--AA-----GATCTGTAACTTTAATCT
** * * * *
13999878 ATTCCACTACAACTTCAGGGAAATAAGATTTGTAACTTCAACCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTGTAACTTTAATCT
* * * * *
13999922 GCTCCACTACAACTTCATGGAGATAAGGTTTATAGCTTTAATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTGTAACTTTAATCT
* * * *
13999966 GCTCTACTGCAACTTCAGAGTGATAAGAT
1 GCTCCACTACAACTTCAGGGAGATAAGAT
13999995 AGCAAAGCTC
Statistics
Matches: 197, Mismatches: 52, Indels: 16
0.74 0.20 0.06
Matches are distributed among these distances:
44 124 0.63
45 33 0.17
46 2 0.01
49 2 0.01
51 36 0.18
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (44 bp):
GCTCCACTACAACTTCAGGGAGATAAGATCTGTAACTTTAATCT
Found at i:13999869 original size:51 final size:51
Alignment explanation
Indices: 13999810--13999908 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
13999800 GGGAGGTAAG
* * *
13999810 ATCTGTAACTTTAAT-TTTCTCCACTGCAACTTCAGGGAGATAAAATTTTTA
1 ATCTGTAACTTTAATCTAT-TCCACTACAACTTCAGGGAAATAAAATTTTTA
*
13999861 ATCTGTAACTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTT
1 ATCTGTAACTTTAATCTATTCCACTACAACTTCAGGGAAATAAAATTT
13999909 GTAACTTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.95
52 2 0.05
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.37
Consensus pattern (51 bp):
ATCTGTAACTTTAATCTATTCCACTACAACTTCAGGGAAATAAAATTTTTA
Found at i:13999912 original size:95 final size:89
Alignment explanation
Indices: 13999685--13999947 Score: 244
Period size: 89 Copynumber: 2.9 Consensus size: 89
13999675 TTTCAAGTAA
* * * * * * *
13999685 CTTCAACCCGCTCCACTACAACTTTA-GGAAGATAAGGTTTATAGCTTT-ATTTTACTCTACTGC
1 CTTCAATCCACTCCACTACAACTTCAGGGAA-ATAAGATTTGTAACTTTAATTTT-CTCCACTGC
*
13999748 AACTTCAGAGAGATAAAATTTGCTAT
64 AACTTCAGGGAGATAAAATTTGCTAT
** *
13999774 CTTCAATCCACTCCACTACAACTTCAGGGAGGTAAGATCTGTAACTTTAATTTTCTCCACTGCAA
1 CTTCAATCCACTCCACTACAACTTCAGGGAAATAAGATTTGTAACTTTAATTTTCTCCACTGCAA
*
13999839 CTTCAGGGAGATAAAATTT-TTAAT
66 CTTCAGGGAGATAAAATTTGCT-AT
* * * ** *
13999863 CTGTAACTTTAATCTATTCCACTACAACTTCAGGGAAATAAGATTTGTAACTTCAACCTGCTCCA
1 CT-T--C---AATCCACTCCACTACAACTTCAGGGAAATAAGATTTGTAACTTTAATTTTCTCCA
* *
13999928 CTACAACTTCATGGAGATAA
60 CTGCAACTTCAGGGAGATAA
13999948 GGTTTATAGC
Statistics
Matches: 142, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
88 1 0.01
89 67 0.47
90 9 0.06
92 1 0.01
95 64 0.45
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.32
Consensus pattern (89 bp):
CTTCAATCCACTCCACTACAACTTCAGGGAAATAAGATTTGTAACTTTAATTTTCTCCACTGCAA
CTTCAGGGAGATAAAATTTGCTAT
Found at i:14001253 original size:19 final size:20
Alignment explanation
Indices: 14001237--14001275 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
14001227 TTATGAAACT
*
14001237 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
14001256 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
14001276 AATACAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:14010622 original size:34 final size:34
Alignment explanation
Indices: 14010579--14010646 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
14010569 ACATTTTTGA
* *
14010579 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
14010612 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTGT
14010647 TCAACTGGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:14017868 original size:25 final size:25
Alignment explanation
Indices: 14017839--14017946 Score: 81
Period size: 25 Copynumber: 4.3 Consensus size: 25
14017829 AGCGATAATT
*
14017839 GGTAAGCTCCTCCGAGCTGAATAAC
1 GGTAAGCTCATCCGAGCTGAATAAC
* ** * *
14017864 GGTAAGCTGATATGAGTTGAATATC
1 GGTAAGCTCATCCGAGCTGAATAAC
* * * *
14017889 GGTAAGCTCCTCCAAGCTGGATAAT
1 GGTAAGCTCATCCGAGCTGAATAAC
* ** * *
14017914 GGAAAGCTCATGTGAGCTAAATATC
1 GGTAAGCTCATCCGAGCTGAATAAC
14017939 GGTAAGCT
1 GGTAAGCT
14017947 TCTGCAAGTT
Statistics
Matches: 58, Mismatches: 25, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (25 bp):
GGTAAGCTCATCCGAGCTGAATAAC
Found at i:14017921 original size:50 final size:50
Alignment explanation
Indices: 14017839--14017964 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
14017829 AGCGATAATT
* * * * * *
14017839 GGTAAGCTCCTCCGAGCTGAATAACGGTAAGCTGATATGAGTTGAATATC
1 GGTAAGCTCCTCCAAGCTGGATAACGGAAAGCTCATATGAGCTAAATATC
* *
14017889 GGTAAGCTCCTCCAAGCTGGATAATGGAAAGCTCATGTGAGCTAAATATC
1 GGTAAGCTCCTCCAAGCTGGATAACGGAAAGCTCATATGAGCTAAATATC
* * *
14017939 GGTAAGCTTCTGCAAGTTGGATAACG
1 GGTAAGCTCCTCCAAGCTGGATAACG
14017965 ATAACCTCAT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (50 bp):
GGTAAGCTCCTCCAAGCTGGATAACGGAAAGCTCATATGAGCTAAATATC
Found at i:14017974 original size:50 final size:50
Alignment explanation
Indices: 14017883--14017981 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
14017873 ATATGAGTTG
* * *
14017883 AATATCGGTAAGCTCCTCCAAGCTGGATAATGGAAAGCTCATGTGAGCTA
1 AATATCGGTAAGCTCCTCCAAGCTGGATAATCGAAACCTCATGAGAGCTA
* * *
14017933 AATATCGGTAAGCTTCTGCAAGTTGGATAA-CGATAACCTCATGAGAGCT
1 AATATCGGTAAGCTCCTCCAAGCTGGATAATCGA-AACCTCATGAGAGCT
14017982 GTGGTGAGTC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.05
50 40 0.95
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (50 bp):
AATATCGGTAAGCTCCTCCAAGCTGGATAATCGAAACCTCATGAGAGCTA
Found at i:14028437 original size:62 final size:58
Alignment explanation
Indices: 14028344--14028540 Score: 200
Period size: 67 Copynumber: 3.2 Consensus size: 58
14028334 CACTTTAATA
* * *
14028344 TAAATTATTATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCTTAT
1 TAAATTAATAAAATAC-TATCAAGATAAATATTAAATTAAATTTAATATTAAATCTTAT
*
14028403 TAAATTAATAGAATATTTATCTA-CAAGATAAATATTAAATTAAATTAAATATTAAATAACCACT
1 TAAATTAATA-AA-A--TA-CTATCAAGATAAATATTAAATTAAATTTAATATTAAAT-----C-
14028467 TTAATAT
55 -T--TAT
14028474 TAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATATTAAATC-TAT
1 TAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATATTAAATCTTAT
*
14028531 TAAAATAATA
1 TAAATTAATA
14028541 TTATTTTTTG
Statistics
Matches: 117, Mismatches: 6, Indels: 32
0.75 0.04 0.21
Matches are distributed among these distances:
57 12 0.10
59 9 0.08
60 1 0.01
61 1 0.01
62 33 0.28
63 4 0.03
64 1 0.01
66 3 0.03
67 36 0.31
69 2 0.02
70 2 0.02
71 13 0.11
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.40
Consensus pattern (58 bp):
TAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATATTAAATCTTAT
Found at i:14033992 original size:27 final size:26
Alignment explanation
Indices: 14033949--14034000 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
14033939 GTGAGGCTGC
*
14033949 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
**
14033975 CAGATATATGTGGTGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
14034001 TTACAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Done.