Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold269
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: 1389591
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 1 of 7
Found at i:733 original size:20 final size:19
Alignment explanation
Indices: 679--733 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
669 AAAACCCTTA
*
679 AAAGTATCGATACACAATTC
1 AAAGTATCGATACA-TATTC
699 AAAGTATCGATACATATTGC
1 AAAGTATCGATACATATT-C
*
719 AATGTATCGATACAT
1 AAAGTATCGATACAT
734 GAAAAAGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATATTC
Found at i:823 original size:13 final size:13
Alignment explanation
Indices: 805--830 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
795 ACACCAAAGT
805 ATGTATCGATACA
1 ATGTATCGATACA
818 ATGTATCGATACA
1 ATGTATCGATACA
831 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:828 original size:33 final size:34
Alignment explanation
Indices: 786--851 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
776 TAGCCAAACT
* **
786 TGTATCGATACACCAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAAATTGTATCGATACAA
819 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAAATTGTATCGATACA
852 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 17 0.59
34 12 0.41
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (34 bp):
TGTATCGATACACAAAAAAATTGTATCGATACAA
Found at i:2058 original size:21 final size:21
Alignment explanation
Indices: 2034--2078 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2024 AAAAATTATT
*
2034 ATTAGGTAAT-ATTTTTATGTA
1 ATTA-GTAATGATTTTTATATA
*
2055 ATTAGTAATGTTTTTTATATA
1 ATTAGTAATGATTTTTATATA
2076 ATT
1 ATT
2079 CTAATGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (21 bp):
ATTAGTAATGATTTTTATATA
Found at i:2083 original size:20 final size:21
Alignment explanation
Indices: 2045--2084 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2035 TTAGGTAATA
* *
2045 TTTTTATGTAATTAGTAATGT
1 TTTTTATATAATTACTAATGT
2066 TTTTTATATAATT-CTAATG
1 TTTTTATATAATTACTAATG
2085 AAAAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (21 bp):
TTTTTATATAATTACTAATGT
Found at i:2103 original size:60 final size:60
Alignment explanation
Indices: 2009--2130 Score: 140
Period size: 60 Copynumber: 2.0 Consensus size: 60
1999 TGGTAATGTC
* * * *
2009 TTATGTAATTCAAATAAAAATTATTATTAGGTAATATTTTTATGTAATTAGTAATG-TTTT
1 TTATATAATTCAAATAAAAATTATTATTAAGTAAT-GTATTATGTAATTAGTAATGCTTTT
* * * *
2069 TTATATAATTCTAATGAAAAA-TATTTTTAAGTAATGTATTATGTAATTTGTAGTGCTTTT
1 TTATATAATTCAAAT-AAAAATTATTATTAAGTAATGTATTATGTAATTAGTAATGCTTTT
2129 TT
1 TT
2131 TTAAAATGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
59 16 0.31
60 31 0.60
61 5 0.10
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (60 bp):
TTATATAATTCAAATAAAAATTATTATTAAGTAATGTATTATGTAATTAGTAATGCTTTT
Found at i:2341 original size:19 final size:20
Alignment explanation
Indices: 2296--2343 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
2286 AAATTATTTT
2296 TAGGTAAT-TTTAATGTAAC
1 TAGGTAATATTTAATGTAAC
* *
2315 TAGTTAATATTTTATGTAAC
1 TAGGTAATATTTAATGTAAC
2335 T-GGTAATAT
1 TAGGTAATAT
2344 ATATAATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (20 bp):
TAGGTAATATTTAATGTAAC
Found at i:2345 original size:21 final size:21
Alignment explanation
Indices: 2302--2345 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
2292 TTTTTAGGTA
*
2302 ATTTTAATGTAACTAGTTAAT
1 ATTTTAATGTAACTAGTAAAT
*
2323 ATTTT-ATGTAACTGGTAATAT
1 ATTTTAATGTAACTAGTAA-AT
2344 AT
1 AT
2346 ATAATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (21 bp):
ATTTTAATGTAACTAGTAAAT
Found at i:2492 original size:20 final size:19
Alignment explanation
Indices: 2452--2492 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2442 TTGGTATATA
*
2452 TTTATGTAACTTAAAAAAT
1 TTTATGTAAATTAAAAAAT
*
2471 TTTATGTAAATATAATAAAT
1 TTTATGTAAAT-TAAAAAAT
2491 TT
1 TT
2493 ATCTATTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTATGTAAATTAAAAAAT
Found at i:3080 original size:2 final size:2
Alignment explanation
Indices: 3073--3102 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3063 TAGATTTATT
3073 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3103 AACAAACTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4845 original size:2 final size:2
Alignment explanation
Indices: 4838--4890 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
4828 TACATATCTT
4838 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4880 TA TA TA TA TA T
1 TA TA TA TA TA T
4891 CCATGCCTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6307 original size:21 final size:21
Alignment explanation
Indices: 6265--6330 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
6255 TAGTAATATT
*
6265 TATTATAATAATGAAAGTAAA
1 TATTATAATAATAAAAGTAAA
* *
6286 TATTATAATACTAAAA-TGAA
1 TATTATAATAATAAAAGTAAA
6306 -ATTA-AA-AATAAAATGTAAA
1 TATTATAATAATAAAA-GTAAA
6325 T-TTATA
1 TATTATA
6331 TTTAAGATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
17 6 0.17
18 2 0.06
19 10 0.28
20 4 0.11
21 14 0.39
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
TATTATAATAATAAAAGTAAA
Found at i:6588 original size:29 final size:29
Alignment explanation
Indices: 6533--6591 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
6523 AAAATTGAAA
* *
6533 ATTATTTATTATTAAATAAGTATTAAAAT
1 ATTATTTATTATAAAATAAGTAATAAAAT
*
6562 ATTATTTA-TATAAAATAATTTAATAAAAT
1 ATTATTTATTATAAAATAA-GTAATAAAAT
6591 A
1 A
6592 GATAAAGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
ATTATTTATTATAAAATAAGTAATAAAAT
Found at i:8376 original size:21 final size:21
Alignment explanation
Indices: 8335--8378 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8325 CTCTCCTTTA
* *
8335 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
8356 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
8377 TC
1 TC
8379 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:10203 original size:13 final size:13
Alignment explanation
Indices: 10185--10223 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
10175 ATAATCACCC
*
10185 TGTATCGATACAG
1 TGTATCGATACAA
10198 TGTATCGATACAA
1 TGTATCGATACAA
10211 TGTATCGATACAA
1 TGTATCGATACAA
10224 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:10280 original size:20 final size:20
Alignment explanation
Indices: 10209--10288 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
10199 GTATCGATAC
*
10209 AATGTATCGATACAAAGAAA
1 AATGTATCGATACATAGAAA
*
10229 AATGTATCGATACATTGAATTTCTA
1 AATGTATCGATACATAGAA-----A
*
10254 GATGTATCGATACATAGAAA
1 AATGTATCGATACATAGAAA
*
10274 CATGTATCGATACAT
1 AATGTATCGATACAT
10289 TTTGGACATT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATAGAAA
Found at i:16425 original size:13 final size:13
Alignment explanation
Indices: 16407--16432 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16397 CAATTTTTTG
16407 TGTATCGATACAT
1 TGTATCGATACAT
16420 TGTATCGATACAT
1 TGTATCGATACAT
16433 ACTTGTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:19887 original size:22 final size:23
Alignment explanation
Indices: 19861--19903 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
19851 TTAATCATGT
19861 TTAAAAGTG-TTTAAATAATTGA
1 TTAAAAGTGTTTTAAATAATTGA
* *
19883 TTAAAATTGTTTTAATTAATT
1 TTAAAAGTGTTTTAAATAATT
19904 TAGGTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
TTAAAAGTGTTTTAAATAATTGA
Found at i:32783 original size:19 final size:20
Alignment explanation
Indices: 32755--32805 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
32745 TTTTTTATAT
*
32755 AAAATTAAAAAAT-TAAAA-
1 AAAATAAAAAAATCTAAAAC
32773 AGAAATAAAAAAATCTAAAATC
1 A-AAATAAAAAAATCTAAAA-C
32795 AAAATAAAAAA
1 AAAATAAAAAA
32806 TAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 1 0.04
19 11 0.39
20 5 0.18
21 10 0.36
22 1 0.04
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAATAAAAAAATCTAAAAC
Found at i:32806 original size:20 final size:17
Alignment explanation
Indices: 32755--32821 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 17
32745 TTTTTTATAT
*
32755 AAAATTAAAAAATTAAA
1 AAAAATAAAAAATTAAA
32772 AAGAAATAAAAAAATCTAAA
1 AA-AAAT-AAAAAAT-TAAA
32792 ATCAAAATAAAAAA-T-AA
1 A--AAAATAAAAAATTAAA
*
32809 TAAAATAAAAAAT
1 AAAAATAAAAAAT
32822 GATGATGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
15 11 0.26
17 4 0.10
18 4 0.10
19 7 0.17
20 11 0.26
21 4 0.10
22 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.19
Consensus pattern (17 bp):
AAAAATAAAAAATTAAA
Found at i:32812 original size:21 final size:21
Alignment explanation
Indices: 32755--32819 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
32745 TTTTTTATAT
*
32755 AAAATTAAAAAAT-TAAAA-A
1 AAAATAAAAAAATATAAAATA
* * *
32774 GAAATAAAAAAATCTAAAATC
1 AAAATAAAAAAATATAAAATA
32795 AAAAT-AAAAAATAATAAAATA
1 AAAATAAAAAAAT-ATAAAATA
32816 AAAA
1 AAAA
32820 ATGATGATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 11 0.30
20 12 0.32
21 14 0.38
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAATAAAAAAATATAAAATA
Found at i:32820 original size:28 final size:26
Alignment explanation
Indices: 32753--32821 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 26
32743 TCTTTTTTAT
* *
32753 ATAAAATTAAAAAATTAAAAAGAAATA
1 ATAAAA-TAAAAAATAAAAAAAAAATA
* **
32780 AAAAAATCTAAAATCAAAATAAAAAATA
1 ATAAAATAAAAAAT-AAAA-AAAAAATA
32808 ATAAAATAAAAAAT
1 ATAAAATAAAAAAT
32822 GATGATGAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 6 0.19
27 8 0.25
28 18 0.56
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.20
Consensus pattern (26 bp):
ATAAAATAAAAAATAAAAAAAAAATA
Found at i:33205 original size:8 final size:8
Alignment explanation
Indices: 33192--33224 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
33182 AAGAATGAAA
33192 AGCAATGG
1 AGCAATGG
33200 AGCAATGG
1 AGCAATGG
*
33208 AGCAATAG
1 AGCAATGG
33216 AGCAATGG
1 AGCAATGG
33224 A
1 A
33225 TAGCAACGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.33, T:0.12
Consensus pattern (8 bp):
AGCAATGG
Found at i:35746 original size:96 final size:95
Alignment explanation
Indices: 35572--35760 Score: 297
Period size: 96 Copynumber: 2.0 Consensus size: 95
35562 TACCAACCCC
* *
35572 ATTCCTCCGAGGGGATACTCTAACCCCGCTGTTCAACTTATCAAATTTAAATCTTATTTTCGATT
1 ATTCCTCCGAGGGGATACTCCAACCCCGCTGTTAAACTTATCAAATTTAAATCTTATTTTCGATT
* *
35637 AAATTGTCATCATCGGGGACACTCTAACCT
66 AAATTGCCATCATCGGGGACACTATAACCT
* * *
35667 ATTCTTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTATCAAAATTTAAATCTTATTTTCGGT
1 ATTCCTCCGAGGGGATACTCCAACCCCGCTGTTAAACTTATC-AAATTTAAATCTTATTTTCGAT
*
35732 TAAATTGCCATCATCTGGGACACTATAAC
65 TAAATTGCCATCATCGGGGACACTATAAC
35761 ATTGCTTTTC
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 38 0.45
96 47 0.55
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (95 bp):
ATTCCTCCGAGGGGATACTCCAACCCCGCTGTTAAACTTATCAAATTTAAATCTTATTTTCGATT
AAATTGCCATCATCGGGGACACTATAACCT
Found at i:35807 original size:70 final size:70
Alignment explanation
Indices: 35694--35825 Score: 228
Period size: 70 Copynumber: 1.9 Consensus size: 70
35684 CTCCAACCCC
* *
35694 GCTTTTAAACTTATCAAAATTTAAATCTTATTTTCGGTTAAATTGCCATCATCTGGGACACTATA
1 GCTTTTAAACTTATCAAAATTTAAATCTTATTTTCGATTAAATTGCCATCATCGGGGACACTATA
35759 ACATT
66 ACATT
* *
35764 GCTTTTCAACTTATCAAAATTTAAATCTTATTTTCGATTAAATTGTCATCATCGGGGACACT
1 GCTTTTAAACTTATCAAAATTTAAATCTTATTTTCGATTAAATTGCCATCATCGGGGACACT
35826 CCAACCCCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (70 bp):
GCTTTTAAACTTATCAAAATTTAAATCTTATTTTCGATTAAATTGCCATCATCGGGGACACTATA
ACATT
Found at i:35948 original size:166 final size:165
Alignment explanation
Indices: 35582--35963 Score: 525
Period size: 166 Copynumber: 2.3 Consensus size: 165
35572 ATTCCTCCGA
* *
35582 GGGGATACTCTAACCCCGCTGTTCAACTTATC-AAATTTAAATCTTATTTTCGATTAAATTGTCA
1 GGGGATACTCTAACCTCGCTTTTCAACTTATCAAAATTTAAATCTTATTTTCGATTAAATTGTCA
* * *
35646 TCATCGGGGACACTCTAACCTATTCTTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTATCAA
66 TCATCGGGGACACTCCAACCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTATCAA
* *
35711 AATTTAAATCTTATTTTCGGTTAAATTGCCATCATC
131 AATTTAAATCTTATTTTC-GTCAAATTACCATCATC
* * * * *
35747 TGGGACACTATAACATTGCTTTTCAACTTATCAAAATTTAAATCTTATTTTCGATTAAATTGTCA
1 GGGGATACTCTAACCTCGCTTTTCAACTTATCAAAATTTAAATCTTATTTTCGATTAAATTGTCA
*
35812 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGTTTTTAAACTTATCA
66 TCATCGGGGACACTCCAA-CCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTATCA
* * **
35877 TAATTTAAATCTTATTTT-GTCCAAATTATCATTGTC
130 AAATTTAAATCTTATTTTCGT-CAAATTACCATCATC
* * * * *
35913 GGGGATACTCCAACCTCGTTTTTAAACTCATCAAAATTTAAGTCTTATTTT
1 GGGGATACTCTAACCTCGCTTTTCAACTTATCAAAATTTAAATCTTATTTT
35964 GTCCAAATTA
Statistics
Matches: 187, Mismatches: 27, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
165 27 0.14
166 100 0.53
167 60 0.32
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (165 bp):
GGGGATACTCTAACCTCGCTTTTCAACTTATCAAAATTTAAATCTTATTTTCGATTAAATTGTCA
TCATCGGGGACACTCCAACCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTATCAA
AATTTAAATCTTATTTTCGTCAAATTACCATCATC
Found at i:35959 original size:69 final size:69
Alignment explanation
Indices: 35844--36002 Score: 268
Period size: 69 Copynumber: 2.3 Consensus size: 69
35834 ATTCCTCCGA
* * *
35844 GGGGATACTCCAACCCCGTTTTTAAACTTATCATAATTTAAATCTTATTTTGTCCAAATTATCAT
1 GGGGATACTCCAACCTCGTTTTTAAACTCATCAAAATTTAAATCTTATTTTGTCCAAATTATCAT
35909 TGTC
66 TGTC
*
35913 GGGGATACTCCAACCTCGTTTTTAAACTCATCAAAATTTAAGTCTTATTTTGTCCAAATTATCAT
1 GGGGATACTCCAACCTCGTTTTTAAACTCATCAAAATTTAAATCTTATTTTGTCCAAATTATCAT
35978 TGTC
66 TGTC
35982 GGGG--ACTCCAACCTCGTTTTT
1 GGGGATACTCCAACCTCGTTTTT
36003 CAATTAAAAA
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
67 17 0.20
69 69 0.80
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (69 bp):
GGGGATACTCCAACCTCGTTTTTAAACTCATCAAAATTTAAATCTTATTTTGTCCAAATTATCAT
TGTC
Found at i:39142 original size:23 final size:23
Alignment explanation
Indices: 39116--39194 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
39106 ATAAGCGCAA
39116 AAAAAAAAAAAGAAAAGAAAAAC
1 AAAAAAAAAAAGAAAAGAAAAAC
*** * * *
39139 AAAAAAAAGGTGCAAACAAAAGC
1 AAAAAAAAAAAGAAAAGAAAAAC
*
39162 AAAAAAAAAAAAGAAACAAGAAAAAT
1 -AAAAAAAAAAAG-AA-AAGAAAAAC
39188 AAAAAAA
1 AAAAAAA
39195 CAAGGACATG
Statistics
Matches: 40, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
23 17 0.43
24 9 0.22
25 8 0.20
26 6 0.15
ACGTcount: A:0.81, C:0.06, G:0.10, T:0.03
Consensus pattern (23 bp):
AAAAAAAAAAAGAAAAGAAAAAC
Found at i:39195 original size:17 final size:18
Alignment explanation
Indices: 39164--39198 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39154 ACAAAAGCAA
39164 AAAAAAAAAAGAAACAAG
1 AAAAAAAAAAGAAACAAG
*
39182 AAAAATAAAA-AAACAAG
1 AAAAAAAAAAGAAACAAG
39199 GACATGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.83, C:0.06, G:0.09, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAAGAAACAAG
Found at i:39467 original size:16 final size:16
Alignment explanation
Indices: 39446--39481 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
39436 CCTAGTCACC
39446 AAAAAAAAAAGCAAAA
1 AAAAAAAAAAGCAAAA
* *
39462 AAAAAAAAGAGTAAAA
1 AAAAAAAAAAGCAAAA
39478 AAAA
1 AAAA
39482 GGAGAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.03, G:0.08, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAGCAAAA
Found at i:40543 original size:28 final size:28
Alignment explanation
Indices: 40503--41021 Score: 516
Period size: 28 Copynumber: 18.5 Consensus size: 28
40493 GCACTTTTTC
40503 TCAAAGCCCACAAGTCAGTGGCACCATT
1 TCAAAGCCCACAAGTCAGTGGCACCATT
* * * *
40531 TCAAAGCCCACAACTCCGTGACACCCTT
1 TCAAAGCCCACAAGTCAGTGGCACCATT
* * *
40559 T-AAAGCCTATAAGAT-AGTGGCACCCTT
1 TCAAAGCCCACAAG-TCAGTGGCACCATT
* * * *
40586 TCAAAGTCCACAATTCAGGGGCGCCATT
1 TCAAAGCCCACAAGTCAGTGGCACCATT
* *
40614 TCAAAGCTCACAAGTCAGCT-GCATCATT
1 TCAAAGCCCACAAGTCAG-TGGCACCATT
* *
40642 TCGAAGCCCACAAGTCAGCGGCATCC-TT
1 TCAAAGCCCACAAGTCAGTGGCA-CCATT
*
40670 TCAAAGCCCACAAGTTAGTGGCATCC-TT
1 TCAAAGCCCACAAGTCAGTGGCA-CCATT
* *
40698 TCAAAGCCCATAAGTCAATGGCACC-TAT
1 TCAAAGCCCACAAGTCAGTGGCACCAT-T
* * *
40726 TCAAAGCCCACAAATTAGTGGCATCATT
1 TCAAAGCCCACAAGTCAGTGGCACCATT
* * *
40754 TCAAAGCTCACAAGTCAGTAGCACCCTT
1 TCAAAGCCCACAAGTCAGTGGCACCATT
*
40782 TCAAAGCCCACAAGTCAGTAGCATCC-TT
1 TCAAAGCCCACAAGTCAGTGGCA-CCATT
* *
40810 TCAAGGCCCACAAGTCAGTGGCACCCTT
1 TCAAAGCCCACAAGTCAGTGGCACCATT
* *
40838 TCAAAGCCCACAAGTTAGTGGCA-TACTT
1 TCAAAGCCCACAAGTCAGTGGCACCA-TT
* *
40866 TCAAAGCCCACAAATCAGTGGCACCCTT
1 TCAAAGCCCACAAGTCAGTGGCACCATT
* * *
40894 TCAAAGCCCACGAGTTAGTGGCATCATT
1 TCAAAGCCCACAAGTCAGTGGCACCATT
** * *
40922 TCAAAAGCCCATGAGTCAGTGCCATC-TT
1 TC-AAAGCCCACAAGTCAGTGGCACCATT
* *
40950 CTCAAAGCCCATAAGTCAGTGGCACCCTT
1 -TCAAAGCCCACAAGTCAGTGGCACCATT
*
40979 TCAAAGCCCACAAGTCAGTGGCACCTTT
1 TCAAAGCCCACAAGTCAGTGGCACCATT
41007 TCAAAAGCCCACAAG
1 TC-AAAGCCCACAAG
41022 CTAGTGGTAC
Statistics
Matches: 408, Mismatches: 67, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
27 26 0.06
28 342 0.84
29 40 0.10
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (28 bp):
TCAAAGCCCACAAGTCAGTGGCACCATT
Found at i:40673 original size:56 final size:56
Alignment explanation
Indices: 40503--41028 Score: 585
Period size: 56 Copynumber: 9.4 Consensus size: 56
40493 GCACTTTTTC
* * * * *
40503 TCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAACTCCGTGACACCCTT
1 TCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * * * * * * * * *
40559 T-AAAGCCTATAAGATAGTGGCACCCTTTCAAAGTCCACAATTCAGGGGCGCCATT
1 TCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
40614 TCAAAGCTCACAAGTCAGCT-GCATCATTTCGAAGCCCACAAGTCAGCGGCATCCTT
1 TCAAAGCCCACAAGTTAG-TGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * *
40670 TCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAATGGCA-CCTAT
1 TCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCT-T
* * *
40726 TCAAAGCCCACAAATTAGTGGCATCATTTCAAAGCTCACAAGTCAGTAGCACCCTT
1 TCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * * *
40782 TCAAAGCCCACAAGTCAGTAGCATCCTTTCAAGGCCCACAAGTCAGTGGCACCCTT
1 TCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTT
*
40838 TCAAAGCCCACAAGTTAGTGGCAT-ACTTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TCAAAGCCCACAAGTTAGTGGCATCA-TTTCAAAGCCCACAAGTCAGTGGCACCCTT
* ** * *
40894 TCAAAGCCCACGAGTTAGTGGCATCATTTCAAAAGCCCATGAGTCAGTGCCA-TCTT
1 TCAAAGCCCACAAGTTAGTGGCATCATTTC-AAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
40950 CTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTT
1 -TCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTT
*
41007 TCAAAAGCCCACAAGCTAGTGG
1 TC-AAAGCCCACAAGTTAGTGG
41029 TACCCTTCTA
Statistics
Matches: 389, Mismatches: 70, Indels: 21
0.81 0.15 0.04
Matches are distributed among these distances:
55 47 0.12
56 277 0.71
57 65 0.17
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (56 bp):
TCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:40731 original size:112 final size:111
Alignment explanation
Indices: 40503--41220 Score: 639
Period size: 112 Copynumber: 6.4 Consensus size: 111
40493 GCACTTTTTC
* * * * *
40503 TCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAACTCCGTGACACCCTTT-AAAGCCT
1 TCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC
* * * * * * *
40567 ATAAGATAGTGGCACCCTTTCAAAGTCCACAATTCAGGGGCGCCATT
66 ACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC-TT
* * * *
40614 TCAAAGCTCACAAGTCAGCT-GCATCATTTCGAAGCCCACAAGTCAGCGGCATCCTTTCAAAGCC
1 TCAAAGCCCACAAGTCAG-TGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* *
40678 CACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAATGGCACCTAT
65 CACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCT-T
* * * *
40726 TCAAAGCCCACAAATTAGTGGCATCATTTCAAAGCTCACAAGTCAGTAGCACCCTTTCAAAGCCC
1 TCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC
* * *
40791 ACAAGTCAGTAGCATCCTTTCAAGGCCCACAAGTCAGTGGCACCCTT
66 ACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTT
* *
40838 TCAAAGCCCACAAGTTAGTGGCAT-ACTTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCC
1 TCAAAGCCCACAAGTCAGTGGCATCA-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* * ** * *
40902 CACGAGTTAGTGGCATCATTTCAAAAGCCCATGAGTCAGTGCCATCTT
65 CACAAGTTAGTGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCACCTT
* * * *
40950 CTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAAGC
1 -TCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGC
* * * * * * *
41015 CCACAAGCTAGTGGTA-CCCTTCTAAAGCCTATGAA-TCAATGGTCTTCC-T
64 CCACAAGTTAGTGGCATCCTTTC-AAAGCCCA-CAAGTCAGTGG-C-ACCTT
* ** * * * * * **
41064 TCAAAACCCATGAGTCAATAGCA-CTATTTTAATGCCCACAAGTTAGTGGTGCCCTTTTCAAAGC
1 TCAAAGCCCACAAGTCAGTGGCATC-ATTTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGC
* * * * * *
41128 CTATAAGTTAGTGGCACTCTTTTCAAAGCCTATAAG-CTAGTGGCAACTT
64 CCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTC-AGTGGCACCTT
* *
41177 GT-AAAGCCCACGAGTCAGTGGCA-C-TTTGTAAAGCCCACAAGTCA
1 -TCAAAGCCCACAAGTCAGTGGCATCATTT-CAAAGCCCACAAGTCA
41221 ATTAGGACAA
Statistics
Matches: 495, Mismatches: 90, Indels: 43
0.79 0.14 0.07
Matches are distributed among these distances:
111 53 0.11
112 231 0.47
113 168 0.34
114 38 0.08
115 5 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (111 bp):
TCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC
ACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTT
Found at i:41136 original size:29 final size:29
Alignment explanation
Indices: 41103--41172 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
41093 TAATGCCCAC
**
41103 AAGTTAGTGGTGCCCTTTTCAAAGCCTAT
1 AAGTTAGTGGCACCCTTTTCAAAGCCTAT
*
41132 AAGTTAGTGGCACTCTTTTCAAAGCCTAT
1 AAGTTAGTGGCACCCTTTTCAAAGCCTAT
*
41161 AAGCTAGTGGCA
1 AAGTTAGTGGCA
41173 ACTTGTAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (29 bp):
AAGTTAGTGGCACCCTTTTCAAAGCCTAT
Found at i:41196 original size:27 final size:27
Alignment explanation
Indices: 41166--41220 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
41156 CCTATAAGCT
*
41166 AGTGGCAAC-TTGTAAAGCCCACGAGTC
1 AGTGGC-ACTTTGTAAAGCCCACAAGTC
41193 AGTGGCACTTTGTAAAGCCCACAAGTC
1 AGTGGCACTTTGTAAAGCCCACAAGTC
41220 A
1 A
41221 ATTAGGACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (27 bp):
AGTGGCACTTTGTAAAGCCCACAAGTC
Found at i:43061 original size:13 final size:13
Alignment explanation
Indices: 43043--43068 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43033 AATTTTTTGG
43043 TGTATCGATACAT
1 TGTATCGATACAT
43056 TGTATCGATACAT
1 TGTATCGATACAT
43069 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:47581 original size:13 final size:13
Alignment explanation
Indices: 47563--47588 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47553 CAACTTTTTG
47563 TGTATCGATACAT
1 TGTATCGATACAT
47576 TGTATCGATACAT
1 TGTATCGATACAT
47589 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:47600 original size:32 final size:32
Alignment explanation
Indices: 47543--47606 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
47533 TGTAGGCCAA
47543 TGTATCGATACAACTTTTTGTGTATCGATACAT
1 TGTATCGATACAAC-TTTTGTGTATCGATACAT
47576 TGTATCGATACATAC-TTTGTGTATCGATACA
1 TGTATCGATACA-ACTTTTGTGTATCGATACA
47607 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 16 0.53
33 12 0.40
34 2 0.07
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (32 bp):
TGTATCGATACAACTTTTGTGTATCGATACAT
Found at i:47683 original size:20 final size:20
Alignment explanation
Indices: 47637--47713 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
47627 ATCCCAATGA
***
47637 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
47658 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
47678 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
**
47698 TGTGTATCGATACATT
1 CATGTATCGATACATT
47714 CAAGGGTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.04
20 30 0.64
21 15 0.32
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:48337 original size:30 final size:30
Alignment explanation
Indices: 48301--48360 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
48291 TAGCAATTTT
48301 ACGCATTCTCCCCTTTTAAAAAAAATCTCC
1 ACGCATTCTCCCCTTTTAAAAAAAATCTCC
48331 ACGCATTCTCCCCTTTTAAAAAAAATCTCC
1 ACGCATTCTCCCCTTTTAAAAAAAATCTCC
48361 CCCTTTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (30 bp):
ACGCATTCTCCCCTTTTAAAAAAAATCTCC
Found at i:50212 original size:13 final size:13
Alignment explanation
Indices: 50194--50232 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
50184 ATAATCCCCC
*
50194 TGTATCGATACAG
1 TGTATCGATACAA
50207 TGTATCGATACAA
1 TGTATCGATACAA
50220 TGTATCGATACAA
1 TGTATCGATACAA
50233 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:55825 original size:13 final size:13
Alignment explanation
Indices: 55807--55832 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55797 CAACTTTTTG
55807 TGTATCGATACAT
1 TGTATCGATACAT
55820 TGTATCGATACAT
1 TGTATCGATACAT
55833 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:55844 original size:32 final size:32
Alignment explanation
Indices: 55787--55850 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
55777 TACAGGCCAA
55787 TGTATCGATACAACTTTTTGTGTATCGATACAT
1 TGTATCGATACAAC-TTTTGTGTATCGATACAT
55820 TGTATCGATACATAC-TTTGTGTATCGATACA
1 TGTATCGATACA-ACTTTTGTGTATCGATACA
55851 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 16 0.53
33 12 0.40
34 2 0.07
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (32 bp):
TGTATCGATACAACTTTTGTGTATCGATACAT
Found at i:57306 original size:20 final size:20
Alignment explanation
Indices: 57281--57335 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
57271 ATTGGCCTCA
57281 ATGTATCTATACAATTCATC
1 ATGTATCTATACAATTCATC
*
57301 ATGTAT-TGATACAATTTATC
1 ATGTATCT-ATACAATTCATC
*
57321 ATGTATCAATACAAT
1 ATGTATCTATACAAT
57336 GTATCGATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGTATCTATACAATTCATC
Found at i:57426 original size:19 final size:20
Alignment explanation
Indices: 57397--57444 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
57387 TTTCAAGGTT
*
57397 TATCAATACTAAG-AACATG
1 TATCGATACTAAGCAACATG
* *
57416 TATTGATACTAAGCAATATG
1 TATCGATACTAAGCAACATG
57436 TATCGATAC
1 TATCGATAC
57445 ATCTGGGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (20 bp):
TATCGATACTAAGCAACATG
Found at i:59217 original size:20 final size:20
Alignment explanation
Indices: 59192--59239 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
59182 TTTTCACAAT
59192 TTGTATCGATACATTATTCA
1 TTGTATCGATACATTATTCA
*
59212 TTGTATCGATACATTTTTCA
1 TTGTATCGATACATTATTCA
*
59232 ATGTATCG
1 TTGTATCG
59240 CATTCAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (20 bp):
TTGTATCGATACATTATTCA
Found at i:61869 original size:130 final size:131
Alignment explanation
Indices: 61558--61902 Score: 457
Period size: 130 Copynumber: 2.7 Consensus size: 131
61548 GGAGATACTT
* * * * *
61558 CAACCCCAGTTTTATTTCCAAAACATCAAT-TTTTCATAATCAGGGATACTTCAATCC-CGTTA-
1 CAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGGGATACTCCAA-CCTCGTTAT
* *
61620 TTTCGGAGAAGATACTCCAACCCCAGCTTAATTTCTAAAATATTGATTTCTCATAATCAGGGAAA
65 TTTC-GAGGAGATACTCCAACCCCAGCTTAATTTCTAAAATATTGATTTCTCACAATCAGGGAAA
61685 CTC
129 CTC
**
61688 CAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATTGGGGATACTCCAACCTCGTTATT
1 CAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGGGATACTCCAACCTCGTTATT
* * * * * * *
61753 TTCGAGGGGATACTCTAACCTCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACT
66 TTCGAGGAGATACTCCAACCCCAGCTTAATTTCTAAAATATTGATTTCTCACAATCAGGGAAACT
61818 C
131 C
* * * *
61819 TAA-CCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAACCTCATTTTT
1 CAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGGGATACTCCAACCTCGTTATT
61883 TTCGAGGA-ATACTCCAACCC
66 TTCGAGGAGATACTCCAACCC
61903 TATTTTTATT
Statistics
Matches: 187, Mismatches: 25, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
129 10 0.05
130 92 0.49
131 81 0.43
132 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (131 bp):
CAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCAGGGATACTCCAACCTCGTTATT
TTCGAGGAGATACTCCAACCCCAGCTTAATTTCTAAAATATTGATTTCTCACAATCAGGGAAACT
C
Found at i:61945 original size:78 final size:79
Alignment explanation
Indices: 61813--62027 Score: 220
Period size: 79 Copynumber: 2.7 Consensus size: 79
61803 ACAATCGGGG
* * * * * * * *
61813 ATACTCTAACCC-AATTTTATTTCTAAAACACCAATCTTTTCACAATCAGAGATACTCCAACCTC
1 ATACTCCAACCCTATTTTTATTTCTAGAACACCGAT-TTTTCATAATCAGGGATACTCAAACCCC
** *
61877 ATTTTTTTCGA-GGA
65 ATTAATTTCAAGGGA
*
61891 ATACTCCAACCCTATTTTTATTT-TCAGAAGACCGATTTTTCATAATCAGGGATACTCAAACCCC
1 ATACTCCAACCCTATTTTTATTTCT-AGAACACCGATTTTTCATAATCAGGGATACTCAAACCCC
*
61955 ATTAATTTCAAGGGG
65 ATTAATTTCAAGGGA
* * * * *
61970 ATACTCCAACCCTGTTTTTATTTCTAGAACTCCTATTTTCCATAGTCAGGGGATACTC
1 ATACTCCAACCCTATTTTTATTTCTAGAACACCGATTTTTCATAATCA-GGGATACTC
62028 TAGCCCCGTT
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
78 44 0.39
79 59 0.52
80 10 0.09
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (79 bp):
ATACTCCAACCCTATTTTTATTTCTAGAACACCGATTTTTCATAATCAGGGATACTCAAACCCCA
TTAATTTCAAGGGA
Found at i:69356 original size:61 final size:61
Alignment explanation
Indices: 69255--69405 Score: 203
Period size: 61 Copynumber: 2.5 Consensus size: 61
69245 TCTCCTTTCA
* * * * * * *
69255 CTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACGCTAGTTAGTGGCAC
1 CTTTT-AGTCCTCAAAGAGTAGGATGCCTATCCATTTCAAAGCCCACACGAGTTAGTGGCAC
*
69317 CTTTTAGTCCTCAAAGAGTAGGATGCCTATCCATTTCAAAGCCCACACGAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGTAGGATGCCTATCCATTTCAAAGCCCACACGAGTTAGTGGCAC
* *
69378 TTTTTTGTCCTCAAAGAGTAGGATGCCT
1 CTTTTAGTCCTCAAAGAGTAGGATGCCT
69406 TTTCCTTTTC
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
61 74 0.94
62 5 0.06
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.30
Consensus pattern (61 bp):
CTTTTAGTCCTCAAAGAGTAGGATGCCTATCCATTTCAAAGCCCACACGAGTTAGTGGCAC
Found at i:69468 original size:45 final size:45
Alignment explanation
Indices: 69411--69566 Score: 164
Period size: 45 Copynumber: 3.5 Consensus size: 45
69401 TGCCTTTTCC
* **
69411 TTTTCTCCTTTGTCCTCAAAGAGCAATACACATTTCATTTCCTTT
1 TTTTCTCCTTTGTCCTCAAAGAGCAAGATGCATTTCATTTCCTTT
*
69456 TTTTC-CCTTTTGTCCTCAAAGAGCAGGATGC-TTT--TTT--TTT
1 TTTTCTCC-TTTGTCCTCAAAGAGCAAGATGCATTTCATTTCCTTT
* *
69496 CTTTTCTCCTTTGTTCTCAAAGAGCAAGATGCACTTCATTTCCTTT
1 -TTTTCTCCTTTGTCCTCAAAGAGCAAGATGCATTTCATTTCCTTT
69542 TTTT-TCCCTTCTAGTCCTCAAAGAG
1 TTTTCT-CCTT-T-GTCCTCAAAGAG
69567 TAGGACGCCT
Statistics
Matches: 92, Mismatches: 8, Indels: 20
0.77 0.07 0.17
Matches are distributed among these distances:
40 3 0.03
41 26 0.28
42 7 0.08
44 9 0.10
45 32 0.35
46 4 0.04
47 11 0.12
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.45
Consensus pattern (45 bp):
TTTTCTCCTTTGTCCTCAAAGAGCAAGATGCATTTCATTTCCTTT
Found at i:69522 original size:86 final size:84
Alignment explanation
Indices: 69380--69585 Score: 279
Period size: 86 Copynumber: 2.4 Consensus size: 84
69370 GGTGGCACTT
* *
69380 TTTTGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAATACACATT
1 TTTTGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAAGACACACT
69445 TCATTTCC-TTTTTTTCCC
66 TCATTTCCTTTTTTTTCCC
* * * * **
69463 TTTTGTCCTCAAAGAGCAGGATGCTTTTTTTTTCTTTTCTCCTTTGTTCTCAAAGAGCAAGATGC
1 TTTTGTCCTCAAAGAGTAGGATGC---CTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAAGACAC
69528 ACTTCATTTCCTTTTTTTTCCC
63 ACTTCATTTCCTTTTTTTTCCC
* *
69550 TTCTAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTT
1 TT-TTGTCCTCAAAGAGTAGGATGCCTTTTCCTTTT
69586 AAAGCCCACA
Statistics
Matches: 105, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
83 23 0.22
85 9 0.09
86 42 0.40
87 12 0.11
88 19 0.18
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.44
Consensus pattern (84 bp):
TTTTGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAAGACACACT
TCATTTCCTTTTTTTTCCC
Found at i:69712 original size:62 final size:62
Alignment explanation
Indices: 69550--69755 Score: 319
Period size: 61 Copynumber: 3.4 Consensus size: 62
69540 TTTTTTTCCC
* *
69550 TTCTAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
1 TTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
* *
69612 TTC-AGTCCGC-AAGCAGCAGGATGCCTTTTCCATTTAAAGCCCACACAAGTTGGTGGCACTT
1 TTCTAGTCCTCAAAG-AGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
69673 TTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TT
1 TTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
* * *
69734 TCCCAGTCCTTAAAGAGCAGGA
1 TTCTAGTCCTCAAAGAGCAGGA
69756 CGCTCACTCC
Statistics
Matches: 132, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
60 3 0.02
61 74 0.56
62 52 0.39
63 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (62 bp):
TTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
Found at i:69856 original size:216 final size:218
Alignment explanation
Indices: 69581--69975 Score: 661
Period size: 216 Copynumber: 1.8 Consensus size: 218
69571 ACGCCTTTTC
* * *
69581 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCGCAAGCAGCAGGATGCCTTTTCCATT
1 CTTTCAAAGCCCACACAAGCTGGTGGCACTCTTCAGTCCGCAAGCAGCAGGATGCCTTTTCCATT
*
69646 TAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAA
66 TAAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAA
*
69711 AGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCTTAAAGAGCAGGACGCTCACTCCTTTCACCTT
131 AGCCCACACAAGTTGGTGACACTTTCCCAGTCCTTAAAGAGCAGGACGCTCACTCCTTTCACCTT
69775 TTAGTCCTTAAAGAGCAGGACAT
196 TTAGTCCTTAAAGAGCAGGACAT
* *
69798 CTTTCAAAGCCCACACAAGCTGGTGGCAC-CTTCAGTCCTCAAAG-AGCAGGATGCCTTTTCCTT
1 CTTTCAAAGCCCACACAAGCTGGTGGCACTCTTCAGTCCGC-AAGCAGCAGGATGCCTTTTCCAT
*
69861 TTGAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTA
65 TTAAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTA
* * *
69926 AAGCCCACACAAGTTGGTGACACTTTTCTAGTCCTTAAAGAGTAGGACGC
130 AAGCCCACACAAGTTGGTGACACTTTCCCAGTCCTTAAAGAGCAGGACGC
69976 CTTTTCCTTT
Statistics
Matches: 165, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
216 111 0.67
217 54 0.33
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (218 bp):
CTTTCAAAGCCCACACAAGCTGGTGGCACTCTTCAGTCCGCAAGCAGCAGGATGCCTTTTCCATT
TAAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAA
AGCCCACACAAGTTGGTGACACTTTCCCAGTCCTTAAAGAGCAGGACGCTCACTCCTTTCACCTT
TTAGTCCTTAAAGAGCAGGACAT
Found at i:69914 original size:62 final size:60
Alignment explanation
Indices: 69798--70253 Score: 592
Period size: 61 Copynumber: 7.5 Consensus size: 60
69788 AGCAGGACAT
* * *
69798 CTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTTTTC
*
69858 CTTTTGAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAGGATGCCTTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTT-C-AGTCCTCAAAGAGCAGGATGCCTTTTC
* * * *
69920 CTTTTAAAGCCCACACAAGTTGGTGACACTTTTCTAGTCCTTAAAGAGTAGGACGCCTTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTC-AGTCCTCAAAGAGCAGGATGCCTTTTC
* *
69982 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATG-TTTTCTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGATGCCTTT-TC
* ** *
70043 CTTTCAAAGCTTACACAAGCTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTTTTC
* * * * *
70103 CTTTTATAGCCAACACAAGTTGGTAGCACTTTTCAGTCCTCAAGGAGCAAGATGCCTTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGATGCCTTTTC
* *
70164 CTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTTCTCAAAGAGTAGGATG-CTTTCTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATGCCTTT-TC
** * *
70225 CTTACAAAGCCCATAAAAGTTGGTGGCAC
1 CTTTTAAAGCCCACACAAGTTGGTGGCAC
70254 CTGCTAGTCC
Statistics
Matches: 348, Mismatches: 40, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
60 81 0.23
61 155 0.45
62 109 0.31
63 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (60 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTTTTC
Found at i:70142 original size:121 final size:121
Alignment explanation
Indices: 69798--70253 Score: 587
Period size: 121 Copynumber: 3.7 Consensus size: 121
69788 AGCAGGACAT
*
69798 CTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
1 CTTTCAAAGCCCACACAAGCTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
*
69863 GAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAGGATGCCTTTTC
66 -AAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
* * * * * *
69920 CTTTTAAAGCCCACACAAGTTGGTGACACTTTTCTAGTCCTTAAAGAGTAGGACGCCTTTTCCTT
1 CTTTCAAAGCCCACACAAGCTGGTGGCAC-TTTC-AGTCCTCAAAGAGCAGGATGCCTTTTCCTT
* *
69985 TTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGATG-TTTTCTC
64 TT-AAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTT-TC
**
70043 CTTTCAAAGCTTACACAAGCTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
1 CTTTCAAAGCCCACACAAGCTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
* * * *
70108 ATAGCCAACACAAGTTGGTAGCACTTTTC-AGTCCTCAAGGAGCAAGATGCCTTTTC
66 A-AGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
* * * *
70164 CTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTTCTCAAAGAGTAGGATG-CTTTCTCCTT
1 CTTTCAAAGCCCACACAAGCTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATGCCTTT-TCCTT
** * *
70228 ACAAAGCCCATAAAAGTTGGTGGCAC
64 -TTAAGCCCACACAAGTTGGTGGCAC
70254 CTGCTAGTCC
Statistics
Matches: 288, Mismatches: 37, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
120 1 0.00
121 97 0.34
122 85 0.30
123 53 0.18
124 52 0.18
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (121 bp):
CTTTCAAAGCCCACACAAGCTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
AAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
Found at i:70251 original size:182 final size:184
Alignment explanation
Indices: 69798--70273 Score: 658
Period size: 182 Copynumber: 2.6 Consensus size: 184
69788 AGCAGGACAT
* *
69798 CTTTCAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTT
**
69862 TGAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAA
65 CAAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAA
* * * *
69927 AGCCCACACAAGTTGGTGACACTTTTCTAGTCCTTAAAGAGTAGGACGCCTTTTC
130 AGCCAACACAAGTTGGTGACACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTTC
*
69982 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGTTTTCTCCTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGATGCTTTCTCCTTT
** * *
70047 CAAAGCTTACACAAGCTGGTGGCACTTT-C-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAT
65 CAAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAA
* *
70110 AGCCAACACAAGTTGGT-AGCACTTTTC-AGTCCTCAAGGAGCAAGATGCCTTTTC
130 AGCCAACACAAGTTGGTGA-CACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTTC
* * * *
70164 CTTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTTCTCAAAGAGTAGGATGCTTTCTCCTTA
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTT
* * * * *
70229 CAAAGCCCATAAAAGTTGGTGGCAC-CTGCTAGTCCCCAAGGAGCA
65 CAAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCA
70274 AAACCTATTT
Statistics
Matches: 258, Mismatches: 28, Indels: 13
0.86 0.09 0.04
Matches are distributed among these distances:
181 1 0.00
182 99 0.38
183 74 0.29
184 35 0.14
185 49 0.19
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (184 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTC
AAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAA
GCCAACACAAGTTGGTGACACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTTC
Found at i:70931 original size:70 final size:69
Alignment explanation
Indices: 70857--70986 Score: 188
Period size: 70 Copynumber: 1.9 Consensus size: 69
70847 TTTTCACAAT
* ** * *
70857 TTGTATCGATACATTGTTCATTATATCGATACATTTTAGGTTTGACCCAGATGTATCGATACATT
1 TTGTATCAATACATTAATCATTATATCGATACATTCTAGGTTT-ACCCAAATGTATCGATACATT
70922 GTTCA
65 GTTCA
* *
70927 TTGTATCAATACATTAATCATTGTATCGATACATTCTGGGTTTACCCAAATGTATCGATA
1 TTGTATCAATACATTAATCATTATATCGATACATTCTAGGTTTACCCAAATGTATCGATA
70987 TATCAATGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
69 16 0.30
70 37 0.70
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (69 bp):
TTGTATCAATACATTAATCATTATATCGATACATTCTAGGTTTACCCAAATGTATCGATACATTG
TTCA
Found at i:70933 original size:20 final size:20
Alignment explanation
Indices: 70908--70961 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
70898 TTGACCCAGA
**
70908 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTAATCAT
*
70928 TGTATCAATACATTAATCAT
1 TGTATCGATACATTAATCAT
70948 TGTATCGATACATT
1 TGTATCGATACATT
70962 CTGGGTTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTAATCAT
Found at i:73448 original size:131 final size:131
Alignment explanation
Indices: 73237--73644 Score: 588
Period size: 131 Copynumber: 3.1 Consensus size: 131
73227 ATTTTTCATC
* * * *
73237 TCGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAAT-TTTTCATAATCGGGGATACTCC
1 TCGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCGGGGATACTCC
* * *
73301 AATCCCGTTATTTTCGAGGGGATACTCCAACCTTGGTTTTATTTTTAAAATATTGATTTCTCACA
66 AAGCCCGTTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAATATTGATTTCTCACA
73366 A
131 A
* **
73367 TCGAGGATACTCCAACCCCAATTTTATTTCTAAGGCACCAATCTTTTCACAATCGGGGATACTCC
1 TCGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCGGGGATACTCC
* *
73432 AA-CCCAGTTATTTTCGAGGGGATACTTCAACCCTGGCTTTATTTCTAAAATATTGATTTCTCAC
66 AAGCCC-GTTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAATATTGATTTCTCAC
73496 AA
130 AA
* * * *
73498 TCGGGGATATTTCAACCCCAATTTTATTTCTAAAACACCAATCATTTCACAATCAGGGATACTCC
1 TCGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCGGGGATACTCC
* * * * * *
73563 AAGCCCGTTATTTTCGA-AGGATACTCCAACCCTAGTTTTATTTCTAGAACATCGATTTTTCACA
66 AAGCCCGTTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAATATTGATTTCTCACA
73627 A
131 A
73628 TCGGGGATACTCCAACC
1 TCGGGGATACTCCAACC
73645 TCGTAATTTT
Statistics
Matches: 247, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
130 94 0.38
131 150 0.61
132 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (131 bp):
TCGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATCTTTTCACAATCGGGGATACTCC
AAGCCCGTTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAATATTGATTTCTCACA
A
Found at i:73670 original size:79 final size:78
Alignment explanation
Indices: 73500--73723 Score: 213
Period size: 79 Copynumber: 2.8 Consensus size: 78
73490 TCTCACAATC
* * * * * * * *
73500 GGGGATATTTCAACCCCAATTTTATTTCTAAAACACCAATCATTTCACAATCAGGGATACTCCAA
1 GGGGATACTCCAACCCTAGTTTTATTTCTAGAACA-CGAT-TTTTCACAATCGGGGATACTCCAA
*
73565 GCCCGTTATTTTCGAA
64 -CCCGTAATTTTCGAA
73581 --GGATACTCCAACCCTAGTTTTATTTCTAGAACATCGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCTAGTTTTATTTCTAGAACA-CGATTTTTCACAATCGGGGATACTCCAAC
73644 CTCGTAATTTTC-AA
65 C-CGTAATTTTCGAA
* * * * * *
73658 GGGGATACTCCAA-CCTTGATTTCATTTCTAGAACACTGATTTTCCATAGTTAGGGGATACTCCA
1 GGGGATACTCCAACCCTAG-TTTTATTTCTAGAACAC-GATTTTTCACA-ATCGGGGATACTCCA
73722 AC
63 AC
73724 TCCATTGTCA
Statistics
Matches: 121, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
77 4 0.03
78 36 0.30
79 66 0.55
80 15 0.12
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.32
Consensus pattern (78 bp):
GGGGATACTCCAACCCTAGTTTTATTTCTAGAACACGATTTTTCACAATCGGGGATACTCCAACC
CGTAATTTTCGAA
Found at i:82871 original size:54 final size:54
Alignment explanation
Indices: 82787--82900 Score: 201
Period size: 54 Copynumber: 2.1 Consensus size: 54
82777 GCATGCGATT
* * *
82787 ATGCTGATCGATCGACAGCTAACCTTTTGTCAACAAATGGGAGATGGCAAGTAA
1 ATGCTGAGCGATCGACAGCTAACCTCTTGTCAACAAATGGGAGATGGCAAGCAA
82841 ATGCTGAGCGATCGACAGCTAACCTCTTGTCAACAAATGGGAGATGGCAAGCAA
1 ATGCTGAGCGATCGACAGCTAACCTCTTGTCAACAAATGGGAGATGGCAAGCAA
82895 ATGCTG
1 ATGCTG
82901 TCACCATAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.22
Consensus pattern (54 bp):
ATGCTGAGCGATCGACAGCTAACCTCTTGTCAACAAATGGGAGATGGCAAGCAA
Found at i:83159 original size:86 final size:86
Alignment explanation
Indices: 83052--83224 Score: 319
Period size: 86 Copynumber: 2.0 Consensus size: 86
83042 TTTTGCTGTC
* *
83052 TTTTCTCCTTGTCGTACATGGCCCTAGGCATAGTAATGCCTAATGTCAGGGCAATTGTCAGGGTT
1 TTTTCTCCTTGTCGCACATGGCCCTAAGCATAGTAATGCCTAATGTCAGGGCAATTGTCAGGGTT
83117 CATTCTTTACCCTCACACTTT
66 CATTCTTTACCCTCACACTTT
*
83138 TTTTCTCCTTGTCGCACATGGCCCTAAGCATAGTAATGCCTAATGTCGGGGCAATTGTCAGGGTT
1 TTTTCTCCTTGTCGCACATGGCCCTAAGCATAGTAATGCCTAATGTCAGGGCAATTGTCAGGGTT
83203 CATTCTTTACCCTCACACTTT
66 CATTCTTTACCCTCACACTTT
83224 T
1 T
83225 ATCCTTTGCA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (86 bp):
TTTTCTCCTTGTCGCACATGGCCCTAAGCATAGTAATGCCTAATGTCAGGGCAATTGTCAGGGTT
CATTCTTTACCCTCACACTTT
Found at i:87487 original size:27 final size:27
Alignment explanation
Indices: 87449--87897 Score: 508
Period size: 27 Copynumber: 16.4 Consensus size: 27
87439 CTAGTAGTGT
*
87449 AACCTTTTAAGTCCACAACTCTGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
*
87476 AACCTTTTAAGTCCACAACTCCATGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * *
87503 AACGTTTTAAGTCCACAATTCTGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
**
87530 AACCTTTTGAAGTCCACAACTCTATGGC
1 AACCTTTT-AAGTCCACAACTCCGTGGC
* * *
87558 AGCCCTTTTTAAGTCCATAACACCGTGGC
1 A-ACC-TTTTAAGTCCACAACTCCGTGGC
*
87587 -ACCTTTTTAAGTCCACAACTCCATGGC
1 AACC-TTTTAAGTCCACAACTCCGTGGC
*
87614 AACCTTTTAAGTCCACAACTCCATGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * *
87641 AGCCCTTTTTAAGTCCATAACACCGTGGC
1 A-ACC-TTTTAAGTCCACAACTCCGTGGC
87670 -ACCTTTTTAAGTCCACAACTCCGTGGC
1 AACC-TTTTAAGTCCACAACTCCGTGGC
*
87697 AACCTTTTAAGTCCACAACTCCATGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * *
87724 CACCTTTTAAGTCCATAACTTCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* *
87751 AACCTTTTAAAGTCCACAACTCCGTAGT
1 AACCTTTT-AAGTCCACAACTCCGTGGC
87779 AACCTTTTAAAGTCCACAACTCCGTGGC
1 AACCTTTT-AAGTCCACAACTCCGTGGC
* * **
87807 ACCCTTTTAAGTCCATAACTTTGCT-GC
1 AACCTTTTAAGTCCACAACTCCG-TGGC
*
87834 ATCCTTTTAAGTCCACAACTCCGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
* * * *
87861 ATCCTTTTAGGTCCACAAGTCTGTGGC
1 AACCTTTTAAGTCCACAACTCCGTGGC
*
87888 ACCCTTTTAA
1 AACCTTTTAA
87898 AGCCTACAAG
Statistics
Matches: 362, Mismatches: 50, Indels: 20
0.84 0.12 0.05
Matches are distributed among these distances:
26 1 0.00
27 245 0.68
28 75 0.21
29 37 0.10
30 4 0.01
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.30
Consensus pattern (27 bp):
AACCTTTTAAGTCCACAACTCCGTGGC
Found at i:87646 original size:83 final size:81
Alignment explanation
Indices: 87449--87897 Score: 562
Period size: 83 Copynumber: 5.5 Consensus size: 81
87439 CTAGTAGTGT
** * * * * *
87449 AACCTTTTAAGTCCACAACTCTGTGGCAACCTTTTAAGTCCACAACTCCATGGCAACGTTTTAAG
1 AACCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTAAG
* *
87514 TCCACAATTCTGTGGC
66 TCCACAACTCCGTGGC
* *
87530 AACCTTTTGAAGTCCACAACTCTATGGCAGCCCTTTTTAAGTCCATAACACCGTGGCACCTTTTT
1 AACCTTTT-AAGTCCACAACTCCATGGCA-CCC-TTTTAAGTCCATAACTCCGTGGCACCTTTTT
*
87595 AAGTCCACAACTCCATGGC
63 AAGTCCACAACTCCGTGGC
*
87614 AACCTTTTAAGTCCACAACTCCATGGCAGCCCTTTTTAAGTCCATAACACCGTGGCACCTTTTTA
1 AACCTTTTAAGTCCACAACTCCATGGCA-CCC-TTTTAAGTCCATAACTCCGTGGCACCTTTTTA
87679 AGTCCACAACTCCGTGGC
64 AGTCCACAACTCCGTGGC
* *
87697 AACCTTTTAAGTCCACAACTCCATGGC-CACCTTTTAAGTCCATAACTTCGTGGCAACCTTTTAA
1 AACCTTTTAAGTCCACAACTCCATGGCAC-CCTTTTAAGTCCATAACTCCGTGGC-ACCTTTTTA
* *
87761 AGTCCACAACTCCGTAGT
64 AGTCCACAACTCCGTGGC
* **
87779 AACCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTTTGCT-GCATCC-TTTT
1 AACCTTTT-AAGTCCACAACTCCATGGCACCCTTTTAAGTCCATAACTCCG-TGGCA-CCTTTTT
87842 AAGTCCACAACTCCGTGGC
63 AAGTCCACAACTCCGTGGC
* * * **
87861 ATCCTTTTAGGTCCACAAGTCTGTGGCACCCTTTTAA
1 AACCTTTTAAGTCCACAACTCCATGGCACCCTTTTAA
87898 AGCCTACAAG
Statistics
Matches: 333, Mismatches: 26, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
81 56 0.17
82 81 0.24
83 144 0.43
84 52 0.16
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.30
Consensus pattern (81 bp):
AACCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTAAG
TCCACAACTCCGTGGC
Found at i:87729 original size:110 final size:109
Alignment explanation
Indices: 87453--87897 Score: 538
Period size: 110 Copynumber: 4.1 Consensus size: 109
87443 TAGTGTAACC
* *
87453 TTTTAAGTCCACAACTCTGTGGCAACCTTTTAAGTCCACAACTCCATGGCAACGTTTTAAGTCCA
1 TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCATGGCAACCTTTTAAGTCCA
* * * **
87518 CAATTCTGTGGCAACCTTTTGAAGTCCACAACTCTATGGCAGCCCT
66 CAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCA--CCT
* *
87564 TTTTAAGTCCATAACACCGTGGC-ACCTTTTTAAGTCCACAACTCCATGGCAACCTTTTAAGTCC
1 TTTTAAGTCCACAACTCCGTGGCAACC-TTTTAAGTCCACAACTCCATGGCAACCTTTTAAGTCC
* * * * *
87628 ACAACTCCATGGCAGCCCTTTTTAAGTCCATAACACCGTGGCACCT
65 ACAACTCCGTGGCA-ACCTTTTAAAGTCCACAACTCCGTGGCACCT
*
87674 TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCATGGCCACCTTTTAAGTCCA
1 TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCATGGCAACCTTTTAAGTCCA
* * **
87739 TAACTTCGTGGCAACCTTTTAAAGTCCACAACTCCGTAGTAACCT
66 CAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGT-GGCACCT
* * * * *
87784 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACT--TTGCTGCATCCTTTTAAGTC
1 TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCATG--GCAACCTTTTAAGTC
* * * * *
87847 CACAACTCCGTGGCATCCTTTT-AGGTCCACAAGTCTGTGGCACCC
64 CACAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCACCT
87892 TTTTAA
1 TTTTAA
87898 AGCCTACAAG
Statistics
Matches: 287, Mismatches: 41, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
108 11 0.04
109 33 0.11
110 151 0.53
111 70 0.24
112 22 0.08
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (109 bp):
TTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCATGGCAACCTTTTAAGTCCA
CAACTCCGTGGCAACCTTTTAAAGTCCACAACTCCGTGGCACCT
Found at i:87915 original size:28 final size:28
Alignment explanation
Indices: 87832--88679 Score: 675
Period size: 28 Copynumber: 29.2 Consensus size: 28
87822 TAACTTTGCT
* * * *
87832 GCATCCTTT-TAAGTCCACAACTCCGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* * * *
87859 GCATCCTTT-TAGGTCCACAAGTCTGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* * * *
87886 GCACCCTTTTAAAGCCTACAAGTTAGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* *
87914 GCATCATTTTAAAGCCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* *
87942 GCAT-CTATTCAAAGCCCATAAGTTAGTG
1 GCATCCT-TTCAAAGCCCACAAGTCAGTG
*
87970 GCATCATTTCAAAGCCCACAAGTCA-TG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* *
87997 GCAACTCTTTTCAAAGCCCACACAAGTCGGTG
1 GC-A-TCCTTTCAAAG-CC-CACAAGTCAGTG
* * **
88029 GCAACTCATTTGAAAGCCCACACAAGTTGGTG
1 GC-A-TCCTTTCAAAG-CC-CACAAGTCAGTG
* *
88061 GCAACCCATTTAAAAGCCCACACAAGTCAGTG
1 GC-ATCC-TTTCAAAG-CC-CACAAGTCAGTG
*
88093 GCATCTTTTCAAAGCCCACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* *
88121 GCATCCTTTTTAAAAGCCCACAAGTCGGTG
1 GCATCC--TTTCAAAGCCCACAAGTCAGTG
** * *
88151 GCAACTTATTTCAAAGCCCAAAAGTCAGCG
1 GC-A-TCCTTTCAAAGCCCACAAGTCAGTG
* * *
88181 ACATCCATTCAAAGCCCACAAGTTAGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* *
88209 GCATCATTTCAAAGCCCACAAGTCGGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* * *
88237 GCATCATTTCAAAGCCCATACAATTCGGTG
1 GCATCCTTTCAAAGCCC--ACAAGTCAGTG
* * *
88267 GCAACTCATTTGAAAGCCCACACAAGTCGGTG
1 GC-A-TCCTTTCAAAG-CC-CACAAGTCAGTG
* * *
88299 GTAACCCATTTCAAAGCCCACAAAAGTCGGTG
1 G-CATCC-TTTCAAAGCCCAC--AAGTCAGTG
* * *
88331 GCAATCCATTCTAAGGCCCACAAGTCAGCG
1 GC-ATCCTTTC-AAAGCCCACAAGTCAGTG
*
88361 GCATCCTTTCAAAGCCCACAAGTTAGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
** *
88389 GCATCCTTCTCAAAGCCCATTAGTGAGTG
1 GCATCCTT-TCAAAGCCCACAAGTCAGTG
* *
88418 GCATCCTTTCAAAGCCCACACAAATTAGTG
1 GCATCCTTTCAAAG-CC-CACAAGTCAGTG
* * *
88448 GCATACTTTCAAAACCCATAA-TCAGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* *
88475 GTATCCTTTCAAAGCCTACAAGAT-AGTG
1 GCATCCTTTCAAAGCCCACAAG-TCAGTG
*
88503 GCATCCTTCTCAAAGCCCACAAGTTAGTG
1 GCATCCTT-TCAAAGCCCACAAGTCAGTG
* *
88532 GCATCCTTCTCAAAGCCCACACAAATTAGTG
1 GCATCCTT-TCAAAG-CC-CACAAGTCAGTG
* *
88563 GCATCTTTTCAAAGCCCACAAGTCAGTA
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
* *
88591 GTATCCTTTCAAAGCCGACAAGTCAGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
*
88619 GCATCCCTTCAAAGCCCACAAGGT-AGTG
1 GCATCCTTTCAAAGCCCACAA-GTCAGTG
* *
88647 GCATCATTTCAAAGCCCACAAGTCGGTG
1 GCATCCTTTCAAAGCCCACAAGTCAGTG
88675 GCATC
1 GCATC
88680 ATTTTTGTTA
Statistics
Matches: 680, Mismatches: 105, Indels: 71
0.79 0.12 0.08
Matches are distributed among these distances:
27 60 0.09
28 282 0.41
29 87 0.13
30 102 0.15
31 37 0.05
32 109 0.16
33 2 0.00
34 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (28 bp):
GCATCCTTTCAAAGCCCACAAGTCAGTG
Found at i:87934 original size:137 final size:134
Alignment explanation
Indices: 87450--87897 Score: 524
Period size: 137 Copynumber: 3.3 Consensus size: 134
87440 TAGTAGTGTA
*
87450 ACCTTTTAAGTCCACAACTCTGTGGCAACCTTTTAAGTCCACAACTCCATGGCAACGTTTT-AAG
1 ACCTTTTAAGTCCACAACTCTGTGGCAACCTTTTAAGTCCACAACTCCATGGCAACCTTTTAAAG
* * * * *
87514 TCCACAATTCTGTGGCAACCTTTTGAAGTCCACAACTCTATG-GCAGCCCTTTTTAAGTCCATAA
66 TCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACT-T-TGTGCA-ACC-TTTTAAGTCCACAA
*
87578 CACCGTGGC
126 CTCCGTGGC
** * *
87587 ACCTTTTTAAGTCCACAACTCCATGGCAACCTTTTAAGTCCACAACTCCATGGCAGCCCTTTTTA
1 ACC-TTTTAAGTCCACAACTCTGTGGCAACCTTTTAAGTCCACAACTCCATGGCA-ACCTTTTAA
* * * **
87652 AGTCCATAACACCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACT
64 AGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTTGT-GCAACCTTTTAAGTCCACAACT
*
87717 CCATGGCC
128 CCGTGG-C
* * * *
87725 ACCTTTTAAGTCCATAACT-TCGTGGCAACCTTTTAAAGTCCACAACTCCGTAGTAACCTTTTAA
1 ACCTTTTAAGTCCACAACTCT-GTGGCAACCTTTT-AAGTCCACAACTCCATGGCAACCTTTTAA
* *
87789 AGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTTTGCTGCATCCTTTTAAGTCCACAACT
64 AGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTTG-TGCAACCTTTTAAGTCCACAACT
87854 CCGTGGC
128 CCGTGGC
* * *
87861 ATCCTTTTAGGTCCACAAGTCTGTGGCACCCTTTTAA
1 A-CCTTTTAAGTCCACAACTCTGTGGCAACCTTTTAA
87898 AGCCTACAAG
Statistics
Matches: 264, Mismatches: 36, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
136 4 0.02
137 145 0.55
138 74 0.28
139 20 0.08
140 21 0.08
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.30
Consensus pattern (134 bp):
ACCTTTTAAGTCCACAACTCTGTGGCAACCTTTTAAGTCCACAACTCCATGGCAACCTTTTAAAG
TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTTGTGCAACCTTTTAAGTCCACAACTCCG
TGGC
Found at i:88045 original size:32 final size:32
Alignment explanation
Indices: 87917--88380 Score: 341
Period size: 32 Copynumber: 15.5 Consensus size: 32
87907 GTTAGTGGCA
* * *
87917 TCATTTTAAAG-CC-CACAAGTCAGTGGCATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* **
87947 T-A-TTCAAAG-CC-CATAAGTTAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
87973 TCATTTCAAAG-CC-CACAAGTC-ATGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
88002 TCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
88034 TCATTTGAAAGCCCACACAAGTTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
88066 CCATTTAAAAGCCCACACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
88096 TCTTTTCAAAG-CC-CACAAGTCAGTGGCATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
88126 -CTTTTTAAAAG-CC-CACAAGTCGGTGGCAAC
1 TC-ATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * *
88156 TTATTTCAAAGCCCA-A-AAGTCAGCGACATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
**
88186 -CA-TTCAAAG-CC-CACAAGTTAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
88212 TCATTTCAAAG-CC-CACAAGTCGGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
88240 TCATTTCAAAGCCCATACAATTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
88272 TCATTTGAAAGCCCACACAAGTCGGTGGTAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
88304 CCATTTCAAAGCCCACAAAAGTCGGTGGCAA-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
88335 TCCA-TTCTAAGGCC-CACAAGTCAGCGGC-A-
1 T-CATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
88364 TCCTTTCAAAGCCCACA
1 TCATTTCAAAGCCCACA
88381 AGTTAGTGGC
Statistics
Matches: 354, Mismatches: 56, Indels: 48
0.77 0.12 0.10
Matches are distributed among these distances:
26 1 0.00
27 10 0.03
28 99 0.28
29 27 0.08
30 78 0.22
31 21 0.06
32 118 0.33
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (32 bp):
TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
Found at i:88377 original size:238 final size:235
Alignment explanation
Indices: 87873--88683 Score: 787
Period size: 238 Copynumber: 3.5 Consensus size: 235
87863 CCTTTTAGGT
* * * * * * *
87873 CCACAAGTCTGTGGCACCCTTTTAAAGCCTACAAGTTAGTGGC-A-TCATTTTAAAGCCCACAAG
1 CCACAAGTCAGTGGCATCCTTTAAAAGCCCACAAGTTAGTGGCAACTTATTTCAAAGCCCAAAAG
* * *
87936 TCAGTGGCATCTATTCAAAGCCCATAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCATGGCAA
66 TCAGTGGCATCCATTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCGTGGC-A
* *
88001 CTCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGCAAC
130 -TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAAC
* **
88066 CCATTTAAAAGCCCACACAAGTCAGTGGCATCTTTTCAAAGC
194 CCATTTAAAAGCCCACAAAAGTCAGTGGCATCCATTCAAAGC
**
88108 CCACAAGTCAGTGGCATCCTTTTTAAAAGCCCACAAGTCGGTGGCAACTTATTTCAAAGCCCAAA
1 CCACAAGTCAGTGGCATCC--TTTAAAAGCCCACAAGTTAGTGGCAACTTATTTCAAAGCCCAAA
* *
88173 AGTCAGCGACATCCATTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCGGTGG
64 AGTCAGTGGCATCCATTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTC-GTGG
* * *
88238 CATCATTTCAAAGCCCATACAATTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGTAA
128 CATCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAA
* * *
88303 CCCATTTCAAAGCCCACAAAAGTCGGTGGCAATCCATTCTAAGGC
193 CCCATTTAAAAGCCCACAAAAGTCAGTGGC-ATCCATTC-AAAGC
* * * * * **
88348 CCACAAGTCAGCGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCCT-TCTCAAAGCCCATTAG
1 CCACAAGTCAGTGGCATCCTTTAAAAGCCCACAAGTTAGTGGCAACTTATTTCAAAGCCCAAAAG
* * * * *
88412 TGAGTGGCATCCTTTCAAAGCCCACACAAATTAGTGGCAT-ACTTTCAAAACCCATAA-TCAGTG
66 TCAGTGGCATCCATTCAAAG-CC-CACAAGTTAGTGGCATCA-TTTCAAAGCCCACAAGTC-GTG
* * * * * * **
88475 GTATCCTTTCAAAG-CC-TACAAGAT-AGTGGC-A-TCCTTCTCAAAG-CC-CACAAGTTAGTGG
127 GCATCATTTCAAAGCCCACACAAG-TCGGTGGCAACTCATT-TGAAAGCCCACACAAGTCGGTGG
* * * **
88533 C-ATCC-TTCTCAAAGCCCACACAAA-TTAGTGGCATCTTTTCAAAGC
190 CAACCCATT-TAAAAGCCCACA-AAAGTCAGTGGCATCCATTCAAAGC
* * * * * *** *
88578 CCACAAGTCAGTAGTATCCTTTCAAAGCCGACAAGTCAGTGGC-A-TCCCTTCAAAGCCCACAAG
1 CCACAAGTCAGTGGCATCCTTTAAAAGCCCACAAGTTAGTGGCAACTTATTTCAAAGCCCA-AAA
**
88641 GT-AGTGGCAT-CATTTCAAAGCCCACAAGTCGGTGGCATCATTT
65 GTCAGTGGCATCCA-TTCAAAGCCCACAAGTTAGTGGCATCATTT
88684 TTGTTAGTAT
Statistics
Matches: 484, Mismatches: 74, Indels: 44
0.80 0.12 0.07
Matches are distributed among these distances:
227 16 0.03
228 4 0.01
229 25 0.05
230 44 0.09
231 8 0.02
232 21 0.04
233 14 0.03
234 6 0.01
235 23 0.05
236 10 0.02
237 52 0.11
238 130 0.27
239 105 0.22
240 26 0.05
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (235 bp):
CCACAAGTCAGTGGCATCCTTTAAAAGCCCACAAGTTAGTGGCAACTTATTTCAAAGCCCAAAAG
TCAGTGGCATCCATTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCGTGGCAT
CATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCC
ATTTAAAAGCCCACAAAAGTCAGTGGCATCCATTCAAAGC
Found at i:88544 original size:143 final size:143
Alignment explanation
Indices: 87873--88679 Score: 516
Period size: 143 Copynumber: 5.5 Consensus size: 143
87863 CCTTTTAGGT
* * * * * *
87873 CCACAAGTCTGTGGCA-CCCTTTTAAAGCCTACAAGTTAGTGGCATCATTTTAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCCC-TTCAAAGCCCACAAGATAGTGGCATCCTTTCAAAGCCCACAAGT
* * * * * * *
87937 CAGTGGCAT-CTAT-TCAAAG-CC-CATAAGTTAGTGGCATCATTTCAAAGCCCACAAGTCA-TG
65 TAGTGGCATCCT-TCTCAAAGCCCACACAAATGAGTGGCATCCTTTCAAAGCCCACAAATCAGTA
*
87997 GCA-ACTCTTTTCAAAGCC
129 GCATA--C-TTTCAAA-AC
* ** * * * * *
88015 CACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTAAAAGCCC
1 C-CACAAGTCAGTGGC-A-TCCCTTCAAAG-CC-CACAAGATAGTGGC-ATCC-TTTCAAAG-CC
* * * * *
88080 ACACAAGTCAGTGGCAT-CTTTTCAAAG-CC-CACAAGTCAGTGGCATCCTTTTTAAAAGCCCAC
58 -CACAAGTTAGTGGCATCCTTCTCAAAGCCCACACAAATGAGTGGCATCC--TTTCAAAGCCCAC
* * * *
88142 AAGTCGGTGGCA-ACTTATTTCAAAGC
120 AAATCAGTAGCATAC---TTTCAAAAC
* * * * * * *
88168 CCAAAAGTCAGCGACATCCATTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTC
1 CCACAAGTCAGTGGCATCCCTTCAAAGCCCACAAGATAGTGGCATCCTTTCAAAGCCCACAAGTT
* * * * * * *
88233 GGTGGCATCATT-TCAAAGCCCATACAATTCG-GTGGCAACTCATTTGAAAGCCCACACAAGTCG
66 AGTGGCATCCTTCTCAAAGCCCACACAAAT-GAGTGGC-A-TCCTTTCAAAGCCCACA-AA-TCA
* * *
88296 GTGGTA-ACCCATTTCAAAGC
126 GTAGCATA--C-TTTCAAAAC
* * * *
88316 CCACAAAAGTCGGTGGCAATCCATTCTAAGGCCCACAAG-TCAGCGGCATCCTTTCAAAGCCCAC
1 CCAC--AAGTCAGTGGC-ATCCCTTC-AAAGCCCACAAGAT-AGTGGCATCCTTTCAAAGCCCAC
** *
88380 AAGTTAGTGGCATCCTTCTCAAAG-CC-CATTAGTGAGTGGCATCCTTTCAAAGCCCACACAAAT
61 AAGTTAGTGGCATCCTTCTCAAAGCCCACACAAATGAGTGGCATCCTTTCAAAG-CC-CACAAAT
* *
88443 TAGTGGCATACTTTCAAAAC
124 CAGTAGCATACTTTCAAAAC
* * * *
88463 CCATAA-TCAGTGGTATCCTTTCAAAGCCTACAAGATAGTGGCATCCTTCTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCCCTTCAAAGCCCACAAGATAGTGGCATCCTT-TCAAAGCCCACAAGT
* * *
88527 TAGTGGCATCCTTCTCAAAGCCCACACAAATTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTAG
65 TAGTGGCATCCTTCTCAAAGCCCACACAAATGAGTGGCATCCTTTCAAAGCCCACAAATCAGTAG
* * *
88592 TATCCTTTCAAAGC
130 CATACTTTCAAAAC
* * * *
88606 CGACAAGTCAGTGGCATCCCTTCAAAGCCCACAAGGTAGTGGCATCATTTCAAAGCCCACAAGTC
1 CCACAAGTCAGTGGCATCCCTTCAAAGCCCACAAGATAGTGGCATCCTTTCAAAGCCCACAAGTT
*
88671 GGTGGCATC
66 AGTGGCATC
88680 ATTTTTGTTA
Statistics
Matches: 541, Mismatches: 83, Indels: 81
0.77 0.12 0.11
Matches are distributed among these distances:
142 22 0.04
143 104 0.19
144 69 0.13
145 35 0.06
146 33 0.06
147 27 0.05
148 40 0.07
149 24 0.04
150 27 0.05
151 63 0.12
152 59 0.11
153 25 0.05
154 13 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (143 bp):
CCACAAGTCAGTGGCATCCCTTCAAAGCCCACAAGATAGTGGCATCCTTTCAAAGCCCACAAGTT
AGTGGCATCCTTCTCAAAGCCCACACAAATGAGTGGCATCCTTTCAAAGCCCACAAATCAGTAGC
ATACTTTCAAAAC
Found at i:89013 original size:13 final size:13
Alignment explanation
Indices: 88995--89019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88985 ATAATGCACA
88995 GTATCGATACATT
1 GTATCGATACATT
89008 GTATCGATACAT
1 GTATCGATACAT
89020 GACCACTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:89143 original size:82 final size:82
Alignment explanation
Indices: 89006--89157 Score: 277
Period size: 82 Copynumber: 1.9 Consensus size: 82
88996 TATCGATACA
89006 TTGTATCGATACATGACCACTATATCGATACTTGAAAAGAATGTATCGATACAGGTGATTGGCAA
1 TTGTATCGATACATGACCACTATATCGATACTTGAAAAGAATGTATCGATACAGGTGATTGGCAA
89071 TAGCTACCCTTAATTGT
66 TAGCTACCCTTAATTGT
* * *
89088 TTGTATCGATACATGACCACTGTATCGATACTTGCAAAGAATGTATCGATACAGGTGATTGGCAG
1 TTGTATCGATACATGACCACTATATCGATACTTGAAAAGAATGTATCGATACAGGTGATTGGCAA
89153 TAGCT
66 TAGCT
89158 TGGCAGTAGC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (82 bp):
TTGTATCGATACATGACCACTATATCGATACTTGAAAAGAATGTATCGATACAGGTGATTGGCAA
TAGCTACCCTTAATTGT
Found at i:89222 original size:32 final size:33
Alignment explanation
Indices: 89181--89248 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
89171 CCTTAACTGT
*
89181 TTGTATCGATACAT-A-CAAGATGTATCGTTACA
1 TTGTATCGATACATGACCAA-ATGTATCGATACA
89213 TTGTATCGATACATGACCAAATGTATCGATACA
1 TTGTATCGATACATGACCAAATGTATCGATACA
89246 TTG
1 TTG
89249 GATTGTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 16 0.48
34 3 0.09
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGACCAAATGTATCGATACA
Found at i:97523 original size:13 final size:13
Alignment explanation
Indices: 97505--97529 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97495 ATAATGCACA
97505 GTATCGATACATT
1 GTATCGATACATT
97518 GTATCGATACAT
1 GTATCGATACAT
97530 GACCACTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:97625 original size:93 final size:93
Alignment explanation
Indices: 97516--97715 Score: 328
Period size: 93 Copynumber: 2.2 Consensus size: 93
97506 TATCGATACA
* *
97516 TTGTATCGATACATGACCACTATATAGATACTTGCAAAGAATGTATCGATACAAGTGATTGGCAG
1 TTGTATCGATACATGACCACTATATAGATACTTACAAAGAATGTATCGATACAAGCGATTGGCAG
* *
97581 TAGCTTGGTAGTAGCTACCCTTAATTGT
66 TAGCTTGGCAGTAGCTACCCTTAACTGT
* * *
97609 TTGTATCGATACATGACCACTGTATTGATACTTACAAAGAATGTATCGATACAGGCGATTGGCAG
1 TTGTATCGATACATGACCACTATATAGATACTTACAAAGAATGTATCGATACAAGCGATTGGCAG
97674 TAGCTTGGCAGTAGCTACCCTTAACTGT
66 TAGCTTGGCAGTAGCTACCCTTAACTGT
*
97702 TTGTATCTATACAT
1 TTGTATCGATACAT
97716 ACAAGATGTA
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 99 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (93 bp):
TTGTATCGATACATGACCACTATATAGATACTTACAAAGAATGTATCGATACAAGCGATTGGCAG
TAGCTTGGCAGTAGCTACCCTTAACTGT
Found at i:97740 original size:13 final size:13
Alignment explanation
Indices: 97722--97747 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
97712 ACATACAAGA
97722 TGTATCGATACAT
1 TGTATCGATACAT
97735 TGTATCGATACAT
1 TGTATCGATACAT
97748 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:97763 original size:33 final size:32
Alignment explanation
Indices: 97702--97769 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
97692 CCTTAACTGT
*
97702 TTGTATCTATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
97734 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
97767 TTG
1 TTG
97770 GCTTGTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 17 0.52
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:98598 original size:33 final size:32
Alignment explanation
Indices: 98508--98680 Score: 155
Period size: 32 Copynumber: 5.6 Consensus size: 32
98498 TGAGCTTTCA
* * * *
98508 ATTTCAAAGCGCACACAATTCGGTGGCAACTC
1 ATTTCAAAGCCCACAAAAGTCGGTGGCAACCC
* *
98540 ATTTGAAAGCCCACACAAGTCGGTGGCAACCC
1 ATTTCAAAGCCCACAAAAGTCGGTGGCAACCC
* *
98572 TATTTCAAAACCCACAAAAGTTGGTGGCAACCC
1 -ATTTCAAAGCCCACAAAAGTCGGTGGCAACCC
* * *
98605 ATTCCAAAGCCCAC--AAGTCAGTGGC-ATCC
1 ATTTCAAAGCCCACAAAAGTCGGTGGCAACCC
* *
98634 -TTTCAAAGCCCAC--AAGTCAGTGGCATCCC
1 ATTTCAAAGCCCACAAAAGTCGGTGGCAACCC
*
98663 --TTCAAAGCCCACATAAGT
1 ATTTCAAAGCCCACAAAAGT
98681 TAGTGGCACC
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
28 35 0.29
29 5 0.04
30 13 0.11
32 40 0.33
33 28 0.23
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (32 bp):
ATTTCAAAGCCCACAAAAGTCGGTGGCAACCC
Found at i:98642 original size:28 final size:28
Alignment explanation
Indices: 98609--98693 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 28
98599 CAACCCATTC
98609 CAAAGCCCACAAGTCAGTGGCATCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
*
98637 CAAAGCCCACAAGTCAGTGGCATCCCTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
*
98665 CAAAGCCCACATAAGTTAGTGGCA-CCTTT
1 CAAAGCCCAC--AAGTCAGTGGCATCCTTT
98694 TTTTAAAACC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 37 0.71
29 4 0.08
30 11 0.21
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCATCCTTT
Found at i:99634 original size:20 final size:20
Alignment explanation
Indices: 99611--99685 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
99601 TTCATTCTTC
99611 AATGTATCGATACATATATG
1 AATGTATCGATACATATATG
*
99631 AATGTATGGATACATATATG
1 AATGTATCGATACATATATG
* * * *
99651 AATATATTGATACAT-TCTTC
1 AATGTATCGATACATAT-ATG
99671 AATGTATCGATACAT
1 AATGTATCGATACAT
99686 TCTGTTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 1 0.02
20 46 0.98
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATATATG
Found at i:99686 original size:20 final size:20
Alignment explanation
Indices: 99591--99688 Score: 83
Period size: 20 Copynumber: 4.9 Consensus size: 20
99581 AAAGTACCCA
* *
99591 AATGTATCAATTCATTCTTC
1 AATGTATCGATACATTCTTC
* *
99611 AATGTATCGATACATAT-ATG
1 AATGTATCGATACAT-TCTTC
* * *
99631 AATGTATGGATACATAT-ATG
1 AATGTATCGATACAT-TCTTC
* *
99651 AATATATTGATACATTCTTC
1 AATGTATCGATACATTCTTC
99671 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
99689 GTTTTTTTAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.02
20 63 0.97
21 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:103406 original size:13 final size:13
Alignment explanation
Indices: 103387--103426 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
103377 ATTGTAACCC
103387 ATGTATCGATACA
1 ATGTATCGATACA
* *
103400 TTGTATCAATACA
1 ATGTATCGATACA
*
103413 ATGGATCGATACA
1 ATGTATCGATACA
103426 A
1 A
103427 AGAACATTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:110888 original size:18 final size:18
Alignment explanation
Indices: 110862--110901 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
110852 TTTTCTAGTA
* *
110862 CATGCTCATAATAAGGAT
1 CATGATCATAAGAAGGAT
*
110880 CATGATCATAAGAAGGGT
1 CATGATCATAAGAAGGAT
110898 CATG
1 CATG
110902 TAATAACATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (18 bp):
CATGATCATAAGAAGGAT
Found at i:119301 original size:13 final size:13
Alignment explanation
Indices: 119283--119316 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
119273 AACGAAGGTG
119283 GTTACATTGTCGA
1 GTTACATTGTCGA
119296 GTTACATTGTCGA
1 GTTACATTGTCGA
119309 GTTACATT
1 GTTACATT
119317 CTCAAGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.41
Consensus pattern (13 bp):
GTTACATTGTCGA
Found at i:123205 original size:42 final size:42
Alignment explanation
Indices: 123158--123248 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
123148 TACAATAAGA
* *
123158 AATGTATCAATACAATTGTAAGCATCTATTGATACATTGACT
1 AATGTATCAATACAATTATAAGCATCTATCGATACATTGACT
* *
123200 AATGTATCAATATAATTATAAGCATGTATCGATACATTGACT
1 AATGTATCAATACAATTATAAGCATCTATCGATACATTGACT
123242 AATGTAT
1 AATGTAT
123249 TGATGCATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (42 bp):
AATGTATCAATACAATTATAAGCATCTATCGATACATTGACT
Found at i:124472 original size:13 final size:13
Alignment explanation
Indices: 124454--124479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
124444 TAATTTTTTG
124454 TGTATCGATACAT
1 TGTATCGATACAT
124467 TGTATCGATACAT
1 TGTATCGATACAT
124480 ACTCGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:127054 original size:13 final size:13
Alignment explanation
Indices: 127038--127073 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
127028 ATCCCCCTAT
*
127038 ATCGATACAGTGC
1 ATCGATACAATGC
*
127051 ATCGATACAATGT
1 ATCGATACAATGC
127064 ATCGATACAA
1 ATCGATACAA
127074 AGAAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (13 bp):
ATCGATACAATGC
Found at i:127084 original size:20 final size:20
Alignment explanation
Indices: 127059--127137 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
127049 GCATCGATAC
127059 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
**
127079 AATGTATCGATACATTGAATTTCA
1 AATGTATCGATACAAAGAA----A
*
127103 AGATGTATCGATACACAGAAA
1 A-ATGTATCGATACAAAGAAA
*
127124 CATGTATCGATACA
1 AATGTATCGATACA
127138 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
20 30 0.61
21 1 0.02
24 2 0.04
25 16 0.33
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:133246 original size:13 final size:13
Alignment explanation
Indices: 133228--133253 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
133218 CAATTTTTTG
133228 TGTATCGATACAT
1 TGTATCGATACAT
133241 TGTATCGATACAT
1 TGTATCGATACAT
133254 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:133268 original size:32 final size:33
Alignment explanation
Indices: 133208--133271 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
133198 TACAAGCCAA
** *
133208 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
133241 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
133272 GGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:136892 original size:19 final size:18
Alignment explanation
Indices: 136863--136899 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
136853 GAACATGGAG
*
136863 AGAAAAAAAAAGAAATGA
1 AGAAAAAAAAAAAAATGA
136881 AGAAAGAAAAAAAAAATGA
1 AGAAA-AAAAAAAAAATGA
136900 TAGATGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (18 bp):
AGAAAAAAAAAAAAATGA
Found at i:137477 original size:43 final size:44
Alignment explanation
Indices: 137397--137482 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 44
137387 CACCAGCAAC
* * *
137397 AACAGCAAGTAATGACAAGCAAGCAAGCAACAAAACCA-ACAGT
1 AACAACAAGCAATGACAAGCAAGCAAGAAACAAAACCATACAGT
* *
137440 AACAACAAGCAATGGCAAGCAAGCAA-AAACAGCAACCATACAG
1 AACAACAAGCAATGACAAGCAAGCAAGAAACA-AAACCATACAG
137483 CAAGCAACCC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 4 0.11
43 28 0.78
44 4 0.11
ACGTcount: A:0.53, C:0.24, G:0.16, T:0.06
Consensus pattern (44 bp):
AACAACAAGCAATGACAAGCAAGCAAGAAACAAAACCATACAGT
Found at i:139539 original size:155 final size:154
Alignment explanation
Indices: 139086--139693 Score: 557
Period size: 155 Copynumber: 3.9 Consensus size: 154
139076 ATTACCAATT
* * * * * ** *
139086 CTCTTTAAGTCTTTTATGGGTA-CTAGGTACTTTTATGTTGAAAGTATCCCCTAGGGAAATTTTT
1 CTCTTTAAGTCTTTTAGGGGTATC-GGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTC
* * * * * * *
139150 GTAATTTTTCAAAATCGAG-CCATTGGTTGTCACCGAGTTCGCTTATAAGCCA-AAGGTGGGTAG
65 ATAATTTTTCAAAATCGAGTCC-TAGGTTGTCACC-AGGTCGCTTATATG-CAGAAGGTAGATAT
* * *
139213 TTAGGATAGATTCATCCCAT-T-TCAAGC
127 TTAGGATAGATTCATCTCATCTAT-TATC
* * * * * * *
139240 CTTTTTAAGTCGTTTGGGGGTATCTGGTACTTTTACGTCAAAGGTATCCCCTAAGGTCATTTTCA
1 CTCTTTAAGTCTTTTAGGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCA
* * * *
139305 TAATTTTTTTAAAATCGAGTCCTAGGTTGTCACCAGGTCCACTTTTATGCCGAAGGTAGATATTT
66 TAA-TTTTTCAAAATCGAGTCCTAGGTTGTCACCAGGT-CGCTTATATGCAGAAGGTAGATATTT
* * *
139370 AGCATAGGTGCATCTCATCTATTATC
129 AGGATAGATTCATCTCATCTATTATC
* *
139396 CTCTTTAAGTCTTTTAGGGGTATCGGGTACTTTTACGTCGAAGGCATCCCTTAGGGGCATTTTCA
1 CTCTTTAAGTCTTTTAGGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCA
* * *
139461 TAATTTTTCAAAATTGAGTCTTAGGTTGTCACCAGGTCTGCTTATATGAAGAAGGTAGATATTTA
66 TAATTTTTCAAAATCGAGTCCTAGGTTGTCACCAGGTC-GCTTATATGCAGAAGGTAGATATTTA
139526 GGATAGATTCATCTCATCTATTATC
130 GGATAGATTCATCTCATCTATTATC
* * * * * * * *** *
139551 TTTTTTTAGTCCTTTATGGGTATTGAGTACTTTTACGTCGAAGGTATCTTATTA-GGGCATTTTT
1 CTCTTTAAGTCTTTTAGGGGTATCGGGTACTTTTACGTCGAAGGTATC-CCCTAGGGGCATTTTC
* * * * **
139615 GTAATTTTTCAAAA-CTGAGTCCTAGGTTGTCACCAAGTTCGCTTTTATGCCA-AAGGTGGGCAT
65 ATAATTTTTCAAAATC-GAGTCCTAGGTTGTCACC-AGGTCGCTTATATG-CAGAAGGTAGATAT
*
139678 TTAGGATAGGTTCATC
127 TTAGGATAGATTCATC
139694 CCATTTCAAA
Statistics
Matches: 372, Mismatches: 70, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
154 57 0.15
155 242 0.65
156 72 0.19
157 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (154 bp):
CTCTTTAAGTCTTTTAGGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCA
TAATTTTTCAAAATCGAGTCCTAGGTTGTCACCAGGTCGCTTATATGCAGAAGGTAGATATTTAG
GATAGATTCATCTCATCTATTATC
Found at i:139648 original size:310 final size:310
Alignment explanation
Indices: 139086--139671 Score: 684
Period size: 310 Copynumber: 1.9 Consensus size: 310
139076 ATTACCAATT
* * * * **
139086 CTCTTTAAGTCTTTTATGGGTACTAGGTACTTTTATGTTGAAAGTATCCCCTAGGGAAATTTTTG
1 CTCTTTAAGTCTTTTAGGGGTACTAGGTACTTTTACGTCGAAAGCATCCCCTAGGGAAATTTTCA
* * * *
139151 TAATTTTTCAAAATCGAGCCATTGGTTGTCACCGAGTTCGCTTATAAGCCAAAGGTGGGTAGTTA
66 TAATTTTTCAAAATCGAGCCATTGGTTGTCACCGAGGTCGCTTATAAGCAAAAGGTAGATAGTTA
* *
139216 GGATAGATTCATCCCATTTCAAGCCTTTTTAAGTCGTTTGGGGGTATCTGGTACTTTTACGTCAA
131 GGATAGATTCATCCCATTTCAAGCCTTTTTAAGTCCTTTAGGGGTATCTGGTACTTTTACGTCAA
* * * *
139281 AGGTATCCCCTAAGGTCATTTTCATAATTTTTTTAAAATCGAGTCCTAGGTTGTCACCAGGTCCA
196 AGGTATCCCATAAGGGCATTTTCATAATTTTTTCAAAATCGAGTCCTAGGTTGTCACCAAGTCCA
*
139346 CTTTTATGCCGAAGGTAGATATTTAGCATAGGTGCATCTCATCTATTATC
261 CTTTTATGCCAAAGGTAGATATTTAGCATAGGTGCATCTCATCTATTATC
* * * **
139396 CTCTTTAAGTCTTTTAGGGGTA-TCGGGTACTTTTACGTCGAAGGCATCCCTTAGGGGCATTTTC
1 CTCTTTAAGTCTTTTAGGGGTACT-AGGTACTTTTACGTCGAAAGCATCCCCTAGGGAAATTTTC
* * *
139460 ATAATTTTTCAAAATTGAGTC-TTAGGTTGTCACC-AGGTCTGCTTATATG-AAGAAGGTAGATA
65 ATAATTTTTCAAAATCGAGCCATT-GGTTGTCACCGAGGTC-GCTTATAAGCAA-AAGGTAGATA
* * * * * * *
139522 TTTAGGATAGATTCATCTCATCTAT-TATCTTTTTTTAGTCCTTTATGGGTAT-TGAGTACTTTT
127 GTTAGGATAGATTCATCCCAT-T-TCAAGCCTTTTTAAGTCCTTTAGGGGTATCTG-GTACTTTT
* ** * **
139585 ACGTCGAAGGTATCTTATTAGGGCATTTTTGTAA-TTTTTCAAAA-CTGAGTCCTAGGTTGTCAC
189 ACGTCAAAGGTATCCCATAAGGGCATTTTCATAATTTTTTCAAAATC-GAGTCCTAGGTTGTCAC
* *
139648 CAAGTTCGCTTTTATGCCAAAGGT
253 CAAGTCCACTTTTATGCCAAAGGT
139672 GGGCATTTAG
Statistics
Matches: 228, Mismatches: 40, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
309 9 0.04
310 163 0.71
311 55 0.24
312 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (310 bp):
CTCTTTAAGTCTTTTAGGGGTACTAGGTACTTTTACGTCGAAAGCATCCCCTAGGGAAATTTTCA
TAATTTTTCAAAATCGAGCCATTGGTTGTCACCGAGGTCGCTTATAAGCAAAAGGTAGATAGTTA
GGATAGATTCATCCCATTTCAAGCCTTTTTAAGTCCTTTAGGGGTATCTGGTACTTTTACGTCAA
AGGTATCCCATAAGGGCATTTTCATAATTTTTTCAAAATCGAGTCCTAGGTTGTCACCAAGTCCA
CTTTTATGCCAAAGGTAGATATTTAGCATAGGTGCATCTCATCTATTATC
Found at i:139759 original size:60 final size:60
Alignment explanation
Indices: 139666--139786 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
139656 CTTTTATGCC
*
139666 AAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCAAACCTTTCTAAGTCCTTTAGGAGT
1 AAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCAAACCTTTCTAAGTCCCTTAGGAGT
*
139726 AAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCAAACCTTTCTATGTCCCTTAGGAGT
1 AAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCAAACCTTTCTAAGTCCCTTAGGAGT
139786 A
1 A
139787 TCGGGTACTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (60 bp):
AAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCAAACCTTTCTAAGTCCCTTAGGAGT
Found at i:140081 original size:202 final size:202
Alignment explanation
Indices: 139735--140134 Score: 782
Period size: 202 Copynumber: 2.0 Consensus size: 202
139725 TAAAGGTGGG
139735 CATTTAGGATAGGTTCATCCCATTTCAAACCTTTCTATGTCCCTTAGGAGTATCGGGTACTTTTA
1 CATTTAGGATAGGTTCATCCCATTTCAAACCTTTCTATGTCCCTTAGGAGTATCGGGTACTTTTA
139800 CGTTAAAGGTATCCCCTAGGAGCATTTTCATAATTTTCCTACAAAACTAAATCATAGGTAACTGC
66 CGTTAAAGGTATCCCCTAGGAGCATTTTCATAATTTTCCTACAAAACTAAATCATAGGTAACTGC
*
139865 CTAGTCCACTTTCACGTCGAGGGTGGGTATTAGGAATAGGTTCATCTTTTTTGTAAATTTTATTT
131 CTAGTCCACTTTCACGTCGAGGGTGGGTATTAGGAATAGGTTCATCTTTTTTGCAAATTTTATTT
139930 TTAAAGA
196 TTAAAGA
*
139937 CATTTAGGATAGGTTCATCCCATTTCAAACCTTTCTATGTCCTTTAGGAGTATCGGGTACTTTTA
1 CATTTAGGATAGGTTCATCCCATTTCAAACCTTTCTATGTCCCTTAGGAGTATCGGGTACTTTTA
140002 CGTTAAAGGTATCCCCTAGGAGCATTTTCATAATTTTCCTACAAAACTAAATCATAGGTAACTGC
66 CGTTAAAGGTATCCCCTAGGAGCATTTTCATAATTTTCCTACAAAACTAAATCATAGGTAACTGC
140067 CTAGTCCACTTTCACGTCGAGGGTGGGTATTAGGAATAGGTTCATCTTTTTTGCAAATTTTATTT
131 CTAGTCCACTTTCACGTCGAGGGTGGGTATTAGGAATAGGTTCATCTTTTTTGCAAATTTTATTT
140132 TTA
196 TTA
140135 TGTCTTTAAA
Statistics
Matches: 196, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
202 196 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (202 bp):
CATTTAGGATAGGTTCATCCCATTTCAAACCTTTCTATGTCCCTTAGGAGTATCGGGTACTTTTA
CGTTAAAGGTATCCCCTAGGAGCATTTTCATAATTTTCCTACAAAACTAAATCATAGGTAACTGC
CTAGTCCACTTTCACGTCGAGGGTGGGTATTAGGAATAGGTTCATCTTTTTTGCAAATTTTATTT
TTAAAGA
Found at i:141815 original size:79 final size:79
Alignment explanation
Indices: 141732--141891 Score: 293
Period size: 79 Copynumber: 2.0 Consensus size: 79
141722 CTTAATAAAG
*
141732 TAATTCACGCATTCTCCCCTTTATCTCTCCCGTTTATTAATAATTCTCCCCCTTAATCAAGTAAT
1 TAATTCACGCATTCTCCCCTTTATCTCCCCCGTTTATTAATAATTCTCCCCCTTAATCAAGTAAT
141797 TCATATCAAAAATT
66 TCATATCAAAAATT
* *
141811 TAATTCACGCATTCTCCCCTTTATCTCCCCCGTTTATTAATAGTTGTCCCCCTTAATCAAGTAAT
1 TAATTCACGCATTCTCCCCTTTATCTCCCCCGTTTATTAATAATTCTCCCCCTTAATCAAGTAAT
141876 TCATATCAAAAATT
66 TCATATCAAAAATT
141890 TA
1 TA
141892 TTTGCACATA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.29, C:0.28, G:0.05, T:0.39
Consensus pattern (79 bp):
TAATTCACGCATTCTCCCCTTTATCTCCCCCGTTTATTAATAATTCTCCCCCTTAATCAAGTAAT
TCATATCAAAAATT
Found at i:145789 original size:15 final size:15
Alignment explanation
Indices: 145769--145799 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
145759 ATTTCGTTTG
*
145769 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
145784 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
145799 G
1 G
145800 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:147620 original size:21 final size:21
Alignment explanation
Indices: 147591--147635 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
147581 AAGTTTTCAT
*
147591 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
147611 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
147633 TTT
1 TTT
147636 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:152468 original size:4 final size:4
Alignment explanation
Indices: 152433--152483 Score: 54
Period size: 4 Copynumber: 13.0 Consensus size: 4
152423 ATTTCATTAT
*
152433 ATAA A-AA AGTAA ATACA ATGA A-AA AT-A ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA A-TAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
152480 ATAA
1 ATAA
152484 TTGCCCTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
3 8 0.20
4 26 0.65
5 6 0.15
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:153000 original size:152 final size:152
Alignment explanation
Indices: 152585--153263 Score: 571
Period size: 153 Copynumber: 4.4 Consensus size: 152
152575 CGGTTGTGGA
* * * * * * * * * *
152585 AAAATTACAAAAATACCTTTAAGTATACCTTCGACATAAAAATATCCCGGTAACCTTAAAGGATG
1 AAAATTACCAAAATGCCTTTAGGTATACTTTCGACGTAAAAGTATCTCGATAACCCTAAAGGA-C
* * * **
152650 A-AAAAAGATTGTAAAAGGTCAAACATATCCTAAATGTACACCTTTGGCATAAAAGTGATCCGGT
65 ATAAAAAGATTGTAAAAGGTCAAACCTATCCTAAATGTACACATTTGGCATAAAAGCGATCCAAT
* * *
152714 GGCGACCTTGGACTTAGTTATGAG
130 GGC-ACCTAGGACTCAGTTATAAG
* * * * * * *
152738 AAAATTACCAAAATGCCTTTGGGCATACCTTT-GACATGAATGTATCT-TAGTAACCTTAAAGGA
1 AAAATTACCAAAATGCCTTTAGGTATA-CTTTCGACGTAAAAGTATCTCGA-TAACCCTAAAGGA
* *
152801 CATAAAAAGATTGTAAAAGTTCAAACCTATCCTAAATGTACATATTTGGCATAAAAGCGATCCAA
64 CATAAAAAGATTGTAAAAGGTCAAACCTATCCTAAATGTACACATTTGGCATAAAAGCGATCCAA
*
152866 TGGCACCCTAGGACTCAGTTGTAAG
129 TGGCA-CCTAGGACTCAGTTATAAG
* * *
152891 AAAATTACCAAAATACCATTAGGTATACTTTCGACGTAAAAGTAT-TCGATAACCCTAAAGGACG
1 AAAATTACCAAAATGCCTTTAGGTATACTTTCGACGTAAAAGTATCTCGATAACCCTAAAGGACA
** * * ** * *
152955 CGAAAAGATTGTAAAAGGTTAAACCTATCCTAAATGTACACATTTGACATAAAAGTAATTCGATG
66 TAAAAAGATTGTAAAAGGTCAAACCTATCCTAAATGTACACATTTGGCATAAAAGCGATCCAATG
* * * *
153020 GCCCCCTAAGACTC-GATTATGAT
131 G-CACCTAGGACTCAG-TTATAAG
* * * * * *
153043 AAAATTATCAAAATGCCCTTAGGCATACCTTCGATGTGAAAAATATCTCGATAACCCTAAAGGAC
1 AAAATTACCAAAATGCCTTTAGGTATACTTTCGACGT-AAAAGTATCTCGATAACCCTAAAGGAC
* * * * * * ** * * *
153108 ATGAAAAGA-TATAAAAGGACGAACCTATCCTAAAAGTGA-ACCTTTACCATAGAAGCGAGCCAG
65 ATAAAAAGATTGTAAAAGGTCAAACCTATCCTAAATGT-ACACATTTGGCATAAAAGCGATCCAA
** * *
153171 TGATTACCTAGGACTCAGTTCTGAGAA
129 TG-GCACCTAGGACTCAGTTAT-A-AG
** * * * *
153198 AAAATTAGTAAAATGCCTTTAGGTATACTTTCGATGTGAAAGTATCCCAATAACCCTAAAGGACA
1 AAAATTACCAAAATGCCTTTAGGTATACTTTCGACGTAAAAGTATCTCGATAACCCTAAAGGACA
153263 T
66 T
153264 GAAATGTGTG
Statistics
Matches: 422, Mismatches: 89, Indels: 29
0.78 0.16 0.05
Matches are distributed among these distances:
151 1 0.00
152 120 0.28
153 213 0.50
154 55 0.13
155 33 0.08
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (152 bp):
AAAATTACCAAAATGCCTTTAGGTATACTTTCGACGTAAAAGTATCTCGATAACCCTAAAGGACA
TAAAAAGATTGTAAAAGGTCAAACCTATCCTAAATGTACACATTTGGCATAAAAGCGATCCAATG
GCACCTAGGACTCAGTTATAAG
Found at i:153135 original size:305 final size:308
Alignment explanation
Indices: 152584--153261 Score: 733
Period size: 305 Copynumber: 2.2 Consensus size: 308
152574 TCGGTTGTGG
* * * * * * *
152584 AAAAATTACAAAAATACCTTTAAGTATACCTTCGACATAAAAATATCCCGGTAACCTTAAAGGAT
1 AAAAATTACAAAAATACCTTTAGGTATACTTTCGACGTAAAAGTATCCCGATAACCCTAAAGGAC
* * * *
152649 GAAAAAAGATTGTAAAAGGTCAAACATATCCTAAATGTACACCTTTGGCATAAAAGTGATCCGGT
66 GAAAAAAGATTGTAAAAGGTCAAACATATCCTAAATGTACACATTTGACATAAAAGTAATCCGAT
* ** * * * * *
152714 GGCGACCTTGGACTTAGTTATGAGAAAATTACCAAAATGCCTTTGGGCATACCTTTGACATGAAT
131 GGCCACCTAAGACTGAGTTATGAGAAAATTACCAAAATGCCCTTAGGCATACCTTCGACATGAAA
* * * * ** *
152779 GTATCTTAGTAACCTTAAAGGACATAAAAAGATTGTAAAAGTTCAAACCTATCCTAAATGT-ACA
196 ATATCTGAGTAACCCTAAAGGACATAAAAAGATTATAAAAGGACAAACCTATCCTAAAAGTGA-A
* ** * *
152843 TATTTGGCATAAAAGCGATCCAATG-GCACCCTAGGACTCAGTTGT-A-A
260 CATTTACCATAAAAGCGAGCCAATGAGCA-CCTAGGACTCAGTTCTGAGA
* * * *
152890 GAAAATTACCAAAATACCATTAGGTATACTTTCGACGTAAAAGTAT-TCGATAACCCTAAAGGAC
1 AAAAATTACAAAAATACCTTTAGGTATACTTTCGACGTAAAAGTATCCCGATAACCCTAAAGGAC
** * * *
152954 GCGAAAAGATTGTAAAAGGTTAAACCTATCCTAAATGTACACATTTGACATAAAAGTAATTCGAT
66 GAAAAAAGATTGTAAAAGGTCAAACATATCCTAAATGTACACATTTGACATAAAAGTAATCCGAT
* * * **
153019 GGCCCCCTAAGACTCGA-TTATGATAAAATTATCAAAATGCCCTTAGGCATACCTTCGATGTGAA
131 GGCCACCTAAGACT-GAGTTATGAGAAAATTACCAAAATGCCCTTAGGCATACCTTCGACATG-A
* *
153083 AAATATCTCGA-TAACCCTAAAGGACATGAAAAGA-TATAAAAGGACGAACCTATCCTAAAAGTG
194 AAATATCT-GAGTAACCCTAAAGGACATAAAAAGATTATAAAAGGACAAACCTATCCTAAAAGTG
* * * **
153146 AACCTTTACCATAGAAGCGAGCCAGTGATTACCTAGGACTCAGTTCTGAGA
258 AACATTTACCATAAAAGCGAGCCAATGAGCACCTAGGACTCAGTTCTGAGA
** * * * *
153197 AAAAATTAGTAAAATGCCTTTAGGTATACTTTCGATGTGAAAGTATCCCAATAACCCTAAAGGAC
1 AAAAATTACAAAAATACCTTTAGGTATACTTTCGACGTAAAAGTATCCCGATAACCCTAAAGGAC
153262 ATGAAATGTG
Statistics
Matches: 303, Mismatches: 61, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
305 175 0.58
306 71 0.23
307 41 0.14
308 16 0.05
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (308 bp):
AAAAATTACAAAAATACCTTTAGGTATACTTTCGACGTAAAAGTATCCCGATAACCCTAAAGGAC
GAAAAAAGATTGTAAAAGGTCAAACATATCCTAAATGTACACATTTGACATAAAAGTAATCCGAT
GGCCACCTAAGACTGAGTTATGAGAAAATTACCAAAATGCCCTTAGGCATACCTTCGACATGAAA
ATATCTGAGTAACCCTAAAGGACATAAAAAGATTATAAAAGGACAAACCTATCCTAAAAGTGAAC
ATTTACCATAAAAGCGAGCCAATGAGCACCTAGGACTCAGTTCTGAGA
Found at i:153385 original size:29 final size:28
Alignment explanation
Indices: 153325--153393 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
153315 ACATTACGCA
* * ** *
153325 TTGACCCTTGAACTTTTCAAAATTTTATG
1 TTGACCC-TAAACTTTTCAAAAATAAACG
153354 TTGACCTCTAAACTTTTCAAAAATAAACG
1 TTGACC-CTAAACTTTTCAAAAATAAACG
153383 TTGACCCTAAA
1 TTGACCCTAAA
153394 ATGAGCTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 5 0.15
29 28 0.82
30 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (28 bp):
TTGACCCTAAACTTTTCAAAAATAAACG
Found at i:156970 original size:19 final size:19
Alignment explanation
Indices: 156948--156985 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
156938 TTTTTTCTTT
156948 TTTTTATCATTTTTCCATG
1 TTTTTATCATTTTTCCATG
* *
156967 TTTTTCTCATTTTTGCATG
1 TTTTTATCATTTTTCCATG
156986 CTATTTTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.16, G:0.08, T:0.63
Consensus pattern (19 bp):
TTTTTATCATTTTTCCATG
Found at i:159256 original size:80 final size:80
Alignment explanation
Indices: 159070--159263 Score: 204
Period size: 81 Copynumber: 2.4 Consensus size: 80
159060 ACCAGAGCTA
* * *
159070 AACCAT-AATGTCAAACGAAAATGAAAAGAGTTTGACCAGATACAGTCAAAGAGTAATGAAAAGA
1 AACCATCAA-GTCAAACGAGAATGAAAAGAGTTTAACCAGATACAGTCAAAGAGTAATGAAAACA
159134 TGTTTGACTAGGATGAG
65 TGTTTGACTAGGA-GAG
* * * *
159151 AACTATCAAGTCAAACGATAATGAAAATAGTTTAACCA-AGTATAGTCAAATGAG-AATGAAAAC
1 AACCATCAAGTCAAACGAGAATGAAAAGAGTTTAACCAGA-TACAGTCAAA-GAGTAATGAAAAC
159214 A-GTTTGACTAGTGCA-AG
64 ATGTTTGACTAG-G-AGAG
159231 AACCATCACA-TCAAAC-AGGAATGAAAAGAGTTT
1 AACCATCA-AGTCAAACGA-GAATGAAAAGAGTTT
159264 GACTAGGGCG
Statistics
Matches: 97, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
79 1 0.01
80 39 0.40
81 51 0.53
82 6 0.06
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (80 bp):
AACCATCAAGTCAAACGAGAATGAAAAGAGTTTAACCAGATACAGTCAAAGAGTAATGAAAACAT
GTTTGACTAGGAGAG
Found at i:159296 original size:40 final size:41
Alignment explanation
Indices: 159206--159296 Score: 94
Period size: 45 Copynumber: 2.1 Consensus size: 41
159196 TCAAATGAGA
*
159206 ATGAAAACAGTTTGACTAGTGCAAGAACCATCACATCAAAC
1 ATGAAAACAGTTTGACTAGGGCAAGAACCATCACATCAAAC
* * **
159247 AGGAATGAAAAGAGTTTGACTAGGGCGAGAACCATCATGTCAAAC
1 ----ATGAAAACAGTTTGACTAGGGCAAGAACCATCACATCAAAC
159292 -TGAAA
1 ATGAAA
159297 TGAAAAAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
40 5 0.12
45 36 0.88
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.19
Consensus pattern (41 bp):
ATGAAAACAGTTTGACTAGGGCAAGAACCATCACATCAAAC
Found at i:159404 original size:46 final size:45
Alignment explanation
Indices: 159328--159740 Score: 228
Period size: 46 Copynumber: 9.5 Consensus size: 45
159318 TAGTTAAACG
* *
159328 GGAATGAAAAGATGCTTGAAC-AGGGCGAGAACCATCATGTCAAATA
1 GGAATGAAAAGAT-TTTG-ACTAAGGCGAGAACCATCATGTCAAATA
* *
159374 GG-ATAGAAAAGATCTTTGACTAAGGTGAGAACCATCATGTCAAACA
1 GGAAT-GAAAAGAT-TTTGACTAAGGCGAGAACCATCATGTCAAATA
*
159420 GGAATGAAAAGATGTTTGACTAAGGCGAGAACCATCACGTCAAATA
1 GGAATGAAAAGAT-TTTGACTAAGGCGAGAACCATCATGTCAAATA
* * *
159466 GTAATGAAAAGATTTTGACCAA-GC----A-CA--A--TCAAA-C
1 GGAATGAAAAGATTTTGACTAAGGCGAGAACCATCATGTCAAATA
* * **
159500 GAGAATGAAAAGATGTTTGAC-CAGCGCGAGAACCATTACATCAAATA
1 G-GAATGAAAAGAT-TTTGACTAAG-GCGAGAACCATCATGTCAAATA
* * * ** *
159547 GGAATGAAAAGATGTTTGACTAGGGCAATAACCATCACATCAAACA
1 GGAATGAAAAGAT-TTTGACTAAGGCGAGAACCATCATGTCAAATA
** * * ** **
159593 ACAATGAAAAAAGTTTGAC-----C-AG--GTAT-A-GTCAAACG
1 GGAATGAAAAGATTTTGACTAAGGCGAGAACCATCATGTCAAATA
* *
159628 GGAATGAAAAGATGTTTTACT-AGAGCGAGAACCATCACGTCAAATA
1 GGAATGAAAAGAT-TTTGACTAAG-GCGAGAACCATCATGTCAAATA
* * * * *
159674 TGAATGAAAAGATGTTTGATTAGGGTGAGAACCATCATATCAAATA
1 GGAATGAAAAGAT-TTTGACTAAGGCGAGAACCATCATGTCAAATA
* *
159720 GTAATGAAAAGAGTTTGACTA
1 GGAATGAAAAGATTTTGACTA
159741 GCTACAAGCA
Statistics
Matches: 287, Mismatches: 50, Indels: 61
0.72 0.13 0.15
Matches are distributed among these distances:
34 1 0.00
35 32 0.11
36 12 0.04
37 5 0.02
39 3 0.01
40 2 0.01
41 2 0.01
42 4 0.01
44 5 0.02
45 26 0.09
46 190 0.66
47 5 0.02
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.21
Consensus pattern (45 bp):
GGAATGAAAAGATTTTGACTAAGGCGAGAACCATCATGTCAAATA
Found at i:159498 original size:127 final size:127
Alignment explanation
Indices: 159367--159738 Score: 435
Period size: 127 Copynumber: 2.9 Consensus size: 127
159357 AACCATCATG
* * * * *
159367 TCAAATAGGATAGAAAAGATCTTTGACTA-AGGTGAGAACCATCATGTCAAACAGGAATGAAAAG
1 TCAAACAGGATAGAAAAGATGTTTGACTAGA-GCGAGAACCATCACGTCAAATAGGAATGAAAAG
* * *
159431 ATGTTTGACTAAGGCGAGAACCATCACGTCAAATAGTAATGAAAAGATTTTGACCAAGCACAA
65 ATGTTTGACTAGGGCGAGAACCATCACATCAAATAGTAATGAAAAGAGTTTGACCAAGCACAA
* * * * *
159494 TCAAACGAGAAT-GAAAAGATGTTTGACCAGCGCGAGAACCATTACATCAAATAGGAATGAAAAG
1 TCAAAC-AGGATAGAAAAGATGTTTGACTAGAGCGAGAACCATCACGTCAAATAGGAATGAAAAG
* * * ** * * * * *
159558 ATGTTTGACTAGGGCAATAACCATCACATCAAACAACAATGAAAAAAGTTTGACCAGGTATAG
65 ATGTTTGACTAGGGCGAGAACCATCACATCAAATAGTAATGAAAAGAGTTTGACCAAGCACAA
* * *
159621 TCAAACGGGA-ATGAAAAGATGTTTTACTAGAGCGAGAACCATCACGTCAAATATGAATGAAAAG
1 TCAAACAGGATA-GAAAAGATGTTTGACTAGAGCGAGAACCATCACGTCAAATAGGAATGAAAAG
* * *
159685 ATGTTTGATTAGGGTGAGAACCATCATATCAAATAGTAATGAAAAGAGTTTGAC
65 ATGTTTGACTAGGGCGAGAACCATCACATCAAATAGTAATGAAAAGAGTTTGAC
159739 TAGCTACAAG
Statistics
Matches: 201, Mismatches: 40, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
126 2 0.01
127 195 0.97
128 4 0.02
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.22
Consensus pattern (127 bp):
TCAAACAGGATAGAAAAGATGTTTGACTAGAGCGAGAACCATCACGTCAAATAGGAATGAAAAGA
TGTTTGACTAGGGCGAGAACCATCACATCAAATAGTAATGAAAAGAGTTTGACCAAGCACAA
Found at i:159508 original size:173 final size:172
Alignment explanation
Indices: 159229--159611 Score: 466
Period size: 173 Copynumber: 2.2 Consensus size: 172
159219 GACTAGTGCA
* *
159229 AGAACCATCACATCAAACAGGAATGAAAAGAGTTTGACTAGGGCGAGAACCATCATGTCAAACTG
1 AGAACCATCACATCAAACAGGAATGAAAAGAGTTTGACTAAGGCGAGAACCATCACGTCAAACTG
** * * * * * *
159294 AAATGAAAAAGGTTTGATTAAGGATAGTTAAACGGGAATGAAAAGATGCTTGAACAGGGCGAGAA
66 AAATGAAAAAGGTTTGACCAAGCACAATCAAACGAGAATGAAAAGATGCTTGAACAGCGCGAGAA
**
159359 CCATCATGTCAAATAGG-ATAGAAAAGATCTTTGACTAAGGTG
131 CCATCACATCAAATAGGAAT-GAAAAGATCTTTGACTAAGGTG
**
159401 AGAACCATCATGTCAAACAGGAATGAAAAGATGTTTGACTAAGGCGAGAACCATCACGTCAAA-T
1 AGAACCATCACATCAAACAGGAATGAAAAGA-GTTTGACTAAGGCGAGAACCATCACGTCAAACT
* * * *
159465 AGTAATG-AAAAGATTTTGACCAAGCACAATCAAACGAGAATGAAAAGATGTTTGACCAGCGCGA
65 -GAAATGAAAAAG-GTTTGACCAAGCACAATCAAACGAGAATGAAAAGATGCTTGAACAGCGCGA
* * * **
159529 GAACCATTACATCAAATAGGAATGAAAAGATGTTTGACTAGGGCA
128 GAACCATCACATCAAATAGGAATGAAAAGATCTTTGACTAAGGTG
* ** *
159574 ATAACCATCACATCAAACAACAATGAAAAAAGTTTGAC
1 AGAACCATCACATCAAACAGGAATGAAAAGAGTTTGAC
159612 CAGGTATAGT
Statistics
Matches: 178, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
172 42 0.24
173 134 0.75
174 2 0.01
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.20
Consensus pattern (172 bp):
AGAACCATCACATCAAACAGGAATGAAAAGAGTTTGACTAAGGCGAGAACCATCACGTCAAACTG
AAATGAAAAAGGTTTGACCAAGCACAATCAAACGAGAATGAAAAGATGCTTGAACAGCGCGAGAA
CCATCACATCAAATAGGAATGAAAAGATCTTTGACTAAGGTG
Found at i:159553 original size:81 final size:82
Alignment explanation
Indices: 159413--159566 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 82
159403 AACCATCATG
* *
159413 TCAAACAGGAATGAAAAGATGTTTGACTAAGGCGAGAACCATCACGTCAAATAGTAATGAAAAGA
1 TCAAACAGGAATGAAAAGATGTTTGACTAAGGCGAGAACCATCACATCAAATAGGAATGAAAAGA
159478 T-TTTGACCAAGCACAA
66 TGTTTGACCAAGCACAA
* *
159494 TCAAAC-GAGAATGAAAAGATGTTTGAC-CAGCGCGAGAACCATTACATCAAATAGGAATGAAAA
1 TCAAACAG-GAATGAAAAGATGTTTGACTAAG-GCGAGAACCATCACATCAAATAGGAATGAAAA
159557 GATGTTTGAC
64 GATGTTTGAC
159567 TAGGGCAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
80 3 0.05
81 57 0.86
82 6 0.09
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.20
Consensus pattern (82 bp):
TCAAACAGGAATGAAAAGATGTTTGACTAAGGCGAGAACCATCACATCAAATAGGAATGAAAAGA
TGTTTGACCAAGCACAA
Found at i:166729 original size:31 final size:33
Alignment explanation
Indices: 166689--166774 Score: 97
Period size: 36 Copynumber: 2.6 Consensus size: 33
166679 CACTTCTTTT
166689 AAGGCTAAGATAGAAACCTCC-TATC-TTTTCA
1 AAGGCTAAGATAGAAACCTCCTTATCTTTTTCA
** *
166720 CGGGCTAAGATAGAACCTTTCTCCTTATCTTTTTCA
1 AAGGCTAAGATAGAAAC---CTCCTTATCTTTTTCA
166756 AAGGCTAAGATA-AAACCTC
1 AAGGCTAAGATAGAAACCTC
166775 ACAATCCTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
31 14 0.32
32 3 0.07
34 4 0.09
35 7 0.16
36 16 0.36
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (33 bp):
AAGGCTAAGATAGAAACCTCCTTATCTTTTTCA
Found at i:167279 original size:24 final size:24
Alignment explanation
Indices: 167252--167316 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
167242 ACGCTGTTGC
167252 GATACATAAACAGTGATAAATAGT
1 GATACATAAACAGTGATAAATAGT
167276 GATACATAAACAGTGATAAATAGT
1 GATACATAAACAGTGATAAATAGT
* * *
167300 GATGCATGAACAATGAT
1 GATACATAAACAGTGAT
167317 GAAGATTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.25
Consensus pattern (24 bp):
GATACATAAACAGTGATAAATAGT
Found at i:168394 original size:88 final size:88
Alignment explanation
Indices: 168134--168392 Score: 473
Period size: 88 Copynumber: 2.9 Consensus size: 88
168124 ACAACTAATT
*
168134 ATTTTCTCCCCCTTACTAAGATATCTCCCCCAAAATTATAAACTCTTCTCCCTCTTTCTATTAGG
1 ATTTTCTCCCCCTTACTAAAATATCTCCCCCAAAATTATAAACTCTTCTCCCTCTTTCTATTAGG
168199 CCAAAACTATTCTTCCCCTTATC
66 CCAAAACTATTCTTCCCCTTATC
168222 ATTTTCTCCCCCTTACTAAAATATCTCCCCCAAAATTATAAACTCTTCTCCCTCTTTCTATTAGG
1 ATTTTCTCCCCCTTACTAAAATATCTCCCCCAAAATTATAAACTCTTCTCCCTCTTTCTATTAGG
168287 CCAAAACTATTCTTCCCCTTATC
66 CCAAAACTATTCTTCCCCTTATC
* * *
168310 ATTTTCTCCCCCTTACTAAAATATCTCTCCCAAAATTATAAACTCTTTTCCCCCTTTCTATTAGG
1 ATTTTCTCCCCCTTACTAAAATATCTCCCCCAAAATTATAAACTCTTCTCCCTCTTTCTATTAGG
168375 CCAAAACTATTCCTTCCC
66 CCAAAACTATT-CTTCCC
168393 TTTTGTTATT
Statistics
Matches: 166, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
88 160 0.96
89 6 0.04
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (88 bp):
ATTTTCTCCCCCTTACTAAAATATCTCCCCCAAAATTATAAACTCTTCTCCCTCTTTCTATTAGG
CCAAAACTATTCTTCCCCTTATC
Found at i:168533 original size:66 final size:66
Alignment explanation
Indices: 168453--168651 Score: 299
Period size: 66 Copynumber: 3.0 Consensus size: 66
168443 TAATACGAAT
** *
168453 TATCTCCCCCTTAGTATATTCTTACCAATAAACAAAAATCTCTCCCCCTTTTTATTATAAACTAA
1 TATCTCCCCCTTAGTACGTTCTCACCAATAAACAAAAATCTCTCCCCCTTTTTATTATAAACTAA
168518 G
66 G
** *
168519 TATCTCCCATTTAGTACGTTCTCACCAATAAACAAAAATCTCTCCCCCTTTTTATTATAAACCAA
1 TATCTCCCCCTTAGTACGTTCTCACCAATAAACAAAAATCTCTCCCCCTTTTTATTATAAACTAA
168584 G
66 G
* * * * *
168585 TATCTCCCCCTTAATACGTTCTCACCAATAAACAAAAGTATCTCCCTCTTTTTATTATAAATTAA
1 TATCTCCCCCTTAGTACGTTCTCACCAATAAACAAAAATCTCTCCCCCTTTTTATTATAAACTAA
168650 G
66 G
168651 T
1 T
168652 TGATAAAAAC
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 119 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (66 bp):
TATCTCCCCCTTAGTACGTTCTCACCAATAAACAAAAATCTCTCCCCCTTTTTATTATAAACTAA
G
Found at i:169270 original size:18 final size:18
Alignment explanation
Indices: 169236--169271 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
169226 TGAAGGAGAT
*
169236 TGATACCAATTGGTGAAA
1 TGATACCAAATGGTGAAA
*
169254 TGATACCAAATGTTGAAA
1 TGATACCAAATGGTGAAA
169272 GATTAATGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (18 bp):
TGATACCAAATGGTGAAA
Found at i:170527 original size:21 final size:22
Alignment explanation
Indices: 170497--170537 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
170487 TAACTTATCA
*
170497 TTTTCATTTTGAAACTCATTTC
1 TTTTCATTTTCAAACTCATTTC
*
170519 TTTTC-TTTTCCAACTCATT
1 TTTTCATTTTCAAACTCATT
170538 CATTTGCTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.20, C:0.22, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTCATTTTCAAACTCATTTC
Found at i:172163 original size:35 final size:36
Alignment explanation
Indices: 172117--172186 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
172107 AAGATAGAAA
* *
172117 TCTCCCAATCTTT-TCACGGGCTAAGATAGAACCTT
1 TCTCCCAATCTTTCTCAAGGGCTAAGATAAAACCTT
* *
172152 TCTCCCTATCTTTCTCAATGGCTAAGATAAAACCT
1 TCTCCCAATCTTTCTCAAGGGCTAAGATAAAACCT
172187 CACAATCACT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 12 0.40
36 18 0.60
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (36 bp):
TCTCCCAATCTTTCTCAAGGGCTAAGATAAAACCTT
Found at i:172881 original size:24 final size:24
Alignment explanation
Indices: 172854--172904 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
172844 TTCACTGTTC
*
172854 ATCACTATTCATAACTGTTCACGT
1 ATCAATATTCATAACTGTTCACGT
* *
172878 ATCAATATTCATCACTGTTCATGT
1 ATCAATATTCATAACTGTTCACGT
172902 ATC
1 ATC
172905 GATACATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (24 bp):
ATCAATATTCATAACTGTTCACGT
Found at i:173472 original size:13 final size:13
Alignment explanation
Indices: 173454--173478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
173444 AGATTGCACA
173454 GTATCGATACATT
1 GTATCGATACATT
173467 GTATCGATACAT
1 GTATCGATACAT
173479 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:173491 original size:20 final size:21
Alignment explanation
Indices: 173466--173518 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
173456 ATCGATACAT
*
173466 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
* *
173486 TGTATCAATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
173507 TGTATCGATACA
1 TGTATCGATACA
173519 GGTCATTGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Done.