Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold146
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: 254200
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 25 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:1003 original size:20 final size:20
Alignment explanation
Indices: 924--1003 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
914 AATGTCCAAA
*
924 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
944 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
969 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
989 TTGTATCGATACATT
1 ATGTATCGATACATT
1004 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:1007 original size:13 final size:13
Alignment explanation
Indices: 989--1014 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
979 ACATTTTTCT
989 TTGTATCGATACA
1 TTGTATCGATACA
1002 TTGTATCGATACA
1 TTGTATCGATACA
1015 GGGTGATTAT
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):
TTGTATCGATACA
Found at i:3586 original size:13 final size:13
Alignment explanation
Indices: 3568--3593 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3558 TACAGCAAGT
3568 ATGTATCGATACA
1 ATGTATCGATACA
3581 ATGTATCGATACA
1 ATGTATCGATACA
3594 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:6932 original size:55 final size:54
Alignment explanation
Indices: 6849--7812 Score: 1016
Period size: 55 Copynumber: 16.9 Consensus size: 54
6839 TGCCTTCTCT
* *
6849 TTTTAAAGCCCACATAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGACGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACGCC
6904 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCATTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAGAGCAGGACG------CC
*
6965 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACGCC
* *
7020 TCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACACCTTCTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAGAGCAGG--A----CGCC
*
7081 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACGCC
* * *
7136 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* * **
7191 TCTTAAAGCCCACACAAGTTGGTGGCACTTCCTAATCCTCAAAGAGCAGGATACC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACGCC
*
7246 TTATAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAGAGCAGGACG-C--C
* * * *
7304 TTCTTTCAAAGCCCACACAAATTGGTGGCATTTTCCAATCCTCAAAGAGCAGGATGCC
1 -T-TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* *
7362 TTTTAAAGCCCACTCAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCTTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGC-----C
* *
7421 TTTTCAATGCCCACACAAGTTGGTGGCATTTTCCAGTCC-CTAAAGAGCAGGACGCCTTTTC
1 TTTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTC-AAAGAGCAGGACG-C----C
* *
7482 TTTTAAAGCCCACACAAGTTAGTGGCACCTT-CAGTCCTCAAAGAGCAGGACACCTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGAC-GC--C
* * *
7539 TTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACC
1 -T-TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* * * * *
7597 TTTCAAAGCCCACACAAGTTGGTGGGATTTTCCAATCCTCAAAGAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* * * *
7652 TTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* * * * *
7707 TTTCAAAGCCCACACAAGTTGGTGGGATTTTCCAATCCTCAAAGAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* * ** *
7762 TTTCAAAGCCCACACAAGTTGGTGGAACTTTTTAGTCCTCAATGAGCAGGA
1 TTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCAGTCCTCAAAGAGCAGGA
7813 TACACTTATT
Statistics
Matches: 805, Mismatches: 62, Indels: 84
0.85 0.07 0.09
Matches are distributed among these distances:
54 25 0.03
55 455 0.57
56 16 0.02
57 6 0.01
58 4 0.00
59 29 0.04
60 80 0.10
61 187 0.23
62 3 0.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (54 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACGCC
Found at i:7026 original size:116 final size:115
Alignment explanation
Indices: 6815--7813 Score: 1095
Period size: 116 Copynumber: 8.7 Consensus size: 115
6805 TCTTTTAGCC
* * * * * *
6815 CTTCCTAGTCCTCAAAGAGCAGGATGCCTTCTCTTTTTAAAGCCCACATAAGTTGGTGGCACTTC
1 CTTCCCAGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
* *
6880 CTAGTCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 CTAGTCCTCAAAGAGCAGGATGCC-TTTAAAGCCCACACAAGTTGGTGGCA
6931 CTTCCCAGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CTTCCCAGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
6996 CTAGTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGTTGGTGGCA
66 CTAGTCCTCAAAGAGCAGGATGCCT-TTAAAGCCCACACAAGTTGGTGGCA
* * *
7047 CTTCCCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CTTCCCAGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
7112 CTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 CTAGTCCTCAAAGAGCAGGATGCC-TTTAAAGCCCACACAAGTTGGTGGCA
* * * *
7163 TTTTCCAGTCCTCAAAGAGTAGGA--CA----CCTCTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CTTCCCAGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
* *
7222 CTAATCCTCAAAGAGCAGGATACCTTATAAAGCCCACACAAGTTGGTGGCA
66 CTAGTCCTCAAAGAGCAGGATGCCTT-TAAAGCCCACACAAGTTGGTGGCA
* * * *
7273 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTT-CTTTCAAAGCCCACACAAATTGGTGGCATTT
1 CTTCCCAGTCCTCAAAGAGCAGGACGCATT-TTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CT
* *
7337 TCC-AATCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACTCAAGTTGGTGGCA
64 TCCTAGTCCTCAAAGAGCAGGATGCC-TTTAAAGCCCACACAAGTTGGTGGCA
* * * *
7389 CCTT--CAGTCCTCAAAGAGCAGGATGC-TTTTTCTTTTCAATGCCCACACAAGTTGGTGGCATT
1 -CTTCCCAGTCCTCAAAGAGCAGGACGCATTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA-C
* *
7451 TTCC-AGTCC-CTAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCA
63 TTCCTAGTCCTC-AAAGAGCAGGATG-C----C-TTTAAAGCCCACACAAGTTGGTGGCA
* * * *
7509 CCTT--CAGTCCTCAAAGAGCAGGACACCTTCTT-CTTTCAAAGCCCACACAAGTTGGTGGCATT
1 -CTTCCCAGTCCTCAAAGAGCAGGACGCATT-TTCCTTTTAAAGCCCACACAAGTTGGTGGCA-C
* ** *
7571 TTCC-AATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGGA
63 TTCCTAGTCCTCAAAGAGCAGGATGCCTTT-AAAGCCCACACAAGTTGGTGGCA
* * * * *
7624 TTTTCCAATCCTCAAAGAGCAGGA--CA----CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTT
1 CTTCCCAGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
* ** *
7682 TTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGGA
66 CT-AGTCCTCAAAGAGCAGGATGCCTTT-AAAGCCCACACAAGTTGGTGGCA
* * * * * *
7734 TTTTCCAATCCTCAAAGAGCAGGA--CA----CCTTTCAAAGCCCACACAAGTTGGTGGAACTTT
1 CTTCCCAGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
* *
7793 TTAGTCCTCAATGAGCAGGAT
66 CTAGTCCTCAAAGAGCAGGAT
7814 ACACTTATTT
Statistics
Matches: 799, Mismatches: 53, Indels: 68
0.87 0.06 0.07
Matches are distributed among these distances:
108 2 0.00
109 2 0.00
110 246 0.31
111 5 0.01
112 1 0.00
113 2 0.00
114 14 0.02
115 87 0.11
116 326 0.41
117 10 0.01
119 1 0.00
120 94 0.12
121 7 0.01
122 2 0.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (115 bp):
CTTCCCAGTCCTCAAAGAGCAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
CTAGTCCTCAAAGAGCAGGATGCCTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:8326 original size:21 final size:21
Alignment explanation
Indices: 8302--8406 Score: 158
Period size: 21 Copynumber: 5.0 Consensus size: 21
8292 GGTGTCTATT
8302 TTTGTAGAATGTATCGATACA
1 TTTGTAGAATGTATCGATACA
*
8323 TTTGTGGAATGTATCGATACA
1 TTTGTAGAATGTATCGATACA
8344 TTTGTAGAATGTATCGATACA
1 TTTGTAGAATGTATCGATACA
*
8365 TTTGTGGAATGTATCGATACA
1 TTTGTAGAATGTATCGATACA
* *
8386 TTCTATA-AATGGATCGATACA
1 TT-TGTAGAATGTATCGATACA
8407 GGGTCCCAAC
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
21 75 0.97
22 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.37
Consensus pattern (21 bp):
TTTGTAGAATGTATCGATACA
Found at i:8361 original size:42 final size:42
Alignment explanation
Indices: 8302--8406 Score: 176
Period size: 42 Copynumber: 2.5 Consensus size: 42
8292 GGTGTCTATT
8302 TTTGTAGAATGTATCGATACATTTGTGGAATGTATCGATACA
1 TTTGTAGAATGTATCGATACATTTGTGGAATGTATCGATACA
8344 TTTGTAGAATGTATCGATACATTTGTGGAATGTATCGATACA
1 TTTGTAGAATGTATCGATACATTTGTGGAATGTATCGATACA
* *
8386 TTCTATA-AATGGATCGATACA
1 TT-TGTAGAATGTATCGATACA
8407 GGGTCCCAAC
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
42 57 0.95
43 3 0.05
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.37
Consensus pattern (42 bp):
TTTGTAGAATGTATCGATACATTTGTGGAATGTATCGATACA
Found at i:8466 original size:19 final size:19
Alignment explanation
Indices: 8442--8509 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
8432 AATTCAACAA
8442 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
8461 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
8476 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
8493 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
8510 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:8481 original size:13 final size:13
Alignment explanation
Indices: 8463--8487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8453 ACATAAGTTT
8463 TGTATCGATACAA
1 TGTATCGATACAA
8476 TGTATCGATACA
1 TGTATCGATACA
8488 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:8485 original size:32 final size:32
Alignment explanation
Indices: 8444--8506 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
8434 TTCAACAATT
*
8444 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
8476 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
8507 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:8573 original size:33 final size:33
Alignment explanation
Indices: 8531--8595 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
8521 CAAGGAAATG
***
8531 TATCGATACATTTTTCTGTGTATCGATACATTA
1 TATCGATACATAGATCTGTGTATCGATACATTA
*
8564 TATCGATACATAGATCTTTGTATCGATACATT
1 TATCGATACATAGATCTGTGTATCGATACATT
8596 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (33 bp):
TATCGATACATAGATCTGTGTATCGATACATTA
Found at i:11053 original size:53 final size:50
Alignment explanation
Indices: 10931--11318 Score: 165
Period size: 51 Copynumber: 7.4 Consensus size: 50
10921 CTCAATTCTC
* * * * * *
10931 CACAATCAGGGATATTCTAACTCCGATTTTATTTTCAAGACACTAATTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTT
*
10981 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACA-CAAATTTT
* * **** * * * *
11035 CACAATCGGGGATACTCCAACCCCG-TTAATCATTGGGGATACTCCAATCCCGTT
1 CACAATCGGGGATACTCCAACTCCGATT--TTATTTCCAAAACACAAAT---TTT
*** * * * ** *
11089 -ATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTT
1 CACAATC--GGGGATACTCCAACTCCGATTTTATTTCCAAAACA-CAAATTTT
* * * * * * * *
11141 TATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAACCACTAATTTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC-AAATTTT
** * * * *
11192 CCACAATCAAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTT
1 -CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA-CAAATTTT
*
11244 C-CTTTAATCGGGGATACTCCAACTCCGA-TTTATTTTCCAAAA-ATGCCAATTTTT
1 CAC---AATCGGGGATACTCCAACTCCGATTTTA-TTTCCAAAACA---CAAATTTT
*
11298 CACAATCGAGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
11319 CTCGTTATCT
Statistics
Matches: 256, Mismatches: 58, Indels: 46
0.71 0.16 0.13
Matches are distributed among these distances:
50 2 0.01
51 70 0.27
52 70 0.27
53 62 0.24
54 30 0.12
55 21 0.08
56 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTT
Found at i:11072 original size:27 final size:26
Alignment explanation
Indices: 11042--11114 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
11032 TTTCACAATC
11042 GGGGATACTCCAACCCCGTTAATCATT-
1 GGGGATACTCCAACCCCGTT-AT-ATTA
* *
11069 GGGGATACTCCAATCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATATT--A
11097 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
11115 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 19 0.47
28 17 0.43
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (26 bp):
GGGGATACTCCAACCCCGTTATATTA
Found at i:11241 original size:52 final size:52
Alignment explanation
Indices: 11099--11319 Score: 191
Period size: 52 Copynumber: 4.2 Consensus size: 52
11089 ATTTTCGAGG
** * * *** * * *
11099 GGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTT-TATAATCGG
1 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCACAATCGA
* * * *
11150 GGATACTCCAACCCCGGTTTTA-TTGCTAAACCACTAATTTTTCCACAATCAA
1 GGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTTCCACAATCGA
** *
11202 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGG
1 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCC-ACAATCGA
* *
11255 GGATACTCCAACTCC-GATTTATTTTCCAAAA-ATGCCAATTTTT-CACAATCGA
1 GGATACTCCAACCCCGGTTTTATTTT-CAAAACA--CCAATTTTTCCACAATCGA
11307 GGATACTCCAACC
1 GGATACTCCAACC
11320 TCGTTATCTC
Statistics
Matches: 139, Mismatches: 24, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
50 3 0.02
51 31 0.22
52 69 0.50
53 27 0.19
54 9 0.06
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (52 bp):
GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCACAATCGA
Found at i:11338 original size:28 final size:27
Alignment explanation
Indices: 11302--11376 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 27
11292 ATTTTTCACA
*
11302 ATCGAGGATACTCCAA-CCTCGTTATCTC
1 ATCGGGGATACTCCAACCCT-GTTA-CTC
*
11330 ATCGGGGATACTCCAACCCTGTTACTT
1 ATCGGGGATACTCCAACCCTGTTACTC
*
11357 ATGAGGGGATACTCCAACCC
1 AT-CGGGGATACTCCAACCC
11377 CGGCTTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 4 0.10
28 35 0.83
29 3 0.07
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCTGTTACTC
Found at i:13381 original size:20 final size:20
Alignment explanation
Indices: 13356--13402 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
13346 CTTCTCTTCT
**
13356 AAAAAAAAC-AAAAAATTCA
1 AAAAAAAACGAAAAAAGACA
13375 AAAAAAAACGAAAAAAGACA
1 AAAAAAAACGAAAAAAGACA
13395 AAAAAAAA
1 AAAAAAAA
13403 AAGAACCTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.83, C:0.09, G:0.04, T:0.04
Consensus pattern (20 bp):
AAAAAAAACGAAAAAAGACA
Found at i:14587 original size:95 final size:96
Alignment explanation
Indices: 14359--14577 Score: 336
Period size: 95 Copynumber: 2.3 Consensus size: 96
14349 TTCTTCTTCT
* * *
14359 ACTTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTTAGTGCCCAAAGAGCAGG
1 ACTTTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAAGTGCCCAAAAAGCAGG
* *
14424 ACGCCTTTCAAAGCCCACACAAGTTGGTGGC
66 ACGCATTTCAAAACCCACACAAGTTGGTGGC
*
14455 ACTTTTC-AGTCCTCAAAAAGCAGGACGCTCTCTCCTTTCACCCTTTAAGT-CCTCAAAAAGCAG
1 ACTTTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAAGTGCC-CAAAAAGCAG
* *
14518 GACGCATTTTAAAACCCACACGAGTTGGTGGC
65 GACGCATTTCAAAACCCACACAAGTTGGTGGC
14550 A-TTTTCTAGTCCTCAAAGAGCAGGACGC
1 ACTTTTCTAGTCCTCAAAGAGCAGGACGC
14578 CTTTTCCTTT
Statistics
Matches: 112, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
94 7 0.06
95 99 0.88
96 6 0.05
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (96 bp):
ACTTTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAAGTGCCCAAAAAGCAGG
ACGCATTTCAAAACCCACACAAGTTGGTGGC
Found at i:14797 original size:173 final size:173
Alignment explanation
Indices: 14502--14814 Score: 529
Period size: 173 Copynumber: 1.8 Consensus size: 173
14492 TCACCCTTTA
* *
14502 AGTCCTCAAAAAGCAGGACGCATTTTAAAACCCACACGAGTTGGTGGCATTTTCTAGTCCTCAAA
1 AGTCCTCAAAAAGCAGGACGCATTTTAAAACCCACACAAGTTGGTGGCATTTTCTAATCCTCAAA
* *
14567 GAGCAGGACGCCTTTTCCTTTTAGAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGC
66 GAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGC
14632 AGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTT
131 AGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTT
* * *
14675 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAATCCTCAA
1 AGTCCTCAAAAAGCAGGACGCATTTTAAAACCCACACAAGTTGGTGGCA-TTTTCTAATCCTCAA
*
14740 AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGCTGGTGGCACCTTT-AGTCCTCAAAGAG
65 AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAG
*
14804 CAGGATGCCTT
130 CAGGACGCCTT
14815 CACCTTTCAA
Statistics
Matches: 130, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
173 68 0.52
174 62 0.48
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (173 bp):
AGTCCTCAAAAAGCAGGACGCATTTTAAAACCCACACAAGTTGGTGGCATTTTCTAATCCTCAAA
GAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGC
AGGACGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTT
Found at i:14988 original size:192 final size:190
Alignment explanation
Indices: 14636--15001 Score: 499
Period size: 192 Copynumber: 1.9 Consensus size: 190
14626 AAGAGCAGGA
* * *
14636 CGCCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCAACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
**
14701 AAAGCCCACACAAGTTGGTGGCATTTTTCTAATCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAA
66 AAAGCCCACACAAGTTGGTGGCACCTTTCTAATCCTCAAAGAGCAGGACGCCTTTTCC---TAAA
14766 GCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTCACCTTTCAAAGCT
128 GCCCACATAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTCACCTTTCAAAGCT
*
14829 CGCCTTTCAAAGCCCACACAAGTTGGTGGC-ACTTTTTCAGTCGTCAAAGAGCAGGACGCCTTTT
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCAACTTTTTCAGTCCTCAAAGAGCAGGACG-C----
* * *
14893 CTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTC-AGTTCTCAAAGAGCAGGACGCC-TTT-C-
61 CTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCTAATCCTCAAAGAGCAGGACGCCTTTTCCT
* * *
14954 AAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGAT
125 AAAGCCCACATAAGCTGGTGGCAC-CTTTAGTCCTCAAAGAGCAGGAT
15002 ACACTTTATT
Statistics
Matches: 154, Mismatches: 12, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
191 22 0.14
192 47 0.31
193 30 0.19
195 1 0.01
196 3 0.02
197 25 0.16
198 26 0.17
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (190 bp):
CGCCTTTCAAAGCCCACACAAGTTGGTGGCAACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
AAAGCCCACACAAGTTGGTGGCACCTTTCTAATCCTCAAAGAGCAGGACGCCTTTTCCTAAAGCC
CACATAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTCACCTTTCAAAGCT
Found at i:14991 original size:55 final size:55
Alignment explanation
Indices: 14829--15000 Score: 227
Period size: 55 Copynumber: 3.0 Consensus size: 55
14819 TTTCAAAGCT
* *
14829 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCGTCAAAGAGCAGGA
1 CGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT-AGTCCTCAAAGAGCAGGA
* * *
14885 CGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTCAGTTCTCAAAGAGCAGGA
1 CG-C----C-TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
*
14946 CGCCTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
15001 TACACTTTAT
Statistics
Matches: 101, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
55 47 0.47
56 3 0.03
57 1 0.01
60 1 0.01
61 19 0.19
62 30 0.30
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (55 bp):
CGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
Found at i:15632 original size:6 final size:6
Alignment explanation
Indices: 15623--15649 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15613 TAAAAATTAA
15623 AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAA
15650 AAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:15834 original size:25 final size:25
Alignment explanation
Indices: 15755--15855 Score: 184
Period size: 26 Copynumber: 4.0 Consensus size: 25
15745 AAAACATGAA
15755 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATA-AAAATG
15781 CAGCATGGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAAT-AAAAATG
15807 CAGCATGGGAAAGGAAATAAAAATG
1 CAGCATGGGAAAGGAAATAAAAATG
15832 CAGCATGGGAAAGGAAATAAAAAT
1 CAGCATGGGAAAGGAAATAAAAAT
15856 TGCAATTAGA
Statistics
Matches: 74, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
25 31 0.42
26 42 0.57
27 1 0.01
ACGTcount: A:0.52, C:0.08, G:0.28, T:0.12
Consensus pattern (25 bp):
CAGCATGGGAAAGGAAATAAAAATG
Found at i:15844 original size:51 final size:52
Alignment explanation
Indices: 15755--15859 Score: 194
Period size: 51 Copynumber: 2.0 Consensus size: 52
15745 AAAACATGAA
15755 CAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAGGAAATAAAAAATG
*
15807 CAGCATGGGAAAGGAAATA-AAAATGCAGCATGGGAAAGGAAATAAAAATTG
1 CAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAGGAAATAAAAAATG
15858 CA
1 CA
15860 ATTAGAGACA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 33 0.63
52 19 0.37
ACGTcount: A:0.51, C:0.09, G:0.28, T:0.12
Consensus pattern (52 bp):
CAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAGGAAATAAAAAATG
Found at i:16241 original size:43 final size:43
Alignment explanation
Indices: 16180--16315 Score: 184
Period size: 43 Copynumber: 3.2 Consensus size: 43
16170 GCAGCTCCAG
* * * * *
16180 CAGCAGCACCAGCTCCAGCGGCGGC-GACAGCTCTAGCACGCAA
1 CAGCAGCAGCAACTCCAGCAGCGACTG-CAGCTCCAGCACGCAA
**
16223 CAGCAGCAGCAACTCCAGCAATGACTGCAGCTCCAGCACGCAA
1 CAGCAGCAGCAACTCCAGCAGCGACTGCAGCTCCAGCACGCAA
*
16266 CAGCAGTAGCAACTCCAGCAGCGACTGCAGCTCCAGCACGCAA
1 CAGCAGCAGCAACTCCAGCAGCGACTGCAGCTCCAGCACGCAA
16309 CAGCAGC
1 CAGCAGC
16316 TCCAGCGAGA
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 80 0.99
44 1 0.01
ACGTcount: A:0.29, C:0.38, G:0.24, T:0.08
Consensus pattern (43 bp):
CAGCAGCAGCAACTCCAGCAGCGACTGCAGCTCCAGCACGCAA
Found at i:17319 original size:51 final size:51
Alignment explanation
Indices: 17264--17872 Score: 274
Period size: 51 Copynumber: 11.6 Consensus size: 51
17254 CAATTGCTCA
17264 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
** * * * * *
17315 TAATCAAGGACACTCCAACTCCGATTTTGTTTCCAAAAAACACCAATTT--TT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC--AAAACACCAATTTCCTT
* * * * * * ** *
17366 CACAATCGAGGATACTCCAACCTC---ATTATTTCATCGAAGATGCTCCAA-CCCCGT
1 --TAATCGGGGATACTCCAACCCCGGTTTTATTT--TC-AA-A-ACACCAATTTCCTT
* * * * *** *
17420 TACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTT-CTCA
1 TA-AT-C--GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCT-T
* * *
17475 TAATGGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCC-A
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTCCTT
* *
17526 TAATCGGGGATACTCTAACCCCGATTTTATTTTTCAAAACACCAAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACC-AATTTCCTT
* * * * *
17579 TAATCGGGGATACTCTAACCTCGGTTTTATTTTAAAAACACCAATCTTTC-A
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAT-TTCCTT
* * * * * ***** * * ** *
17630 CAATCGAGGATATTCCAACCTCGTTATTTCATCGGGGATACTCCAA-CCCCGT
1 TAATCGGGGATACTCCAACCCCGGT-TTT-ATTTTCAAAACACCAATTTCCTT
* ** * * ***
17682 TACCTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTT-CTCT
1 TA-AT-C--GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCT-T
* * * * *
17737 TAATGGGGGATAGTCCAACCCCGGTTTCA-TTTCTAAAACACTAACTTTCC-A
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTCCTT
*
17788 TAATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTT
1 TAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACC-AATTTCCTT
*
17841 TAATCGGGGATACTCCAACCCCGGCTTTATTT
1 TAATCGGGGATACTCCAACCCCGGTTTTATTT
17873 CCAGAATATT
Statistics
Matches: 405, Mismatches: 110, Indels: 85
0.68 0.18 0.14
Matches are distributed among these distances:
50 11 0.03
51 164 0.40
52 55 0.14
53 114 0.28
54 13 0.03
55 9 0.02
56 32 0.08
57 1 0.00
59 6 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT
Found at i:17727 original size:262 final size:263
Alignment explanation
Indices: 17262--17873 Score: 980
Period size: 262 Copynumber: 2.3 Consensus size: 263
17252 CTCAATTGCT
* **
17262 CATAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACC-AATTTCCTTTAATCAAGGA
1 CATAATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATCGGGGA
* * * *
17325 CACTCCAA-CTCCGATTTTGTTTCCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCT
66 TACTCCAACCT-CGGTTTTATTT-CAAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCT
* *
17389 CATTATTTCATCGAAGATGCTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTAT
129 CATTATTTCATCGAAGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTAT
*
17454 TTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAA
194 TTCCAAAATATTGATTTCTCATAATGGGGGATACTCCAACCCCGGTTTCATTTCTAAAACACTAA
*
17519 TTTTC
259 CTTTC
*
17524 CATAATCGGGGATACTCTAACCCCGATTTTATTTTTCAAAACACCAAATTTCCTTTAATCGGGGA
1 CATAATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATCGGGGA
* * * *
17589 TACTCTAACCTCGGTTTTATTT-TAAAAACACCAATCTTTCACAATCGAGGATATTCCAACCTCG
66 TACTCCAACCTCGGTTTTATTTCAAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCTCA
**
17653 TTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTT
131 TTATTTCATCGAAGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTT
* *
17718 CCAAAATATTGATTTCTCTTAATGGGGGATAGTCCAACCCCGGTTTCATTTCTAAAACACTAACT
196 CCAAAATATTGATTTCTCATAATGGGGGATACTCCAACCCCGGTTTCATTTCTAAAACACTAACT
17783 TTC
261 TTC
17786 CATAATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATCGGGGA
1 CATAATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATCGGGGA
* *
17851 TACTCCAACCCCGGCTTTATTTC
66 TACTCCAACCTCGGTTTTATTTC
17874 CAGAATATTG
Statistics
Matches: 322, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
262 275 0.85
263 13 0.04
264 32 0.10
265 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (263 bp):
CATAATCGGGGATACTCTAACCCCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATCGGGGA
TACTCCAACCTCGGTTTTATTTCAAAAAACACCAATCTTTCACAATCGAGGATACTCCAACCTCA
TTATTTCATCGAAGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTT
CCAAAATATTGATTTCTCATAATGGGGGATACTCCAACCCCGGTTTCATTTCTAAAACACTAACT
TTC
Found at i:17860 original size:211 final size:211
Alignment explanation
Indices: 17480--17860 Score: 493
Period size: 211 Copynumber: 1.8 Consensus size: 211
17470 TCTCATAATG
** * *
17480 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTCCATAATCGGGGATACTCCAAC
* * * *
17545 CCCGATTTTATTTTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCTAACCTCGGTTTTATT
66 CCCGATTTCATTTCTCAAAACACCAAATTTCCTATAATCGGGGATACTCTAACCCCGGTTTTATT
* *
17610 TTAAAAACACCAATCTTTCACAATCGAGGATATTCCAACCTCGTTATTTCATCGGGGATACTCCA
131 TTAAAAACACCAATATTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCA
17675 ACCCCGTTACCTCCGA
196 ACCCCGTTACCTCCGA
* * * * * *
17691 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGA-TTTCTCTTAATGGGGGATAGTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTC-CATAATCGGGGATACTCCAA
* * *
17755 CCCCGGTTTCATTTCT-AAAACACTAACTTTCC-ATAATCGGGGATACTCTAACCCCGGTTTTAT
65 CCCCGATTTCATTTCTCAAAACACCAAATTTCCTATAATCGGGGATACTCTAACCCCGGTTTTA-
* *
17818 TTTTCAAAACACCAA-ATTTC-CTTTAATCGGGGATACTCCAACC
129 TTTTAAAAACACCAATATTTCAC---AATCGAGGATACTCCAACC
17861 CCGGCTTTAT
Statistics
Matches: 144, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
208 1 0.01
209 32 0.22
210 32 0.22
211 79 0.55
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (211 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTCCATAATCGGGGATACTCCAAC
CCCGATTTCATTTCTCAAAACACCAAATTTCCTATAATCGGGGATACTCTAACCCCGGTTTTATT
TTAAAAACACCAATATTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCA
ACCCCGTTACCTCCGA
Found at i:30258 original size:51 final size:51
Alignment explanation
Indices: 30196--30294 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 51
30186 AAATAACGGG
* *
30196 GTTGGAGTATCCCCGATTGT-GAGAAATTGGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGA-AAATTGGTATTTTAG-AAATAAAATCGGA
*
30247 GTTGGAGTATCCCTGATTATGGAAAATTGGTATTTTAGAAATAAAATC
1 GTTGGAGTATCCCCGATTATGGAAAATTGGTATTTTAGAAATAAAATC
30295 AGGCTTAGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 40 0.93
52 3 0.07
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:30259 original size:79 final size:79
Alignment explanation
Indices: 30032--30259 Score: 257
Period size: 78 Copynumber: 2.9 Consensus size: 79
30022 TATAGATGAC
* * *
30032 AACAGGGCTGGAGTATCCCCTGATTATGGAAAATCGGTATTTTGAAAATAAAATCAGGGTTGGAG
1 AACAGGGTTGGAGTATCCCC-GATTGTGGAAAATCGGTGTTTTGAAAATAAAATCAGGGTTGGAG
*
30097 TATCCCCTCAAAAAT
65 TATCCCCGCAAAAAT
* ** ** * ***
30112 AATAGGGTTGGAGTAT-CCTAATTGTGGAAAATCAATGCTTT-AGAAATAAGGCCAGGGTTGGAG
1 AACAGGGTTGGAGTATCCCCGATTGTGGAAAATCGGTGTTTTGA-AAATAAAATCAGGGTTGGAG
30175 TATCCCCGCAAAAAT
65 TATCCCCGCAAAAAT
* *
30190 AACGGGGTTGGAGTATCCCCGATTGT-GAGAAATTGGTGTTTTGAAAATAAAATC-GGAGTTGGA
1 AACAGGGTTGGAGTATCCCCGATTGTGGA-AAATCGGTGTTTTGAAAATAAAATCAGG-GTTGGA
30253 GTATCCC
64 GTATCCC
30260 TGATTATGGA
Statistics
Matches: 119, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
77 1 0.01
78 65 0.55
79 38 0.32
80 15 0.13
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (79 bp):
AACAGGGTTGGAGTATCCCCGATTGTGGAAAATCGGTGTTTTGAAAATAAAATCAGGGTTGGAGT
ATCCCCGCAAAAAT
Found at i:30349 original size:28 final size:28
Alignment explanation
Indices: 30316--30370 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
30306 ATTCCCTCGA
*
30316 AAATAATGGGATTGGAGTATCCCCGATG
1 AAATAACGGGATTGGAGTATCCCCGATG
*
30344 AAATAACGGGGTTGGAGTATCCCCGAT
1 AAATAACGGGATTGGAGTATCCCCGAT
30371 TATGAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (28 bp):
AAATAACGGGATTGGAGTATCCCCGATG
Found at i:30457 original size:28 final size:27
Alignment explanation
Indices: 30404--30477 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
30394 GATATAAAGC
*
30404 CGGGGTTGGAGTATCACCTCGAAAATAG
1 CGGGGTTGGAGTATC-CCTCGAAAATAA
*
30432 CGTGGTTGGAGTATCCCT-GATGAAATAA
1 CGGGGTTGGAGTATCCCTCGA--AAATAA
*
30460 TGGGGTTGGAGTATCCCT
1 CGGGGTTGGAGTATCCCT
30478 AATTATGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
26 2 0.05
27 3 0.08
28 35 0.88
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.27
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGAAAATAA
Found at i:30622 original size:51 final size:51
Alignment explanation
Indices: 30464--30642 Score: 191
Period size: 51 Copynumber: 3.5 Consensus size: 51
30454 AAATAATGGG
* * *
30464 GTTGGAGTATCCCTAATTATGAAAAATTGGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGA
* * ** * * *
30515 GTTGGAGTATCCCCGATTGTGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGA
* * * *
30566 GTTGGAGTATCCCTGATTAAGAAAAATTGATGTTTTGGAAGTGAAATTGG-
1 GTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGA
* *
30616 GATTGGAGTATCCCCGA-GATGAAAAAT
1 G-TTGGAGTATCCCTGATTATGAAAAAT
30643 CTAGAAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
50 9 0.09
51 94 0.91
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGA
Found at i:33521 original size:45 final size:43
Alignment explanation
Indices: 33394--33578 Score: 181
Period size: 42 Copynumber: 4.4 Consensus size: 43
33384 AAAGAGTATG
*
33394 TCCTGCT-TTTCGAGGACAAAGGAAAA-AAGGAAAATGAAATGCA
1 TCCTGCTCTTT-GAGGACAAAGGAAAAGAAGG-AAATGAAGTGCA
* *
33437 TCCTGCTCTTTGAGGACAAA-GAAAAG-AGTAAAATAAAGTGCA
1 TCCTGCTCTTTGAGGACAAAGGAAAAGAAG-GAAATGAAGTGCA
* * **
33479 TCCTGCTCTTTAAGGACAAAAGGGAAAAGAAGGGAATGAAGTGTG
1 TCCTGCTCTTTGAGGAC-AAA-GGAAAAGAAGGAAATGAAGTGCA
*
33524 TCCTGCTCTTTGAGGACAAAGGAGAA-AAGG-AA--AAG-GCA
1 TCCTGCTCTTTGAGGACAAAGGAAAAGAAGGAAATGAAGTGCA
*
33562 TCTTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
33579 TAAAAAGTGC
Statistics
Matches: 121, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
38 17 0.14
39 3 0.02
41 2 0.02
42 37 0.31
43 24 0.20
44 6 0.05
45 30 0.25
46 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (43 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAGAAGGAAATGAAGTGCA
Found at i:33656 original size:62 final size:61
Alignment explanation
Indices: 33547--33736 Score: 276
Period size: 62 Copynumber: 3.1 Consensus size: 61
33537 GGACAAAGGA
* *
33547 GAAAAGGAAAAGGC-ATCTTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAGGCGTTC-TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
*
33609 GAAAAGAAAAGGCGTTCTGCTCTTTGAGGACTGAAAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCGTTCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
33671 AAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTT
1 GAAAAGAAAAGGCGTTCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
33733 -AAAA
1 GAAAA
33737 TGTGTCTTGC
Statistics
Matches: 118, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
61 28 0.24
62 90 0.76
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (61 bp):
GAAAAGAAAAGGCGTTCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:33867 original size:217 final size:216
Alignment explanation
Indices: 33520--33952 Score: 633
Period size: 217 Copynumber: 2.0 Consensus size: 216
33510 GGGAATGAAG
*
33520 TGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCATCTTGCTCTTTGAGGACTAAAAA
1 TGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCATCTTGCTCTTTAAGGACTAAAAA
* * *
33585 GTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTTCTGCTCTTTGAGGACTGAAAAAATG
66 GTGCCACCAACTCGTATGGGCTTTGAAAAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAAAATG
33650 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCA
131 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA-TGCCA
33715 CCAACTTGTGTGGACTTTAAAA
195 CCAACTTGTGTGGACTTTAAAA
* * * * * *
33737 TGTGTCTTGCTCTTTGAGGACTAAAGG-GTGAAAGG-AGAGAGCGTCTTGCTTTTTAAGGACTGG
1 TGTGTCCTGCTCTTTGAGGAC-AAAGGAG-AAAAGGAAAAG-GCATCTTGCTCTTTAAGGACT-A
* * * *
33800 AAAA-TGCCGCCAACTTGTATGGGCTTT-AAAAGAAAAATGCGTCCTACTCTTTGAGGACT-ACA
62 AAAAGTGCCACCAACTCGTATGGGCTTTGAAAAG-AAAAGGCGTCCTACTCTTTGAGGACTGAAA
*
33862 AAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAT
126 AAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAT
*
33927 GCCACCAACTTGTGTGGGCTTTAAAA
191 GCCACCAACTTGTGTGGACTTTAAAA
33953 GGAAAAGGCG
Statistics
Matches: 195, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
216 26 0.13
217 94 0.48
218 71 0.36
219 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (216 bp):
TGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCATCTTGCTCTTTAAGGACTAAAAA
GTGCCACCAACTCGTATGGGCTTTGAAAAGAAAAGGCGTCCTACTCTTTGAGGACTGAAAAAATG
CCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCAC
CAACTTGTGTGGACTTTAAAA
Found at i:33874 original size:61 final size:61
Alignment explanation
Indices: 33777--34037 Score: 381
Period size: 61 Copynumber: 4.4 Consensus size: 61
33767 AAAGGAGAGA
* * * * * * * *
33777 GCGTCTTGCTTTTTAAGGACTGGAAAATGCCGCCAACTTGTATGGGCTTTAAAAGAAAAAT
1 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* *
33838 GCGTCCTACTCTTTGAGGACTACAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
33899 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
33960 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
34016 GCGTCCTGCTCTTTGAGGACTA
1 GCGTCCTGCTCTTTGAGGACTA
34038 AAGGGCGAAA
Statistics
Matches: 187, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
56 27 0.14
61 137 0.73
62 23 0.12
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:33986 original size:28 final size:28
Alignment explanation
Indices: 33954--34037 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 28
33944 GCTTTAAAAG
33954 GAAAAGGCGTCCTGCTCTTTGAGGACTA
1 GAAAAGGCGTCCTGCTCTTTGAGGACTA
** ** * * * *
33982 GAAAAGTGCCACCAACT-TGTGTGGGCTT
1 GAAAAG-GCGTCCTGCTCTTTGAGGACTA
*
34010 TAAAAGGCGTCCTGCTCTTTGAGGACTA
1 GAAAAGGCGTCCTGCTCTTTGAGGACTA
34038 AAGGGCGAAA
Statistics
Matches: 37, Mismatches: 17, Indels: 4
0.64 0.29 0.07
Matches are distributed among these distances:
27 6 0.16
28 25 0.68
29 6 0.16
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (28 bp):
GAAAAGGCGTCCTGCTCTTTGAGGACTA
Found at i:34076 original size:278 final size:272
Alignment explanation
Indices: 33567--34165 Score: 887
Period size: 278 Copynumber: 2.2 Consensus size: 272
33557 AGGCATCTTG
* *
33567 CTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAGGCGTTCTGCTC
1 CTCTTTGAGGACTAAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCCTGCTC
33631 TTTGAGGACTGAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTT
64 TTTGAGGACTGAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTT
* * *
33696 GAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAATGTGTCTTGCTCTTTGAGGACTAA
129 GAGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAGGCGTCCTGCTCTTTGAGGACTAA
* * * * *
33761 AGGGTGAAAGGAGAGAGCGTCTTGCTTTTTAAGGACTGGAAAATGCCGCCAACTTGTATGGGCTT
194 AGGGCGAAAGGAGAGAGCATCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTATGGGCTT
33826 TAAAAGAAAAATGCGTCCTA
259 TAAAAG------GCGTCCTA
33846 CTCTTTGAGGACTACAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
1 CTCTTTGAGGACTA-AAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
* *
33911 TTGAGGACT-AGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTG
65 TTGAGGACTGAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTG
*
33975 AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAA
130 AGGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAA
* * * * * *
34040 GGGCGAAAGGAGAGAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCATCAACTTTTGTGGGCTTT
195 GGGCGAAAGGAGAGAGCATCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTATGGGCTTT
*
34105 AAAAGGCGTCCTG
260 AAAAGGCGTCCTA
* * *
34118 CTCTTTGAGGACTAAAAAAAGCCACCAACTTATGTGGGCTTTGAAAGG
1 CTCTTTGAGGACT-AAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
34166 CGTCCTACTT
Statistics
Matches: 294, Mismatches: 23, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
272 50 0.17
273 1 0.00
278 177 0.60
279 62 0.21
280 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (272 bp):
CTCTTTGAGGACTAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
TGAGGACTGAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGA
GGACTAGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAG
GGCGAAAGGAGAGAGCATCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTA
AAAGGCGTCCTA
Found at i:34147 original size:55 final size:55
Alignment explanation
Indices: 34058--34190 Score: 167
Period size: 55 Copynumber: 2.4 Consensus size: 55
34048 GGAGAGAGCA
*** ** * *
34058 TCCTGCTCTTTGAGGACTGGGAAGTGCCATCAACTTTTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAAAAGCCACCAACTTATGTGGGCTTTAAAAGGCG
*
34113 TCCTGCTCTTTGAGGACTAAAAAAAGCCACCAACTTATGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAAAAGCCACCAACTTATGTGGGCTTTAAAAGGCG
* * *
34168 TCCTACTTTTTAAGGACTAAAAA
1 TCCTGCTCTTTGAGGACTAAAAA
34191 GTGAAAAGAG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAAAAAAAGCCACCAACTTATGTGGGCTTTAAAAGGCG
Found at i:35197 original size:11 final size:11
Alignment explanation
Indices: 35178--35208 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
35168 TTTCTTTCTT
35178 TTTTCTTTTTTG
1 TTTT-TTTTTTG
35190 TTTTTTTTTTG
1 TTTTTTTTTTG
35201 TTTTTTTT
1 TTTTTTTT
35209 AAAAAAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:47496 original size:51 final size:51
Alignment explanation
Indices: 47434--47549 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 51
47424 AAATAACGGG
* * *
47434 GTTGGAGTATCCTCGATTGT-GAGAAATTGGTGTTTT-GAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGGA-AAATTAGTATTTTAG-AAATAAAATCAGA
47485 GTTGGAGTATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAATC-GA
1 GTTGGAGTATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAATCAGA
* *
47535 GGTTAGAGCATCCCC
1 -GTTGGAGTATCCCC
47550 TCGAAAATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
50 2 0.04
51 52 0.91
52 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAATCAGA
Found at i:47639 original size:110 final size:106
Alignment explanation
Indices: 47484--47765 Score: 323
Period size: 110 Copynumber: 2.6 Consensus size: 106
47474 ATAAAATCAG
* * * *
47484 AGTTGGAGTATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAATCGAGGTTAGAGCATCCC
1 AGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAATCGAGGTTGGAGTATCCC
* *
47549 CTCGAAAATAACGGGATTGGAGTATCCCCGATGAAATAATGA
66 CTCGAAAATAACGGGATTAGAGTAT-CCCGATGAAATAACGA
* * * * ** *
47591 AGTTGGAGTACCCCCGATTATGAAAGAAATCAATATTTTTAGATATAAAGCCG-GGATTGGAATA
1 AGTTGGAGTATCCCCGATTGTG-AA-AAATTAATA-TTTTAGAAATAAAATCGAGG-TTGGAGTA
* * *
47655 TCCCCTCGGAAATAACGGGGTTAGAGTATCCCGATGAAATAACGG
62 TCCCCTCGAAAATAACGGGATTAGAGTATCCCGATGAAATAACGA
* * * * *
47700 GGTTGGAGTATCCCCAAATGTGAAAAATTAATATTTTAAAAATAAAATCGAAGTTGGAGTATCCC
1 AGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAATCGAGGTTGGAGTATCCC
47765 C
66 C
47766 GATTGTTGTA
Statistics
Matches: 142, Mismatches: 28, Indels: 11
0.78 0.15 0.06
Matches are distributed among these distances:
106 25 0.18
107 29 0.20
108 3 0.02
109 40 0.28
110 45 0.32
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (106 bp):
AGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAATCGAGGTTGGAGTATCCC
CTCGAAAATAACGGGATTAGAGTATCCCGATGAAATAACGA
Found at i:47685 original size:28 final size:26
Alignment explanation
Indices: 47653--47714 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
47643 GGGATTGGAA
47653 TATCCCCTCGGAAATAACGGGGTTAGAG
1 TATCCCCT--GAAATAACGGGGTTAGAG
* *
47681 TATCCCGATGAAATAACGGGGTTGGAG
1 TATCCC-CTGAAATAACGGGGTTAGAG
47708 TATCCCC
1 TATCCCC
47715 AAATGTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 23 0.77
28 6 0.20
29 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (26 bp):
TATCCCCTGAAATAACGGGGTTAGAG
Found at i:47761 original size:51 final size:51
Alignment explanation
Indices: 47701--47816 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 51
47691 AAATAACGGG
* *
47701 GTTGGAGTATCCCCAAATG-TGAAAAATTAATATTTTAAAAATAAAATCGAA
1 GTTGGAGTATCCCCAAATGTTG-AAAATCAATACTTTAAAAATAAAATCGAA
* * * * * *
47752 GTTGGAGTATCCCCGATTGTTGTAAATCGATGCTTTAGAAATAAAATCGAA
1 GTTGGAGTATCCCCAAATGTTGAAAATCAATACTTTAAAAATAAAATCGAA
*
47803 GTTGAAGTATCCCC
1 GTTGGAGTATCCCC
47817 GATTAAGAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 53 0.96
52 2 0.04
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCAAATGTTGAAAATCAATACTTTAAAAATAAAATCGAA
Found at i:50746 original size:41 final size:40
Alignment explanation
Indices: 50634--50747 Score: 106
Period size: 41 Copynumber: 2.8 Consensus size: 40
50624 AATAGAAGGG
* * * *
50634 GTGTCCCACTTTTTGAGGACAAAGG-AAAAGAGAATGAAA
1 GTGTCCTACTTCTTGAGGACAAAGGAAAAAGAAAAAGAAA
* * * *
50673 -TAGGTCTTGCTCCTTGAGGACAATGGAAAAAAGAAAAAGAAA
1 GT--GTCCTACTTCTTGAGGACAAAGG-AAAAAGAAAAAGAAA
50715 GTGTCCTACTTCTTGAGGACAAAGTGAAAAAGA
1 GTGTCCTACTTCTTGAGGACAAAG-GAAAAAGA
50748 GTACGTCTTA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
38 1 0.02
40 17 0.30
41 25 0.44
42 13 0.23
43 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (40 bp):
GTGTCCTACTTCTTGAGGACAAAGGAAAAAGAAAAAGAAA
Found at i:50827 original size:42 final size:42
Alignment explanation
Indices: 50780--50859 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
50770 AAAGGAAAAA
*
50780 AGGAAAACGAAA-AGCGTCCTACTCTTTGAGGATAAAAGAAAG
1 AGGAAAA-GAAAGAGCGTCCTACTCTTTGAGGACAAAAGAAAG
* * *
50822 AGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAG
1 AGGAAAAGAAAGAGCGTCCTACTCTTTGAGGACAAAAG
50860 GGAAAAGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.09
42 30 0.91
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (42 bp):
AGGAAAAGAAAGAGCGTCCTACTCTTTGAGGACAAAAGAAAG
Found at i:51065 original size:27 final size:27
Alignment explanation
Indices: 51035--51119 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
51025 CTTTAAAACG
51035 AAAAGGTGTCATGCTCTTTGAGGACTA
1 AAAAGGTGTCATGCTCTTTGAGGACTA
* * * * * * *
51062 AAAAAGTGCCA-CCAACTTGTGTGGGCTTT
1 AAAAGGTGTCATGC-TCTT-TGAGGAC-TA
*
51091 AAAAGGTGTCTTGCTCTTTGAGGACTA
1 AAAAGGTGTCATGCTCTTTGAGGACTA
51118 AA
1 AA
51120 GGCAAAAGGA
Statistics
Matches: 39, Mismatches: 15, Indels: 8
0.63 0.24 0.13
Matches are distributed among these distances:
26 1 0.03
27 15 0.38
28 10 0.26
29 12 0.31
30 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (27 bp):
AAAAGGTGTCATGCTCTTTGAGGACTA
Found at i:51066 original size:28 final size:28
Alignment explanation
Indices: 51035--51119 Score: 66
Period size: 28 Copynumber: 3.0 Consensus size: 28
51025 CTTTAAAACG
51035 AAAAGGTGTCATGCTCTTTGAGGACTAA
1 AAAAGGTGTCATGCTCTTTGAGGACTAA
* * * * * **
51063 AAAA-GTGCCA-CCAACTTGTGTGGGCTTT
1 AAAAGGTGTCATGC-TCTT-TGAGGACTAA
*
51091 AAAAGGTGTCTTGCTCTTTGAGGACTAA
1 AAAAGGTGTCATGCTCTTTGAGGACTAA
51119 A
1 A
51120 GGCAAAAGGA
Statistics
Matches: 38, Mismatches: 15, Indels: 8
0.62 0.25 0.13
Matches are distributed among these distances:
26 1 0.03
27 8 0.21
28 21 0.55
29 7 0.18
30 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (28 bp):
AAAAGGTGTCATGCTCTTTGAGGACTAA
Found at i:51094 original size:62 final size:61
Alignment explanation
Indices: 50907--51095 Score: 301
Period size: 61 Copynumber: 3.1 Consensus size: 61
50897 GACAAAAGAG
*
50907 AAAAGGAAAATGTGTCCTGCTCTTTGAGGAC-GAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAA-GAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTT
*
50968 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTT
* *
51029 AAAACGAAAAGGTGTCATGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAA-GAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTT
51091 AAAAG
1 AAAAG
51096 GTGTCTTGCT
Statistics
Matches: 119, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
60 4 0.03
61 78 0.66
62 37 0.31
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (61 bp):
AAAAGAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:51256 original size:216 final size:215
Alignment explanation
Indices: 50880--51310 Score: 647
Period size: 216 Copynumber: 2.0 Consensus size: 215
50870 GGAATGAAGT
* *
50880 GTGTCTTGCCCTTTGAGGACAAAAGAGAAAAGGAAAATGTGTCCTGCTCTTTGAGGACGAAAAAG
1 GTGTCTTGCCCTTTGAGGACAAAAGAGAAAAGGAAAATGCGTCCTCCTCTTTGAGGACGAAAAAG
* *
50945 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCC
66 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGACGTCCTGCTCTTTAAGGACTGAAAAATGCC
* *
51010 ACCAACTTGTGTGGGCTTTAAAACGAAAAGGTGTCATGCTCTTTGAGGACTAAAAAAGTGCCACC
131 ACCAACTTGTGTGGGCTTTAAAACGAAAAGGCGTCATGCTCTTTGAAGACTAAAAAA-TGCCACC
51075 AACTTGTGTGGGCTTTAAAAG
195 AACTTGTGTGGGCTTTAAAAG
* * * *
51096 GTGTCTTGCTCTTTGAGGACTAAAG-GCAAAAGGAGAGA-GCGTCCTCCTCTTTGAGGACTGGAA
1 GTGTCTTGCCCTTTGAGGACAAAAGAG-AAAAGGA-AAATGCGTCCTCCTCTTTGAGGAC-GAAA
*
51159 AA-TGCCACTAACTTGTGTGGGCTTT-AAAAGGAAAAGACGTCCTGCTCTTTAAGGACT-AGAAA
63 AAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAGACGTCCTGCTCTTTAAGGACTGA-AAA
* * *
51221 ATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAAGACTAGAAAATGC
126 ATGCCACCAACTTGTGTGGGCTTTAAAACGAAAAGGCGTCATGCTCTTTGAAGACTAAAAAATGC
51286 CACCAACTTGTGTGGGCTTTAAAAG
191 CACCAACTTGTGTGGGCTTTAAAAG
51311 AAAAAGGCGT
Statistics
Matches: 196, Mismatches: 14, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
215 34 0.17
216 155 0.79
217 7 0.04
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (215 bp):
GTGTCTTGCCCTTTGAGGACAAAAGAGAAAAGGAAAATGCGTCCTCCTCTTTGAGGACGAAAAAG
TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGACGTCCTGCTCTTTAAGGACTGAAAAATGCC
ACCAACTTGTGTGGGCTTTAAAACGAAAAGGCGTCATGCTCTTTGAAGACTAAAAAATGCCACCA
ACTTGTGTGGGCTTTAAAAG
Found at i:51371 original size:62 final size:61
Alignment explanation
Indices: 51134--51371 Score: 388
Period size: 61 Copynumber: 3.9 Consensus size: 61
51124 AAAGGAGAGA
* * * *
51134 GCGTCCTCCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
51195 ACGTCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
51256 GCGTCCTGCTCTTTGAA-GACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
1 GCGTCCTGCTCTTT-AAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
51317 GCGTCCTGCTCTTTAAGGGCTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 GCGTCCTGCTCTTTAAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAA
51372 AGCGTCCTAC
Statistics
Matches: 166, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
60 2 0.01
61 135 0.81
62 29 0.17
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (61 bp):
GCGTCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:51461 original size:156 final size:149
Alignment explanation
Indices: 51259--51545 Score: 412
Period size: 149 Copynumber: 1.9 Consensus size: 149
51249 GGAAAAGGCG
51259 TCCTGCTCTTTGAAGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCCT
1 TCCTGCTCTTTGAAGACTAGAAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCT
* * ** *
51324 GCTCTTTAAGGGCTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTACTCTTTAA
60 ACTCTTTAAGGACTA-AAAAAAGCCACCAACTTATGTGGGCTTTAAAAAGCGTCCTACTCTTTAA
51389 GGACTAAAGGGCGAAAGGAGAGAGCA
124 GGACTAAAGGGCGAAAGGAGAGAGCA
* * *
51415 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
1 TCCTGCTCTTTGAAGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
* * *
51480 TGAGGACTAAAAAAAGCCACCAACTTATGTGGGCTTTGAAAGGCGTCCTACTCTTTAAGGACTAA
66 TAAGGACTAAAAAAAGCCACCAACTTATGTGGGCTTTAAAAAGCGTCCTACTCTTTAAGGACTAA
51545 A
131 A
51546 AAGTGAAAAG
Statistics
Matches: 120, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
149 52 0.43
150 24 0.20
156 44 0.37
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (149 bp):
TCCTGCTCTTTGAAGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTT
TAAGGACTAAAAAAAGCCACCAACTTATGTGGGCTTTAAAAAGCGTCCTACTCTTTAAGGACTAA
AGGGCGAAAGGAGAGAGCA
Found at i:51504 original size:55 final size:55
Alignment explanation
Indices: 51415--51547 Score: 194
Period size: 55 Copynumber: 2.4 Consensus size: 55
51405 GGAGAGAGCA
* ** ** *
51415 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTACTCTTTGAGGACTAAAAAAAGCCACCAACTTATGTGGGCTTTAAAAGGCG
*
51470 TCCTACTCTTTGAGGACTAAAAAAAGCCACCAACTTATGTGGGCTTTGAAAGGCG
1 TCCTACTCTTTGAGGACTAAAAAAAGCCACCAACTTATGTGGGCTTTAAAAGGCG
*
51525 TCCTACTCTTTAAGGACTAAAAA
1 TCCTACTCTTTGAGGACTAAAAA
51548 GTGAAAAGAG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (55 bp):
TCCTACTCTTTGAGGACTAAAAAAAGCCACCAACTTATGTGGGCTTTAAAAGGCG
Found at i:52540 original size:7 final size:7
Alignment explanation
Indices: 52518--52551 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
52508 AAGCAAGTTC
52518 TTTTCTTT
1 TTTTC-TT
52526 TCTTTCTT
1 T-TTTCTT
52534 TTTTCTT
1 TTTTCTT
52541 TTTTCTT
1 TTTTCTT
52548 TTTT
1 TTTT
52552 TGTTGTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.68
8 4 0.16
9 4 0.16
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:52546 original size:18 final size:18
Alignment explanation
Indices: 52523--52562 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
52513 AGTTCTTTTC
52523 TTTTCTTTCTTTT-TTCTT
1 TTTTCTTT-TTTTGTTCTT
*
52541 TTTTCTTTTTTTGTTGTT
1 TTTTCTTTTTTTGTTCTT
52559 TTTT
1 TTTT
52563 TAAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (18 bp):
TTTTCTTTTTTTGTTCTT
Found at i:53797 original size:19 final size:19
Alignment explanation
Indices: 53773--53863 Score: 98
Period size: 19 Copynumber: 5.4 Consensus size: 19
53763 AGTAAATGTG
53773 TCGATACATAAGTGTTGTA
1 TCGATACATAAGTGTTGTA
53792 TCGATAC--AA----TGTA
1 TCGATACATAAGTGTTGTA
53805 TCGATACATAAGTGTTGTA
1 TCGATACATAAGTGTTGTA
53824 TCGATAC--AA----TGTA
1 TCGATACATAAGTGTTGTA
53837 TCGATACATAAGTGTTGTA
1 TCGATACATAAGTGTTGTA
53856 TCGATACA
1 TCGATACA
53864 ATGTATCGCT
Statistics
Matches: 60, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.37
15 4 0.07
17 4 0.07
19 30 0.50
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (19 bp):
TCGATACATAAGTGTTGTA
Found at i:53806 original size:13 final size:13
Alignment explanation
Indices: 53788--53844 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
53778 ACATAAGTGT
53788 TGTATCGATACAA
1 TGTATCGATACAA
53801 TGTATCGATACATAA
1 TGTATCGATAC--AA
53816 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
53833 TGTATCGATACA
1 TGTATCGATACA
53845 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:53809 original size:32 final size:32
Alignment explanation
Indices: 53767--53871 Score: 201
Period size: 32 Copynumber: 3.3 Consensus size: 32
53757 ACAAATAGTA
*
53767 AATGTGTCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
53799 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
53831 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
53863 AATGTATCG
1 AATGTATCG
53872 CTGCAAAGGT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 72 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:53933 original size:13 final size:13
Alignment explanation
Indices: 53915--53942 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
53905 CATTATTTAA
53915 TGTATCGATACAT
1 TGTATCGATACAT
53928 TGTATCGATACAT
1 TGTATCGATACAT
53941 TG
1 TG
53943 ATCTCTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:53937 original size:33 final size:33
Alignment explanation
Indices: 53895--53960 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
53885 GCCAAGGAAA
*
53895 TGTATCGATACATT-ATTTAATGTATCGATACAT
1 TGTATCGATACATTGATCT-ATGTATCGATACAT
*
53928 TGTATCGATACATTGATCTCTGTATCGATACAT
1 TGTATCGATACATTGATCTATGTATCGATACAT
53961 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCTATGTATCGATACAT
Found at i:54891 original size:23 final size:21
Alignment explanation
Indices: 54861--54909 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 21
54851 CCATCTCCAT
54861 CATTTTGACAGCAATGATTCATG
1 CATTTTG--AGCAATGATTCATG
*
54884 CATTTTGAGCTATGATTCATG
1 CATTTTGAGCAATGATTCATG
54905 CATTT
1 CATTT
54910 ATAGCATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 18 0.72
23 7 0.28
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (21 bp):
CATTTTGAGCAATGATTCATG
Found at i:57842 original size:32 final size:33
Alignment explanation
Indices: 57799--57862 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
57789 TAGCCAAACT
* **
57799 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCAATACACCAAAAATTGTATCGATACAA
57831 TGTATCAATACACCAAAAATTGTATCGATACA
1 TGTATCAATACACCAAAAATTGTATCGATACA
57863 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCAATACACCAAAAATTGTATCGATACAA
Found at i:69058 original size:79 final size:79
Alignment explanation
Indices: 68862--69081 Score: 221
Period size: 79 Copynumber: 2.8 Consensus size: 79
68852 AATGGGGCTG
* * * * *
68862 GAGTATCCCCTGATTATGGAAAATCGGTATTCTGAAAATAAAATCGGGGTTGGAGTATCCCCTCA
1 GAGTATCCCC-GATTGTGGAAAATCGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCA
*
68927 AAAATAATCGAGTTG
65 AAAATAATCGAGTTA
* ** * * * *
68942 GAGTATCCTCGATTGTGGAAAATCAATGCTTTAGAAATAAAGCCGGGGTTGGAGTAT-TCCTGCA
1 GAGTATCCCCGATTGTGGAAAATCGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCT-CA
*
69006 AAAATAA-CGGGGTTA
65 AAAATAATC-GAGTTA
* * * *
69021 GAGTATCCCCGATTGT-GAGAAATTGGTGTTTTGGAAATAAAATCAGAGTTGGAGTATCCCC
1 GAGTATCCCCGATTGTGGA-AAATCGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
69082 GATTATGGAA
Statistics
Matches: 111, Mismatches: 25, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
78 6 0.05
79 94 0.85
80 11 0.10
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
GAGTATCCCCGATTGTGGAAAATCGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAA
AAATAATCGAGTTA
Found at i:69080 original size:51 final size:51
Alignment explanation
Indices: 69021--69132 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 51
69011 AACGGGGTTA
* * * *
69021 GAGTATCCCCGATTGT-GAGAAATTGGTGTTTTGGAAATAAAATCAGAGTTG
1 GAGTATCCCCGATTATGGA-AAATTAGTATTTTAGAAATAAAATCAGAGTTG
* *
69072 GAGTATCCCCGATTATGGAAAATTAGTATTTTAGAAATAAAATCGGGGTTG
1 GAGTATCCCCGATTATGGAAAATTAGTATTTTAGAAATAAAATCAGAGTTG
*
69123 GAGCATCCCC
1 GAGTATCCCC
69133 TCGGAAATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
51 51 0.96
52 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATTATGGAAAATTAGTATTTTAGAAATAAAATCAGAGTTG
Found at i:69188 original size:28 final size:26
Alignment explanation
Indices: 69115--69188 Score: 67
Period size: 28 Copynumber: 2.7 Consensus size: 26
69105 GAAATAAAAT
*
69115 CGGGGTTGGAGCATCCCCTCGGAAATAA
1 CGGGGTTGGAGTA-CCCC-CGGAAATAA
* * **
69143 CGAGATTGGAGTGTCCCCGATGAAATAA
1 CGGGGTTGGAGTACCCCCG--GAAATAA
69171 CGGGGTTGGAGTACCCCC
1 CGGGGTTGGAGTACCCCC
69189 AATTATGAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
26 2 0.06
27 3 0.09
28 30 0.86
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.19
Consensus pattern (26 bp):
CGGGGTTGGAGTACCCCCGGAAATAA
Found at i:69251 original size:110 final size:107
Alignment explanation
Indices: 69068--69377 Score: 359
Period size: 110 Copynumber: 2.9 Consensus size: 107
69058 TAAAATCAGA
* * * * * * *
69068 GTTGGAGTATCCCCGATTATGGAAAATTAGTATTTTAGAAATAAAATCGGGGTTGGAGCATCCCC
1 GTTGGAGTACCCCCAATTATGAAAAAATAATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
* * *
69133 TCGGAAATAACGAGATTGGAGTGTCCCCGATGAAATAACGGG
66 TCGGAAATAACGAGGTTGGAGTATCCCCGAGGAAATAACGGG
* * **
69175 GTTGGAGTACCCCCAATTATGAAAGAAATCAATATTTTTAGATATAAAGCCGGGGTTGGAGTATC
1 GTTGGAGTACCCCCAATTATGAAA-AAAT-AAT-GTTTTAGAAATAAAATCGGGGTTGGAGTATC
* * * **
69240 CCCTCGAAAATAACGGGGTTGGAGCATCCCCTCGGAAATAACGGG
63 CCCTCGGAAATAACGAGGTTGGAGTATCCCCGAGGAAATAACGGG
* * * ** * *
69285 GTTGGAGTATCCCCAATTGTGAAAAACTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 GTTGGAGTACCCCCAATTATGAAAAAATAATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
69350 TCGGAAATAACGAGGTTGGAGTATCCCC
66 TCGGAAATAACGAGGTTGGAGTATCCCC
69378 AATTGTGAAA
Statistics
Matches: 168, Mismatches: 32, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
107 74 0.44
108 4 0.02
109 5 0.03
110 85 0.51
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (107 bp):
GTTGGAGTACCCCCAATTATGAAAAAATAATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
TCGGAAATAACGAGGTTGGAGTATCCCCGAGGAAATAACGGG
Found at i:69268 original size:28 final size:28
Alignment explanation
Indices: 69225--69298 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
69215 GATATAAAGC
69225 CGGGGTTGGAGTATCCCCTCGAAAATAA
1 CGGGGTTGGAGTATCCCCTCGAAAATAA
* *
69253 CGGGGTTGGAGCATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCTCGAAAATAA
69281 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
69299 AATTGTGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.24, G:0.32, T:0.20
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAA
Found at i:69348 original size:79 final size:79
Alignment explanation
Indices: 69257--69428 Score: 326
Period size: 79 Copynumber: 2.2 Consensus size: 79
69247 AAATAACGGG
*
69257 GTTGGAGCATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAACTGGTGTTTTG
1 GTTGGAGCATCCCCTCGGAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAACTGGTGTTTTG
69322 GAAATAAAATCGGA
66 GAAATAAAATCGGA
*
69336 GTTGGAGTATCCCCTCGGAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAACTGGTGTTTTG
1 GTTGGAGCATCCCCTCGGAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAACTGGTGTTTTG
69401 GAAATAAAATCGGA
66 GAAATAAAATCGGA
69415 GTTGGAGCATCCCC
1 GTTGGAGCATCCCC
69429 GATTATGAAA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 90 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (79 bp):
GTTGGAGCATCCCCTCGGAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAACTGGTGTTTTG
GAAATAAAATCGGA
Found at i:69427 original size:51 final size:51
Alignment explanation
Indices: 69360--69479 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 51
69350 TCGGAAATAA
* * * * *
69360 CGAGGTTGGAGTATCCCCAATTGTGAAAAACTG-GTGTTTTGGAAATAAAAT
1 CGAGGTTGGAGCATCCCCAATTATGAAAAA-TGAGTATTTTAGAAACAAAAT
*
69411 CG-GAGTTGGAGCATCCCCGATTATGAAAAATGAGTATTTTAGAAACAAAAT
1 CGAG-GTTGGAGCATCCCCAATTATGAAAAATGAGTATTTTAGAAACAAAAT
69462 CGAGGTTGGAGCATCCCC
1 CGAGGTTGGAGCATCCCC
69480 TTGGAAATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
50 3 0.05
51 56 0.93
52 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (51 bp):
CGAGGTTGGAGCATCCCCAATTATGAAAAATGAGTATTTTAGAAACAAAAT
Found at i:69514 original size:28 final size:28
Alignment explanation
Indices: 69483--69538 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
69473 CATCCCCTTG
*
69483 GAAATAACGAGATTGGAGTATCCCCGAT
1 GAAATAACGAGATTGGAGTACCCCCGAT
* *
69511 GAAATAACGGGGTTGGAGTACCCCCGAT
1 GAAATAACGAGATTGGAGTACCCCCGAT
69539 TATGAAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.20
Consensus pattern (28 bp):
GAAATAACGAGATTGGAGTACCCCCGAT
Found at i:69543 original size:347 final size:347
Alignment explanation
Indices: 68906--69607 Score: 1050
Period size: 347 Copynumber: 2.0 Consensus size: 347
68896 AAAATAAAAT
* * * *
68906 CGGGGTTGGAGTATCCCCTCAAAAATAATCGAGTTGGAGTATCCTCGATTGTGGAAAATCAATGC
1 CGGGGTTGGAGCATCCCCTCAAAAATAATCGAGTTGGAGTATCCCCAATTGTGAAAAATCAATGC
* * * * *
68971 TTTAGAAATAAAGCCGGGGTTGGAGTATTCCTGCAAAAATAACGGGGTTAGAGTATCCCCGATTG
66 TTTAGAAATAAAACCGGAGTTGGAGTATCCCTGCAAAAATAACGAGGTTAGAGTATCCCCAATTG
* * * * *
69036 TGAGAAATTGGTGTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTATGGAAAATTAGTAT
131 TGAAAAACTGGTGTTTTGGAAATAAAATCAGAGTTGGAGCATCCCCGATTATGAAAAATGAGTAT
* * *
69101 TTTAGAAATAAAATCGGGGTTGGAGCATCCCCTCGGAAATAACGAGATTGGAGTGTCCCCGATGA
196 TTTAGAAACAAAATCGAGGTTGGAGCATCCCCTCGGAAATAACGAGATTGGAGTATCCCCGATGA
69166 AATAACGGGGTTGGAGTACCCCCAATTATGAAAGAAATCAATATTTTTAGATATAAAGCCGGGGT
261 AATAACGGGGTTGGAGTACCCCCAATTATGAAAGAAATCAATATTTTTAGATATAAAGCCGGGGT
69231 TGGAGTATCCCCTCGAAAATAA
326 TGGAGTATCCCCTCGAAAATAA
** * **
69253 CGGGGTTGGAGCATCCCCTCGGAAATAA-CGGGGTTGGAGTATCCCCAATTGTGAAAAA-CTGGT
1 CGGGGTTGGAGCATCCCCTCAAAAATAATC-GAGTTGGAGTATCCCCAATTGTGAAAAATC-AAT
* * * ** *
69316 GTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCT-CGGAAATAACGAGGTTGGAGTATCCCCAA
64 GCTTTAGAAATAAAACCGGAGTTGGAGTAT-CCCTGCAAAAATAACGAGGTTAGAGTATCCCCAA
*
69380 TTGTGAAAAACTGGTGTTTTGGAAATAAAATCGGAGTTGGAGCATCCCCGATTATGAAAAATGAG
128 TTGTGAAAAACTGGTGTTTTGGAAATAAAATCAGAGTTGGAGCATCCCCGATTATGAAAAATGAG
*
69445 TATTTTAGAAACAAAATCGAGGTTGGAGCATCCCCTTGGAAATAACGAGATTGGAGTATCCCCGA
193 TATTTTAGAAACAAAATCGAGGTTGGAGCATCCCCTCGGAAATAACGAGATTGGAGTATCCCCGA
* *
69510 TGAAATAACGGGGTTGGAGTACCCCCGATTATGAAAGAAATCAGTATTTTTAGATATAAAGCCGG
258 TGAAATAACGGGGTTGGAGTACCCCCAATTATGAAAGAAATCAATATTTTTAGATATAAAGCCGG
* *
69575 GGTTGGAGTATCCCCTCGGAAATAG
323 GGTTGGAGTATCCCCTCGAAAATAA
69600 CGGGGTTG
1 CGGGGTTG
69608 TTGGAGTATC
Statistics
Matches: 318, Mismatches: 34, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
346 2 0.01
347 313 0.98
348 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (347 bp):
CGGGGTTGGAGCATCCCCTCAAAAATAATCGAGTTGGAGTATCCCCAATTGTGAAAAATCAATGC
TTTAGAAATAAAACCGGAGTTGGAGTATCCCTGCAAAAATAACGAGGTTAGAGTATCCCCAATTG
TGAAAAACTGGTGTTTTGGAAATAAAATCAGAGTTGGAGCATCCCCGATTATGAAAAATGAGTAT
TTTAGAAACAAAATCGAGGTTGGAGCATCCCCTCGGAAATAACGAGATTGGAGTATCCCCGATGA
AATAACGGGGTTGGAGTACCCCCAATTATGAAAGAAATCAATATTTTTAGATATAAAGCCGGGGT
TGGAGTATCCCCTCGAAAATAA
Found at i:69668 original size:51 final size:50
Alignment explanation
Indices: 69607--69726 Score: 136
Period size: 50 Copynumber: 2.4 Consensus size: 50
69597 TAGCGGGGTT
* * *
69607 GTTGGAGTATCCCCAATT-GTGAAAAACTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTAG-GAAAAAC-GATGCTTTAGAAATAAAATCGGA
* * *
69658 GTTGGAGTAT-CCCGATTACGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTA-GGAAAAACGATGCTTTAGAAATAAAATCGGA
*
69708 GTTGGAGTATCCCCGATTA
1 GTTGGAGTATCCCCAATTA
69727 AAAAAAATTG
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
50 36 0.60
51 23 0.38
52 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCAATTAGGAAAAACGATGCTTTAGAAATAAAATCGGA
Found at i:71609 original size:19 final size:19
Alignment explanation
Indices: 71585--71629 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
71575 TGGAATAGTG
71585 TTTTTTTGTGCCTTTGGTT
1 TTTTTTTGTGCCTTTGGTT
*
71604 TTTTTTTGTGCTTTTGGTT
1 TTTTTTTGTGCCTTTGGTT
71623 TTTTTTT
1 TTTTTTT
71630 TGCTGAAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.00, C:0.07, G:0.18, T:0.76
Consensus pattern (19 bp):
TTTTTTTGTGCCTTTGGTT
Found at i:72121 original size:20 final size:20
Alignment explanation
Indices: 72096--72150 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
72086 AAAAATGCCT
* * * *
72096 AAATGTCTCGATATATTGTA
1 AAATGTATCGATACAATGCA
72116 AAATGTATCGATACAATGCA
1 AAATGTATCGATACAATGCA
72136 AAATGTATCGATACA
1 AAATGTATCGATACA
72151 TCTAGGTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
AAATGTATCGATACAATGCA
Found at i:73267 original size:15 final size:15
Alignment explanation
Indices: 73249--73280 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
73239 ACTTAGATTC
73249 CATCAAGAGATATTA
1 CATCAAGAGATATTA
73264 CATCAAGAGATATTA
1 CATCAAGAGATATTA
73279 CA
1 CA
73281 CCTAAAAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (15 bp):
CATCAAGAGATATTA
Found at i:73327 original size:8 final size:8
Alignment explanation
Indices: 73314--73357 Score: 52
Period size: 8 Copynumber: 5.1 Consensus size: 8
73304 GGCGTCCTTT
73314 ACAAAAAA
1 ACAAAAAA
73322 ACAAAAAAAA
1 AC--AAAAAA
73332 ACAAAAAA
1 ACAAAAAA
*
73340 CCAAAAAA
1 ACAAAAAA
73348 ACATAAAAA
1 ACA-AAAAA
73357 A
1 A
73358 ACAACAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 17 0.55
9 6 0.19
10 8 0.26
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (8 bp):
ACAAAAAA
Found at i:73331 original size:10 final size:10
Alignment explanation
Indices: 73316--73365 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
73306 CGTCCTTTAC
73316 AAAAAAACAA
1 AAAAAAACAA
73326 AAAAAAAC--
1 AAAAAAACAA
*
73334 AAAAAACCAA
1 AAAAAAACAA
* *
73344 AAAAACATAA
1 AAAAAAACAA
73354 AAAAACAACAA
1 AAAAA-AACAA
73365 A
1 A
73366 CAAGAAAAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
8 7 0.23
10 20 0.65
11 4 0.13
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:73335 original size:18 final size:18
Alignment explanation
Indices: 73314--73361 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
73304 GGCGTCCTTT
73314 ACAAAAAAACAAAAAAAA
1 ACAAAAAAACAAAAAAAA
* *
73332 ACAAAAAACCAAAAAAAC
1 ACAAAAAAACAAAAAAAA
*
73350 ATAAAAAAACAA
1 ACAAAAAAACAA
73362 CAAACAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (18 bp):
ACAAAAAAACAAAAAAAA
Found at i:73344 original size:26 final size:26
Alignment explanation
Indices: 73315--73366 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
73305 GCGTCCTTTA
73315 CAAAAAAACAAAAAAAAACAAAAAAC
1 CAAAAAAACAAAAAAAAACAAAAAAC
* *
73341 CAAAAAAACATAAAAAAACAACAAAC
1 CAAAAAAACAAAAAAAAACAAAAAAC
73367 AAGAAAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.81, C:0.17, G:0.00, T:0.02
Consensus pattern (26 bp):
CAAAAAAACAAAAAAAAACAAAAAAC
Found at i:73373 original size:17 final size:16
Alignment explanation
Indices: 73317--73356 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
73307 GTCCTTTACA
73317 AAAAAACAAAAAAAAAC
1 AAAAAAC-AAAAAAAAC
*
73334 AAAAAACCAAAAAAAC
1 AAAAAACAAAAAAAAC
73350 ATAAAAA
1 A-AAAAA
73357 AACAACAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAAAACAAAAAAAAC
Found at i:73373 original size:26 final size:25
Alignment explanation
Indices: 73314--73373 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 25
73304 GGCGTCCTTT
73314 ACAAAAAAACAAAAAAAAACAAAAA
1 ACAAAAAAACAAAAAAAAACAAAAA
* *
73339 ACCAAAAAAACATAAAAAAACAACAA
1 A-CAAAAAAACAAAAAAAAACAAAAA
*
73365 ACAAGAAAA
1 ACAAAAAAA
73374 GGGGGAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 8 0.26
26 23 0.74
ACGTcount: A:0.82, C:0.15, G:0.02, T:0.02
Consensus pattern (25 bp):
ACAAAAAAACAAAAAAAAACAAAAA
Found at i:74645 original size:14 final size:14
Alignment explanation
Indices: 74622--74700 Score: 60
Period size: 14 Copynumber: 5.9 Consensus size: 14
74612 ATTGTCAACA
*
74622 AAATTGTTGTCAAG
1 AAATTTTTGTCAAG
74636 AAATTTTTGTCAAG
1 AAATTTTTGTCAAG
* *
74650 -AACTTTTGTCGAG
1 AAATTTTTGTCAAG
*
74663 AACA--TGTGTCAA-
1 AA-ATTTTTGTCAAG
*
74675 AAA-CTTTGTCAAG
1 AAATTTTTGTCAAG
*
74688 AAATGTTTGTCAA
1 AAATTTTTGTCAA
74701 CATGAATCCC
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
11 1 0.02
12 9 0.17
13 20 0.38
14 22 0.42
15 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (14 bp):
AAATTTTTGTCAAG
Found at i:74658 original size:13 final size:13
Alignment explanation
Indices: 74628--74700 Score: 67
Period size: 13 Copynumber: 5.5 Consensus size: 13
74618 AACAAAATTG
*
74628 TTGTCAAGAAATTT
1 TTGTCAAG-AACTT
74642 TTGTCAAGAACTT
1 TTGTCAAGAACTT
* *
74655 TTGTCGAGAACAT
1 TTGTCAAGAACTT
* *
74668 GTGTCAAAAAC-T
1 TTGTCAAGAACTT
*
74680 TTGTCAAGAAATGT
1 TTGTCAAGAACT-T
74694 TTGTCAA
1 TTGTCAA
74701 CATGAATCCC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
12 9 0.19
13 23 0.48
14 16 0.33
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (13 bp):
TTGTCAAGAACTT
Found at i:74689 original size:25 final size:25
Alignment explanation
Indices: 74614--74693 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 25
74604 AATTTGCCAT
* *
74614 TGTCAACAAAATTGTTGTCAAGAAATTTT
1 TGTCAA-AAACTT-TTGTCAAGAAA--TG
* *
74643 TGTCAAGAACTTTTGTCGAGAACATG
1 TGTCAAAAACTTTTGTCAAGAA-ATG
74669 TGTCAAAAAC-TTTGTCAAGAAATG
1 TGTCAAAAACTTTTGTCAAGAAATG
74693 T
1 T
74694 TTGTCAACAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
24 4 0.09
25 10 0.23
26 10 0.23
27 9 0.20
28 5 0.11
29 6 0.14
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (25 bp):
TGTCAAAAACTTTTGTCAAGAAATG
Found at i:74761 original size:28 final size:28
Alignment explanation
Indices: 74721--74792 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
74711 TTCTCAAAGC
* *
74721 CCACTAGTCAGTGGTACCTCTTCGAAGT
1 CCACAAGTCAGTGGCACCTCTTCGAAGT
*
74749 CCACAAGTCAGTGGCATCTCTTCGAAGT
1 CCACAAGTCAGTGGCACCTCTTCGAAGT
* *
74777 CTACAA-TTAGTGGCAC
1 CCACAAGTCAGTGGCAC
74793 TTGCTATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (28 bp):
CCACAAGTCAGTGGCACCTCTTCGAAGT
Found at i:75016 original size:32 final size:31
Alignment explanation
Indices: 74980--75091 Score: 154
Period size: 32 Copynumber: 3.5 Consensus size: 31
74970 TTAAAAACCT
74980 ACACAAGTTGGTGGCAACCCTCCTTAAAGCCC
1 ACACAAGTTGGTGGCAACCCT-CTTAAAGCCC
*
75012 ACACAAGTTAGTGGCAACCCTTCTTAAAGCCC
1 ACACAAGTTGGTGGCAACCC-TCTTAAAGCCC
*
75044 ACACAAGTCGGTGGCAACCCT-TTCAAAAGCCC
1 ACACAAGTTGGTGGCAACCCTCTT--AAAGCCC
*
75076 ACATAAGTTGGTGGCA
1 ACACAAGTTGGTGGCA
75092 TCTCTTTCTA
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
30 2 0.03
31 1 0.01
32 68 0.94
33 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (31 bp):
ACACAAGTTGGTGGCAACCCTCTTAAAGCCC
Found at i:75058 original size:64 final size:63
Alignment explanation
Indices: 74963--75091 Score: 163
Period size: 64 Copynumber: 2.0 Consensus size: 63
74953 CCCAGTGGAG
* *
74963 AACCCTTTTAAAAACCTACACAAGTTGGTGGCAACCCTCCTT-AAAGCCCACACAAGTTAGTGGC
1 AACCCTTTTAAAAACCCACACAAGTCGGTGGCAACCCT--TTAAAAGCCCACACAAGTTAGTGGC
* * *
75027 AACCCTTCTT-AAAGCCCACACAAGTCGGTGGCAACCCTTTCAAAAGCCCACATAAGTTGGTGGC
1 AACCCTT-TTAAAAACCCACACAAGTCGGTGGCAACCCTTT-AAAAGCCCACACAAGTTAGTGGC
75091 A
1 A
75092 TCTCTTTCTA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
62 2 0.04
64 53 0.93
65 2 0.04
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (63 bp):
AACCCTTTTAAAAACCCACACAAGTCGGTGGCAACCCTTTAAAAGCCCACACAAGTTAGTGGC
Found at i:75099 original size:32 final size:32
Alignment explanation
Indices: 74966--75102 Score: 143
Period size: 32 Copynumber: 4.3 Consensus size: 32
74956 AGTGGAGAAC
* *
74966 CCTTT-TAAAAACCTACACAAGTTGGTGGCAA
1 CCTTTCTAAAAGCCCACACAAGTTGGTGGCAA
* * * *
74997 CCCTCCTTAAAGCCCACACAAGTTAGTGGCAA
1 CCTTTCTAAAAGCCCACACAAGTTGGTGGCAA
* * *
75029 CCCTTCTTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTTCTAAAAGCCCACACAAGTTGGTGGCAA
* *
75061 CCCTTTC-AAAAGCCCACATAAGTTGGTGGCAT
1 -CCTTTCTAAAAGCCCACACAAGTTGGTGGCAA
75093 CTCTTTCTAA
1 C-CTTTCTAA
75103 GTCCAATGTC
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
31 4 0.05
32 77 0.88
33 7 0.08
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (32 bp):
CCTTTCTAAAAGCCCACACAAGTTGGTGGCAA
Found at i:75152 original size:43 final size:43
Alignment explanation
Indices: 75100--75187 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
75090 CATCTCTTTC
* * *
75100 TAAGTCCAATGTCATTGGCCTTGAATCAACACATTGGCACATT
1 TAAGTCCAATATCACTGGCCTTGAATCAACACATTGACACATT
* * *
75143 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGACACCTT
1 TAAGTCCAATATCACTGGCCTTGAATCAACACATTGACACATT
75186 TA
1 TA
75188 TCATCCTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (43 bp):
TAAGTCCAATATCACTGGCCTTGAATCAACACATTGACACATT
Found at i:75301 original size:104 final size:103
Alignment explanation
Indices: 75192--75623 Score: 322
Period size: 104 Copynumber: 4.2 Consensus size: 103
75182 CCTTTATCAT
* * * * *
75192 CCTTCTCATCTTTAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCA-TCTTTAACA-TTC
1 CCTTCTCATCTTTAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCATTC-GTAACACTT-
* **
75255 CTAAGCCCAATTTCGTTGACCTTGAATCAGCACATTGGCA
64 CTAAGCCCAATATCACTGACCTTGAATCAGCACATTGGCA
* * * * * * ** *
75295 TTCTTCTCATCTTCAAGTTTAATGTCACTAGCCGTGAATCAGCACATTGACATTCGTCGCACTTT
1 -CCTTCTCATCTTTAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCATTCGTAACACTTC
* *
75360 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCA
65 TAAGCCCAATATCACTGACCTTGAATCAGCACATTGGCA
* * * *
75399 CCTTTATCATCTTTAAGTCTAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTC-T-TC-TT
1 CC-TTCTCATCTTTAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCA--TTCGTAACACT
* * ** * * * *
75461 TCTCAAGTCCAACATTGCTGGCCTTAAATCAGTATATTGGCA
63 TCT-AAGCCCAATATCACTGACCTTGAATCAGCACATTGGCA
* * * * * *
75503 CCTTTATCAGCTTTAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTC-T-TC-TT
1 CC-TTCTCATCTTTAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCA--TTCGTAACACT
* * * *
75565 TCTCAAGTCCAACATCACTGGCCTTGAATCAGCATATTGGCA
63 TCT-AAGCCCAATATCACTGACCTTGAATCAGCACATTGGCA
*
75607 CCTTTATCATCTTTAAG
1 CC-TTCTCATCTTTAAG
75624 CCCAACGTCG
Statistics
Matches: 279, Mismatches: 43, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
103 4 0.01
104 267 0.96
105 5 0.02
106 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.35
Consensus pattern (103 bp):
CCTTCTCATCTTTAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCATTCGTAACACTTCT
AAGCCCAATATCACTGACCTTGAATCAGCACATTGGCA
Found at i:75333 original size:52 final size:52
Alignment explanation
Indices: 75274--75942 Score: 218
Period size: 52 Copynumber: 12.7 Consensus size: 52
75264 ATTTCGTTGA
* *
75274 CCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTTTAATGTCACTAG
1 CCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGTCTAATGTCACTAG
* * * * * * * *
75326 CCGTGAATCAGCACATTGACATTCGTCGCA-CTTTTAAGCCCAATATCACTGG
1 CCTTGAATCAGCACATTGGCATTCTTCTCATC-TTTAAGTCTAATGTCACTAG
* * * **
75378 CCTTGAATCAGCATATTGGCA-CCTTTATCATCTTTAAGTCTAATGTTGCTAG
1 CCTTGAATCAGCACATTGGCATTC-TTCTCATCTTTAAGTCTAATGTCACTAG
* * * ** ** *
75430 CCTTGAATCAGCACATTGGCACCTTCTTCT-TTC-TCAAGTCCAACATTGCTGG
1 CCTTGAATCAGCACATTGGCA--TTCTTCTCATCTTTAAGTCTAATGTCACTAG
* * * * * * * **
75482 CCTTAAATCAGTATATTGGCA-CCTTTATCAGCTTTAAGTCCAATGTTGCTAG
1 CCTTGAATCAGCACATTGGCATTC-TTCTCATCTTTAAGTCTAATGTCACTAG
* * * ** *
75534 CCTTGAATCAGCACATTGGCACCTTCTTCT-TTC-TCAAGTCCAACATCACTGG
1 CCTTGAATCAGCACATTGGCA--TTCTTCTCATCTTTAAGTCTAATGTCACTAG
* * * * * * * *
75586 CCTTGAATCAGCATATTGGCA-CCTTTATCATCTTTAAGCCCAACGTC-GTTG
1 CCTTGAATCAGCACATTGGCATTC-TTCTCATCTTTAAGTCTAATGTCACTAG
* * * *** *
75637 ACCTTGATTCAGCA-ATTTGGCACTCTTTTCACCTTTATCATCTTTAAGTCCAATGTTGTTGG
1 -CCTTGAATCAGCACA-TTGGCA-----TT---C-TTCTCATCTTTAAGTCTAATGTCACTAG
* * ** * *
75699 CCTTGAATCAGCACATTGGCACCTTCTTCT-TTC-TTAAGTCCAACATCGCTGG
1 CCTTGAATCAGCACATTGGCA--TTCTTCTCATCTTTAAGTCTAATGTCACTAG
* * * * * * * ** *
75751 CCCTGAATCAGCATATTGACA-CCTTTATCATCTTTAAGTCCAAAGTTGCTGG
1 CCTTGAATCAGCACATTGGCATTC-TTCTCATCTTTAAGTCTAATGTCACTAG
* * * * **
75803 CCTTGAATCAGCACATTGTCACCTTCTTCT-TTC-TCAAGTCCAACATCACTAG
1 CCTTGAATCAGCACATTGGCA--TTCTTCTCATCTTTAAGTCTAATGTCACTAG
* * * * * * * * * *
75855 CCTTGAATCAGCATATTGGTA-CCTTTATTATCTTTAAGCCCAACGTCGCTAA
1 CCTTGAATCAGCACATTGGCATTC-TTCTCATCTTTAAGTCTAATGTCACTAG
* *
75907 CCTTGAATCAGCACTTTGGCACTCTTCTCATCTTTA
1 CCTTGAATCAGCACATTGGCATTCTTCTCATCTTTA
75943 TCGTCTTTAA
Statistics
Matches: 460, Mismatches: 119, Indels: 76
0.70 0.18 0.12
Matches are distributed among these distances:
49 4 0.01
50 12 0.03
51 12 0.03
52 362 0.79
53 9 0.02
54 12 0.03
55 4 0.01
58 2 0.00
61 40 0.09
62 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (52 bp):
CCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGTCTAATGTCACTAG
Found at i:75659 original size:104 final size:104
Alignment explanation
Indices: 75365--75628 Score: 456
Period size: 104 Copynumber: 2.5 Consensus size: 104
75355 ACTTTTAAGC
* *
75365 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCTAATGTTGCTAG
1 CCAACATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTTGCTAG
75430 CCTTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGT
66 CCTTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGT
** * * *
75469 CCAACATTGCTGGCCTTAAATCAGTATATTGGCACCTTTATCAGCTTTAAGTCCAATGTTGCTAG
1 CCAACATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTTGCTAG
75534 CCTTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGT
66 CCTTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGT
*
75573 CCAACATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGCCCAA
1 CCAACATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCCAA
75629 CGTCGTTGAC
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
104 147 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (104 bp):
CCAACATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGTCCAATGTTGCTAG
CCTTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGT
Found at i:75703 original size:61 final size:61
Alignment explanation
Indices: 75605--75720 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
75595 AGCATATTGG
*
75605 CACCTTTATCATCTTTAAGCCCAACGTCGTTGACCTTGATTCAGCA-ATTTGGCACTCTTTT
1 CACCTTTATCATCTTTAAGCCCAACGTCGTTGACCTTGAATCAGCACA-TTGGCACTCTTTT
* * * *
75666 CACCTTTATCATCTTTAAGTCCAATGTTGTTGGCCTTGAATCAGCACATTGGCAC
1 CACCTTTATCATCTTTAAGCCCAACGTCGTTGACCTTGAATCAGCACATTGGCAC
75721 CTTCTTCTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 48 0.98
62 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (61 bp):
CACCTTTATCATCTTTAAGCCCAACGTCGTTGACCTTGAATCAGCACATTGGCACTCTTTT
Found at i:75740 original size:269 final size:269
Alignment explanation
Indices: 75397--75976 Score: 935
Period size: 269 Copynumber: 2.2 Consensus size: 269
75387 AGCATATTGG
* *
75397 CACCTTTATCATCTTTAAGTCTAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
1 CACCTTTATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
* * * * *
75462 CTCAAGTCCAACATTGCTGGCCTTAAATCAGTATATTGGCACCTTTATCAGCTTTAAGTCCAATG
66 CTCAAGTCCAACATCGCTGGCCCTAAATCAGCATATTGACACCTTTATCAGCTTTAAGTCCAAAG
*
75527 TTGCTAGCCTTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGTCCAACATCACTGGCCTTGA
131 TTGCTAGCCTTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGTCCAACATCACTAGCCTTGA
* * *
75592 ATCAGCATATTGGCACCTTTATCATCTTTAAGCCCAACGTCGTTGACCTTGATTCAGCAATTTGG
196 ATCAGCATATTGGCACCTTTATCATCTTTAAGCCCAACGTCGCTAACCTTGAATCAGCAATTTGG
*
75657 CACTCTTTT
261 CACTCTTCT
*
75666 CACCTTTATCATCTTTAAGTCCAATGTTGTTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
1 CACCTTTATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
* * *
75731 CTTAAGTCCAACATCGCTGGCCCTGAATCAGCATATTGACACCTTTATCATCTTTAAGTCCAAAG
66 CTCAAGTCCAACATCGCTGGCCCTAAATCAGCATATTGACACCTTTATCAGCTTTAAGTCCAAAG
* *
75796 TTGCTGGCCTTGAATCAGCACATTGTCACCTTCTTCTTTCTCAAGTCCAACATCACTAGCCTTGA
131 TTGCTAGCCTTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGTCCAACATCACTAGCCTTGA
* * *
75861 ATCAGCATATTGGTACCTTTATTATCTTTAAGCCCAACGTCGCTAACCTTGAATCAGCACTTTGG
196 ATCAGCATATTGGCACCTTTATCATCTTTAAGCCCAACGTCGCTAACCTTGAATCAGCAATTTGG
75926 CACTCTTCT
261 CACTCTTCT
* * * *
75935 CATCTTTATCGTCTTTAAGTCCAGTGTTGCAGGCCTTGAATC
1 CACCTTTATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATC
75977 TACACACTCG
Statistics
Matches: 285, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
269 285 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.35
Consensus pattern (269 bp):
CACCTTTATCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
CTCAAGTCCAACATCGCTGGCCCTAAATCAGCATATTGACACCTTTATCAGCTTTAAGTCCAAAG
TTGCTAGCCTTGAATCAGCACATTGGCACCTTCTTCTTTCTCAAGTCCAACATCACTAGCCTTGA
ATCAGCATATTGGCACCTTTATCATCTTTAAGCCCAACGTCGCTAACCTTGAATCAGCAATTTGG
CACTCTTCT
Found at i:75846 original size:104 final size:104
Alignment explanation
Indices: 75666--75934 Score: 385
Period size: 104 Copynumber: 2.6 Consensus size: 104
75656 GCACTCTTTT
* *
75666 CACCTTTATCATCTTTAAGTCCAATGTTGTTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
1 CACCTTTATCATCTTTAAGTCCAAAGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
* * *
75731 CTTAAGTCCAACATCGCTGGCCCTGAATCAGCATATTGA
66 CTCAAGTCCAACATCACTAGCCCTGAATCAGCATATTGA
*
75770 CACCTTTATCATCTTTAAGTCCAAAGTTGCTGGCCTTGAATCAGCACATTGTCACCTTCTTCTTT
1 CACCTTTATCATCTTTAAGTCCAAAGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
* *
75835 CTCAAGTCCAACATCACTAGCCTTGAATCAGCATATTGG
66 CTCAAGTCCAACATCACTAGCCCTGAATCAGCATATTGA
* * * * * ** *
75874 TACCTTTATTATCTTTAAGCCCAACGTCGCTAACCTTGAATCAGCACTTTGGCACTCTTCT
1 CACCTTTATCATCTTTAAGTCCAAAGTTGCTGGCCTTGAATCAGCACATTGGCAC-CTTCT
75935 CATCTTTATC
Statistics
Matches: 147, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
104 142 0.97
105 5 0.03
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.35
Consensus pattern (104 bp):
CACCTTTATCATCTTTAAGTCCAAAGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTT
CTCAAGTCCAACATCACTAGCCCTGAATCAGCATATTGA
Found at i:85056 original size:21 final size:21
Alignment explanation
Indices: 85038--85097 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
85028 TATTAAAAGT
*
85038 TGCATTTTTTCATCCAAAAAA
1 TGCATTCTTTCATCCAAAAAA
**
85059 TGCATTCTTTCATCCAACCAA
1 TGCATTCTTTCATCCAAAAAA
*
85080 TGCA-TCATTTCATTCAAA
1 TGCATTC-TTTCATCCAAA
85098 GATACCTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (21 bp):
TGCATTCTTTCATCCAAAAAA
Found at i:86704 original size:13 final size:13
Alignment explanation
Indices: 86664--86711 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
86654 TATAGCCGTT
86664 AATGTATCGATAC
1 AATGTATCGATAC
86677 AAT-T-TC-AT-C
1 AATGTATCGATAC
86686 -ATGTATCGATAC
1 AATGTATCGATAC
86698 AATGTATCGATAC
1 AATGTATCGATAC
86711 A
1 A
86712 TTGTCTCAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 4 0.13
11 4 0.13
12 2 0.07
13 16 0.53
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:86730 original size:33 final size:34
Alignment explanation
Indices: 86664--86732 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
86654 TATAGCCGTT
*
86664 AATGTATCGATACAATTTCATCATGTATCGATAC
1 AATGTATCGATACAATTTCATCAGGTATCGATAC
86698 AATGTATCGATAC-ATTGTC-TCAGGTATCGATAC
1 AATGTATCGATACAATT-TCATCAGGTATCGATAC
86731 AA
1 AA
86733 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (34 bp):
AATGTATCGATACAATTTCATCAGGTATCGATAC
Found at i:87376 original size:17 final size:17
Alignment explanation
Indices: 87354--87387 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87344 GTTTTCATTT
87354 TTCTCTCCCTTAAAAAA
1 TTCTCTCCCTTAAAAAA
* *
87371 TTCTCTTCTTTAAAAAA
1 TTCTCTCCCTTAAAAAA
87388 AATTCCCCCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (17 bp):
TTCTCTCCCTTAAAAAA
Found at i:89309 original size:13 final size:13
Alignment explanation
Indices: 89291--89319 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
89281 AAATAGTACC
89291 CAATGTATCGATA
1 CAATGTATCGATA
89304 CAATGTATCGATA
1 CAATGTATCGATA
89317 CAA
1 CAA
89320 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:94440 original size:22 final size:23
Alignment explanation
Indices: 94414--94459 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 23
94404 AGGCTCTCGT
94414 TAAAAAAAATTT-T-CCCTTTGA
1 TAAAAAAAATTTCTCCCCTTTGA
94435 T-AAAAAAATTTCTCCCCTTTGA
1 TAAAAAAAATTTCTCCCCTTTGA
94457 TAA
1 TAA
94460 TCGGTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.45
21 2 0.09
22 9 0.41
23 1 0.05
ACGTcount: A:0.41, C:0.17, G:0.04, T:0.37
Consensus pattern (23 bp):
TAAAAAAAATTTCTCCCCTTTGA
Found at i:96170 original size:22 final size:21
Alignment explanation
Indices: 96135--96184 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
96125 TTTGTTGATG
*
96135 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
96155 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
96176 AATTTGAAG
1 ATTTTGAAG
96185 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:96181 original size:21 final size:22
Alignment explanation
Indices: 96142--96184 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
96132 ATGATTTTGA
* *
96142 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
96164 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
96185 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:102333 original size:13 final size:13
Alignment explanation
Indices: 102315--102340 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102305 TACACCAAGT
102315 ATGTATCGATACA
1 ATGTATCGATACA
102328 ATGTATCGATACA
1 ATGTATCGATACA
102341 CAAAAAATTG
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:102338 original size:32 final size:33
Alignment explanation
Indices: 102297--102360 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
102287 TAGCCAAACT
* **
102297 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
102329 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
102361 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:109164 original size:43 final size:44
Alignment explanation
Indices: 109106--109197 Score: 177
Period size: 43 Copynumber: 2.1 Consensus size: 44
109096 CTATGACATG
109106 AAAAAATGGTAATTTTTAGAGATATGCACTAAGGTAG-AAGGAA
1 AAAAAATGGTAATTTTTAGAGATATGCACTAAGGTAGAAAGGAA
109149 AAAAAATGGTAATTTTTAGAGATATGCACTAAGGTAGAAAGGAA
1 AAAAAATGGTAATTTTTAGAGATATGCACTAAGGTAGAAAGGAA
109193 AAAAA
1 AAAAA
109198 GTGCAAGAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 37 0.77
44 11 0.23
ACGTcount: A:0.50, C:0.04, G:0.22, T:0.24
Consensus pattern (44 bp):
AAAAAATGGTAATTTTTAGAGATATGCACTAAGGTAGAAAGGAA
Found at i:109674 original size:14 final size:14
Alignment explanation
Indices: 109655--109685 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
109645 TAAAAACATG
*
109655 AAATGAAATAAAGA
1 AAATGAAAAAAAGA
109669 AAATGAAAAAAAGA
1 AAATGAAAAAAAGA
109683 AAA
1 AAA
109686 GATGAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (14 bp):
AAATGAAAAAAAGA
Found at i:110659 original size:13 final size:13
Alignment explanation
Indices: 110641--110666 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110631 TACACCAAGT
110641 ATGTATCGATACA
1 ATGTATCGATACA
110654 ATGTATCGATACA
1 ATGTATCGATACA
110667 CAAAAAATTG
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:110664 original size:32 final size:33
Alignment explanation
Indices: 110623--110686 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
110613 TAGCCAAACT
* **
110623 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
110655 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
110687 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:114755 original size:15 final size:15
Alignment explanation
Indices: 114735--114765 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
114725 TAAAAATGTC
*
114735 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
114750 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
114765 C
1 C
114766 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:117027 original size:20 final size:20
Alignment explanation
Indices: 116984--117029 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
116974 AAATCTTTTG
116984 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
117005 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
117025 CAAAA
1 CAAAA
117030 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:119459 original size:13 final size:13
Alignment explanation
Indices: 119441--119466 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119431 TACACCAAGT
119441 ATGTATCGATACA
1 ATGTATCGATACA
119454 ATGTATCGATACA
1 ATGTATCGATACA
119467 CAAAAAATTG
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:119464 original size:32 final size:33
Alignment explanation
Indices: 119423--119486 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
119413 TAGCCAAACT
* **
119423 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
119455 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
119487 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:120870 original size:20 final size:20
Alignment explanation
Indices: 120845--120902 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
120835 CTACCAGTTT
* *
120845 CATGTATTGATACAATTGTC
1 CATGTATCGATACAATTGTA
*
120865 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
120884 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
120903 TCGATACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.55
20 14 0.42
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:120904 original size:13 final size:13
Alignment explanation
Indices: 120886--120910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120876 ACAATGAACA
120886 TGTATCGATACAT
1 TGTATCGATACAT
120899 TGTATCGATACA
1 TGTATCGATACA
120911 AAGCATAATG
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):
TGTATCGATACAT
Found at i:121816 original size:32 final size:33
Alignment explanation
Indices: 121754--121817 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
121744 TACAAGCCAA
** *
121754 TGTATCGATACAATTTTTTGTGTATTGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
121787 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
121818 AGTTTGGCTA
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:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:123883 original size:21 final size:20
Alignment explanation
Indices: 123854--123896 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
123844 GACTAGTGTG
* *
123854 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
123875 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
123895 GG
1 GG
123897 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:126470 original size:15 final size:15
Alignment explanation
Indices: 126450--126480 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
126440 ATTTCGTTTG
*
126450 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
126465 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
126480 G
1 G
126481 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:132167 original size:20 final size:20
Alignment explanation
Indices: 132142--132179 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
132132 ATACATGCTT
132142 ATTGTATCGATACATGAAGA
1 ATTGTATCGATACATGAAGA
132162 ATTGTATCGATACATGAA
1 ATTGTATCGATACATGAA
132180 ACTGGCAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
ATTGTATCGATACATGAAGA
Found at i:132231 original size:20 final size:20
Alignment explanation
Indices: 132206--132259 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
132196 CTATCACTAT
* *
132206 TTGTATCGATACATGGGACA
1 TTGTATCGATACATAGGAAA
*
132226 TTGTATCGATACATAGTAAA
1 TTGTATCGATACATAGGAAA
*
132246 ATGTATCGATACAT
1 TTGTATCGATACAT
132260 TGTGCCCAAC
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:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATAGGAAA
Done.