Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001237.1 Hibiscus syriacus cultivar Beakdansim tig00002433_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113074
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:1021 original size:61 final size:66
Alignment explanation
Indices: 884--1030 Score: 155
Period size: 61 Copynumber: 2.3 Consensus size: 66
874 TTCAACCAAT
* * * **
884 ATATTTAATA-TCAAATTTAAATATAATAATATCTTTTAAATTTAAAATATTAAACCGATATACA
1 ATATTTAATATTCAAACTTAAATATAATAATATATTTTAAATTTAAAATATCAAACAAATATACA
948 C
66 C
* * * *
949 CT-TTTATTATTCAAACTTAAATA-AAT-AT-TATTTTAATTTTAAAATATCAAA-AAATATATA
1 ATATTTAATATTCAAACTTAAATATAATAATATATTTTAAATTTAAAATATCAAACAAATATACA
1009 -
66 C
*
1009 ATATTTAATATTCAAAGTTAAA
1 ATATTTAATATTCAAACTTAAA
1031 AAGATAATAA
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
60 1 0.01
61 23 0.34
62 20 0.29
63 2 0.03
64 9 0.13
65 13 0.19
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.42
Consensus pattern (66 bp):
ATATTTAATATTCAAACTTAAATATAATAATATATTTTAAATTTAAAATATCAAACAAATATACA
C
Found at i:4770 original size:20 final size:20
Alignment explanation
Indices: 4745--4795 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
4735 ATCCTATTCC
4745 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
4765 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
*
4785 TTGGTAATCTT
1 CTGGTAATCTT
4796 ACACTCCGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.47
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:8675 original size:32 final size:32
Alignment explanation
Indices: 8634--8698 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
8624 TAAGGTAAGG
8634 AGTTGTAAATAAGTAACACAACTGATAAAACA
1 AGTTGTAAATAAGTAACACAACTGATAAAACA
8666 AGTTGTAAATAAGTAACACAACTGATAAAACA
1 AGTTGTAAATAAGTAACACAACTGATAAAACA
8698 A
1 A
8699 AACTCTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.22
Consensus pattern (32 bp):
AGTTGTAAATAAGTAACACAACTGATAAAACA
Found at i:12612 original size:3 final size:3
Alignment explanation
Indices: 12604--12659 Score: 69
Period size: 3 Copynumber: 18.0 Consensus size: 3
12594 TTTTTTATAT
*
12604 TTA TTA TTA TTT TTA -TA TTTA TTA TTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA
12650 TTTA TTA TTA
1 -TTA TTA TTA
12660 ATTACAAGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 2 0.04
3 37 0.79
4 8 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:12632 original size:22 final size:22
Alignment explanation
Indices: 12601--12659 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 22
12591 TGGTTTTTTA
*
12601 TATTTATTATTATTTTTATATTTAT
1 TATTTATTATTA-TTAT-TA-TTAT
12626 TATTTATTATTATTATTATTAT
1 TATTTATTATTATTATTATTAT
12648 TATTTATTATTA
1 TATTTATTATTA
12660 ATTACAAGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 16 0.48
23 2 0.06
24 3 0.09
25 12 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTATTATTATTATTATTAT
Found at i:13875 original size:27 final size:25
Alignment explanation
Indices: 13798--13898 Score: 68
Period size: 24 Copynumber: 4.0 Consensus size: 25
13788 ATTTTAATCA
* * *
13798 TTAAAATTTCATTTTGATTATT-TT
1 TTAATATTTTATTTTAATTATTATT
13822 TTAATATTTTATATTTAA-TACTATATT
1 TTAATATTTTAT-TTTAATTA-T-TATT
*
13849 TTAATTCCTTTTATTTTAATTATTATT
1 TTAA-T-ATTTTATTTTAATTATTATT
*
13876 TGCAATA--TTATTTT-ATTATTATT
1 T-TAATATTTTATTTTAATTATTATT
13899 ACTTTTATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
23 9 0.14
24 19 0.30
25 5 0.08
26 1 0.02
27 12 0.19
28 9 0.14
29 8 0.13
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (25 bp):
TTAATATTTTATTTTAATTATTATT
Found at i:13876 original size:12 final size:12
Alignment explanation
Indices: 13859--13922 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
13849 TTAATTCCTT
13859 TTATTTTAATTA
1 TTATTTTAATTA
*
13871 TTATTTGCAA-TA
1 TTATTT-TAATTA
13883 TTATTTTATTATTA
1 TTATTTTA--ATTA
13897 TTACTTTT-ATTA
1 TTA-TTTTAATTA
13909 TTATTCTT-ATTA
1 TTATT-TTAATTA
13921 TT
1 TT
13923 TATATATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
11 3 0.07
12 29 0.66
13 3 0.07
14 5 0.11
15 4 0.09
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (12 bp):
TTATTTTAATTA
Found at i:13887 original size:3 final size:3
Alignment explanation
Indices: 13881--13922 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
13871 TTATTTGCAA
*
13881 TAT TAT T-T TAT TAT TAT TACT T-T TAT TAT TAT TCT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
13923 TATATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 28 0.82
4 2 0.06
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:13904 original size:15 final size:15
Alignment explanation
Indices: 13881--13922 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
13871 TTATTTGCAA
13881 TATTA-TTTTATTAT
1 TATTACTTTTATTAT
13895 TATTACTTTTATTAT
1 TATTACTTTTATTAT
13910 TATT-CTTATTATT
1 TATTACTT-TTATT
13923 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTACTTTTATTAT
Found at i:13930 original size:2 final size:2
Alignment explanation
Indices: 13923--13948 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13913 TCTTATTATT
13923 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
13949 AATAATATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14258 original size:26 final size:27
Alignment explanation
Indices: 14206--14258 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
14196 CTGATATTTC
14206 TAAATAAATATTTTATTTATAAATATA
1 TAAATAAATATTTTATTTATAAATATA
* *
14233 TAAATTAATATTTT-TTTATAATTATA
1 TAAATAAATATTTTATTTATAAATATA
14259 ATTTTGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TAAATAAATATTTTATTTATAAATATA
Found at i:16297 original size:8 final size:7
Alignment explanation
Indices: 16273--16314 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
16263 TTTTCATACA
16273 TGCA-TT
1 TGCATTT
16279 TGCATTT
1 TGCATTT
16286 TGCATCTT
1 TGCAT-TT
16294 TGCATTT
1 TGCATTT
* *
16301 TTCATTG
1 TGCATTT
16308 TGCATTT
1 TGCATTT
16315 ATACTCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:16297 original size:15 final size:14
Alignment explanation
Indices: 16273--16314 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
16263 TTTTCATACA
16273 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
16286 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
16301 TTCATTGTGCATTT
1 TGCATTTTGCATTT
16315 ATACTCTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:16385 original size:14 final size:14
Alignment explanation
Indices: 16345--16410 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
16335 GTACTATACA
16345 ATTTGCAT-TGTTAC
1 ATTTGCATAT-TTAC
**
16359 ATTCACATATTTAC
1 ATTTGCATATTTAC
* *
16373 ATTTGCATTTTTAT
1 ATTTGCATATTTAC
*
16387 GTTTG--TATTTAC
1 ATTTGCATATTTAC
16399 ATTTGCATATTT
1 ATTTGCATATTT
16411 CCATAATTAC
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
12 9 0.23
14 29 0.74
15 1 0.03
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (14 bp):
ATTTGCATATTTAC
Found at i:18897 original size:13 final size:14
Alignment explanation
Indices: 18865--18904 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
18855 CTCATCCAAC
18865 AAAGAAAG--GAAA
1 AAAGAAAGAAGAAA
18877 AAAGAAAGAAGAAA
1 AAAGAAAGAAGAAA
18891 AAA-AAAGAA-AAA
1 AAAGAAAGAAGAAA
18903 AA
1 AA
18905 TTGAATCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 13 0.50
13 6 0.23
14 7 0.27
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAGAAA
Found at i:21234 original size:114 final size:114
Alignment explanation
Indices: 21034--21253 Score: 359
Period size: 114 Copynumber: 1.9 Consensus size: 114
21024 CACATTCTCG
* *
21034 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTC
* * * *
21099 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTAGGAACCACAAAACCAATCATTGGAATTAAAAGATGAATTTGCTCA
* *
21148 TAGTAGAAATAAGAAGACCCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTC
*
21213 GGTAGGAACCACATAACCAATCATTGGAATTAAAAGATGAA
66 GGTAGGAACCACAAAACCAATCATTGGAATTAAAAGATGAA
21254 CTGCATGATC
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTC
GGTAGGAACCACAAAACCAATCATTGGAATTAAAAGATGAATTTGCTCA
Found at i:22438 original size:76 final size:75
Alignment explanation
Indices: 22355--22528 Score: 231
Period size: 76 Copynumber: 2.3 Consensus size: 75
22345 ATTAACAAGA
*
22355 AGCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAGGAATGTTGATGTATCCTGAA
1 AGCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGAA
* *
22420 TGTTTATATC
66 CGTTCATATC
* * * * * **
22430 AGCAAAATGATGGGGTATGCTGAAAGCCTTTTTCAATCAGAATGAAGAATGTTGATGTATTTTGA
1 AGC-AAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGA
*
22495 ACGTTCGTATC
65 ACGTTCATATC
*
22506 AGCAATTGTTGGGGCATGCTGAA
1 AGCAAATGTTGGGGCATGCTGAA
22529 GGCCCACATC
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
75 20 0.24
76 64 0.76
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGAA
CGTTCATATC
Found at i:23478 original size:54 final size:53
Alignment explanation
Indices: 23396--23550 Score: 202
Period size: 54 Copynumber: 2.9 Consensus size: 53
23386 GAAAACTTGG
* * * *
23396 CAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTACGAACGTTTGAA
1 CAGAAGCCACAG-AAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
* *
23450 CAGAAACCACATGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAG
1 CAGAAGCCACA-GAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
** *
23504 CAGAAGCCACAGGAAAGGATGAATAAGCTGTCAAATGTTTTACGAAC
1 CAGAAGCCACA-GAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
23551 CTGCTATTCT
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 88 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (53 bp):
CAGAAGCCACAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
Found at i:23940 original size:22 final size:22
Alignment explanation
Indices: 23914--23991 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
23904 TACATCTACA
23914 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
23936 CTCTTCAAAGATGATAAATTCT
1 CTCTTCAAAGATGATAGATTCT
* *
23958 CTTTTTAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
* *
23980 CTTTTCGAAGAT
1 CTCTTCAAAGAT
23992 AAAAGCTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:26030 original size:13 final size:13
Alignment explanation
Indices: 26014--26044 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
26004 GTCAACGGGT
*
26014 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
26027 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
26040 CGGGT
1 CGGGT
26045 AAACGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:26077 original size:10 final size:10
Alignment explanation
Indices: 26057--26111 Score: 78
Period size: 10 Copynumber: 5.6 Consensus size: 10
26047 ACGGGTCGTG
26057 ACCGGTC-AA
1 ACCGGTCAAA
26066 ACCGGTCAAA
1 ACCGGTCAAA
26076 ACCGGTTCAAA
1 ACCGG-TCAAA
*
26087 ACCGGT-TAA
1 ACCGGTCAAA
26096 ACCGGTCAAA
1 ACCGGTCAAA
26106 ACCGGT
1 ACCGGT
26112 TTCCAGCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
9 15 0.37
10 16 0.39
11 10 0.24
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.15
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:26112 original size:19 final size:19
Alignment explanation
Indices: 26057--26112 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
26047 ACGGGTCGTG
*
26057 ACCGGTC-AAACCGGTCAAA
1 ACCGGTCAAAACCGGT-TAA
26076 ACCGGTTCAAAACCGGTTAA
1 ACCGG-TCAAAACCGGTTAA
26096 ACCGGTCAAAACCGGTT
1 ACCGGTCAAAACCGGTT
26113 TCCAGCGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 17 0.50
20 9 0.26
21 8 0.24
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAAACCGGTTAA
Found at i:33312 original size:13 final size:13
Alignment explanation
Indices: 33296--33326 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
33286 GTCAACGGGT
*
33296 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
33309 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
33322 CGGGT
1 CGGGT
33327 AAACGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:33359 original size:10 final size:10
Alignment explanation
Indices: 33339--33393 Score: 78
Period size: 10 Copynumber: 5.6 Consensus size: 10
33329 ACGGGTCGTG
33339 ACCGGTC-AA
1 ACCGGTCAAA
33348 ACCGGTCAAA
1 ACCGGTCAAA
33358 ACCGGTTCAAA
1 ACCGG-TCAAA
*
33369 ACCGGT-TAA
1 ACCGGTCAAA
33378 ACCGGTCAAA
1 ACCGGTCAAA
33388 ACCGGT
1 ACCGGT
33394 TTCCAGCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
9 15 0.37
10 16 0.39
11 10 0.24
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.15
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:33394 original size:19 final size:19
Alignment explanation
Indices: 33339--33394 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
33329 ACGGGTCGTG
*
33339 ACCGGTC-AAACCGGTCAAA
1 ACCGGTCAAAACCGGT-TAA
33358 ACCGGTTCAAAACCGGTTAA
1 ACCGG-TCAAAACCGGTTAA
33378 ACCGGTCAAAACCGGTT
1 ACCGGTCAAAACCGGTT
33395 TCCAGCGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 17 0.50
20 9 0.26
21 8 0.24
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAAACCGGTTAA
Found at i:34333 original size:113 final size:113
Alignment explanation
Indices: 34131--35956 Score: 3423
Period size: 113 Copynumber: 16.2 Consensus size: 113
34121 GGGTTGTTAC
34131 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
*
34196 TAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
34244 AGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
34309 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
34357 AGATCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
*
34422 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
34470 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCATAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
34535 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
34583 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
34648 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
34696 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
*
34761 TAATGAGAAGAACTTATCTGAAGAA-GAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
34808 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
34873 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
34921 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
*
34986 TAATGGGAAGAACTTATCTATCTGAAGAA-GAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAAC---TC-ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * *
35037 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCATTTCCAGAAAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
35102 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
35150 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
35215 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
35263 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
35328 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
35376 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
35441 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
35489 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCTAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
35554 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
35602 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
*
35667 TAATGAGAAGAACTTATCTGAAGAA-GAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
35714 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
*
35779 TAAT--G-AGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
35824 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
1 AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
* *
35889 TAATGAGAAGAACTTATCTGAAGAA-GAAGAAAAAGTTCATAATGAGA
66 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
35936 AGAACTTGTTCAACCTTTTGC
1 AGAGCTTGTTCAACCTTTTGC
35957 ATTATTCTAT
Statistics
Matches: 1676, Mismatches: 27, Indels: 21
0.97 0.02 0.01
Matches are distributed among these distances:
109 15 0.01
110 92 0.05
112 254 0.15
113 1207 0.72
116 98 0.06
117 10 0.01
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (113 bp):
AGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCA
TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
Found at i:35946 original size:20 final size:20
Alignment explanation
Indices: 35884--35947 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
35874 TCCAGAGAAA
35884 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
35904 -ATC-TGAA-GAAGAAGAAAAA
1 GTTCAT-AATG-AGAAGAACTT
35923 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
35943 GTTCA
1 GTTCA
35948 ACCTTTTGCA
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 2 0.06
19 11 0.35
20 16 0.52
21 2 0.06
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:36015 original size:84 final size:84
Alignment explanation
Indices: 35916--36108 Score: 255
Period size: 84 Copynumber: 2.3 Consensus size: 84
35906 CTGAAGAAGA
** * *
35916 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATTATTCTATCACATAAGGAGATA
1 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAAGATTCTATCACAGAAGAAGATA
* * *
35981 GATTAGCAT-ACACTTTTCC
66 GATCAGCATCA-ACATTGCC
* **
36000 AGAAAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCAAGATTCTATCATGGAAGAAGATA
1 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAAGATTCTATCACAGAAGAAGATA
36065 GATCAGCATCAACATTGCC
66 GATCAGCATCAACATTGCC
**
36084 AG-AAGTGTTCATAATGAGAAGAACT
1 AGAAAAAGTTCATAATGAGAAGAACT
36109 CATCTGAAAG
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
83 20 0.21
84 74 0.78
85 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (84 bp):
AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAAGATTCTATCACAGAAGAAGATA
GATCAGCATCAACATTGCC
Found at i:36376 original size:3 final size:3
Alignment explanation
Indices: 36368--36418 Score: 66
Period size: 3 Copynumber: 16.0 Consensus size: 3
36358 TTTTTTATAT
*
36368 TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTT TTA TTTA TTA TTA TTTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA
36416 TTA
1 TTA
36419 CAAGCCCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 34 0.79
4 9 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:36380 original size:10 final size:10
Alignment explanation
Indices: 36365--36418 Score: 73
Period size: 10 Copynumber: 5.9 Consensus size: 10
36355 AGGTTTTTTA
36365 TATTTATTAT
1 TATTTATTAT
36375 TATTTATTAT
1 TATTTATTAT
36385 TA-TTATTAT
1 TATTTATTAT
36394 TA--T-TT-T
1 TATTTATTAT
36400 TATTTATTAT
1 TATTTATTAT
36410 TATTTATTA
1 TATTTATTA
36419 CAAGCCCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 3 0.08
7 2 0.05
8 2 0.05
9 11 0.28
10 22 0.55
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTTATTAT
Found at i:36390 original size:19 final size:17
Alignment explanation
Indices: 36361--36418 Score: 84
Period size: 16 Copynumber: 3.4 Consensus size: 17
36351 CATTAGGTTT
36361 TTTA-TATTTATTATTA
1 TTTATTATTTATTATTA
36377 TTTATTATTATTATTATTA
1 TTTATTA-T-TTATTATTA
36396 TTT-TTATTTATTATTA
1 TTTATTATTTATTATTA
36412 TTTATTA
1 TTTATTA
36419 CAAGCCCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
16 16 0.42
17 6 0.16
18 4 0.11
19 12 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTATTTATTATTA
Found at i:37585 original size:12 final size:12
Alignment explanation
Indices: 37568--37632 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
37558 TTAATTCCTT
37568 TTATTTTAATTA
1 TTATTTTAATTA
*
37580 TTATTTGCAA-TA
1 TTATTT-TAATTA
37592 TTATTTTATTATTA
1 TTATTTTA--ATTA
*
37606 TTACTTTTTATTA
1 TTA-TTTTAATTA
37619 TTATTCTT-ATTA
1 TTATT-TTAATTA
37631 TT
1 TT
37633 TATATAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
11 1 0.02
12 22 0.50
13 12 0.27
14 5 0.11
15 4 0.09
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (12 bp):
TTATTTTAATTA
Found at i:37596 original size:3 final size:3
Alignment explanation
Indices: 37590--37632 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
37580 TTATTTGCAA
* *
37590 TAT TAT T-T TAT TAT TAT TACT TTT TAT TAT TAT TCT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
37633 TATATAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:37616 original size:16 final size:15
Alignment explanation
Indices: 37595--37632 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
37585 TGCAATATTA
37595 TTTTATTATTATTACT
1 TTTTATTATTATT-CT
37611 TTTTATTATTATTCT
1 TTTTATTATTATTCT
*
37626 TATTATT
1 TTTTATT
37633 TATATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTATTATTCT
Found at i:37635 original size:16 final size:15
Alignment explanation
Indices: 37590--37632 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 15
37580 TTATTTGCAA
37590 TATTATT-TTATTAT
1 TATTATTCTTATTAT
*
37604 TATTA--CTTTTTAT
1 TATTATTCTTATTAT
37617 TATTATTCTTATTAT
1 TATTATTCTTATTAT
37632 T
1 T
37633 TATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 5 0.21
15 8 0.33
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTCTTATTAT
Found at i:37951 original size:27 final size:27
Alignment explanation
Indices: 37920--37974 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
37910 ATATTTCTAA
37920 ATAAATAAATATTTTATTTATAAATAT
1 ATAAATAAATATTTTATTTATAAATAT
* * *
37947 ATAAATTAATATTTTTTTTATAATTAT
1 ATAAATAAATATTTTATTTATAAATAT
37974 A
1 A
37975 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
ATAAATAAATATTTTATTTATAAATAT
Found at i:52283 original size:30 final size:30
Alignment explanation
Indices: 52249--52337 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 30
52239 ACTAAACAAT
52249 TAAAACATACCAAAACTAATTAGTACTCAC
1 TAAAACATACCAAAACTAATTAGTACTCAC
* * * * *
52279 T-AAA-ATGA--AAAA-AAACTA-AAC-AAT
1 TAAAACAT-ACCAAAACTAATTAGTACTCAC
52303 TAAAACATACCAAAACTAATTAGTACTCAC
1 TAAAACATACCAAAACTAATTAGTACTCAC
52333 TAAAA
1 TAAAA
52338 TGAAAAAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 16
0.61 0.15 0.24
Matches are distributed among these distances:
24 2 0.05
25 6 0.15
26 6 0.15
27 8 0.20
28 6 0.15
29 6 0.15
30 7 0.17
ACGTcount: A:0.57, C:0.18, G:0.03, T:0.21
Consensus pattern (30 bp):
TAAAACATACCAAAACTAATTAGTACTCAC
Found at i:52296 original size:54 final size:55
Alignment explanation
Indices: 52219--52377 Score: 284
Period size: 54 Copynumber: 2.9 Consensus size: 55
52209 TAAAAATACC
52219 CACTAAAATGAGAAAAAAAAACTAAACAATTAAAACATACCAAAACTAATTAGTACT
1 CACTAAAAT--GAAAAAAAAACTAAACAATTAAAACATACCAAAACTAATTAGTACT
52276 CACTAAAATG-AAAAAAAACTAAACAATTAAAACATACCAAAACTAATTAGTACT
1 CACTAAAATGAAAAAAAAACTAAACAATTAAAACATACCAAAACTAATTAGTACT
*
52330 CACTAAAATGAAAAAAAAATTAAACAATTAAAACATACCAAAACTAAT
1 CACTAAAATGAAAAAAAAACTAAACAATTAAAACATACCAAAACTAAT
52378 AATTAATGAT
Statistics
Matches: 100, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
54 54 0.54
55 37 0.37
57 9 0.09
ACGTcount: A:0.61, C:0.16, G:0.04, T:0.19
Consensus pattern (55 bp):
CACTAAAATGAAAAAAAAACTAAACAATTAAAACATACCAAAACTAATTAGTACT
Found at i:52533 original size:36 final size:35
Alignment explanation
Indices: 52458--52791 Score: 136
Period size: 36 Copynumber: 9.6 Consensus size: 35
52448 AAATGTTTTT
* ** *
52458 AAAATATATGTACTATATAG-TTTCGAAAACATTTCG
1 AAAATATATATA-TATATAGTTTTTAAAAAAATTT-G
52494 AAAATATATATAGTATATAGTTTTTAAAAAAATTTG
1 AAAATATATATA-TATATAGTTTTTAAAAAAATTTG
* * *
52530 AAAACATATATAATGTATAGTTTTT--GAAAA--TG
1 AAAATATATAT-ATATATAGTTTTTAAAAAAATTTG
* * * ** *
52562 --CAT-T-T-GATATATAGTTTTGAAATCATTTTG
1 AAAATATATATATATATAGTTTTTAAAAAAATTTG
52592 AAAATATATATAATATATAGTTTTTAAAAAACATTTTTG
1 AAAATATATAT-ATATATAGTTTTTAAAAAA-A--TTTG
52631 AAAA-ATTATATAATATATAG-TTTTAAAAACATATTTTG
1 AAAATA-TATAT-ATATATAGTTTTTAAAAA-A-A-TTTG
* * **
52669 -AAATCT-TATATA-ATA-TTTTTAAATCATTTTTG
1 AAAATATATATATATATAGTTTTTAAA-AAAATTTG
** ** *
52701 AAAACTATATA-ATATATAG-TTTTGGAAATTTTTT
1 AAAA-TATATATATATATAGTTTTTAAAAAAATTTG
*
52735 AAGA-ATATA-ATATATAG-TTTTAAAAAATATTTTTG
1 AAAATATATATATATATAGTTTTTAAAAAA-A--TTTG
52770 -AAATATATATATTATATAGTTT
1 AAAATATATATA-TATATAGTTT
52792 ATATTATATT
Statistics
Matches: 226, Mismatches: 40, Indels: 62
0.69 0.12 0.19
Matches are distributed among these distances:
26 11 0.05
28 2 0.01
29 1 0.00
30 3 0.01
32 28 0.12
33 4 0.02
34 31 0.14
35 22 0.10
36 60 0.27
37 23 0.10
38 17 0.08
39 24 0.11
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (35 bp):
AAAATATATATATATATAGTTTTTAAAAAAATTTG
Found at i:52559 original size:62 final size:62
Alignment explanation
Indices: 52493--52626 Score: 155
Period size: 62 Copynumber: 2.2 Consensus size: 62
52483 AAAACATTTC
* * *
52493 GAAAATATATATAG-TATATAGTTTTTAAAAAAATTTGAAAACATATATAATGTATAGTTTTT
1 GAAAATACAT-TAGATATATAGTTTTGAAAAAAATTTGAAAACATATATAATATATAGTTTTT
* * ** * *
52555 GAAAATGCATTTGATATATAGTTTTGAAATCATTTTGAAAATATATATAATATATAGTTTTT
1 GAAAATACATTAGATATATAGTTTTGAAAAAAATTTGAAAACATATATAATATATAGTTTTT
*
52617 -AAAAAACATT
1 GAAAATACATT
52627 TTTGAAAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
61 10 0.17
62 50 0.83
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.42
Consensus pattern (62 bp):
GAAAATACATTAGATATATAGTTTTGAAAAAAATTTGAAAACATATATAATATATAGTTTTT
Found at i:52567 original size:38 final size:37
Alignment explanation
Indices: 52430--52568 Score: 119
Period size: 36 Copynumber: 3.8 Consensus size: 37
52420 TTTTATAGTA
* *
52430 ATATAATATA-A-TTTTTGAAAATG-TTTTTAAAATAT
1 ATATAATATATAGTTTTTGAAAA-GCATTTGAAAATAT
* * *
52465 ATGTACTATATAG-TTTCGAAAA-CATTTCGAAAATAT
1 ATATAATATATAGTTTTTGAAAAGCATTT-GAAAATAT
* ** *
52501 ATATAGTATATAGTTTTT-AAAAAAATTTGAAAACAT
1 ATATAATATATAGTTTTTGAAAAGCATTTGAAAATAT
*
52537 ATATAATGTATAGTTTTTGAAAATGCATTTGA
1 ATATAATATATAGTTTTTGAAAA-GCATTTGA
52569 TATATAGTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
35 11 0.13
36 54 0.66
37 11 0.13
38 6 0.07
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (37 bp):
ATATAATATATAGTTTTTGAAAAGCATTTGAAAATAT
Found at i:52589 original size:98 final size:100
Alignment explanation
Indices: 52471--52654 Score: 284
Period size: 98 Copynumber: 1.9 Consensus size: 100
52461 ATATATGTAC
*
52471 TATATAGTTTCGAAAACATTTCGAAAATATATATAGTATATAGTTTTTAAAAAA-A-TTTGAAAA
1 TATATAGTTTCGAAAACATTTCGAAAATATATATAATATATAGTTTTTAAAAAACATTTTGAAAA
*
52534 CA-TATATAATGTATAGTTTTTGAAAATGCATTTGA
66 -ATTATATAATATATAGTTTTTGAAAATGCATTTGA
* * *
52569 TATATAGTTTTGAAATCATTTTGAAAATATATATAATATATAGTTTTTAAAAAACATTTTTGAAA
1 TATATAGTTTCGAAAACATTTCGAAAATATATATAATATATAGTTTTTAAAAAACA-TTTTGAAA
52634 AATTATATAATATATAGTTTT
65 AATTATATAATATATAGTTTT
52655 AAAAACATAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
98 50 0.65
99 1 0.01
100 1 0.01
101 25 0.32
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (100 bp):
TATATAGTTTCGAAAACATTTCGAAAATATATATAATATATAGTTTTTAAAAAACATTTTGAAAA
ATTATATAATATATAGTTTTTGAAAATGCATTTGA
Found at i:52598 original size:25 final size:26
Alignment explanation
Indices: 52545--52599 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
52535 ATATATAATG
*
52545 TATAGTTTTTGAAAATGCATTTGATA
1 TATAGTTTTTGAAAATGCATTTGAAA
52571 TATAG-TTTTG-AAAT-CATTTTGAAAA
1 TATAGTTTTTGAAAATGCA-TTTG-AAA
52596 TATA
1 TATA
52600 TATAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 2 0.08
24 8 0.31
25 11 0.42
26 5 0.19
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (26 bp):
TATAGTTTTTGAAAATGCATTTGAAA
Found at i:52659 original size:37 final size:37
Alignment explanation
Indices: 52568--52791 Score: 188
Period size: 37 Copynumber: 6.3 Consensus size: 37
52558 AATGCATTTG
* *
52568 ATATATAGTTTTGAAATCA-TTTTG-AAAATATATATA
1 ATATATAGTTTTAAAAACATTTTTGAAAAAT-TATATA
52604 ATATATAGTTTTTAAAAAACATTTTTGAAAAATTATATA
1 ATATATAG-TTTT-AAAAACATTTTTGAAAAATTATATA
**
52643 ATATATAGTTTTAAAAACATATTTTGAAATCTTATAT-
1 ATATATAGTTTTAAAAACAT-TTTTGAAAAATTATATA
* *
52680 A-ATAT--TTTT-AAATCATTTTTG-AAAACTATATA
1 ATATATAGTTTTAAAAACATTTTTGAAAAATTATATA
** * *
52712 ATATATAGTTTT-GGAA-ATTTTT-TAAGA--ATATA
1 ATATATAGTTTTAAAAACATTTTTGAAAAATTATATA
* *
52744 ATATATAGTTTTAAAAAATATTTTTGAAATA-TATATA
1 ATATATAGTTTT-AAAAACATTTTTGAAAAATTATATA
*
52781 TTATATAGTTT
1 ATATATAGTTT
52792 ATATTATATT
Statistics
Matches: 156, Mismatches: 17, Indels: 29
0.77 0.08 0.14
Matches are distributed among these distances:
31 7 0.04
32 23 0.15
33 10 0.06
34 15 0.10
35 11 0.07
36 15 0.10
37 28 0.18
38 23 0.15
39 19 0.12
40 5 0.03
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (37 bp):
ATATATAGTTTTAAAAACATTTTTGAAAAATTATATA
Found at i:52767 original size:69 final size:69
Alignment explanation
Indices: 52599--52791 Score: 198
Period size: 69 Copynumber: 2.8 Consensus size: 69
52589 TTGAAAATAT
*
52599 ATATAATATATAGTTTTTAAAAAACATTTTTGAAAAATTATATAATATATAGTTTTAAAAACATA
1 ATATAATATATAG-TTTTAAAAAATATTTTTG-AAAA-TATATAATATATAGTTTTAAAAACATA
*
52664 TTTTGAA
63 TTTTAAA
* * * ** *
52671 ATCTTATATAATA-TTTT--TAAATCATTTTTGAAAACTATATAATATATAGTTTT-GGAA-ATT
1 ATATAATAT-ATAGTTTTAAAAAAT-ATTTTTGAAAA-TATATAATATATAGTTTTAAAAACATA
52731 TTTTAAGA
63 TTTTAA-A
*
52739 ATATAATATATAGTTTTAAAAAATATTTTTGAAATATATATATTATATAGTTT
1 ATATAATATATAGTTTTAAAAAATATTTTTGAAA-ATATATAATATATAGTTT
52792 ATATTATATT
Statistics
Matches: 101, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
67 10 0.10
68 14 0.14
69 51 0.50
70 12 0.12
71 4 0.04
72 7 0.07
73 3 0.03
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.47
Consensus pattern (69 bp):
ATATAATATATAGTTTTAAAAAATATTTTTGAAAATATATAATATATAGTTTTAAAAACATATTT
TAAA
Found at i:52780 original size:32 final size:33
Alignment explanation
Indices: 52599--52781 Score: 128
Period size: 32 Copynumber: 5.3 Consensus size: 33
52589 TTGAAAATAT
*
52599 ATATAATATATAGTTTTTAAAAAACATTTTTGAAAAA
1 ATATAATATATAG-TTTTAAAAAATATTTTTG---AA
52636 TTATATAATATATAGTTTTAAAAACATA-TTTTGAA
1 --ATATAATATATAGTTTTAAAAA-ATATTTTTGAA
* * *
52671 ATCTTATATAATA-TTTT--TAAATCATTTTTGAAAA
1 ATATAATAT-ATAGTTTTAAAAAAT-ATTTTTG--AA
** *
52705 CTATATAATATATAGTTTT-GGAAAT-TTTTTAAGA
1 --ATATAATATATAGTTTTAAAAAATATTTTTGA-A
52739 ATATAATATATAGTTTTAAAAAATATTTTTGAA
1 ATATAATATATAGTTTTAAAAAATATTTTTGAA
52772 ATAT-ATATAT
1 ATATAATATAT
52782 TATATAGTTT
Statistics
Matches: 120, Mismatches: 11, Indels: 33
0.73 0.07 0.20
Matches are distributed among these distances:
30 2 0.02
31 3 0.03
32 28 0.23
33 21 0.17
34 12 0.10
35 10 0.08
36 11 0.09
37 4 0.03
38 14 0.12
39 15 0.12
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (33 bp):
ATATAATATATAGTTTTAAAAAATATTTTTGAA
Found at i:54041 original size:17 final size:18
Alignment explanation
Indices: 54015--54061 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
54005 TTTATGTCTC
*
54015 TTTTCTTATATATAT-AT
1 TTTTCATATATATATAAT
54032 TTTTCATATA-ATATAAT
1 TTTTCATATATATATAAT
54049 TATTT-ATATATAT
1 T-TTTCATATATAT
54062 GTAAGGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.15
17 17 0.65
18 5 0.19
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTCATATATATATAAT
Found at i:65079 original size:20 final size:19
Alignment explanation
Indices: 65025--65082 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 19
65015 GATTAAACTG
65025 AAAAATTAAGAGATTGAATTT
1 AAAAA-TAAGA-ATTGAATTT
*
65046 AAAAA-AAGAAAATTTAATGTT
1 AAAAATAAG--AATTGAAT-TT
65067 AAAAATAAGAATTGAA
1 AAAAATAAGAATTGAA
65083 GTTACACAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 3 0.10
20 12 0.39
21 13 0.42
22 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (19 bp):
AAAAATAAGAATTGAATTT
Found at i:69035 original size:2 final size:2
Alignment explanation
Indices: 69030--69067 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
69020 CTTTGATTTA
69030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69068 TGATATTATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69576 original size:18 final size:18
Alignment explanation
Indices: 69534--69577 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
69524 TTAAGGGTAC
*
69534 TGGATCTGGATTGTATAT
1 TGGATTTGGATTGTATAT
** *
69552 TAAATTTGGGTTGTATAT
1 TGGATTTGGATTGTATAT
69570 TGGATTTG
1 TGGATTTG
69578 AGTTTTAACT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (18 bp):
TGGATTTGGATTGTATAT
Found at i:83629 original size:30 final size:30
Alignment explanation
Indices: 83587--83781 Score: 336
Period size: 30 Copynumber: 6.5 Consensus size: 30
83577 TAATAAGGTT
*
83587 ATTTATTTTAAAATAATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATA
*
83617 GTTTATTATAAAATAATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATA
83647 ATTTATTATAAAATAATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATA
83677 ATTTATTATAAAATAATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATA
* *
83707 ATTTATCATAAAATAATTTATTATAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATA
*
83737 ATTTATTATAAAATAATTTACTTTAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATA
*
83767 AATTATTATAAAATA
1 ATTTATTATAAAATA
83782 TGGAATGATT
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 156 1.00
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
ATTTATTATAAAATAATTTATTTTAAAATA
Found at i:83822 original size:14 final size:15
Alignment explanation
Indices: 83587--83824 Score: 298
Period size: 15 Copynumber: 15.5 Consensus size: 15
83577 TAATAAGGTT
83587 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
83602 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
83617 GTTTATTATAAAATA
1 ATTTATTTTAAAATA
83632 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
83647 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
83662 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
83677 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
83692 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
**
83707 ATTTATCATAAAATA
1 ATTTATTTTAAAATA
*
83722 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
83737 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
83752 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
83767 AATTATTATAAAATATGGAA
1 ATTTATT-TTAAA-AT---A
83787 TGATTTATTTTAAAATA
1 --ATTTATTTTAAAATA
83804 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
*
83818 TTTTATT
1 ATTTATT
83825 AGTATATATT
Statistics
Matches: 197, Mismatches: 19, Indels: 15
0.85 0.08 0.06
Matches are distributed among these distances:
14 11 0.06
15 166 0.84
16 4 0.02
17 3 0.02
20 3 0.02
21 4 0.02
22 6 0.03
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:83843 original size:32 final size:32
Alignment explanation
Indices: 83804--84261 Score: 261
Period size: 32 Copynumber: 14.4 Consensus size: 32
83794 TTTTAAAATA
* **
83804 ATTTATTTTAAATATTTTATTAGTATATATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
83836 ATTTATTTT-AA-AA--TA-T-G----GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
83858 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
83890 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
83912 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
* * *
83944 ATTTATTTTAAAATATAGATTGATTTATTATTGTAGTTG
1 ATTTATTTT--AA-ATA-ATTTA-TTAGTA-TGGA-TTG
* *
83983 TATGGATTTATTTTAAATAATTTATTAGTATGGATTG
1 -AT--TTAT--TTTAAATAATTTATTAGTATGGATTG
* *
84020 ATTTATTTTAAATAATTTATTTGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
** **
84052 ATTTATTTTAAA-ATATGGATT-G-ATTTATT-
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTG
* * * * * *
84081 ATTGTAGTTGTATGGATTGATTTATT--T-T-AAATA
1 ATT-TA-TT-T-T-AAATAATTTATTAGTATGGATTG
* * *
84114 ATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATT--T-T-AAATAATTTA--TT--AGTATGGATTG
84154 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
84186 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
84218 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
84250 ATTTATTTTAAA
1 ATTTATTTTAAA
84262 ATACAGATTG
Statistics
Matches: 341, Mismatches: 35, Indels: 100
0.72 0.07 0.21
Matches are distributed among these distances:
22 27 0.08
23 6 0.02
24 2 0.01
25 1 0.00
26 6 0.02
27 2 0.01
28 6 0.02
29 4 0.01
30 8 0.02
31 12 0.04
32 180 0.53
33 5 0.01
34 14 0.04
35 3 0.01
36 14 0.04
37 9 0.03
38 8 0.02
39 9 0.03
40 15 0.04
41 3 0.01
42 4 0.01
44 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:83860 original size:22 final size:22
Alignment explanation
Indices: 83769--83869 Score: 76
Period size: 22 Copynumber: 4.5 Consensus size: 22
83759 TTAAAATAAA
* *
83769 TTATTATAAAATATGGAATGAT
1 TTATTTTAAAATATGGATTGAT
** * *
83791 TTATTTTAAAATAATTTATTTTAA
1 TTATTTTAAAAT-ATGGA-TTGAT
* * * **
83815 ATATTTTATTAGTATATATTGAT
1 TTATTTTA-AAATATGGATTGAT
83838 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
83860 TTATTTTAAA
1 TTATTTTAAA
83870 TAATTTATTA
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 31 0.53
23 13 0.22
24 13 0.22
25 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (22 bp):
TTATTTTAAAATATGGATTGAT
Found at i:83868 original size:54 final size:54
Alignment explanation
Indices: 83804--84379 Score: 343
Period size: 54 Copynumber: 10.5 Consensus size: 54
83794 TTTTAAAATA
* *
83804 ATTTATTTTAAATATTTTATTAGTATATATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
*
83858 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* *
83912 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* * * * *
83966 ATTTA--TT--AT--TGTAGTT-GTATGGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATAGATTGA-TTT--AT--TTTA-AAATATGGATTG
*
84020 ATTTATTTTAAATAATTTATTTGTAT-GAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTG
* *
84074 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTA-TTAGTATAGATTGATTTATTTT-AA-AA--TA-T-G---G-ATTG
** * * * ** * * *
84132 ATTTATTTTAAA-ATATGGATT-GATTTA-TTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAG-TATAGATTGATTTATTTTA-AAATATGGATTG
*
84186 ATTTATTTTAAATAATTTATTAGTAT-GAATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTG
* * ** * * * * *** *
84236 ATTTGTATGGATTGATTTATTTTAAAATACAGATTGATTTATTATTGTAGTTGTATAGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATAGATTGATTTA-T-TT-TA-AAATATGGATTG
* * *
84298 ATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATGGATTT
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
* *
84352 ATTTATTTCAAATAATTTATTATTATAG
1 ATTTATTTTAAATAATTTATTAGTATAG
84380 TTGTATGGAT
Statistics
Matches: 403, Mismatches: 66, Indels: 106
0.70 0.11 0.18
Matches are distributed among these distances:
48 33 0.08
49 10 0.02
50 22 0.05
51 2 0.00
52 8 0.02
53 8 0.02
54 205 0.51
55 19 0.05
56 6 0.01
57 5 0.01
58 25 0.06
59 9 0.02
60 17 0.04
62 18 0.04
63 11 0.03
64 5 0.01
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
Found at i:83906 original size:22 final size:22
Alignment explanation
Indices: 83881--83923 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
83871 AATTTATTAG
83881 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
83903 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
83924 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:84108 original size:80 final size:83
Alignment explanation
Indices: 83849--84359 Score: 242
Period size: 80 Copynumber: 5.9 Consensus size: 83
83839 TATTTTAAAA
*
83849 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
*
83914 TTATTTTAAATAATTTATTAG
66 TTA-TTT-AAT-ATGTATTAG
* *
83935 TATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTGTAGTTGTATGGATTTATTTTAAA
1 TATGGATTGATTTATTTT--AA-AT--A---ATTTATTA--GTA--TGAATTGATTTA-TTT---
* *
84000 TAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTG
50 TAA---A--A-TATGGATTGATTTA-TTT-AAT-ATGTATTAG
* * * * ***
84043 TATGAATTGATTTATTTT-AA-AA--TA-T-GGATTG-ATTTA-TTATTGTAGTTGTATGGATTG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTA-TGAATTGATTTATTTTA-AAATATGGATTG
*
84100 ATTTATTTTAAATAATTTATTAG
64 ATTTA-TTT-AAT-ATGTATTAG
* ** * * * ** * * *
84123 TATGAATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTA-TGAATTGATTTATTTTA-AAATATGGATT
*
84185 GATTTATTTTAAATAATTTATTAG
63 GATTTA-TTT-AAT-ATGTATTAG
* * * **
84209 TATGAATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATACAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
84274 TTA-TT-AT-TGTAGTT-G
66 TTATTTAATATGTA-TTAG
* * * *
84289 TATAGATTGATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATGGATTTAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
84354 TTATTT
66 TTATTT
84360 CAAATAATTT
Statistics
Matches: 349, Mismatches: 41, Indels: 75
0.75 0.09 0.16
Matches are distributed among these distances:
80 114 0.33
81 7 0.02
82 3 0.01
84 6 0.02
85 8 0.02
86 96 0.28
87 12 0.03
88 5 0.01
89 5 0.01
90 3 0.01
91 4 0.01
92 2 0.01
94 8 0.02
95 1 0.00
96 5 0.01
98 11 0.03
99 3 0.01
101 1 0.00
102 3 0.01
104 1 0.00
105 2 0.01
107 1 0.00
108 48 0.14
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (83 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
TTATTTAATATGTATTAG
Found at i:84148 original size:22 final size:22
Alignment explanation
Indices: 84123--84165 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
84113 AATTTATTAG
84123 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
84145 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
84166 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:84173 original size:14 final size:14
Alignment explanation
Indices: 84154--84239 Score: 55
Period size: 14 Copynumber: 5.6 Consensus size: 14
84144 ATATGGATTG
84154 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* * *
84168 ATTTATTAGTATGGATTG
1 ATTTATT--T-T-AAATA
84186 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
84200 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
84218 ATTTATTTTAAATA
1 ATTTATTTTAAATA
84232 ATTTATTT
1 ATTTATTT
84240 GTATGGATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
14 27 0.50
15 2 0.04
16 4 0.07
17 2 0.04
18 19 0.35
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:84359 original size:198 final size:194
Alignment explanation
Indices: 83907--84373 Score: 741
Period size: 198 Copynumber: 2.4 Consensus size: 194
83897 TTAAAATATG
*
83907 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTA-
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
* *
83971 -TT--AT--TGTAGTT-GTATGGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
66 TTTAAATAATTTA-TTAGTATGGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTA
** *
84030 AATAATTTATTTGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATG
130 AATAATTTATTTGTATGAATTGATTTATTTTAAAATACAGATTGATTTATTATTGTAGTTGTATA
*
84095 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
84160 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATT
66 TTTAAATAATTTATTAGTAT-G---GATTTATTTTAAATAATTTATTAGTATGAATTGATTTATT
*
84225 TTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATACAGATTGATTTATTATTGTAGTTGT
127 TTAAATAATTTATTTGTATGAATTGATTTATTTTAAAATACAGATTGATTTATTATTGTAGTTGT
84290 ATA
192 ATA
* *
84293 GATTGATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATGGATTTATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
*
84358 TTCAAATAATTTATTA
66 TTTAAATAATTTATTA
84374 TTATAGTTGT
Statistics
Matches: 256, Mismatches: 12, Indels: 12
0.91 0.04 0.04
Matches are distributed among these distances:
188 62 0.24
190 2 0.01
192 2 0.01
193 2 0.01
194 7 0.03
195 1 0.00
198 180 0.70
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (194 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
TTTAAATAATTTATTAGTATGGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAA
ATAATTTATTTGTATGAATTGATTTATTTTAAAATACAGATTGATTTATTATTGTAGTTGTATA
Found at i:84392 original size:112 final size:109
Alignment explanation
Indices: 84176--84393 Score: 235
Period size: 112 Copynumber: 1.9 Consensus size: 109
84166 TAATTTATTA
* * *
84176 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTTG
1 GTATAGATTGATTTATTTTAAATAATGTATTAGTATGAATTGATTTATTTTAAATAATTTATTTA
** * * **
84241 TATGGATTGATTTATTTTAAAATACAGATTGATTTATTATTGTAGTT
66 TATCAAATAATTTATTTT--AATA-AGATTGATGGATTATTGTAGTT
*
84288 GTATAGATTGATTTATTTTAAATAATGTATTAGTATGGATTGATTTATTTTAAAATATGGATTTA
1 GTATAGATTGATTTATTTTAAATAATGTATTAGTATGAATTGATTTATTTT-AAATA---ATTTA
*
84353 TTTATTTCAAATAATTTATTATT-AT-AG-TTGTATGGATTATT
62 TTTATATCAAATAATTTATT-TTAATAAGATTG-ATGGATTATT
84394 TAAATTTCAG
Statistics
Matches: 89, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
111 3 0.03
112 58 0.65
113 5 0.06
114 2 0.02
116 19 0.21
117 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.52
Consensus pattern (109 bp):
GTATAGATTGATTTATTTTAAATAATGTATTAGTATGAATTGATTTATTTTAAATAATTTATTTA
TATCAAATAATTTATTTTAATAAGATTGATGGATTATTGTAGTT
Found at i:84423 original size:31 final size:31
Alignment explanation
Indices: 84388--84446 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
84378 AGTTGTATGG
* *
84388 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
84419 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
84447 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:85733 original size:12 final size:12
Alignment explanation
Indices: 85718--85754 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
85708 GTGACCTAGT
85718 GGGCATGAAAGC
1 GGGCATGAAAGC
85730 GGGCATGAAAGC
1 GGGCATGAAAGC
**
85742 GCTCATGAAAGC
1 GGGCATGAAAGC
85754 G
1 G
85755 CTGACGTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.38, T:0.11
Consensus pattern (12 bp):
GGGCATGAAAGC
Found at i:87115 original size:21 final size:22
Alignment explanation
Indices: 87084--87130 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
87074 GAACAATATT
87084 GATACCCTATG-GAAGAGGTATC
1 GATACCCTATGTGAAG-GGTATC
*
87106 GATA-CCTATGTGGAGGGTATC
1 GATACCCTATGTGAAGGGTATC
87127 GATA
1 GATA
87131 AAGGGGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (22 bp):
GATACCCTATGTGAAGGGTATC
Found at i:88557 original size:23 final size:23
Alignment explanation
Indices: 88526--88579 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
88516 TTGATAAGCA
*
88526 AGAGGATCGAGCTTAGAACCAGC
1 AGAGCATCGAGCTTAGAACCAGC
88549 AGAGCATCGAGCTTAGAACCAGC
1 AGAGCATCGAGCTTAGAACCAGC
88572 AGAGCATC
1 AGAGCATC
88580 ATAACTCCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.35, C:0.24, G:0.28, T:0.13
Consensus pattern (23 bp):
AGAGCATCGAGCTTAGAACCAGC
Found at i:90690 original size:19 final size:19
Alignment explanation
Indices: 90666--90708 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
90656 CATTCTTGAA
*
90666 GGATACCCCGATGCTAGTT
1 GGATACCCCGATGCTAGCT
* *
90685 GGATACTCCGGTGCTAGCT
1 GGATACCCCGATGCTAGCT
90704 GGATA
1 GGATA
90709 TCGGATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (19 bp):
GGATACCCCGATGCTAGCT
Found at i:93202 original size:25 final size:25
Alignment explanation
Indices: 93148--93204 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
93138 TGGATTTAGA
*
93148 ACGACATGAATAGTGTCTACACAAC
1 ACGAGATGAATAGTGTCTACACAAC
93173 ACGAGATGAATAGTGTCTACACAAC
1 ACGAGATGAATAGTGTCTACACAAC
93198 ACGAGAT
1 ACGAGAT
93205 TCGATAGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (25 bp):
ACGAGATGAATAGTGTCTACACAAC
Found at i:94484 original size:2 final size:2
Alignment explanation
Indices: 94477--94567 Score: 182
Period size: 2 Copynumber: 45.5 Consensus size: 2
94467 ATTTAGAAAT
94477 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94519 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94561 TA TA TA T
1 TA TA TA T
94568 TTTTACCAAG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 89 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95358 original size:27 final size:29
Alignment explanation
Indices: 95296--95364 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 29
95286 ATGTTTGGTT
* **
95296 CATGTTCGTTTAATTTTTTAGTATCATGTG
1 CATGTTCGTTT-ATTTATTAGTATCATGAA
*
95326 CGTGTTCGTTTATTTATT-GT-TCATGAA
1 CATGTTCGTTTATTTATTAGTATCATGAA
*
95353 CATGTTCATTTA
1 CATGTTCGTTTA
95365 ATGTTCATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 15 0.45
28 2 0.06
29 6 0.18
30 10 0.30
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (29 bp):
CATGTTCGTTTATTTATTAGTATCATGAA
Found at i:95363 original size:23 final size:23
Alignment explanation
Indices: 95337--95465 Score: 105
Period size: 23 Copynumber: 5.5 Consensus size: 23
95327 GTGTTCGTTT
*
95337 ATTTATTGTTCATGAACATGTTC
1 ATTTATTGTTCACGAACATGTTC
* * * *
95360 ATTTAATGTTCATGAACGTGTTA
1 ATTTATTGTTCACGAACATGTTC
* * *
95383 ATTTATATGTTCACCAAAAGTTTTC
1 ATTTAT-TGTTCACGAACA-TGTTC
* * *
95408 GTTTAATTGTTCACAAACGTGTTC
1 ATTT-ATTGTTCACGAACATGTTC
**
95432 ATTTAACGTTCACGAACATGTTC
1 ATTTATTGTTCACGAACATGTTC
*
95455 GTTTATTGTTC
1 ATTTATTGTTC
95466 GATTATATGT
Statistics
Matches: 80, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
23 48 0.60
24 15 0.19
25 15 0.19
26 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (23 bp):
ATTTATTGTTCACGAACATGTTC
Found at i:96278 original size:20 final size:20
Alignment explanation
Indices: 96255--96306 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
96245 GTACCTTGAG
**
96255 TATCGATACTCCTTCAAGAA
1 TATCGATACTAATTCAAGAA
96275 TATCGATACTAATTCAAGAA
1 TATCGATACTAATTCAAGAA
96295 TATCGATACTAA
1 TATCGATACTAA
96307 AATAGGGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (20 bp):
TATCGATACTAATTCAAGAA
Found at i:105090 original size:31 final size:29
Alignment explanation
Indices: 105035--105105 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 29
105025 TATGTTAATC
*
105035 CGGTCA-TTTTTAAGCCTAATAATGTTTA
1 CGGTCATTTTTTAAGCCTAAGAATGTTTA
*
105063 CGGTCATTTTTTAAGCACCTAAGAATGTTTT
1 CGGTCATTTTTTAAG--CCTAAGAATGTTTA
*
105094 CGGTAATTTTTT
1 CGGTCATTTTTT
105106 TAGAAAATCC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.16
29 8 0.22
31 23 0.62
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.45
Consensus pattern (29 bp):
CGGTCATTTTTTAAGCCTAAGAATGTTTA
Done.