Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1993
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: 8637
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Found at i:4225 original size:55 final size:54
Alignment explanation
Indices: 4141--4831 Score: 686
Period size: 55 Copynumber: 12.0 Consensus size: 54
4131 GACGCATTTT
* *
4141 CCTTTTAAAGCCCACACAAGTTGGTGGCATCATTCAGTCCTCAAAGAGCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATG
* * *
4196 CCTTTTAAGGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGATG
* *
4251 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATG
* *
4305 CTTTCTTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAAAGCAGGATG
1 C---C--TTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATG
* *
4366 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATG
*
4420 CTTTCTTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCGGTCCTCAAAGAGCAGGACT-
1 C---C--TTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGA-TG
*
4481 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACT-
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGA-TG
* * * *
4536 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGATCAGGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATG
*
4590 CCTTTTCCATTTCAAAGCCCACACAAATTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG
1 CC---T---TTT-AAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGATG
4652 CTTTCTTTTTGTAAA-CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG
1 C---C--TTT-TAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGATG
* * * * * *
4712 CTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCATCTTCCAATCCTCAAAGAGTAGGACG
1 C---C-TTTT--AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGATG
* * *
4773 CCTTTTCTTTTCAAAGACCACACGAGTTAGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
1 -C----CTTTT-AAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGA
4832 CACACTTCTT
Statistics
Matches: 553, Mismatches: 46, Indels: 68
0.83 0.07 0.10
Matches are distributed among these distances:
54 69 0.12
55 172 0.31
56 7 0.01
57 3 0.01
58 3 0.01
59 10 0.02
60 101 0.18
61 150 0.27
62 30 0.05
63 4 0.01
64 3 0.01
65 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (54 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGATG
Found at i:4355 original size:115 final size:115
Alignment explanation
Indices: 4141--4831 Score: 808
Period size: 115 Copynumber: 6.0 Consensus size: 115
4131 GACGCATTTT
* * *
4141 CCTTTTAAAGCCCACACAAGTTGGTGGCATCATTCAGTCCTCAAAGAGCAGGACGC---C--TTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTT
* * *
4201 T-AAGGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGTAGGATG
65 TCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGATG
4251 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTT
* *
4316 CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAAAGCAGGATG
66 CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATG
4366 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTT
*
4431 CAAAGCCCACACAAGTTGGTGGCACCTTTCGGTCCTCAAAGAGCAGGACT-
66 CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA-TG
* *
4481 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGA--C--TC--CT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGATGCTTTCTTTT
* *
4539 TTCAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGATCAGGACGCCTTTT
64 TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA------TG
* *
4596 CCATTTCAAAGCCCACACAAATTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTT
1 CC-TTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTT
*
4661 TGT-AAA-CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG
64 T-TCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATG
* * * * * *
4712 CTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCATCTTCCAATCCTCAAAGAGTAGGACGCCTT
1 C---C--TTT-CAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATG-CTT
* * * * *
4777 T-TCTTTTCAAAGACCACACGAGTTAGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
58 TCTTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
4832 CACACTTCTT
Statistics
Matches: 509, Mismatches: 36, Indels: 60
0.84 0.06 0.10
Matches are distributed among these distances:
109 43 0.08
110 57 0.11
112 3 0.01
114 9 0.02
115 181 0.36
116 67 0.13
117 1 0.00
118 3 0.01
119 1 0.00
120 8 0.02
121 66 0.13
122 69 0.14
123 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (115 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTT
CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATG
Found at i:4392 original size:170 final size:170
Alignment explanation
Indices: 4110--4831 Score: 811
Period size: 170 Copynumber: 4.1 Consensus size: 170
4100 CTCTTTTAGC
* * * *
4110 CCTTCAGTCCTCAAAGAGTAGGACGCATTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCATCAT
1 CCTTCAGTCCTCAAAGAGCAGGATGC-TTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * **
4174 TCAGTCCTCAAAGAGCAGGACGCCTTTTAAGGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
64 TCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCA
4239 AAGAGTAGGATGC-C-TTTCAAAGCCCACACAAGTTGGTGGCA
128 AAGAGTAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
4280 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT
* *
4345 CAGTCTTCAAAAAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
65 CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
*
4410 GAGCAGGATGCTTTCTTTTTTCAAAGCCCACACAAGTTGGTGGCA
130 GAGTAGGATGC--TC--TTTTCAAAGCCCACACAAGTTGGTGGCA
* *
4455 CCTTTCGGTCCTCAAAGAGCAGGA--C--TC-CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
1 CC-TTCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
4514 CTAGTCCTCAAAGAGCAGGACT-CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
65 C-AGTCCTCAAAGAGCAGGA-TGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
* * *
4578 AAGA-TCAGGACGCCTTTTCCATTTCAAAGCCCACACAAATTGGTGGCA
128 AAGAGT-AGGATG-C---T-CTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
4626 CTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGTAAA-CCCACACAAGTTGGTGGCACTTT
1 C-CTTCAGTCCTCAAAGAGCAGGATGCTTTCTCTTT-TAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
4690 TCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCATCTTCCAA
64 TCAGTCCTCAAAGAGCAGGATGC---C--TTT-CAAAGCCCACACAAGTTGGTGGCACCTT-CAG
* * * *
4755 TCCTCAAAGAGTAGGACGCCTTTTCTTTTCAAAGACCACACGAGTTAGTGGCA
122 TCCTCAAAGAGTAGGATG-C---TCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
4808 CTTTTCAGTCCTCAAAGAGCAGGA
1 C-CTTCAGTCCTCAAAGAGCAGGA
4832 CACACTTCTT
Statistics
Matches: 484, Mismatches: 36, Indels: 52
0.85 0.06 0.09
Matches are distributed among these distances:
169 32 0.07
170 188 0.39
171 53 0.11
172 6 0.01
173 2 0.00
174 1 0.00
175 32 0.07
176 61 0.13
177 7 0.01
179 1 0.00
181 3 0.01
182 73 0.15
183 24 0.05
184 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (170 bp):
CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
AGTAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:4862 original size:42 final size:41
Alignment explanation
Indices: 4815--4947 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 41
4805 GCACTTTTCA
* *
4815 GTCCTCAAAGAGCAGGACACACTTCTTTCCCTTTTTCACTTT
1 GTCCTCAAAGAGCAGGACACATTTCTTTCCATTTTTC-CTTT
* **
4857 GTCCTC-AAGAAGTAGGACAC-TTTCCTTTTCTTTTTTTCCTTT
1 GTCCTCAAAG-AGCAGGACACATTT-C-TTTCCATTTTTCCTTT
* *
4899 GTCCTCAAGGAGCAGGAC-CTATTTCATTCCATTTTT-CTTT
1 GTCCTCAAAGAGCAGGACAC-ATTTCTTTCCATTTTTCCTTT
4939 GTCCTCAAA
1 GTCCTCAAA
4948 AAAGTGGGAC
Statistics
Matches: 75, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
40 12 0.16
41 14 0.19
42 34 0.45
43 15 0.20
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGACACATTTCTTTCCATTTTTCCTTT
Found at i:5659 original size:65 final size:66
Alignment explanation
Indices: 5563--5747 Score: 311
Period size: 65 Copynumber: 2.8 Consensus size: 66
5553 ATCAAGAAAT
5563 AAAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAAT-AA
1 AAAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAA
5627 A
66 A
* *
5628 AAAAACATGGGATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGGAATAAA
1 AAAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAA
5693 A
66 A
*
5694 AAAAAGGCATAGAATGATGGGCATGGAATA-AAAAATGAAGGCATGGAATGATGG
1 AAAAA--CATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGG
5748 ATAAAAATGA
Statistics
Matches: 113, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
65 60 0.53
66 8 0.07
67 24 0.21
68 21 0.19
ACGTcount: A:0.46, C:0.06, G:0.30, T:0.18
Consensus pattern (66 bp):
AAAAACATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATGGGCATGAAATAAA
A
Found at i:5701 original size:33 final size:34
Alignment explanation
Indices: 5568--5747 Score: 271
Period size: 35 Copynumber: 5.4 Consensus size: 34
5558 GAAATAAAAA
5568 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
1 CATGGAATGATGGGCATGGAATA-AAAAATGAAGG
*
5603 CATGGAATGATGGGCATGAAATAAAAAA--AA--
1 CATGGAATGATGGGCATGGAATAAAAAATGAAGG
*
5633 CATGGGATGATGGGCATGGAATATAAAAATGAAGG
1 CATGGAATGATGGGCATGGAATA-AAAAATGAAGG
*
5668 CATGGAATGATGGGCATGGAATAAAAAA-AAAGG
1 CATGGAATGATGGGCATGGAATAAAAAATGAAGG
*
5701 CATAGAATGATGGGCATGGAATAAAAAATGAAGG
1 CATGGAATGATGGGCATGGAATAAAAAATGAAGG
5735 CATGGAATGATGG
1 CATGGAATGATGG
5748 ATAAAAATGA
Statistics
Matches: 131, Mismatches: 8, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
30 21 0.16
31 5 0.04
32 2 0.02
33 33 0.25
34 26 0.20
35 44 0.34
ACGTcount: A:0.45, C:0.06, G:0.31, T:0.18
Consensus pattern (34 bp):
CATGGAATGATGGGCATGGAATAAAAAATGAAGG
Found at i:7047 original size:79 final size:79
Alignment explanation
Indices: 6951--7170 Score: 368
Period size: 79 Copynumber: 2.8 Consensus size: 79
6941 GTTAAGTTTC
* *
6951 TCAATTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
7016 TTATCTCTAAAACA
66 TTATCTCTAAAACA
* *
7030 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGGTT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
* *
7095 TTATTTCTAAAATA
66 TTATCTCTAAAACA
* *
7109 TTAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
7171 TTATTTCCGA
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 131 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
TTATCTCTAAAACA
Found at i:7157 original size:107 final size:106
Alignment explanation
Indices: 7046--7275 Score: 388
Period size: 107 Copynumber: 2.2 Consensus size: 106
7036 TTTCATAATC
* * * * *
7046 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATC
7111 AATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTCGA
66 AATTTTTCACAATCAGGGATACTCCAACCCCG-TATTTTCGA
7153 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATC
* *
7218 AATTTTTCATAATCGGGGATACTCCAACCCCGTATTTTCGA
66 AATTTTTCACAATCAGGGATACTCCAACCCCGTATTTTCGA
7259 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
7276 AGTTTTATTT
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
106 26 0.22
107 90 0.78
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (106 bp):
GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATC
AATTTTTCACAATCAGGGATACTCCAACCCCGTATTTTCGA
Found at i:7164 original size:28 final size:28
Alignment explanation
Indices: 7126--7198 Score: 137
Period size: 28 Copynumber: 2.6 Consensus size: 28
7116 TTCACAATCA
*
7126 GGGATACTCCAACCCCGTTATTTTCGAG
1 GGGATACTCCAACCCCGTTATTTCCGAG
7154 GGGATACTCCAACCCCGTTATTTCCGAG
1 GGGATACTCCAACCCCGTTATTTCCGAG
7182 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
7199 GTTTTATCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.23
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTCCGAG
Found at i:7283 original size:78 final size:79
Alignment explanation
Indices: 7153--7641 Score: 788
Period size: 79 Copynumber: 6.2 Consensus size: 79
7143 TTATTTTCGA
* *
7153 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATC
7218 AATTTTTCATAATC
66 AATTTTTCATAATC
* * *
7232 GGGGATACTCCAACCCCG-TATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCT-AAATATT
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATC
*
7295 AATTTTTCACAATC
66 AATTTTTCATAATC
* * **
7309 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACGCC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATC
7374 AATTTTTCATAATC
66 AATTTTTCATAATC
* *
7388 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATC
*
7453 AATTTTTCACAATC
66 AATTTTTCATAATC
* **
7467 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACCCC-GATTTTATTTCTAAAACGC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAG-TTTTATTTCTAAAACAT
7531 CAATTTTTCATAATC
65 CAATTTTTCATAATC
7546 GGGGATACTCCAACCCCGTTATTTCCGAGGGG-TACTCCAACCCCAGTTTTATTTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATC
7610 AATTTTTCATAATC
66 AATTTTTCATAATC
*
7624 GGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
7642 ATTTTATTTT
Statistics
Matches: 375, Mismatches: 31, Indels: 9
0.90 0.07 0.02
Matches are distributed among these distances:
77 36 0.10
78 129 0.34
79 210 0.56
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATC
AATTTTTCATAATC
Found at i:7420 original size:263 final size:265
Alignment explanation
Indices: 6951--7432 Score: 788
Period size: 263 Copynumber: 1.8 Consensus size: 265
6941 GTTAAGTTTC
* *
6951 TCAATTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTT
* *
7016 TTATCTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATA
66 TTATCTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
* * **
7081 CTCCAACCCTGGTTTTATTTCTAAAATATTAATTTTTCACAATCAGGGATACTCCAACCCCGTTA
131 CTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCCGTTA
*
7146 TTTTCGAGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATCTCTA
196 TTTCCGAGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATCTCTA
7211 AAACA
261 AAACA
* *
7216 TCAATTTTTCATAATCGGGGATACTCCAACCCCG-TATTTTCGAGGGGATACTCCAACCCCAGTT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTT
* * *
7280 TTATTTCT-AAATATTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
66 TTATCTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
* * * *
7344 CTCTAACCCCGGTTTTATTTCTAAAACGCCAATTTTTCATAATCGGGGATACTCCAACCCCGTTA
131 CTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCCGTTA
7409 TTTCCGAGGGGATACTCCAACCCC
196 TTTCCGAGGGGATACTCCAACCCC
7433 AGTTTTATTT
Statistics
Matches: 199, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
263 132 0.66
264 35 0.18
265 32 0.16
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (265 bp):
TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTT
TTATCTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
CTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCCGTTA
TTTCCGAGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATCTCTA
AAACA
Found at i:7502 original size:158 final size:158
Alignment explanation
Indices: 7153--7641 Score: 867
Period size: 158 Copynumber: 3.1 Consensus size: 158
7143 TTATTTTCGA
* * **
7153 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACGCC
*
7218 AATTTTTCATAATCGGGGATACTCCAACCCCG-TATTTTCGAGGGGATACTCCAACCCCAGTTTT
66 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTT
7282 ATTTCT-AAATATTAATTTTTCACAATC
131 ATTTCTAAAATATTAATTTTTCACAATC
7309 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACGCC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACGCC
7374 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTT
66 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTT
7439 ATTTCTAAAATATTAATTTTTCACAATC
131 ATTTCTAAAATATTAATTTTTCACAATC
*
7467 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAACGCC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACGCC
7532 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGG-TACTCCAACCCCAGTTTT
66 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTT
* * *
7596 ATTTCTAAAACATCAATTTTTCATAATC
131 ATTTCTAAAATATTAATTTTTCACAATC
*
7624 GGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
7642 ATTTTATTTT
Statistics
Matches: 321, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
156 93 0.29
157 97 0.30
158 131 0.41
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACGCC
AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTT
ATTTCTAAAATATTAATTTTTCACAATC
Found at i:7719 original size:52 final size:51
Alignment explanation
Indices: 7574--7719 Score: 140
Period size: 52 Copynumber: 2.9 Consensus size: 51
7564 TTATTTCCGA
*
7574 GGGG-TACTCCAACCCC-AGTTTTATT-TCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCTAACCCCGA-TTTTATTCTCTAAAACA-CAATTTTTCATAATC
* * * **
7624 GGGGATACTCTAACCCCGATTTTATTTTTTAGAACACCGTTTTTCCATAATC
1 GGGGATACTCTAACCCCGATTTTATTCTCTAAAACACAATTTTT-CATAATC
* *
7676 GGGGATACTCTAGCCCCG-TTGTTA-TCTCTAAAATACTAATTTTT
1 GGGGATACTCTAACCCCGATT-TTATTCTCTAAAACAC-AATTTTT
7720 TTCTCGTCAG
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
50 4 0.05
51 34 0.44
52 40 0.51
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.38
Consensus pattern (51 bp):
GGGGATACTCTAACCCCGATTTTATTCTCTAAAACACAATTTTTCATAATC
Done.