Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2202
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: 52241
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Found at i:2565 original size:1 final size:1
Alignment explanation
Indices: 2561--2622 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
2551 AAAGGTGATG
* * * * * * * *
2561 AAAAAAAACAAAAAAACAAACAAAAAAAACACACAAAAAAAAAACAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2623 TGCAAAGGCA
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2588 original size:13 final size:12
Alignment explanation
Indices: 2561--2622 Score: 85
Period size: 11 Copynumber: 5.3 Consensus size: 12
2551 AAAGGTGATG
2561 AAAAA-AAACAA
1 AAAAACAAACAA
2572 AAAAACAAACAAA
1 AAAAACAAAC-AA
*
2585 AAAAACACACAA
1 AAAAACAAACAA
2597 AAAAA-AAACAA
1 AAAAACAAACAA
2608 AAAAACAAA-AA
1 AAAAACAAACAA
2619 AAAA
1 AAAA
2623 TGCAAAGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
11 21 0.46
12 14 0.30
13 11 0.24
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAACAA
Found at i:2865 original size:1 final size:1
Alignment explanation
Indices: 2859--2915 Score: 78
Period size: 1 Copynumber: 57.0 Consensus size: 1
2849 GTTCTTTTCC
* * * *
2859 AAAAAAAAAAAAAACAAAACAAAAAAAAAAAAAAAAACAAAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2916 GAAGAACAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.93, C:0.05, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:2883 original size:20 final size:19
Alignment explanation
Indices: 2858--2915 Score: 91
Period size: 19 Copynumber: 3.0 Consensus size: 19
2848 TGTTCTTTTC
2858 CAAAAAAAAAAAAAACAAAA
1 CAAAAAAAAAAAAAA-AAAA
2878 C-AAAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAAAAA
2896 CAAAAAAAAGAAAAAAAAAA
1 CAAAAAAAA-AAAAAAAAAA
2916 GAAGAACAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.14
19 20 0.56
20 11 0.31
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (19 bp):
CAAAAAAAAAAAAAAAAAA
Found at i:2923 original size:26 final size:23
Alignment explanation
Indices: 2859--2924 Score: 96
Period size: 23 Copynumber: 2.7 Consensus size: 23
2849 GTTCTTTTCC
*
2859 AAAAAAAAAAAAAACAAAACAAA
1 AAAAAAAAAAAAAACAAAAAAAA
2882 AAAAAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAACAAAAAAAA
2905 GAAAAAAAAAAGAAGAACAA
1 -AAAAAAAAAA-AA-AACAA
2925 CCCCTTTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
23 22 0.56
24 10 0.26
25 2 0.05
26 5 0.13
ACGTcount: A:0.89, C:0.06, G:0.05, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAAAACAAAAAAAA
Found at i:3970 original size:32 final size:32
Alignment explanation
Indices: 3864--4205 Score: 294
Period size: 32 Copynumber: 10.8 Consensus size: 32
3854 CAAATACCTT
* *
3864 TTTAAAGTCCACGACTAAGTGGCAAT-CTCTTC
1 TTTAAAGTCCACGACTCAGTGGC-ATCCTTTTC
* * *
3896 -TCAAAGTCCACGACTCAGTGGCAAT-CTCTGC
1 TTTAAAGTCCACGACTCAGTGGC-ATCCTTTTC
*
3927 -TCAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TTTAAAGTCCACGACTCAGTGGCATCCTTTTC
3958 TTTAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TTTAAAGTCCACGACTCAGTGGCATCCTTTTC
3990 TTTAAAGTCCACGACTCAGTGGCAT--TTTGTC
1 TTTAAAGTCCACGACTCAGTGGCATCCTTT-TC
* *
4021 -TCAAAGTCCACGACTCAGTGGCAT-TTTTTC
1 TTTAAAGTCCACGACTCAGTGGCATCCTTTTC
* * * *
4051 TTCAAAGCCCACAACTCCGTGGCA-CCTTTTCC
1 TTTAAAGTCCACGACTCAGTGGCATCCTTTT-C
* * *
4083 TTTAAAGCCCACAACTCCGTGGCA-CCTTTTCC
1 TTTAAAGTCCACGACTCAGTGGCATCCTTTT-C
* * *
4115 TTTAAAGCCCACAACTCCGTGGCA-CCTTCTTC
1 TTTAAAGTCCACGACTCAGTGGCATCCTT-TTC
* * *
4147 TTTTCAAAGCCCACAACTCCGTGGCA-CCTTTTTC
1 -TTT-AAAGTCCACGACTCAGTGGCATCC-TTTTC
* * *
4181 TTTTAAAGCCCACAACTCTGTGGCA
1 -TTTAAAGTCCACGACTCAGTGGCA
4206 CCTACAACTC
Statistics
Matches: 286, Mismatches: 13, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
30 30 0.10
31 83 0.29
32 116 0.41
33 25 0.09
34 30 0.10
35 2 0.01
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (32 bp):
TTTAAAGTCCACGACTCAGTGGCATCCTTTTC
Found at i:4087 original size:125 final size:123
Alignment explanation
Indices: 3864--4208 Score: 361
Period size: 125 Copynumber: 2.7 Consensus size: 123
3854 CAAATACCTT
* * * * *
3864 TTTAAAGTCCACGACTAAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGC-T
1 TTTAAAGTCCACGACTCAGTGGC-AT-TTTTCTCAAAGTCCACGACTCAGTGGC-ATTTTTTCTT
* * * *
3928 CAAAGTCCACGACTCAGTGGCATCCTTTTCTTTAAAGTCCACGACTCAGTGGCATCCTTTT-C
63 CAAAGCCCACAACTCAGTGGCA-CCTTTTCTTTAAAGCCCACAACTCAGTGGCA-CCTTTTCC
3990 TTTAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTCA
1 TTTAAAGTCCACGACTCAGTGGCATTTT-TCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTCA
* *
4055 AAGCCCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACCTTTTCC
65 AAGCCCACAACTCAGTGGCACCTTTT-CTTTAAAGCCCACAACTCAGTGGCACCTTTTCC
* * * * * * * *
4115 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGTCCACGACTCAGTGGCA---T-TT-TTCTCAAAGTCCACGACTCAGTGGCA-TTTTTT
* *
4180 CTTTTAAAGCCCACAACTCTGTGGCACCT
60 C-TTCAAAGCCCACAACTCAGTGGCACCT
4209 ACAACTCCGT
Statistics
Matches: 187, Mismatches: 21, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
124 19 0.10
125 90 0.48
126 22 0.12
128 1 0.01
129 23 0.12
130 7 0.04
131 25 0.13
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (123 bp):
TTTAAAGTCCACGACTCAGTGGCATTTTTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTCAA
AGCCCACAACTCAGTGGCACCTTTTCTTTAAAGCCCACAACTCAGTGGCACCTTTTCC
Found at i:4253 original size:54 final size:50
Alignment explanation
Indices: 4159--4260 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 50
4149 TTCAAAGCCC
4159 ACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCT
1 ACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCT
4209 ACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCAC
1 ACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCTGTGGCAC
4261 TTTTTTCTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
50 15 0.31
51 6 0.12
53 5 0.10
54 22 0.46
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.29
Consensus pattern (50 bp):
ACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCT
Found at i:4268 original size:87 final size:84
Alignment explanation
Indices: 4125--4293 Score: 275
Period size: 87 Copynumber: 2.0 Consensus size: 84
4115 TTTAAAGCCC
4125 ACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGC
1 ACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGC
*
4190 CCACAACTCTGTGGCACCT
66 CCACAACTCCGTGGCACCT
* * *
4209 ACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCACTTTTTTCTTTTAA
1 ACAACTCCGTGGCAC-CTTCTT--CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
4274 AGCCCACAACTCCGTGGCAC
63 AGCCCACAACTCCGTGGCAC
4294 TCTTTTTCCC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
84 15 0.19
85 5 0.06
87 58 0.74
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (84 bp):
ACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGC
CCACAACTCCGTGGCACCT
Found at i:4281 original size:33 final size:35
Alignment explanation
Indices: 4209--4352 Score: 179
Period size: 33 Copynumber: 4.1 Consensus size: 35
4199 TGTGGCACCT
4209 ACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCC
1 ACAACTCCGTGGCACTCTTTTT-CCTTTT-AAAGCCC
*
4246 ACAACTCTGTGGCACT-TTTTT-CTTTTAAAGCCC
1 ACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCC
*
4279 ACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCC
1 ACAACTCCGTGGCACTCTTTTT-CCTTTTAAAGCCC
* *
4314 ACAACTCCGTGGCA-TCTTTCTCCATTCCTAAAGCCC
1 ACAACTCCGTGGCACTCTTTTTCC-TT-TTAAAGCCC
4350 ACA
1 ACA
4353 CAAGTCGGTG
Statistics
Matches: 95, Mismatches: 6, Indels: 13
0.83 0.05 0.11
Matches are distributed among these distances:
33 24 0.25
34 18 0.19
35 20 0.21
36 18 0.19
37 15 0.16
ACGTcount: A:0.21, C:0.35, G:0.11, T:0.33
Consensus pattern (35 bp):
ACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCC
Found at i:4299 original size:35 final size:35
Alignment explanation
Indices: 4209--4352 Score: 177
Period size: 35 Copynumber: 4.1 Consensus size: 35
4199 TGTGGCACCT
4209 ACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCC
1 ACAACTCCGTGGCA-TCTTTTTCCCTTTT-AAAGCCC
* *
4246 ACAACTCTGTGGCA-CTTTTT-TCTTTTAAAGCCC
1 ACAACTCCGTGGCATCTTTTTCCCTTTTAAAGCCC
*
4279 ACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCC
1 ACAACTCCGTGGCA-TCTTTTTCCCTTTTAAAGCCC
* * *
4314 ACAACTCCGTGGCATCTTTCTCCATTCCTAAAGCCC
1 ACAACTCCGTGGCATCTTTTTCCCTT-TTAAAGCCC
4350 ACA
1 ACA
4353 CAAGTCGGTG
Statistics
Matches: 93, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
33 20 0.22
34 15 0.16
35 32 0.34
36 13 0.14
37 13 0.14
ACGTcount: A:0.21, C:0.35, G:0.11, T:0.33
Consensus pattern (35 bp):
ACAACTCCGTGGCATCTTTTTCCCTTTTAAAGCCC
Found at i:4380 original size:33 final size:35
Alignment explanation
Indices: 4338--4406 Score: 124
Period size: 33 Copynumber: 2.0 Consensus size: 35
4328 TCTTTCTCCA
4338 TTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTTC
1 TTCCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
4372 TTCC-AAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TTCCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
4406 T
1 T
4407 AAGCCCAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 24 0.71
34 10 0.29
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.20
Consensus pattern (35 bp):
TTCCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
Found at i:4567 original size:43 final size:44
Alignment explanation
Indices: 4505--5294 Score: 840
Period size: 43 Copynumber: 17.1 Consensus size: 44
4495 CACCTTTATC
4505 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCT
* *
4548 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC-T
*
4596 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CT
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCT
* *
4640 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-----T-C-T
* * *
4691 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAT
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----TCT
4740 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CT
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCT
* *
4784 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC-T
* *
4832 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA-CT
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCT
* *
4876 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC-T
*
4924 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CT
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCT
* *
4968 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC-T
* * *
5016 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CC
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCT
* *
5060 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC-T
* *
5108 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCT
*
5152 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCT
*
5195 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-----T-C-T
* * *
5246 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCT
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAT-CT
5292 TTT
1 TTT
5295 TCTCATCTTT
Statistics
Matches: 645, Mismatches: 54, Indels: 94
0.81 0.07 0.12
Matches are distributed among these distances:
43 310 0.48
44 4 0.01
45 8 0.01
46 1 0.00
47 8 0.01
48 4 0.01
49 229 0.36
50 2 0.00
51 5 0.01
52 74 0.11
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (44 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCT
Found at i:4614 original size:92 final size:91
Alignment explanation
Indices: 4452--5289 Score: 967
Period size: 92 Copynumber: 9.0 Consensus size: 91
4442 GCACCTTTTC
*
4452 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----TCTTTAAGTCCAAT
4517 ATAGCTGGCCTTGAATCAGCACATTGGCA-
62 ATAGCTGGCCTTGAATCAGCACATTGGCAT
* * *
4546 C-T-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TCTTTAAGTCCAAT
*
4609 GTAGCTGGCCTTGAATCAGCACATTGGCA-
62 ATAGCTGGCCTTGAATCAGCACATTGGCAT
* * *
4638 C-T-TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA------CC-TCTTTAAGTCC
* *
4701 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
59 AATATAGCTGGCCTTGAATCAGCACATTGGCA---T
* * *
4737 TATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CT-TTTAAGTCCAATATCG
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAATATAG
*
4800 CTGGCCTTGAATCAGCATATTGGCACCTT
66 CTGGCCTTGAATCAGCACATTGGCA---T
* *
4829 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA-CT-TTTAAGTCCAATATCG
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAATATAG
*
4892 CTGGCCTTGAATCAGCATATTGGCACCTT
66 CTGGCCTTGAATCAGCACATTGGCA---T
*
4921 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CT-TTTAAGTCCAATATCG
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAATATAG
*
4984 CTGGCCTTGAATCAGCATATTGGCATCTT
66 CTGGCCTTGAATCAGCACATTGGCA---T
* *
5013 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C-CTTTAAGTCCAATATCG
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAATATAG
*
5076 CTGGCCTTGAATCAGCATATTGGCATCTT
66 CTGGCCTTGAATCAGCACATTGGCA---T
5105 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATAG
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAATATAG
5168 CTGGCCTTGAATCAGCACATTGGCA-
66 CTGGCCTTGAATCAGCACATTGGCAT
* * *
5193 C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA------CC-TCTTTAAGTCC
* *
5256 AATGTAGCTGGCCTTGAATCAGCACATTGACAT
59 AATATAGCTGGCCTTGAATCAGCACATTGGCAT
5289 C
1 C
5290 CTTTTTCTCA
Statistics
Matches: 689, Mismatches: 30, Indels: 48
0.90 0.04 0.06
Matches are distributed among these distances:
86 40 0.06
88 1 0.00
92 516 0.75
93 4 0.01
94 2 0.00
95 84 0.12
96 1 0.00
97 1 0.00
100 1 0.00
101 39 0.06
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (91 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAATATAG
CTGGCCTTGAATCAGCACATTGGCAT
Found at i:5153 original size:21 final size:21
Alignment explanation
Indices: 5129--5196 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
5119 ATGTAGCTGG
5129 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
5150 CCTTTAAGTC--CA-ATATAGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
5172 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
5193 CCTT
1 CCTT
5197 TAAGTCCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:5172 original size:24 final size:24
Alignment explanation
Indices: 5145--5215 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 24
5135 ATCAGCACAT
5145 TGGCACCTTTAAGTCCAATATAGC
1 TGGCACCTTTAAGTCCAATATAGC
* ** * *
5169 TGG--CCTTGAA-T-CAGCACA-T
1 TGGCACCTTTAAGTCCAATATAGC
5188 TGGCACCTTTAAGTCCAATATAGC
1 TGGCACCTTTAAGTCCAATATAGC
5212 TGGC
1 TGGC
5216 CTTGAATCAG
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.22
22 7 0.22
23 4 0.12
24 7 0.22
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (24 bp):
TGGCACCTTTAAGTCCAATATAGC
Found at i:5175 original size:22 final size:22
Alignment explanation
Indices: 5150--5218 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
5140 CACATTGGCA
5150 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * *
5172 CCTTGAA-TCAGCACAT-TGGC--A
1 CCTTTAAGTC--CA-ATATAGCTGG
5193 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
5215 CCTT
1 CCTT
5219 GAATCAGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:5329 original size:55 final size:52
Alignment explanation
Indices: 5194--5331 Score: 177
Period size: 52 Copynumber: 2.6 Consensus size: 52
5184 ACATTGGCAC
* *
5194 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
* *
5246 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTC-CAT
* * * *
5301 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
5332 ACATATTGGC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
52 38 0.52
53 2 0.03
54 5 0.07
55 28 0.38
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
Found at i:6181 original size:13 final size:13
Alignment explanation
Indices: 6163--6187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6153 CATAAAATGT
6163 TGTATCGATACAA
1 TGTATCGATACAA
6176 TGTATCGATACA
1 TGTATCGATACA
6188 TATTTTTTTT
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:6269 original size:13 final size:13
Alignment explanation
Indices: 6251--6275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6241 ATTACTCAAA
6251 TGTATCGATACAT
1 TGTATCGATACAT
6264 TGTATCGATACA
1 TGTATCGATACA
6276 CTGATCTTTG
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:6340 original size:52 final size:52
Alignment explanation
Indices: 6284--6408 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
6274 CACTGATCTT
*
6284 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
6336 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
6388 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
6409 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:12699 original size:52 final size:52
Alignment explanation
Indices: 12621--12749 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
12611 CGAAATATGA
* *
12621 AAATTTACCTGCATGAATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
12673 AAATTTACCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
12725 AAATTTGCCTGCATGTATCGATACA
1 AAATTTACCTGCATGTATCGATACA
12750 AAGATCAGTA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (52 bp):
AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:12860 original size:33 final size:33
Alignment explanation
Indices: 12823--12889 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
12813 AGTAGCTTAA
12823 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
12856 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
12889 A
1 A
12890 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:12863 original size:13 final size:13
Alignment explanation
Indices: 12845--12869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12835 CAAAAAAATA
12845 TGTATCGATACAT
1 TGTATCGATACAT
12858 TGTATCGATACA
1 TGTATCGATACA
12870 ACACTTTATG
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:13597 original size:55 final size:54
Alignment explanation
Indices: 13536--13892 Score: 196
Period size: 52 Copynumber: 6.4 Consensus size: 54
13526 ACCAATACGT
13536 TGATTCACA-GCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATGTCAATGTGC
1 TGATTCA-AGGCCAACGATATTGGGTT-AAAGATGAGAAAAAGGATGTCAATGTGC
* * * * ** * *
13591 TGATTCACGGTCAGCGACATTAGACTTGAAGATGAG-AAAA--ATGCCAATGTGC
1 TGATTCAAGGCCAACGATATT-GGGTTAAAGATGAGAAAAAGGATGTCAATGTGC
* * * *
13643 TGATTCAAGGCCAACAACATTGGGTTTTAAAGATGATG---AAGG-TGCCAATATGC
1 TGATTCAAGGCCAACGATATTGGG--TTAAAGATGA-GAAAAAGGATGTCAATGTGC
* * * *
13696 TGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATAT
1 TGATTCAAGGCCAACGATATTGG-GTTAAAGAT---GA-GA-AAAAG-GAT---G-T--CAATGT
*
13761 GT
53 GC
* *
13763 TGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAATGATGTCAATGTGC
1 TGATTCAAGGCCAACGATATTGGG-TTAAAGATGAGAAAAAGGATGTCAATGTGC
* * *** * *
13818 TGATTCAAGGCCAACTACATTAAACTTAAAGATG-G-AAAAGG-TGCCAATATGC
1 TGATTCAAGGCCAACGATATT-GGGTTAAAGATGAGAAAAAGGATGTCAATGTGC
* *
13870 TGATTCAAGGCCAGCTATATTGG
1 TGATTCAAGGCCAACGATATTGG
13893 ACTTAAAGGT
Statistics
Matches: 236, Mismatches: 41, Indels: 54
0.71 0.12 0.16
Matches are distributed among these distances:
51 1 0.00
52 66 0.28
53 45 0.19
54 6 0.03
55 61 0.26
56 3 0.01
57 1 0.00
58 1 0.00
59 3 0.01
60 1 0.00
61 4 0.02
62 4 0.02
63 2 0.01
64 3 0.01
67 35 0.15
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (54 bp):
TGATTCAAGGCCAACGATATTGGGTTAAAGATGAGAAAAAGGATGTCAATGTGC
Found at i:13663 original size:52 final size:52
Alignment explanation
Indices: 13563--14685 Score: 506
Period size: 49 Copynumber: 23.1 Consensus size: 52
13553 TATTGGGTTC
* * * * *
13563 AAAGATGAGAAAAAGGATGTCAATGTGCTGATTCACGGTCAGCGACATTAGACTT
1 AAAGATGAG-AAAA--ATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
* * **
13618 GAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATT-GGACTT
** * *
13671 AAAGATGATG-AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
1 AAAGATGA-GAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
** * ** ** * *
13723 AAAGATGAAGATGAGAAAAGTGATAAAGATGCCAAT-ATGTTGATTCACGGCCAACGATATTGGG
1 AAAGAT---GA-GA-AAAA-TGCCAATG-TG-C--TGAT-TCAAGGC-CAG-CAAC---ATTGGA
13787 CTT
50 CTT
* * * **
13790 AAAGATGAGAAAAATGATGTCAATGTGCTGATTCAAGGCCAACTACATTAAACTT
1 AAAGATGAG-AAAA--ATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
* * * *
13845 AAAGATG-GAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGAGAAAA-ATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
*
13897 -AA-A-G-G-----TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
* * * *
13940 AAAGA--AG-AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
*
13989 -AA-A-G-G-----TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
** * * * *
14032 AAAGAT--G-AAGGTGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
* *
14081 -AA-A-G-G-----TGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
** * * *
14124 AAAGAT--G-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
*
14173 -AA-A-G-G-----TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
** * * *
14216 AAAGAT--G-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
* ** * * *
14265 AAAG--GTG-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
*
14314 -AA-A-G-G-----TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
** * * *
14357 AAAGAT--G-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
* *
14406 -AA-A-G-G-----TGCCAATGTGCTCATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
** * * *
14449 AAAGAT--G-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
* *
14498 -AA-A-G-G-----TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
* ** * * *
14541 AAAG--GTG-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
*
14590 -AA-A-G-G-----TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
** * * *
14633 AAAGAT--G-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
14682 AAAG
1 AAAG
14686 GTGCCAATGT
Statistics
Matches: 895, Mismatches: 86, Indels: 180
0.77 0.07 0.16
Matches are distributed among these distances:
43 286 0.32
44 17 0.02
45 15 0.02
47 12 0.01
48 16 0.02
49 339 0.38
50 1 0.00
51 2 0.00
52 71 0.08
53 45 0.05
54 6 0.01
55 25 0.03
57 2 0.00
58 7 0.01
59 3 0.00
60 5 0.01
61 4 0.00
62 5 0.01
63 8 0.01
64 11 0.01
65 1 0.00
67 14 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (52 bp):
AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
Found at i:13793 original size:67 final size:68
Alignment explanation
Indices: 13671--13797 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
13661 ATTGGGTTTT
* * *
13671 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
13736 AGA
66 AGA
* * * *
13739 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
13798 GAAAAATGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:13986 original size:92 final size:93
Alignment explanation
Indices: 13810--14730 Score: 1064
Period size: 92 Copynumber: 10.0 Consensus size: 93
13800 AAAATGATGT
* * ** *
13810 CAATGTGCTGATTCAAGGCCAACTACATTAAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAA-GTGCCAATATGCTGATT
13875 CAAGGCCAGCTATATTGGACTT-A-AAGGTGC
62 CAAGGCCAGCTATATTGGACTTAAGAAGGTGC
*
13905 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG-AAGTGCCAATATGCTGATTCAA
13970 GGCCAGCTATATTGGACTT-A-AAGGTGC
65 GGCCAGCTATATTGGACTTAAGAAGGTGC
* * *
13997 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGTTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAA-GTGCCAATATGCTGATTCAA
*
14062 GGCCAGCTATATTGGACTT-A-AAGGTGT
65 GGCCAGCTATATTGGACTTAAGAAGGTGC
* *
14089 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAA-GTGCCAATATGCTGATTCAA
14154 GGCCAGCTATATTGGACTT-A-AAGGTGC
65 GGCCAGCTATATTGGACTTAAGAAGGTGC
* *
14181 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAA-GTGCCAATATGCTGATTCAA
14246 GGCCAGCTATATTGGACTTAAAGGTGAAGGTGC
65 GGCCAGCTATATTGGACTT-AA---GAAGGTGC
* *
14279 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AAG--GTGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTGCCAATATGCTGATTCAAG
*
14339 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GCCAGCTATATTGGACTT--A-A-GAAGGTGC
* * *
14371 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AAG--GTGCCAATGTGCTCATTCAAG
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTGCCAATATGCTGATTCAAG
*
14431 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GCCAGCTATATTGGACTT--A-A-GAAGGTGC
* *
14463 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AAG--GTGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTGCCAATATGCTGATTCAAG
14523 GCCAGCTATATTGGACTTAAAGGTGAAGGTGC
66 GCCAGCTATATTGGACTT-AA---GAAGGTGC
* *
14555 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AAG--GTGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTGCCAATATGCTGATTCAAG
*
14615 GCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GCCAGCTATATTGGACTT--A-A-GAAGGTGC
* * **
14647 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AAG--GTGCCAATGTTTTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTGCCAATATGCTGATTCAAG
* *
14707 GCCATCTACATTGGACTT-AGAAGG
66 GCCAGCTATATTGGACTTAAGAAGG
14731 GTTGCCACTG
Statistics
Matches: 791, Mismatches: 21, Indels: 36
0.93 0.02 0.04
Matches are distributed among these distances:
87 5 0.01
88 1 0.00
90 1 0.00
91 4 0.01
92 691 0.87
93 6 0.01
94 3 0.00
95 39 0.05
96 1 0.00
98 40 0.05
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (93 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTGCCAATATGCTGATTCAAG
GCCAGCTATATTGGACTTAAGAAGGTGC
Found at i:14502 original size:22 final size:22
Alignment explanation
Indices: 14477--14545 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
14467 ATGCTGATTC
14477 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * *
14499 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTATAT-TG--GACTTA
14520 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
14542 AAGG
1 AAGG
14546 TGAAGGTGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:14686 original size:276 final size:272
Alignment explanation
Indices: 13854--14730 Score: 1242
Period size: 276 Copynumber: 3.2 Consensus size: 272
13844 TAAAGATGGA
*
13854 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTC
13919 AAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
66 AAGGCCAGCTACATTGGACTT-AAGAAG---GTGCCAATATGCTGATTCAAGGCCAGCTATATTG
* *
13984 GACTT--A----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
127 GACTTAAAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
* * * * *
14043 TGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGTCAATGTGCTGATT
186 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
*
14102 CAAGGCCAGCTACATTGGACTT
251 CAAGGCCAGCTATATTGGACTT
*
14124 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGC
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGC
14189 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
60 TGATTCAAGGCCAGCTACATTGGACTT--A-A-GAAGGTGCCAATATGCTGATTCAAGGCCAGCT
14254 ATATTGGACTTAAAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGG
121 ATATTGGACTTAAAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGG
14319 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
186 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
14384 CAAGGCCAGCTATATTGGACTT
251 CAAGGCCAGCTATATTGGACTT
* * *
14406 AAAGGTGCCAATGTGCTCATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGGTGCCAATGTGC
* *
14471 TGATTCAAGGCCAGCTATATTGGACTT-A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTATAT
60 TGATTCAAGGCCAGCTACATTGGACTTAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
14534 TGGACTTAAAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCC
125 TGGACTTAAAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCC
14599 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAG
190 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAG
14664 GCCAGCTATATTGGACTT
255 GCCAGCTATATTGGACTT
* ** *
14682 AAAGGTGCCAATGTTTTGATTCAAGGCCATCTACATTGGACTTAGAAGG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA-AAGG
14731 GTTGCCACTG
Statistics
Matches: 562, Mismatches: 18, Indels: 49
0.89 0.03 0.08
Matches are distributed among these distances:
271 5 0.01
272 1 0.00
274 1 0.00
276 423 0.75
277 2 0.00
278 5 0.01
279 4 0.01
280 2 0.00
282 119 0.21
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (272 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTC
AAGGCCAGCTACATTGGACTTAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
TAAAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTG
CTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGC
TATATTGGACTT
Found at i:14897 original size:65 final size:65
Alignment explanation
Indices: 14725--15052 Score: 529
Period size: 65 Copynumber: 5.0 Consensus size: 65
14715 CATTGGACTT
*
14725 AGAAGGGTTGCCACTGACTTGTGTGGGCTTT-AGAGAGGGTTGCCACCGACTTGTGTGGGCTTT-
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTA
14788 G-
64 GA
* *
14789 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-AGAGGGGATTGCCACCAACTTGTGTGGGCTTTA
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGG-TTGCCACCGACTTGTGTGGGCTTTA
14853 GA
64 GA
*
14855 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAGA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
*
14920 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTGGTGTGGGCTTTAGA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
* *
14985 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTACCACCGACTTGTGTGGGCTTTGGA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
15050 AGA
1 AGA
15053 GGAGAGAGAT
Statistics
Matches: 249, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
63 3 0.01
64 56 0.22
65 180 0.72
66 10 0.04
ACGTcount: A:0.19, C:0.18, G:0.36, T:0.28
Consensus pattern (65 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
Found at i:15047 original size:32 final size:31
Alignment explanation
Indices: 14723--15051 Score: 487
Period size: 32 Copynumber: 10.2 Consensus size: 31
14713 TACATTGGAC
*
14723 TTAGAAGGGTTGCCACTGACTTGTGTGGGCT
1 TTAGAAGGGTTGCCACCGACTTGTGTGGGCT
14754 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGA-AGGGTTGCCACCGACTTGTGTGGGCT
14786 TTGAGAAGGGTTGCCACCGACTTGTGTGGGCT
1 TT-AGAAGGGTTGCCACCGACTTGTGTGGGCT
* *
14818 TTAGAGGGGATTGCCACCAACTTGTGTGGGCT
1 TTAGAAGGG-TTGCCACCGACTTGTGTGGGCT
14850 TTAGAAGAAGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAAG--GGTTGCCACCGACTTGTGTGGGCT
*
14883 TTGAGAAGGGTTGCCACTGACTTGTGTGGGCT
1 TT-AGAAGGGTTGCCACCGACTTGTGTGGGCT
14915 TTAGAAGAAGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAAG--GGTTGCCACCGACTTGTGTGGGCT
*
14948 TTGAGAAGGGTTGCCACCGACTGGTGTGGGCT
1 TT-AGAAGGGTTGCCACCGACTTGTGTGGGCT
14980 TTAGAAGAAGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAAG--GGTTGCCACCGACTTGTGTGGGCT
*
15013 TTGAGAAGGGTTACCACCGACTTGTGTGGGCT
1 TT-AGAAGGGTTGCCACCGACTTGTGTGGGCT
*
15045 TTGGAAG
1 TTAGAAG
15052 AGGAGAGAGA
Statistics
Matches: 275, Mismatches: 11, Indels: 24
0.89 0.04 0.08
Matches are distributed among these distances:
31 25 0.09
32 157 0.57
33 76 0.28
34 17 0.06
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (31 bp):
TTAGAAGGGTTGCCACCGACTTGTGTGGGCT
Found at i:15127 original size:34 final size:33
Alignment explanation
Indices: 15088--15523 Score: 251
Period size: 34 Copynumber: 13.6 Consensus size: 33
15078 ACTTAAAAGG
*
15088 GTGCCACGAAATTGTGGACTTAAAAGGGAAAAAA
1 GTGCCACGAAGTTGTGGACTTAAAA-GGAAAAAA
* *
15122 GTGCCACAAAGTTGT-GAGCTT----TGAAAAGAA
1 GTGCCACGAAGTTGTGGA-CTTAAAAGGAAAA-AA
*
15152 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
1 G-TGCCACGAAGTTGTGGACTTAAAAGGAAAAA-A
* * * *
15187 GTGCCAC-AGAGTTATGGGCTTTAAAAAGAAAAAG
1 GTGCCACGA-AGTTGTGGAC-TTAAAAGGAAAAAA
* * *
15221 GTGCCACGGAGTTGTGGACTTATAAGGAAAATGA
1 GTGCCACGAAGTTGTGGACTTAAAAGGAAAA-AA
* *
15255 GTGCCACGGAGTTGTGGGCTTAAAAGG------
1 GTGCCACGAAGTTGTGGACTTAAAAGGAAAAAA
* *
15282 GTGCCACAAAGTTGTGGACTTAGAAGGAAAAAGA
1 GTGCCACGAAGTTGTGGACTTAAAAGGAAAAA-A
* *
15316 GTGCCACGGAGTTGTGGGCTTAAAAGG------
1 GTGCCACGAAGTTGTGGACTTAAAAGGAAAAAA
* *
15343 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
1 GTGCCACGAAGTTGTGGACTTAAAAGGAAAAA-A
*
15377 GTGCCACGAAGTTGTGGGCTTAAAAGG------
1 GTGCCACGAAGTTGTGGACTTAAAAGGAAAAAA
* * *
15404 GTGCCACGGAGTTGTAGACTTAGAAGGAAAAAGA
1 GTGCCACGAAGTTGTGGACTTAAAAGGAAAAA-A
* * * ** * *
15438 GTGCCATGGAGTTGTGGGCTTTGAA--AAGAAG
1 GTGCCACGAAGTTGTGGACTTAAAAGGAAAAAA
* * *
15469 GTGCCACGGAGTCGTGGACTTTGAAAA-GAAAAAG
1 GTGCCACGAAGTTGTGGAC-TT-AAAAGGAAAAAA
* *
15503 GTGCCACGGAGTCGTGGACTT
1 GTGCCACGAAGTTGTGGACTT
15524 TGATGCCACT
Statistics
Matches: 316, Mismatches: 49, Indels: 75
0.72 0.11 0.17
Matches are distributed among these distances:
27 71 0.22
29 5 0.02
30 3 0.01
31 31 0.10
32 8 0.03
33 16 0.05
34 163 0.52
35 19 0.06
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (33 bp):
GTGCCACGAAGTTGTGGACTTAAAAGGAAAAAA
Found at i:15128 original size:61 final size:61
Alignment explanation
Indices: 15057--15519 Score: 518
Period size: 61 Copynumber: 7.3 Consensus size: 61
15047 GGAAGAGGAG
* * * * *
15057 AGAGATGCCACAGAGTTGTAGACTTAAAAGGGTGCCACGAAATTGTGGACTTAAAAGGGAAAA
1 AGAG-TGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAA-GGAAAA
* * * *
15120 A-AGTGCCACAAAGTTGTGAGCTTTGAAAAGAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAA
1 AGAGTGCCACAGAGTTGTGGGC-TT-AAAAG--GGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
* *
15184 AGAGTGCCACAGAGTTATGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTATAAGGA
1 AGAGTGCCACAGAGTTGTGGGC-TT-AAAAG-----GGTGCCACGGAGTTGTGGACTTAGAAGGA
15249 AAA
59 AAA
* * **
15252 TGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAAAGTTGTGGACTTAGAAGGAAAA
1 AGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
*
15313 AGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
1 AGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
*
15374 AGAGTGCCAC-GAAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTAGACTTAGAAGGAAAA
1 AGAGTGCCACAG-AGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
** * * *
15435 AGAGTGCCATGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAAAGAAA
1 AGAGTGCCACAGAGTTGTGGGC-TT-AAAAG--GGTGCCACGGAGTTGTGGACTTAG-AAGGAAA
15500 A
61 A
* *
15501 AG-GTGCCACGGAGTCGTGG
1 AGAGTGCCACAGAGTTGTGG
15520 ACTTTGATGC
Statistics
Matches: 355, Mismatches: 30, Indels: 28
0.86 0.07 0.07
Matches are distributed among these distances:
60 1 0.00
61 178 0.50
62 7 0.02
63 11 0.03
64 7 0.02
65 84 0.24
66 14 0.04
67 2 0.01
68 51 0.14
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (61 bp):
AGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
Found at i:15287 original size:27 final size:27
Alignment explanation
Indices: 15255--15418 Score: 139
Period size: 27 Copynumber: 5.6 Consensus size: 27
15245 AGGAAAATGA
15255 GTGCCACGGAGTTGTGGGCTTAAAAGG
1 GTGCCACGGAGTTGTGGGCTTAAAAGG
** * *
15282 GTGCCACAAAGTTGTGGACTTAGAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTT-------AAAAGG
15316 GTGCCACGGAGTTGTGGGCTTAAAAGG
1 GTGCCACGGAGTTGTGGGCTTAAAAGG
* *
15343 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTT-------AAAAGG
*
15377 GTGCCACGAAGTTGTGGGCTTAAAAGG
1 GTGCCACGGAGTTGTGGGCTTAAAAGG
15404 GTGCCACGGAGTTGT
1 GTGCCACGGAGTTGT
15419 AGACTTAGAA
Statistics
Matches: 109, Mismatches: 14, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
27 62 0.57
34 47 0.43
ACGTcount: A:0.29, C:0.14, G:0.37, T:0.21
Consensus pattern (27 bp):
GTGCCACGGAGTTGTGGGCTTAAAAGG
Found at i:15425 original size:27 final size:27
Alignment explanation
Indices: 15371--15430 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
15361 CTTAGAAGGA
* * *
15371 AAAAGAGTGCCACGAAGTTGTGGGCTT
1 AAAAGGGTGCCACGAAGTTGTAGACTT
*
15398 AAAAGGGTGCCACGGAGTTGTAGACTT
1 AAAAGGGTGCCACGAAGTTGTAGACTT
*
15425 AGAAGG
1 AAAAGG
15431 AAAAAGAGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACGAAGTTGTAGACTT
Found at i:15531 original size:122 final size:123
Alignment explanation
Indices: 15152--15586 Score: 456
Period size: 122 Copynumber: 3.5 Consensus size: 123
15142 TTGAAAAGAA
* * *
15152 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTTAAAAAGAA
1 GATGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG--
*
15217 AAAGGTGCCACGGAGTTGTGGAC-TT-ATAAGGAAAATGAGTGCCACGGAGTTGTGGGCTTAAAA
63 -AAGGTGCCACGGAGTTGTGGACTTTGA-AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT---A
15280 G
123 G
* **
15281 GGTGCCACAAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAG--G
1 GATGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAG
* *
15343 GTGCCACGGAGTTGTGGACTTAG-AAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAG
66 GTGCCACGGAGTTGTGGACTTTGAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT---AG
* * *
15403 GGTGCCACGGAGTTGTAGACTTAGAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTGAAAAGAA
1 GATGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAA
* * * * *
15468 GGTGCCACGGAGTCGTGGACTTTGAAAAGAAAAAG-GTGCCACGGAGTCGTGGACTT-T
65 GGTGCCACGGAGTTGTGGACTTTGAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAG
* * * ** * *
15525 GATGCCACTGAGTCGTGGACTTTGAAAATAAGGAAAGA-TGCCACTGAGTCGTGGGCTTTAAA
1 GATGCCACGGAGTTGTGGACTTAG-AAGGAA--AAAGAGTGCCACGGAGTTGTGGGCTTTAAA
15587 GGAAAAAGAT
Statistics
Matches: 266, Mismatches: 30, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
122 124 0.47
123 10 0.04
124 23 0.09
125 5 0.02
126 40 0.15
127 14 0.05
128 2 0.01
129 48 0.18
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (123 bp):
GATGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAG
GTGCCACGGAGTTGTGGACTTTGAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAG
Found at i:15537 original size:23 final size:23
Alignment explanation
Indices: 15504--15549 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
15494 AAGAAAAAGG
15504 TGCCACGGAGTCGTGGACTTTGA
1 TGCCACGGAGTCGTGGACTTTGA
*
15527 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACGGAGTCGTGGACTTTGA
15550 AAATAAGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (23 bp):
TGCCACGGAGTCGTGGACTTTGA
Found at i:15539 original size:57 final size:58
Alignment explanation
Indices: 15470--15583 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 58
15460 GAAAAGAAGG
*
15470 TGCCACGGAGTCGTGGACTTTGAAAAGAA-AAAGGTGCCACGGAGTCGTGGACTTTGA
1 TGCCACGGAGTCGTGGACTTTGAAAAGAAGAAAGATGCCACGGAGTCGTGGACTTTGA
* * * *
15527 TGCCACTGAGTCGTGGACTTTGAAAATAAGGAAAGATGCCACTGAGTCGTGGGCTTT
1 TGCCACGGAGTCGTGGACTTTGAAAAGAA-GAAAGATGCCACGGAGTCGTGGACTTT
15584 AAAGGAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
57 27 0.54
59 23 0.46
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.24
Consensus pattern (58 bp):
TGCCACGGAGTCGTGGACTTTGAAAAGAAGAAAGATGCCACGGAGTCGTGGACTTTGA
Found at i:15600 original size:33 final size:34
Alignment explanation
Indices: 15525--15620 Score: 122
Period size: 33 Copynumber: 2.8 Consensus size: 34
15515 CGTGGACTTT
* *
15525 GATGCCACTGAGTCGTGGACTTTGAAAATAAGGAAA
1 GATGCCACTGAGTCGTGGGCTTT-AAAAGAA-GAAA
*
15561 GATGCCACTGAGTCGTGGGCTTTAAAGGAA-AAA
1 GATGCCACTGAGTCGTGGGCTTTAAAAGAAGAAA
* *
15594 GATGCCACAGAGTTGTGGGCTTTAAAA
1 GATGCCACTGAGTCGTGGGCTTTAAAA
15621 AGGTATTTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
33 27 0.50
35 5 0.09
36 22 0.41
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (34 bp):
GATGCCACTGAGTCGTGGGCTTTAAAAGAAGAAA
Found at i:16623 original size:19 final size:18
Alignment explanation
Indices: 16574--16630 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
16564 TCCTTTCTTC
*
16574 TTTTTTTTGTTTGTTTGTT
1 TTTTTTTTGTTTCTTT-TT
*
16593 CTTTTTTT-TTTCTTTTT
1 TTTTTTTTGTTTCTTTTT
16610 TTTTGTTTTGTTTCTTTTT
1 TTTT-TTTTGTTTCTTTTT
16629 TT
1 TT
16631 GGAAAAGAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 5 0.15
18 10 0.30
19 18 0.55
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (18 bp):
TTTTTTTTGTTTCTTTTT
Found at i:23671 original size:52 final size:52
Alignment explanation
Indices: 23593--23721 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
23583 CGAAATATGA
* *
23593 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
23645 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
23697 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
23722 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:23832 original size:33 final size:33
Alignment explanation
Indices: 23795--23861 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
23785 AGTAGCTTAA
23795 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
23828 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
23861 A
1 A
23862 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:23835 original size:13 final size:13
Alignment explanation
Indices: 23817--23841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23807 CAAAAAAATA
23817 TGTATCGATACAT
1 TGTATCGATACAT
23830 TGTATCGATACA
1 TGTATCGATACA
23842 ACACTTTATG
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:31190 original size:52 final size:51
Alignment explanation
Indices: 31112--31260 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
31102 CGAAATATGA
31112 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* * *
31164 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
31216 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
31261 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:31267 original size:13 final size:13
Alignment explanation
Indices: 31249--31273 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31239 CAAAGATCAG
31249 TGTATCGATACAA
1 TGTATCGATACAA
31262 TGTATCGATACA
1 TGTATCGATACA
31274 TTTAAGTGAT
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:31351 original size:33 final size:33
Alignment explanation
Indices: 31314--31380 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
31304 AGTAGCTTAA
31314 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
31347 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
31380 A
1 A
31381 AATAGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:31354 original size:13 final size:13
Alignment explanation
Indices: 31336--31360 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31326 CAAAAAAATA
31336 TGTATCGATACAT
1 TGTATCGATACAT
31349 TGTATCGATACA
1 TGTATCGATACA
31361 ACACTTTATG
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:32312 original size:52 final size:55
Alignment explanation
Indices: 32219--32505 Score: 244
Period size: 52 Copynumber: 5.1 Consensus size: 55
32209 GATATTGGGT
* **
32219 TTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAAC
1 TTAAAGATGAGAAAAAGGATGCCAATAAGCTGATTCAAGGCCAGCTACATTGAAC
* *
32274 TTAAAGATG-G-AAAAGG-TGCCAATAAGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAGAAAAAGGATGCCAATAAGCTGATTCAAGGCCAGCTACATTGAAC
* * * * * * *
32326 TTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGG
1 TTAAAGAT---GA-GA-AAAA--G-----GATGCCAATAAGCTGATTCAAGGCCAGCTACATTGA
*
32391 GC
54 AC
* ** *
32393 TTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAACTACATTGAAC
1 TTAAAGATGAGAAAAAGGATGCCAATAAGCTGATTCAAGGCCAGCTACATTGAAC
* * *
32448 TTAAAGATG-G-AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAGAAAAAGGATGCCAATAAGCTGATTCAAGGCCAGCTACATTGAAC
32500 TTAAAG
1 TTAAAG
32506 GTGCCAATGT
Statistics
Matches: 193, Mismatches: 24, Indels: 33
0.77 0.10 0.13
Matches are distributed among these distances:
52 76 0.39
53 12 0.06
54 2 0.01
55 49 0.25
57 1 0.01
59 4 0.02
60 1 0.01
61 1 0.01
62 4 0.02
63 2 0.01
64 2 0.01
66 1 0.01
67 38 0.20
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (55 bp):
TTAAAGATGAGAAAAAGGATGCCAATAAGCTGATTCAAGGCCAGCTACATTGAAC
Found at i:32341 original size:174 final size:174
Alignment explanation
Indices: 32111--32505 Score: 736
Period size: 174 Copynumber: 2.3 Consensus size: 174
32101 GCTCGAAGAT
* * *
32111 AAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGAGAAAAGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGAGAAAAGTG
*
32176 ATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGATGT
66 ATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGT
*
32241 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
131 CAATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGA
*
32285 AAAGGTGCCAATAAGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGAGAAAAGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGAGAAAAGTG
32350 ATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGT
66 ATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGT
32415 CAATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGA
131 CAATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGA
32459 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
32506 GTGCCAATGT
Statistics
Matches: 214, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 214 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (174 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGAGAAAAGTG
ATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGT
CAATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGA
Found at i:32693 original size:48 final size:47
Alignment explanation
Indices: 32415--32694 Score: 327
Period size: 48 Copynumber: 5.9 Consensus size: 47
32405 AAAAGGATGT
* * * *
32415 CAATGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-A--G--AAGGTGC
32467 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT---A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGAAGGTGC
* * * *
32510 CAATGTGCCGATTCAAGGTCAGCTACATTGGACTTAAATATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-A-GAAGGTGC
* *
32559 CAATATGCTGATTTAAGGCCAG-TGATATTGGACTTAAAGGCAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCT-ATATTGGACTTAAAAG-AAGGTGC
*
32607 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAAGCAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAG-AAGGTGC
*
32655 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAAG
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAG
32695 GAGACGCCAC
Statistics
Matches: 202, Mismatches: 17, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
43 38 0.19
47 2 0.01
48 92 0.46
49 39 0.19
52 31 0.15
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (47 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGAAGGTGC
Found at i:32820 original size:30 final size:29
Alignment explanation
Indices: 32712--32835 Score: 130
Period size: 28 Copynumber: 4.3 Consensus size: 29
32702 CACCAACTTG
* *
32712 TGTGGGCTTTTGAGAGGTTTG-CA-TCAACT
1 TGTGGGCTTTTGAAAGG-TTGCCACT-GACT
* *
32741 TGTGTGCTTTTG-AAGGTTGCTACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
32769 TGTGGGCTTTT-AAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* * *
32797 TATGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
32827 TGTGGGCTT
1 TGTGGGCTT
32836 AAAAAGAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
27 3 0.04
28 42 0.52
29 12 0.15
30 23 0.29
ACGTcount: A:0.18, C:0.15, G:0.30, T:0.37
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGTTGCCACTGACT
Found at i:32927 original size:29 final size:29
Alignment explanation
Indices: 32878--33054 Score: 169
Period size: 29 Copynumber: 5.9 Consensus size: 29
32868 TTACAAAAAA
* * *
32878 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
*
32908 AAAAGATGCCACTGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
32937 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
32966 -AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAA
1 AAAAGATGCCACTGACTTGTGGGC-TTTG----G
* *
32999 AAAAAATGCCACTGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
33028 AAAAGATGCCACTGACTTGTGGACTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
33055 TGAAGGGTGA
Statistics
Matches: 123, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
27 18 0.15
28 5 0.04
29 50 0.41
30 26 0.21
33 4 0.03
34 20 0.16
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:34444 original size:1 final size:1
Alignment explanation
Indices: 34438--34500 Score: 63
Period size: 1 Copynumber: 63.0 Consensus size: 1
34428 TCCGGACCCC
* * * * * * *
34438 TTTTTTTTGTTTTTGTTTTTTTTGTTTTGTTTTTTTTGTTTTTTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
34501 GTGGAGGACG
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (1 bp):
T
Found at i:34458 original size:15 final size:14
Alignment explanation
Indices: 34438--34500 Score: 99
Period size: 15 Copynumber: 4.4 Consensus size: 14
34428 TCCGGACCCC
34438 TTTTTTTTGTTTTT
1 TTTTTTTTGTTTTT
*
34452 GTTTTTTTTGTTTTG
1 -TTTTTTTTGTTTTT
34467 TTTTTTTTGTTTTT
1 TTTTTTTTGTTTTT
34481 TTTTGTTTTGTTTTT
1 TTTT-TTTTGTTTTT
34496 TTTTT
1 TTTTT
34501 GTGGAGGACG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
14 18 0.40
15 27 0.60
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (14 bp):
TTTTTTTTGTTTTT
Found at i:34474 original size:24 final size:25
Alignment explanation
Indices: 34438--34499 Score: 94
Period size: 24 Copynumber: 2.6 Consensus size: 25
34428 TCCGGACCCC
34438 TTTT-TTTTGTTTTTG-TTTTTTTTG
1 TTTTGTTTT-TTTTTGTTTTTTTTTG
34462 TTTTG-TTTTTTTTGTTTTTTTTTG
1 TTTTGTTTTTTTTTGTTTTTTTTTG
34486 TTTTGTTTTTTTTT
1 TTTTGTTTTTTTTT
34500 TGTGGAGGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.17
24 21 0.60
25 8 0.23
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (25 bp):
TTTTGTTTTTTTTTGTTTTTTTTTG
Found at i:34477 original size:29 final size:28
Alignment explanation
Indices: 34440--34500 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 28
34430 CGGACCCCTT
34440 TTTTTTGTTTTTGTTTT-TTTTGTTTTGTT
1 TTTTTTGTTTTT-TTTTGTTTTGTTTT-TT
34469 TTTTTTGTTTTTTTTTGTTTTGTTTTTT
1 TTTTTTGTTTTTTTTTGTTTTGTTTTTT
34497 TTTT
1 TTTT
34501 GTGGAGGACG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (28 bp):
TTTTTTGTTTTTTTTTGTTTTGTTTTTT
Found at i:48376 original size:52 final size:51
Alignment explanation
Indices: 48298--48446 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
48288 CGAAATATGA
48298 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
48350 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
48402 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
48447 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.96
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:48453 original size:13 final size:13
Alignment explanation
Indices: 48435--48459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48425 CAAAGATCAG
48435 TGTATCGATACAA
1 TGTATCGATACAA
48448 TGTATCGATACA
1 TGTATCGATACA
48460 CTTAAGTGAT
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:48537 original size:33 final size:33
Alignment explanation
Indices: 48500--48566 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
48490 AGTAGCTTAA
48500 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
48533 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
48566 A
1 A
48567 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:48540 original size:13 final size:13
Alignment explanation
Indices: 48522--48546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48512 CAAAAAAATA
48522 TGTATCGATACAT
1 TGTATCGATACAT
48535 TGTATCGATACA
1 TGTATCGATACA
48547 ACACTTTATG
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:48893 original size:13 final size:13
Alignment explanation
Indices: 48871--48934 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
48861 CAGCATTCTC
*
48871 TGTATCGATACAT
1 TGTATCGATACAG
*
48884 TGTATTGATACAG
1 TGTATCGATACAG
*
48897 TGTATCGATACAT
1 TGTATCGATACAG
* *
48910 TGTATTGATATAG
1 TGTATCGATACAG
48923 TGTATCGATACA
1 TGTATCGATACA
48935 AAGGGTTTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:48907 original size:26 final size:26
Alignment explanation
Indices: 48871--48934 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
48861 CAGCATTCTC
48871 TGTATCGATACATTGTATTGATACAG
1 TGTATCGATACATTGTATTGATACAG
*
48897 TGTATCGATACATTGTATTGATATAG
1 TGTATCGATACATTGTATTGATACAG
48923 TGTATCGATACA
1 TGTATCGATACA
48935 AAGGGTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (26 bp):
TGTATCGATACATTGTATTGATACAG
Found at i:49409 original size:21 final size:21
Alignment explanation
Indices: 49375--49414 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
49365 GCACTCACCA
*
49375 GGTCGCGACCGGCA-CCCCTG
1 GGTCGCAACCGGCAGCCCCTG
49395 GGTCGCAACCGGGCAGCCCC
1 GGTCGCAACC-GGCAGCCCC
49415 CACCTCACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.12, C:0.45, G:0.35, T:0.07
Consensus pattern (21 bp):
GGTCGCAACCGGCAGCCCCTG
Found at i:51384 original size:13 final size:13
Alignment explanation
Indices: 51366--51390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51356 ATATTGCACA
51366 GTATCGATACATT
1 GTATCGATACATT
51379 GTATCGATACAT
1 GTATCGATACAT
51391 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Done.