Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 78 of 131
Found at i:26199313 original size:223 final size:220
Alignment explanation
Indices: 26198920--26199356 Score: 626
Period size: 223 Copynumber: 2.0 Consensus size: 220
26198910 TCAAAAAAAG
* * * *
26198920 AAAATTTTTCTAAATGAGGCAATATTTAGCATTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
1 AAAAATTTTCAAAATAAGGCAATATTTAGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
26198985 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTTAAAACAAGGC
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTTAAAACAAGGC
* * * *
26199050 AATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTTAT
131 AATGTTTTGCATTTGGGAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGTCGATTTCTCGT-T
*
26199115 TCAACCAAATGGCTAAATATCATTTTA
195 T-AACCAAATGGCCAAATATCATTTTA
* * *
26199142 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 AAAAATTTTCAAAATAAGGCAATATTTAGCATTT-GGAAATTCGAGAAAACATGCCCTAAGGTGC
* *
26199207 TGGGTGTCGATTTTTCTTATTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTTCAAAATAA
65 TGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT-AAAAATTTTT-AAAACAA
* * * *
26199272 GGCAATGTTTTGCATTT-GGAAATTTGAG-GAACGTACCCTAAGGTGCTGGGTTTCGATTTCTCG
128 GGCAATGTTTTGCATTTGGGAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGTCGATTTCTCG
*
26199335 TTTAACCAAATTGCCAAATATC
193 TTTAACCAAATGGCCAAATATC
26199357 CTCTCGAATT
Statistics
Matches: 191, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
221 17 0.09
222 30 0.16
223 102 0.53
224 20 0.10
225 22 0.12
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (220 bp):
AAAAATTTTCAAAATAAGGCAATATTTAGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTTAAAACAAGGC
AATGTTTTGCATTTGGGAAATTCGAGAAAACATACCCTAAGGTGCTGGGTGTCGATTTCTCGTTT
AACCAAATGGCCAAATATCATTTTA
Found at i:26202613 original size:17 final size:16
Alignment explanation
Indices: 26202587--26202621 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
26202577 GACTCGAAAG
26202587 AAAAATAAAAAAATCA
1 AAAAATAAAAAAATCA
26202603 AAAAATGAAAAAAATCA
1 AAAAAT-AAAAAAATCA
26202620 AA
1 AA
26202622 GTCAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAATAAAAAAATCA
Found at i:26202643 original size:6 final size:6
Alignment explanation
Indices: 26202634--26202673 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
26202624 CAAAAATAGG
*
26202634 AGAAAA AGAAAGA AGAAAAA AGAAAA AGAAAG AGAAAA AG
1 AGAAAA AGAAA-A AG-AAAA AGAAAA AGAAAA AGAAAA AG
26202674 GAGAGGTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 21 0.70
7 6 0.20
8 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:26202647 original size:10 final size:10
Alignment explanation
Indices: 26202634--26202671 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
26202624 CAAAAATAGG
26202634 AGAAAAAGAA
1 AGAAAAAGAA
26202644 AGAAGAAA-AA
1 AGAA-AAAGAA
26202654 AGAAAAAGAA
1 AGAAAAAGAA
26202664 AGAGAAAA
1 AGA-AAAA
26202672 AGGAGAGGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.12
10 15 0.60
11 7 0.28
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:26202659 original size:20 final size:19
Alignment explanation
Indices: 26202634--26202672 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
26202624 CAAAAATAGG
26202634 AGAAAAAGAAAGAAGAAAAA
1 AGAAAAAGAAAG-AGAAAAA
26202654 AGAAAAAGAAAGAGAAAAA
1 AGAAAAAGAAAGAGAAAAA
26202673 GGAGAGGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AGAAAAAGAAAGAGAAAAA
Found at i:26203661 original size:20 final size:20
Alignment explanation
Indices: 26203629--26203670 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
26203619 AAAAAAAACA
26203629 AAAAAAATGAAGA-AAGGAAG
1 AAAAAAATGAAGAGAA-GAAG
26203649 AAAAAAA-GAAAGAGAAGAAG
1 AAAAAAATG-AAGAGAAGAAG
26203669 AA
1 AA
26203671 GAAGAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.05
20 17 0.85
21 2 0.10
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (20 bp):
AAAAAAATGAAGAGAAGAAG
Found at i:26203868 original size:44 final size:43
Alignment explanation
Indices: 26203773--26203886 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
26203763 AAAAAGGGTG
* * *
26203773 GCTCAAATTTTGGAACAAAATGGGGC-CCGAAGTGATCAGAGC
1 GCTCAAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGAGC
* * **
26203815 GACTTAAATTTTGGATCAAATTGGGGCATGGTGGTGATCAGAGC
1 G-CTCAAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGAGC
* *
26203859 AGCTCAAATTTT-GATCAGATCGGGGCAT
1 -GCTCAAATTTTGGATCAAATTGGGGCAT
26203887 ATGATGATCT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
42 1 0.02
43 36 0.61
44 21 0.36
45 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (43 bp):
GCTCAAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGAGC
Found at i:26203875 original size:43 final size:44
Alignment explanation
Indices: 26203804--26203886 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
26203794 GGGGCCCGAA
* *
26203804 GTGATCAGAGCGACTTAAATTTTGGATCAAATTGGGGCATGGTG
1 GTGATCAGAGCGACTCAAATTTTGGATCAAATCGGGGCATGGTG
*
26203848 GTGATCAGAGC-AGCTCAAATTTT-GATCAGATCGGGGCAT
1 GTGATCAGAGCGA-CTCAAATTTTGGATCAAATCGGGGCAT
26203887 ATGATGATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 15 0.43
44 20 0.57
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (44 bp):
GTGATCAGAGCGACTCAAATTTTGGATCAAATCGGGGCATGGTG
Found at i:26205029 original size:46 final size:46
Alignment explanation
Indices: 26204966--26205416 Score: 719
Period size: 46 Copynumber: 9.8 Consensus size: 46
26204956 AACAGATCAA
*
26204966 CGAAGATAGCAGATCTTGTCTTCCTGTATTGGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* *
26205012 CGAAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCAGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
*
26205058 CGAAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
*
26205104 CGAAGATGGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
*
26205150 CGAAGAT-GACAGATCTTGTCTTCCTGTATTTGGCAGTGGAGGAGAT
1 CGAAGATAG-CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
**
26205196 CGAAGAT-GCCAGATCTTGTCTTCCTGTATTTGGCAGTAGAGGAGAT
1 CGAAGATAG-CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
*
26205242 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* *
26205288 CAAAGATAGCAGATCCTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
26205334 CGAAGATAGCAGATCTTGTCTTCCTGTATTTAGCAGCAGAGTAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* *
26205380 CGAAGATAGCAGATCTTGTCTCCCTGTA-CTGGCAGCG
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG
26205417 AAACAGATCG
Statistics
Matches: 381, Mismatches: 22, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
45 7 0.02
46 373 0.98
47 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (46 bp):
CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
Found at i:26206978 original size:3 final size:3
Alignment explanation
Indices: 26206964--26207035 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
26206954 CATCTTTTAA
*
26206964 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26207012 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
26207036 CATCTTNNNN
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:26207377 original size:23 final size:22
Alignment explanation
Indices: 26207351--26207403 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
26207341 CATTTTTTGC
26207351 TCATATTAT-TTTTGTTCACATTA
1 TCATATTATATTTT-TTC-CATTA
26207374 TCATATT-TATTTTTTCCATTA
1 TCATATTATATTTTTTCCATTA
26207395 TGCATATTA
1 T-CATATTA
26207404 ACACCACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 6 0.22
22 10 0.37
23 11 0.41
ACGTcount: A:0.26, C:0.13, G:0.04, T:0.57
Consensus pattern (22 bp):
TCATATTATATTTTTTCCATTA
Found at i:26207395 original size:21 final size:24
Alignment explanation
Indices: 26207351--26207402 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
26207341 CATTTTTTGC
26207351 TCATA-TTATTTTTGTTCACATTA
1 TCATATTTATTTTTGTTCACATTA
26207374 TCATATTTA-TTTT-TTC-CATTA
1 TCATATTTATTTTTGTTCACATTA
26207395 TGCATATT
1 T-CATATT
26207403 AACACCACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 6 0.22
22 9 0.33
23 9 0.33
24 3 0.11
ACGTcount: A:0.25, C:0.13, G:0.04, T:0.58
Consensus pattern (24 bp):
TCATATTTATTTTTGTTCACATTA
Found at i:26207702 original size:111 final size:112
Alignment explanation
Indices: 26207423--26207748 Score: 403
Period size: 111 Copynumber: 3.0 Consensus size: 112
26207413 TTCAAAAAAG
* * * * *
26207423 AAATTTTTTCTAAATGAGGCAATATTTAGCATTTGGAAATTCAAGAAAACGTGCCCTAAGGTGCT
1 AAATTTTTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
* *
26207488 GGGTGT-GATTTTTCTCGTTCAACCGAATGGCTTAATATCCTTTTAA
66 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAA
* * * *
26207534 AAA-ATTTT-AAAATAAGACAATGTTTTGCATTTGGGAAATTCGAGAAAACATGCCCTAAGGTAC
1 AAATTTTTTCAAAATAAGGCAATGTTTTGCATTT-GGAAATTCGAGAAAACGTGCCCTAAGGTGC
*
26207597 TGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAA
65 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAA
* * * * **
26207645 AAATTTTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAGCGTATCCTAAGGTGCT
1 AAATTTTTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
* * * *
26207709 GGGTTTCGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCT
26207749 CTCAAATTTC
Statistics
Matches: 184, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
109 46 0.25
110 38 0.21
111 64 0.35
112 14 0.08
113 22 0.12
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (112 bp):
AAATTTTTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAA
Found at i:26211055 original size:23 final size:23
Alignment explanation
Indices: 26211025--26211076 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
26211015 AAGTCAGCCT
*
26211025 TAACTCAAGTGAGTATTCTTTTA
1 TAACTCAAGTGAGGATTCTTTTA
*
26211048 TAACTCAATTGAGGATTCTTTTA
1 TAACTCAAGTGAGGATTCTTTTA
*
26211071 AAACTC
1 TAACTC
26211077 CTCCAAGGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (23 bp):
TAACTCAAGTGAGGATTCTTTTA
Found at i:26219986 original size:57 final size:57
Alignment explanation
Indices: 26219894--26220008 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
26219884 TTAAATTGGT
**
26219894 GGGAACCTCTAAGAACGTCATGTAAATATGGACGATAGTAACATTTCTCAATAGAGG
1 GGGAACCTCTAAGAACGTCATGTAAATATAAACGATAGTAACATTTCTCAATAGAGG
26219951 GGGAACCTCTAAGAACGTCATGTAAATATAAACGATAGTAACATTTCTCAATAGAGG
1 GGGAACCTCTAAGAACGTCATGTAAATATAAACGATAGTAACATTTCTCAATAGAGG
26220008 G
1 G
26220009 CCGTGTCCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (57 bp):
GGGAACCTCTAAGAACGTCATGTAAATATAAACGATAGTAACATTTCTCAATAGAGG
Found at i:26227399 original size:38 final size:38
Alignment explanation
Indices: 26227351--26227440 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
26227341 CGACCGTCAG
26227351 TTTGTCCATCGAACACCCAATGCCCTTCCGCACGTAGT
1 TTTGTCCATCGAACACCCAATGCCCTTCCGCACGTAGT
26227389 TTTGTCCATCGAACACCCAATGCCCTTCCGCACGTAGT
1 TTTGTCCATCGAACACCCAATGCCCTTCCGCACGTAGT
*
26227427 TTTGTCCATTGAAC
1 TTTGTCCATCGAAC
26227441 GCCCCTAGCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.21, C:0.34, G:0.16, T:0.29
Consensus pattern (38 bp):
TTTGTCCATCGAACACCCAATGCCCTTCCGCACGTAGT
Found at i:26228982 original size:18 final size:18
Alignment explanation
Indices: 26228959--26228999 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
26228949 AGTAAACTAT
*
26228959 ATAAAAGGATATAGAT-AA
1 ATAAAACGATATA-ATAAA
26228977 ATAAAACGATATAATAAA
1 ATAAAACGATATAATAAA
26228995 ATAAA
1 ATAAA
26229000 TGTATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (18 bp):
ATAAAACGATATAATAAA
Found at i:26230818 original size:51 final size:45
Alignment explanation
Indices: 26230690--26231136 Score: 153
Period size: 45 Copynumber: 9.7 Consensus size: 45
26230680 TTATGGCTTC
*
26230690 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTAT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAACTAT
* * * * *
26230735 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAAACTTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGA--T-TCGC--T-AACTAT
* **
26230786 AATCTGTTCCACTGCAACCTT-AGGGAAATAAGATTAGCGT--CTCC
1 AATCTGTTCCACTGCAA-CTTCAGGGAAATAAGATTCGC-TAACTAT
* * * * * ** * *
26230830 AATTTGCTCCACTGCAACTTTAGGGAGATAAGGTT-TATAGCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAACTAT
* ** * * * **
26230874 AATCTGCTCTC-CTGCAACTTCAAAGAGATAAGATTTGCTATCTCC
1 AATCTGTTC-CACTGCAACTTCAGGGAAATAAGATTCGCTAACTAT
* ** * * * **
26230919 GATCTACTCCACTGTAACTTTAGGGAGATAAGATT-TATAACT-T
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAACTAT
* * * * * *
26230962 CAATCTGCTCCACCGTAACTTCA-GAAAGATAAGATTTG-TAATTTAT
1 -AATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTCGCTAA-CTAT
* * * * *
26231008 AGCTTTATTCTGTTCTATTGCAACTTTAGGGAAATAAGATTCACTATCT-T
1 A-----A-TCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAACTAT
* * * *
26231058 CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTATCT-T
1 -AATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTAACTAT
* * *
26231103 CAGTCCGTTCCACTGCAACTTCAGGGAGATAAGA
1 -AATCTGTTCCACTGCAACTTCAGGGAAATAAGA
26231137 CTTGTGGCTT
Statistics
Matches: 305, Mismatches: 69, Indels: 56
0.71 0.16 0.13
Matches are distributed among these distances:
42 1 0.00
43 5 0.02
44 93 0.30
45 129 0.42
46 3 0.01
47 2 0.01
48 6 0.02
49 1 0.00
50 3 0.01
51 54 0.18
52 8 0.03
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (45 bp):
AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAACTAT
Found at i:26230873 original size:95 final size:96
Alignment explanation
Indices: 26230553--26230875 Score: 255
Period size: 96 Copynumber: 3.5 Consensus size: 96
26230543 ACGAGAGATT
* * * * *
26230553 TAGTCTGCTCCACTGCAACTTTAGGGCGATAAGAC-T-T-G---T-AACTTCAACCTGCTCCACT
1 TAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAGCTTTAAACTTTAATCTGTTCCACT
* * * *
26230611 ACAACTTCAGGGAGATAAGGTTTGCTAT---
66 GCAACTTCAGGGAAATAAGATTAGCTATCCA
* * * * * * ** *
26230639 GA-TCTGCTCTACTGCAACTTCAGAGAGATTAGA-TATCTA-ATTTATGGCTTCAATCTGTTCCA
1 TAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TATAGCTTTA-AACTTTAATCTGTTCCA
* *
26230701 CTGCAACTTCAGGGAAATAAGATTCGCTATCTA
64 CTGCAACTTCAGGGAAATAAGATTAGCTATCCA
* *
26230734 TAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAAACTTTAATCTGTTCCACT
1 TAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAGCTTTAAACTTTAATCTGTTCCACT
*
26230799 GCAACCTT-AGGGAAATAAGATTAGCGTCTCCA
66 GCAA-CTTCAGGGAAATAAGATTAGC-TATCCA
* * **
26230831 -A-TTTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAA
1 TAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAGCTTTAA
26230876 TCTGCTCTCC
Statistics
Matches: 187, Mismatches: 33, Indels: 25
0.76 0.13 0.10
Matches are distributed among these distances:
85 26 0.14
86 2 0.01
87 1 0.01
90 1 0.01
92 39 0.21
95 39 0.21
96 67 0.36
97 12 0.06
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (96 bp):
TAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAGCTTTAAACTTTAATCTGTTCCACT
GCAACTTCAGGGAAATAAGATTAGCTATCCA
Found at i:26230945 original size:89 final size:89
Alignment explanation
Indices: 26230836--26231169 Score: 244
Period size: 89 Copynumber: 3.7 Consensus size: 89
26230826 CTCCAATTTG
* * * *
26230836 CTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTGCTCTC-CTGCAACTTCA-AAG
1 CTCCACTGCAACTTTAGGGAGATAAGATTTATAACTTCAATCTGCTC-CACCGCAACTTCAGAA-
26230899 AGATAAGATTTGCTATCTCCGATCTA
64 AGATAAGATTTGCTATCTCCGATCTA
* *
26230925 CTCCACTGTAACTTTAGGGAGATAAGATTTATAACTTCAATCTGCTCCACCGTAACTTCAGAAAG
1 CTCCACTGCAACTTTAGGGAGATAAGATTTATAACTTCAATCTGCTCCACCGCAACTTCAGAAAG
* ** *
26230990 ATAAGATTTG-TAATTTATAGCTTTATTCTG
66 ATAAGATTTGCT-A--TCT--C-CGA-TCTA
* * * * * * * * **
26231020 TTCTATTGCAACTTTAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTTAGGGAGATAAGATTTA-TAACTTCAATCTGCTCCACCGCAACTTCAGAAA
* * **
26231085 GATAAGACTTGCTATCTTC-AGTCCG
65 GATAAGATTTGCTATCTCCGA-TCTA
* * * * ** * **
26231110 TTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCCACTACAACTTCA
1 CTCCACTGCAACTTTAGGGAGATAAGATTTATAACTTCAATCTGCTCCACCGCAACTTCA
26231170 AGGAGATAAA
Statistics
Matches: 194, Mismatches: 40, Indels: 22
0.76 0.16 0.09
Matches are distributed among these distances:
88 2 0.01
89 89 0.46
90 30 0.15
91 2 0.01
93 1 0.01
94 3 0.02
95 28 0.14
96 38 0.20
97 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (89 bp):
CTCCACTGCAACTTTAGGGAGATAAGATTTATAACTTCAATCTGCTCCACCGCAACTTCAGAAAG
ATAAGATTTGCTATCTCCGATCTA
Found at i:26231175 original size:44 final size:45
Alignment explanation
Indices: 26230556--26231178 Score: 326
Period size: 44 Copynumber: 13.6 Consensus size: 45
26230546 AGAGATTTAG
* * *
26230556 TCTGCTCCACTGCAACTTTAGGGCGATAAGACTTG-TAACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
* * ** *
26230600 CCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGCTA---T-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
* * * *
26230641 TCTGCTCTACTGCAACTTCAGAGAGATTAGATATCTAAT-TTATGGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGA-TA-AGA-CT--TGCTA--GCTTCAA
* * * *
26230692 TCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTAT-AG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTAGCT-TCAA
* *
26230737 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAAACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAC-T-T-GC--T-AGCTTCAA
* * *
26230788 TCTGTTCCACTGCAACCTT-AGGGAAATAAGA-TTAGC--GTCTCCAA
1 TCTGCTCCACTGCAA-CTTCAGGGAGATAAGACTT-GCTAG-CTTCAA
* * * ** *
26230832 TTTGCTCCACTGCAACTTTAGGGAGATAAG-GTTTATAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
** * * * *
26230876 TCTGCTCTC-CTGCAACTTCAAAGAGATAAGATTTGCTATCTCCGA
1 TCTGCTC-CACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
* * * ** *
26230921 TCTACTCCACTGTAACTTTAGGGAGATAAGA-TTTATAACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
* * ** * * * *
26230965 TCTGCTCCACCGTAACTTCAGAAAGATAAGATTTGTAATTTATAGCTTTAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG------CTAGCTTCAA
* * * * * * * *
26231016 TCTGTTCTATTGCAACTTTAGGGAAATAAGA-TTCACTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTAGCTTCAA
* *
26231061 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
* * * *
26231106 TCCGTTCCACTGCAACTTCAGGGAGATAAGACTTG-TGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
* *
26231150 TCTGCTCCACTACAACTTCAAGGAGATAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAA
26231179 AGTTTACAGC
Statistics
Matches: 437, Mismatches: 102, Indels: 80
0.71 0.16 0.13
Matches are distributed among these distances:
41 23 0.05
42 3 0.01
43 4 0.01
44 152 0.35
45 147 0.34
46 4 0.01
47 4 0.01
48 6 0.01
49 3 0.01
50 7 0.02
51 81 0.19
52 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTAGCTTCAA
Found at i:26238622 original size:12 final size:12
Alignment explanation
Indices: 26238607--26238636 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
26238597 ATTGAGTTCC
26238607 AAATTTCTTGGA
1 AAATTTCTTGGA
26238619 AAATTTCTTGGA
1 AAATTTCTTGGA
26238631 AAATTT
1 AAATTT
26238637 ATTTTTCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (12 bp):
AAATTTCTTGGA
Found at i:26240567 original size:45 final size:45
Alignment explanation
Indices: 26240492--26240598 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
26240482 TACACGGTGG
* * * *
26240492 ATCAGCACACATC-ACCACCCTTATAGTCAATAGTACTCGATGAA
1 ATCAGCACATAGCAACCACCCTTATACTCAATAGTACCCGATGAA
* * * *
26240536 ATCAGCACATAGCAACCACCTTTGTACTCAATGGTACCCGGTGAA
1 ATCAGCACATAGCAACCACCCTTATACTCAATAGTACCCGATGAA
*
26240581 ATCAACACATAGCAACCA
1 ATCAGCACATAGCAACCA
26240599 TCTATATAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 11 0.21
45 42 0.79
ACGTcount: A:0.36, C:0.30, G:0.13, T:0.21
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCCTTATACTCAATAGTACCCGATGAA
Found at i:26240616 original size:45 final size:45
Alignment explanation
Indices: 26240505--26240695 Score: 136
Period size: 45 Copynumber: 4.2 Consensus size: 45
26240495 AGCACACATC
* * * * *
26240505 ACCACCCT-TATAGTCAATAGTACTCGATGAAATCAGCACATAGCA
1 ACCA-CCTATATACTCAATGGTACCCGGTGAAATCAACACATAGCA
* *
26240550 ACCACCTTTGTACTCAATGGTACCCGGTGAAATCAACACATAGCA
1 ACCACCTATATACTCAATGGTACCCGGTGAAATCAACACATAGCA
* * * * *
26240595 ACCATCTATATAAC-CATTGGTATCTGGTGAAATCAGA-ACATAACA
1 ACCACCTATAT-ACTCAATGGTACCCGGTGAAATCA-ACACATAGCA
* ** * ** * * *
26240640 ACCACCTTTATTTTCATTAATATCGGGTGGAATCAACACATAGCA
1 ACCACCTATATACTCAATGGTACCCGGTGAAATCAACACATAGCA
*
26240685 TCCACCTATAT
1 ACCACCTATAT
26240696 TTCCAACGAT
Statistics
Matches: 117, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
44 4 0.03
45 110 0.94
46 3 0.03
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (45 bp):
ACCACCTATATACTCAATGGTACCCGGTGAAATCAACACATAGCA
Found at i:26240697 original size:45 final size:45
Alignment explanation
Indices: 26240575--26240700 Score: 137
Period size: 45 Copynumber: 2.8 Consensus size: 45
26240565 AATGGTACCC
* ** ** *
26240575 GGTGAAATCAACACATAGCAACCATCTATATAACCATTGGTATCT
1 GGTGAAATCAACACATAGCAACCACCTATATTTCCATTAATATCG
* * *
26240620 GGTGAAATCAGA-ACATAACAACCACCTTTATTTTCATTAATATCG
1 GGTGAAATCA-ACACATAGCAACCACCTATATTTCCATTAATATCG
* *
26240665 GGTGGAATCAACACATAGCATCCACCTATATTTCCA
1 GGTGAAATCAACACATAGCAACCACCTATATTTCCA
26240701 ACGATATCCG
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
44 1 0.02
45 63 0.97
46 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (45 bp):
GGTGAAATCAACACATAGCAACCACCTATATTTCCATTAATATCG
Found at i:26254903 original size:13 final size:14
Alignment explanation
Indices: 26254872--26254904 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26254862 TTAAAATCAT
*
26254872 ATAAAAGGATATAA
1 ATAAAACGATATAA
26254886 ATAAAACGATAT-A
1 ATAAAACGATATAA
26254899 ATAAAA
1 ATAAAA
26254905 TAAACGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (14 bp):
ATAAAACGATATAA
Found at i:26256799 original size:17 final size:17
Alignment explanation
Indices: 26256777--26256832 Score: 85
Period size: 17 Copynumber: 3.2 Consensus size: 17
26256767 TCAAACGTCC
*
26256777 AAAAAACATTTCCTAGT
1 AAAAAACATTTCCTAAT
*
26256794 AAAAAACATTTCGTAAT
1 AAAAAACATTTCCTAAT
26256811 AAAAAACATTTCCTAAT
1 AAAAAACATTTCCTAAT
26256828 CAAAA
1 -AAAA
26256833 CTCTATGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
17 31 0.89
18 4 0.11
ACGTcount: A:0.54, C:0.16, G:0.04, T:0.27
Consensus pattern (17 bp):
AAAAAACATTTCCTAAT
Found at i:26258802 original size:18 final size:18
Alignment explanation
Indices: 26258779--26258813 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
26258769 ATACATACTT
26258779 ATTAAATTAATCAATCTC
1 ATTAAATTAATCAATCTC
26258797 ATTAAATTAATCAATCT
1 ATTAAATTAATCAATCT
26258814 ATTGAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATCAATCTC
Found at i:26260164 original size:18 final size:16
Alignment explanation
Indices: 26260135--26260168 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
26260125 TATTTTTAAC
26260135 ATAATTTTATTATTTT
1 ATAATTTTATTATTTT
26260151 ATAATATTTAATTATTTT
1 ATAAT-TTT-ATTATTTT
26260169 TCGACAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATAATTTTATTATTTT
Found at i:26260448 original size:89 final size:90
Alignment explanation
Indices: 26260297--26260478 Score: 357
Period size: 89 Copynumber: 2.0 Consensus size: 90
26260287 AATTTGAAAA
26260297 TTTCTCGGAAACACTTTTTGAAAAACTCCTTCAGAACAACATTCTTCCGAAAATCATGAAATCAA
1 TTTCTCGGAAACACTTTTTGAAAAACTCCTTCAGAACAACATTCTTCCGAAAATCATGAAATCAA
26260362 TATACTTATGCTT-AAAACAAGAAT
66 TATACTTATGCTTAAAAACAAGAAT
26260386 TTTCTCGGAAACACTTTTTGAAAAACTCCTTCAGAACAACATTCTTCCGAAAATCATGAAATCAA
1 TTTCTCGGAAACACTTTTTGAAAAACTCCTTCAGAACAACATTCTTCCGAAAATCATGAAATCAA
26260451 TATACTTATGCTTAAAAACAAGAAT
66 TATACTTATGCTTAAAAACAAGAAT
26260476 TTT
1 TTT
26260479 GATAATTATG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 78 0.85
90 14 0.15
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (90 bp):
TTTCTCGGAAACACTTTTTGAAAAACTCCTTCAGAACAACATTCTTCCGAAAATCATGAAATCAA
TATACTTATGCTTAAAAACAAGAAT
Found at i:26262090 original size:44 final size:44
Alignment explanation
Indices: 26262024--26262111 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
26262014 CATTTATTCA
*
26262024 AAAAGAAAAATGAAAAATTAAGTATCCGATAAAATGAACGGGAT
1 AAAAGAAAAATGAAAAAATAAGTATCCGATAAAATGAACGGGAT
26262068 AAAAGAAAAATGAAAAAATAAGTATCCGATAAAATGAACGGGAT
1 AAAAGAAAAATGAAAAAATAAGTATCCGATAAAATGAACGGGAT
26262112 TTTATCTCGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.58, C:0.07, G:0.18, T:0.17
Consensus pattern (44 bp):
AAAAGAAAAATGAAAAAATAAGTATCCGATAAAATGAACGGGAT
Found at i:26263045 original size:17 final size:17
Alignment explanation
Indices: 26263023--26263056 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
26263013 TTTTTGTTGG
26263023 TGACATTTCCAACCCTT
1 TGACATTTCCAACCCTT
26263040 TGACATTTCCAACCCTT
1 TGACATTTCCAACCCTT
26263057 GAATAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (17 bp):
TGACATTTCCAACCCTT
Found at i:26269004 original size:18 final size:17
Alignment explanation
Indices: 26268973--26269007 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26268963 TATTTTTAAC
*
26268973 ATAATTTTATTTATTTT
1 ATAATTTTAATTATTTT
26268990 ATAATATTTAATTATTTT
1 ATAAT-TTTAATTATTTT
26269008 TCGACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATAATTTTAATTATTTT
Found at i:26274486 original size:33 final size:34
Alignment explanation
Indices: 26274444--26274587 Score: 100
Period size: 33 Copynumber: 4.3 Consensus size: 34
26274434 TGTATATATG
26274444 TAAGACCATAGTC-GGGCTATGACATTCTGATGA
1 TAAGACCATAGTCTGGGCTATGACATTCTGATGA
* * * * * * * **
26274477 TAAGACCATA-ACTAGGTTATGGCACTATAAACA
1 TAAGACCATAGTCTGGGCTATGACATTCTGATGA
* * * * *
26274510 TAAGACCATGGT-TGGACTAAGACATTGTTTAT-A
1 TAAGACCATAGTCTGGGCTATGACATT-CTGATGA
26274543 TGTAAGACCATAG-CTGGGCTATGACATTCTGATGA
1 --TAAGACCATAGTCTGGGCTATGACATTCTGATGA
26274578 TAAGACCATA
1 TAAGACCATA
26274588 AGTGGGTTAT
Statistics
Matches: 79, Mismatches: 25, Indels: 14
0.67 0.21 0.12
Matches are distributed among these distances:
32 1 0.01
33 50 0.63
34 5 0.06
35 23 0.29
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (34 bp):
TAAGACCATAGTCTGGGCTATGACATTCTGATGA
Found at i:26274544 original size:101 final size:101
Alignment explanation
Indices: 26274404--26274621 Score: 323
Period size: 101 Copynumber: 2.2 Consensus size: 101
26274394 TCAATTATTC
* *
26274404 AAACGTAAGACCATGGTTGGAGCATGGCAGTGTATATATGTAAGACCATAG-TCGGGCTATGACA
1 AAACGTAAGACCATGGTTGGAGCAAGACAGTGTATATATGTAAGACCATAGCT-GGGCTATGACA
26274468 TTCTGATGATAAGACCATAACTAGGTTATGGCACTAT
65 TTCTGATGATAAGACCATAACTAGGTTATGGCACTAT
* * *
26274505 AAACATAAGACCATGGTTGGA-CTAAGACATTGTTTATATGTAAGACCATAGCTGGGCTATGACA
1 AAACGTAAGACCATGGTTGGAGC-AAGACAGTGTATATATGTAAGACCATAGCTGGGCTATGACA
* * *
26274569 TTCTGATGATAAGACCATAAGTGGGTTATGGTACTAT
65 TTCTGATGATAAGACCATAACTAGGTTATGGCACTAT
*
26274606 GAACGTAAGACCATGG
1 AAACGTAAGACCATGG
26274622 CAGGGCCATG
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
100 1 0.01
101 103 0.98
102 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (101 bp):
AAACGTAAGACCATGGTTGGAGCAAGACAGTGTATATATGTAAGACCATAGCTGGGCTATGACAT
TCTGATGATAAGACCATAACTAGGTTATGGCACTAT
Found at i:26276237 original size:16 final size:16
Alignment explanation
Indices: 26276216--26276248 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
26276206 ATTTTTATTA
*
26276216 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
26276232 TTTTAAAATTAAATAT
1 TTTTAAAATTAAATAT
26276248 T
1 T
26276249 AATAAAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:26277063 original size:55 final size:55
Alignment explanation
Indices: 26276997--26277106 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
26276987 CTAAAGTCTG
*
26276997 ATTTTGGAAAATGAGGTATTAGTACCTCATTTCTGTAAATTGAGCCTGTAATATT
1 ATTTTGGAAAATGAGGTATTAGTACCTCATTTCTGTAAACTGAGCCTGTAATATT
*
26277052 ATTTTGGAAAATGAGGTATTAGTACGTCATTTCTGTAAACTGAGCCTGTAATATT
1 ATTTTGGAAAATGAGGTATTAGTACCTCATTTCTGTAAACTGAGCCTGTAATATT
26277107 TACGGAGCTG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (55 bp):
ATTTTGGAAAATGAGGTATTAGTACCTCATTTCTGTAAACTGAGCCTGTAATATT
Found at i:26279935 original size:30 final size:30
Alignment explanation
Indices: 26279899--26280065 Score: 156
Period size: 30 Copynumber: 5.5 Consensus size: 30
26279889 GGTTGATACC
*
26279899 ATCCCTTTCCATAATTCAATAGCTGAAGCT
1 ATCCCTTTCCATAATTCAATAGCCGAAGCT
*
26279929 ATCCCTTTCCATTATTCAATAGCCGAAGCT
1 ATCCCTTTCCATAATTCAATAGCCGAAGCT
* * *** * * * *
26279959 ATCCTTTTTCATAATTTTGGTGGTCGTCA-CC
1 ATCCCTTTCCATAA-TTCAATAGCCG-AAGCT
**
26279990 ATCCCTTTCCATAATTTGATAGCCGAAGCT
1 ATCCCTTTCCATAATTCAATAGCCGAAGCT
* * *
26280020 ATCCCTTTTCATGACTCAATAGCCGAAGCT
1 ATCCCTTTCCATAATTCAATAGCCGAAGCT
*
26280050 ATCCCTTTTCATAATT
1 ATCCCTTTCCATAATT
26280066 TTGATAGTCG
Statistics
Matches: 108, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
29 1 0.01
30 87 0.81
31 19 0.18
32 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.37
Consensus pattern (30 bp):
ATCCCTTTCCATAATTCAATAGCCGAAGCT
Found at i:26280051 original size:91 final size:91
Alignment explanation
Indices: 26279896--26280122 Score: 319
Period size: 91 Copynumber: 2.5 Consensus size: 91
26279886 GAGGGTTGAT
** * * * *
26279896 ACCATCCCTTTCCATAATTCAATAGCTGAAGCTATCCCTTTCCATTATTCAATAGCCGAAGCTAT
1 ACCATCCCTTTCCATAATTTGATAGCCGAAGCTATCCCTTTTCATGACTCAATAGCCGAAGCTAT
* * *
26279961 CCTTTTTCATAATTTTGGTGGTCGTC
66 CCCTTTTCATAATTTTGATAGTCGTC
26279987 ACCATCCCTTTCCATAATTTGATAGCCGAAGCTATCCCTTTTCATGACTCAATAGCCGAAGCTAT
1 ACCATCCCTTTCCATAATTTGATAGCCGAAGCTATCCCTTTTCATGACTCAATAGCCGAAGCTAT
26280052 CCCTTTTCATAATTTTGATAGTCGTC
66 CCCTTTTCATAATTTTGATAGTCGTC
* * * ** *
26280078 ACAATCCCTTTTCATAGTTTGATAATCGAAACTATCCCTTTTCAT
1 ACCATCCCTTTCCATAATTTGATAGCCGAAGCTATCCCTTTTCAT
26280123 TGGTCAATGA
Statistics
Matches: 121, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 121 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (91 bp):
ACCATCCCTTTCCATAATTTGATAGCCGAAGCTATCCCTTTTCATGACTCAATAGCCGAAGCTAT
CCCTTTTCATAATTTTGATAGTCGTC
Found at i:26280101 original size:30 final size:31
Alignment explanation
Indices: 26280050--26280122 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
26280040 AGCCGAAGCT
* * **
26280050 ATCCCTTTTCATAATTTTGATAGTCGTCACA
1 ATCCCTTTTCATAAGTTTGATAATCGAAACA
*
26280081 ATCCCTTTTCAT-AGTTTGATAATCGAAACT
1 ATCCCTTTTCATAAGTTTGATAATCGAAACA
26280111 ATCCCTTTTCAT
1 ATCCCTTTTCAT
26280123 TGGTCAATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 25 0.68
31 12 0.32
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.42
Consensus pattern (31 bp):
ATCCCTTTTCATAAGTTTGATAATCGAAACA
Found at i:26283192 original size:21 final size:21
Alignment explanation
Indices: 26283168--26283220 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
26283158 CATTGTTTCT
* *
26283168 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
26283189 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
26283210 AATCTCACCGC
1 AATCTCACCGC
26283221 CACCACTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:26286227 original size:22 final size:19
Alignment explanation
Indices: 26286177--26286228 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 19
26286167 TTTAAGATTT
*
26286177 ATGTTTAATTTGAGTATTA
1 ATGTTTATTTTGAGTATTA
*
26286196 ATTGTGTATTTATGAAGTATTA
1 A-TGTTTATTT-TG-AGTATTA
26286218 CATGTTTATTT
1 -ATGTTTATTT
26286229 GAAGTAATCG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.04
20 7 0.27
21 2 0.08
22 15 0.58
23 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.54
Consensus pattern (19 bp):
ATGTTTATTTTGAGTATTA
Found at i:26292725 original size:17 final size:16
Alignment explanation
Indices: 26292700--26292735 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
26292690 TCAAAACCAC
26292700 AAAATTTAAAAAATTT
1 AAAATTTAAAAAATTT
*
26292716 AAAATATTAATAAATTT
1 AAAAT-TTAAAAAATTT
26292733 AAA
1 AAA
26292736 TACGCTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTTAAAAAATTT
Found at i:26294869 original size:19 final size:18
Alignment explanation
Indices: 26294834--26294871 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
26294824 TTCTTAATGG
26294834 GGTTTTGTTCGTTTTTTT
1 GGTTTTGTTCGTTTTTTT
26294852 GGTTTATGTTC-TTGTTTTT
1 GGTTT-TGTTCGTT-TTTTT
26294871 G
1 G
26294872 ATAAACTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.03, C:0.05, G:0.24, T:0.68
Consensus pattern (18 bp):
GGTTTTGTTCGTTTTTTT
Found at i:26300355 original size:50 final size:51
Alignment explanation
Indices: 26300230--26300381 Score: 189
Period size: 50 Copynumber: 2.9 Consensus size: 51
26300220 ATTTGGGTAA
* * *
26300230 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG--TATG
* *
26300286 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
* *
26300336 AGAGGTCCCATGTAAGACCATGCCTGGGACATGGCATGGGCACCGA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
26300382 ATGTCTGGGA
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
50 45 0.52
53 3 0.03
55 1 0.01
56 38 0.44
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
Found at i:26300447 original size:77 final size:77
Alignment explanation
Indices: 26300305--26300454 Score: 174
Period size: 77 Copynumber: 1.9 Consensus size: 77
26300295 ATGTAAGACC
* * * ** * *
26300305 ATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGCCTGGGACATGG
1 ATGTCTGGGACATGACATGGGCACCGAGATGAGAACTCCCATGTAAGACCATACCTAGGACATGG
26300370 CATGGGCACCGA
66 CATGGGCACCGA
* * * * * *
26300382 ATGTCTGGGACATGACATGGGCACCTATATGAGAACTCTCATGTAAGACCATATCTAGTATATGG
1 ATGTCTGGGACATGACATGGGCACCGAGATGAGAACTCCCATGTAAGACCATACCTAGGACATGG
*
26300447 CATTGGCA
66 CATGGGCA
26300455 GTACAAGAAA
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
77 59 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (77 bp):
ATGTCTGGGACATGACATGGGCACCGAGATGAGAACTCCCATGTAAGACCATACCTAGGACATGG
CATGGGCACCGA
Found at i:26305924 original size:56 final size:51
Alignment explanation
Indices: 26305852--26306081 Score: 313
Period size: 50 Copynumber: 4.5 Consensus size: 51
26305842 ATATGGTTAA
* * **
26305852 AGAGATCCCATGTAAGACCATGTCTGGGATATGGTATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATC---GAGA--ATG
26305908 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGA-AATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGAATG
26305958 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGAATG
* *
26306008 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGAATG
* *
26306058 AGAGGTCCCCTGTATAGACGATGT
1 AGAGGTCCCATGTA-AGACCATGT
26306082 TACATGAAAG
Statistics
Matches: 164, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
50 113 0.69
51 8 0.05
52 1 0.01
53 2 0.01
56 40 0.24
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGAATG
Found at i:26309984 original size:21 final size:21
Alignment explanation
Indices: 26309941--26309994 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
26309931 AAGTTGCTAG
*
26309941 CACGACCATGTGACCTATCCA
1 CACGACCATGTGACCTAGCCA
*
26309962 CACGGCCATGTGACC-AGCTCA
1 CACGACCATGTGACCTAGC-CA
*
26309983 CACGACTATGTG
1 CACGACCATGTG
26309995 GTCTATCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.26, C:0.35, G:0.20, T:0.19
Consensus pattern (21 bp):
CACGACCATGTGACCTAGCCA
Found at i:26310893 original size:21 final size:20
Alignment explanation
Indices: 26310856--26310899 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
26310846 ATAGAAATCG
*
26310856 ATAGAATTCTTATTTAGACAA
1 ATAGAATTCTTAGTTAGA-AA
26310877 ATAGAATT-TGTAGTTAGAAA
1 ATAGAATTCT-TAGTTAGAAA
26310897 ATA
1 ATA
26310900 ATTCTCACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (20 bp):
ATAGAATTCTTAGTTAGAAA
Found at i:26315326 original size:43 final size:44
Alignment explanation
Indices: 26315274--26315409 Score: 145
Period size: 43 Copynumber: 3.2 Consensus size: 44
26315264 TTTTAGAAAT
*
26315274 AAACACCGCTAAAAG-TCATAACATTTAGCGGCG-TGTCTACCAC
1 AAACGCCGCTAAAAGATCATAACATTTAGCGGCGCT-TCTACCAC
* *
26315317 AAACGCCGCT-AAAGATCATGACCTTTAGCGGCGCTTCTACCAC
1 AAACGCCGCTAAAAGATCATAACATTTAGCGGCGCTTCTACCAC
* * * * * * *
26315360 AAACGCCACT-AAACATCTTAACCTTTAGCAGCGCTTATACCAT
1 AAACGCCGCTAAAAGATCATAACATTTAGCGGCGCTTCTACCAC
26315403 AAACGCC
1 AAACGCC
26315410 ACTATAAATA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 4 0.05
43 76 0.94
44 1 0.01
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (44 bp):
AAACGCCGCTAAAAGATCATAACATTTAGCGGCGCTTCTACCAC
Found at i:26315573 original size:29 final size:29
Alignment explanation
Indices: 26315541--26315658 Score: 68
Period size: 29 Copynumber: 4.1 Consensus size: 29
26315531 AATTTAAACT
26315541 TTAAACTATATACTTTTAAGGATAAAATA
1 TTAAACTATATACTTTTAAGGATAAAATA
* *
26315570 TTAAA-TATTTA-TTTCT-ATGAT-AAATA
1 TTAAACTATATACTTT-TAAGGATAAAATA
* * * ** ** *
26315596 TTATATTATGTTTTTTTTTAA-TTTAAACT-
1 TTAAACTA--TATACTTTTAAGGATAAAATA
26315625 TTAAACTATATACTTTTAAGGATAAAAATA
1 TTAAACTATATACTTTTAAGGAT-AAAATA
26315655 TTAA
1 TTAA
26315659 TTAAATTAAT
Statistics
Matches: 64, Mismatches: 15, Indels: 19
0.65 0.15 0.19
Matches are distributed among these distances:
26 9 0.14
27 17 0.27
28 7 0.11
29 20 0.31
30 11 0.17
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (29 bp):
TTAAACTATATACTTTTAAGGATAAAATA
Found at i:26315585 original size:84 final size:85
Alignment explanation
Indices: 26315489--26315658 Score: 333
Period size: 84 Copynumber: 2.0 Consensus size: 85
26315479 TTAATTAAAT
26315489 AATATTTATTTCTATGATAAATATTATATTATGTTTTTTTTTAATTTAAACTTTAAACTATATAC
1 AATATTTATTTCTATGATAAATATTATATTATGTTTTTTTTTAATTTAAACTTTAAACTATATAC
26315554 TTTTAAGGAT-AAAATATTA
66 TTTTAAGGATAAAAATATTA
26315573 AATATTTATTTCTATGATAAATATTATATTATGTTTTTTTTTAATTTAAACTTTAAACTATATAC
1 AATATTTATTTCTATGATAAATATTATATTATGTTTTTTTTTAATTTAAACTTTAAACTATATAC
26315638 TTTTAAGGATAAAAATATTA
66 TTTTAAGGATAAAAATATTA
26315658 A
1 A
26315659 TTAAATTAAT
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 75 0.88
85 10 0.12
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (85 bp):
AATATTTATTTCTATGATAAATATTATATTATGTTTTTTTTTAATTTAAACTTTAAACTATATAC
TTTTAAGGATAAAAATATTA
Found at i:26315872 original size:16 final size:16
Alignment explanation
Indices: 26315851--26315881 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26315841 TTAAAGAAAC
*
26315851 CAAATTATATTAAAAT
1 CAAATTATACTAAAAT
26315867 CAAATTATACTAAAA
1 CAAATTATACTAAAA
26315882 CCATAATCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (16 bp):
CAAATTATACTAAAAT
Found at i:26320177 original size:26 final size:26
Alignment explanation
Indices: 26320132--26320181 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
26320122 ATTAAAAACT
*
26320132 AGAAAAGAAGCTAACTAACATCCAAA
1 AGAAAAGAAGCTAACAAACATCCAAA
26320158 AGAAAAGAAGCTAGA-AAACATCCA
1 AGAAAAGAAGCTA-ACAAACATCCA
26320182 TTGGGAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.58, C:0.18, G:0.14, T:0.10
Consensus pattern (26 bp):
AGAAAAGAAGCTAACAAACATCCAAA
Found at i:26321188 original size:8 final size:7
Alignment explanation
Indices: 26321170--26321302 Score: 63
Period size: 7 Copynumber: 18.7 Consensus size: 7
26321160 ATTAATTAAT
26321170 CTAAACC
1 CTAAACC
26321177 CTAAACCC
1 CTAAA-CC
* *
26321185 CTAATCT
1 CTAAACC
**
26321192 CTATCCC
1 CTAAACC
26321199 CTAAACC
1 CTAAACC
*
26321206 CTAAATC
1 CTAAACC
* *
26321213 ATAAAAC
1 CTAAACC
* *
26321220 ATGAACC
1 CTAAACC
*
26321227 ATAAACC
1 CTAAACC
26321234 CTAAACCC
1 CTAAA-CC
26321242 CT-AACC
1 CTAAACC
*
26321248 CTTAACC
1 CTAAACC
*
26321255 CATAACCC
1 C-TAAACC
*
26321263 CTAAACT
1 CTAAACC
*
26321270 TTAAACC
1 CTAAACC
*
26321277 C-CAACC
1 CTAAACC
26321283 CTTAAACC
1 C-TAAACC
*
26321291 ATAAACC
1 CTAAACC
*
26321298 ATAAA
1 CTAAA
26321303 TCATAATCTC
Statistics
Matches: 96, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
6 9 0.09
7 68 0.71
8 19 0.20
ACGTcount: A:0.42, C:0.38, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:26321217 original size:14 final size:14
Alignment explanation
Indices: 26321200--26321338 Score: 66
Period size: 14 Copynumber: 9.8 Consensus size: 14
26321190 CTCTATCCCC
*
26321200 TAAACCCTAAATCA
1 TAAACCCTAAACCA
* * *
26321214 TAAAACATGAACCA
1 TAAACCCTAAACCA
*
26321228 TAAACCCTAAACCCC
1 TAAACCCTAAA-CCA
*
26321243 T-AACCCTTAACCCA
1 TAAACCC-TAAACCA
* **
26321257 TAACCCCTAAACTT
1 TAAACCCTAAACCA
* * *
26321271 TAAACCCCAACCCT
1 TAAACCCTAAACCA
*
26321285 TAAACCATAAACCA
1 TAAACCCTAAACCA
* * *
26321299 TAAATCATAATCTC-
1 TAAACCCTAAAC-CA
*
26321313 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
26321328 TAAACCTTAAA
1 TAAACCCTAAA
26321339 ATAGTAACTC
Statistics
Matches: 91, Mismatches: 28, Indels: 12
0.69 0.21 0.09
Matches are distributed among these distances:
14 69 0.76
15 22 0.24
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:26321247 original size:21 final size:21
Alignment explanation
Indices: 26321223--26321297 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
26321213 ATAAAACATG
26321223 AACCATAAACCCTAAACCCCT-
1 AACCATAAACCC-AAACCCCTA
* *
26321244 AACCCTTAACCCATAACCCCTA
1 AACCATAAACCCA-AACCCCTA
** * *
26321266 AACTTTAAACCCCAACCCTTA
1 AACCATAAACCCAAACCCCTA
26321287 AACCATAAACC
1 AACCATAAACC
26321298 ATAAATCATA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 1 0.02
21 33 0.77
22 9 0.21
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCATAAACCCAAACCCCTA
Found at i:26321307 original size:7 final size:7
Alignment explanation
Indices: 26321200--26321338 Score: 55
Period size: 7 Copynumber: 19.6 Consensus size: 7
26321190 CTCTATCCCC
*
26321200 TAAACCC
1 TAAACCA
*
26321207 TAAATCA
1 TAAACCA
*
26321214 TAAAACA
1 TAAACCA
*
26321221 TGAACCA
1 TAAACCA
*
26321228 TAAACCC
1 TAAACCA
*
26321235 TAAACCCC
1 TAAA-CCA
* *
26321243 TAACCCT
1 TAAACCA
*
26321250 TAACCCA
1 TAAACCA
* *
26321257 TAACCCC
1 TAAACCA
**
26321264 TAAACTT
1 TAAACCA
*
26321271 TAAACCC
1 TAAACCA
* * *
26321278 CAACCCT
1 TAAACCA
26321285 TAAACCA
1 TAAACCA
26321292 TAAACCA
1 TAAACCA
*
26321299 TAAATCA
1 TAAACCA
*
26321306 TAATCTC-
1 TAAAC-CA
26321313 TAAACCCA
1 TAAA-CCA
*
26321321 TAATCCA
1 TAAACCA
*
26321328 TAAACCT
1 TAAACCA
26321335 TAAA
1 TAAA
26321339 ATAGTAACTC
Statistics
Matches: 99, Mismatches: 29, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
7 88 0.89
8 11 0.11
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:26321668 original size:80 final size:82
Alignment explanation
Indices: 26321502--26321670 Score: 202
Period size: 80 Copynumber: 2.1 Consensus size: 82
26321492 AACTACTAAC
*
26321502 CCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACTC
1 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACTC
* * *
26321567 AAATCACTACCCCTAAC
66 AAATCACAACCCATAAA
** * *
26321584 CCCTAAACATTATTT-A-ATATAAATTAAAGCACACTAATTAATCTAAACCTTAAATCCTAAC-C
1 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACTC
* *
26321646 TAA-CACCGAATCCATAAA
66 AAATCA-C-AACCCATAAA
26321664 CCCTAAA
1 CCCTAAA
26321671 TCCCTAACTC
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 4 0.05
80 54 0.72
81 1 0.01
82 14 0.19
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.27
Consensus pattern (82 bp):
CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACTC
AAATCACAACCCATAAA
Found at i:26321728 original size:34 final size:35
Alignment explanation
Indices: 26321664--26321729 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
26321654 AATCCATAAA
* * *
26321664 CCCTAAATCCCTAACTCTTAATCTCTAACCCTAAC
1 CCCTAAATCACTAACCCTTAATCACTAACCCTAAC
26321699 CCCTAAATCAC-AACCCTTAAATCAC-AACCCT
1 CCCTAAATCACTAACCCTT-AATCACTAACCCT
26321730 TAAACCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 12 0.44
35 15 0.56
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (35 bp):
CCCTAAATCACTAACCCTTAATCACTAACCCTAAC
Found at i:26321742 original size:14 final size:14
Alignment explanation
Indices: 26321696--26321733 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
26321686 CTCTAACCCT
*
26321696 AACCCCTAAATCAC
1 AACCCTTAAATCAC
26321710 AACCCTTAAATCAC
1 AACCCTTAAATCAC
26321724 AACCCTTAAA
1 AACCCTTAAA
26321734 CCAAAACCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (14 bp):
AACCCTTAAATCAC
Found at i:26321758 original size:14 final size:15
Alignment explanation
Indices: 26321741--26321770 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26321731 AAACCAAAAC
26321741 CCCTAA-TCCATAAT
1 CCCTAATTCCATAAT
26321755 CCCTAATTCCATAAT
1 CCCTAATTCCATAAT
26321770 C
1 C
26321771 TATAAACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (15 bp):
CCCTAATTCCATAAT
Found at i:26322373 original size:41 final size:41
Alignment explanation
Indices: 26322316--26322511 Score: 304
Period size: 41 Copynumber: 4.8 Consensus size: 41
26322306 AAATGTTTTC
*
26322316 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTA-AGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCC-AGAGCATTA
* *
26322357 GCGGCGCTTTTCCAAAAATGCCGCTAACGCCCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGCATTA
* *
26322398 GCGGCGCTTTTCAAAAAACGCCACTAAAGCCCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGCATTA
*
26322439 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGCATTA
* *
26322480 GCGACGCTTTTCCAAAAACACCGCTAAAGCCC
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCC
26322512 CGAAAGGTCA
Statistics
Matches: 141, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
40 1 0.01
41 140 0.99
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAGAGCATTA
Found at i:26322795 original size:29 final size:29
Alignment explanation
Indices: 26322762--26322820 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
26322752 CATTAGACTC
26322762 TAAATCAAGCATTTGGAGAATTAAAATTT
1 TAAATCAAGCATTTGGAGAATTAAAATTT
26322791 TAAATCAAGCATTTGGAGAATTAAAATTT
1 TAAATCAAGCATTTGGAGAATTAAAATTT
26322820 T
1 T
26322821 TTCTCCCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.36
Consensus pattern (29 bp):
TAAATCAAGCATTTGGAGAATTAAAATTT
Found at i:26328728 original size:3 final size:3
Alignment explanation
Indices: 26328722--26328751 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
26328712 TAGAGATGAT
*
26328722 GAG GAG GAG GAG GAG GAG GAG AAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
26328752 ACCCCCATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:26334103 original size:117 final size:117
Alignment explanation
Indices: 26333891--26334125 Score: 452
Period size: 117 Copynumber: 2.0 Consensus size: 117
26333881 AAGTTTAATT
26333891 TATACTCATCATCAAAACATGAGGCCCAACCAATTTCATACTTAAATGAATTATCAAAGAATCAC
1 TATACTCATCATCAAAACATGAGGCCCAACCAATTTCATACTTAAATGAATTATCAAAGAATCAC
26333956 AAAAAGAGGTAAGGGTTAAGAATTACTTAGTAAATCTTGAAGAGGTCAATGA
66 AAAAAGAGGTAAGGGTTAAGAATTACTTAGTAAATCTTGAAGAGGTCAATGA
26334008 TATACTCATCATCAAAACATGAGGCCCAACCAATTTCATACTTAAATGAATTATCAAAGAATCAC
1 TATACTCATCATCAAAACATGAGGCCCAACCAATTTCATACTTAAATGAATTATCAAAGAATCAC
**
26334073 AAAAAGAGGTAAGGGTTAAGAATTGGTTAGTAAATCTTGAAGAGGTCAATGA
66 AAAAAGAGGTAAGGGTTAAGAATTACTTAGTAAATCTTGAAGAGGTCAATGA
26334125 T
1 T
26334126 GGAATTGATG
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (117 bp):
TATACTCATCATCAAAACATGAGGCCCAACCAATTTCATACTTAAATGAATTATCAAAGAATCAC
AAAAAGAGGTAAGGGTTAAGAATTACTTAGTAAATCTTGAAGAGGTCAATGA
Found at i:26336022 original size:17 final size:17
Alignment explanation
Indices: 26335973--26336024 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
26335963 AGTATAGGAA
*
26335973 GTAATCTTAGAAGATAT
1 GTAATCTTAGAAGATTT
* *
26335990 GCAATCTTGGAAGATTT
1 GTAATCTTAGAAGATTT
*
26336007 GTAATATTAGAAGATTT
1 GTAATCTTAGAAGATTT
26336024 G
1 G
26336025 ATTCTATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.37
Consensus pattern (17 bp):
GTAATCTTAGAAGATTT
Found at i:26344980 original size:9 final size:9
Alignment explanation
Indices: 26344966--26345009 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
26344956 GGGTATTTAA
26344966 TAATATAAT
1 TAATATAAT
26344975 TAATATAAT
1 TAATATAAT
*
26344984 T-A-ATCAT
1 TAATATAAT
*
26344991 CAATATAAT
1 TAATATAAT
26345000 TAATATAAT
1 TAATATAAT
26345009 T
1 T
26345010 TATTATTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 4 0.14
8 2 0.07
9 23 0.79
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (9 bp):
TAATATAAT
Found at i:26345049 original size:19 final size:18
Alignment explanation
Indices: 26345027--26345062 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
26345017 TCAATAATTA
*
26345027 TTTAATATTAAAATTTTAT
1 TTTAATAAT-AAATTTTAT
26345046 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
26345063 GAAATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:26345764 original size:22 final size:22
Alignment explanation
Indices: 26345713--26345764 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
26345703 ATGTTTGGTG
* * *
26345713 TCTCGAAACATTGATTTTCATG
1 TCTCGAGACATTGATTATCATA
*
26345735 TCTTGAGACATTGAGTTAT-ATA
1 TCTCGAGACATTGA-TTATCATA
26345757 TCTCGAGA
1 TCTCGAGA
26345765 TTGATCTTCG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (22 bp):
TCTCGAGACATTGATTATCATA
Found at i:26353194 original size:32 final size:32
Alignment explanation
Indices: 26353158--26353254 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 32
26353148 TGAGAGGGAA
*
26353158 TATTACAAAAATATGCAGTTACCATGCTTAGG
1 TATTACGAAAATATGCAGTTACCATGCTTAGG
* *** * *
26353190 TATTAGGTTGATAT---GTT-CCATGTTTAGAA
1 TATTACGAAAATATGCAGTTACCATGCTTAG-G
26353219 TATTACGAAAATATGCAGTTACCATGCTTAGG
1 TATTACGAAAATATGCAGTTACCATGCTTAGG
26353251 TATT
1 TATT
26353255 GGGTTGATAT
Statistics
Matches: 47, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
28 9 0.19
29 13 0.28
32 16 0.34
33 9 0.19
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TATTACGAAAATATGCAGTTACCATGCTTAGG
Found at i:26356563 original size:19 final size:19
Alignment explanation
Indices: 26356518--26356564 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
26356508 TTAATGATGA
26356518 TTAT-ATATT-TATATATG
1 TTATAATATTATATATATG
*
26356535 TTA-ACTTATTATATATATG
1 TTATA-ATATTATATATATG
26356554 TTATAATATTA
1 TTATAATATTA
26356565 ATAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 3 0.12
18 4 0.17
19 16 0.67
20 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (19 bp):
TTATAATATTATATATATG
Found at i:26356671 original size:14 final size:14
Alignment explanation
Indices: 26356630--26356672 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
26356620 AAAATTTATC
*
26356630 AAAGAAAAGAAAGAA
1 AAAG-AAAGAGAGAA
26356645 AAAGAAAGAGAGAA
1 AAAGAAAGAGAGAA
26356659 AAAGCAAAG-GAGAA
1 AAAG-AAAGAGAGAA
26356673 CGCACGGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAGAGAA
Found at i:26364653 original size:13 final size:13
Alignment explanation
Indices: 26364627--26364660 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
26364617 TTTATTATCA
*
26364627 TTTTTCTTTGTCT
1 TTTTTCTTTCTCT
*
26364640 TTTTTTTTTCTCT
1 TTTTTCTTTCTCT
26364653 TTTTTCTT
1 TTTTTCTT
26364661 GCAAATTGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTTTCTTTCTCT
Found at i:26367063 original size:14 final size:14
Alignment explanation
Indices: 26367044--26367083 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
26367034 TTGATTGCCA
26367044 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
**
26367058 GTAAAATCATTTCT
1 GTAAAATGTTTTCT
*
26367072 GGAAAATGTTTT
1 GTAAAATGTTTT
26367084 ACTTTTCTGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:26367092 original size:20 final size:20
Alignment explanation
Indices: 26367067--26367106 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
26367057 TGTAAAATCA
*
26367067 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
26367087 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
26367107 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:26367095 original size:34 final size:35
Alignment explanation
Indices: 26367052--26367118 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
26367042 CAGTAAAATG
* *
26367052 TTTTCTGTAAAATCATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATCATTTACTGAAAAATATTTTAC
*
26367086 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCTGTAAAATCATTTACTGAAAAATATTTT
26367119 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATCATTTACTGAAAAATATTTTAC
Found at i:26369545 original size:23 final size:23
Alignment explanation
Indices: 26369515--26369569 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
26369505 CCAATCAAAC
26369515 GCCGGAAAAGTTGGAAATGATTT
1 GCCGGAAAAGTTGGAAATGATTT
26369538 GCCGGAAAAGTTGGAAATGATTT
1 GCCGGAAAAGTTGGAAATGATTT
*
26369561 TCCGGAAAA
1 GCCGGAAAA
26369570 TCAATTCTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.24
Consensus pattern (23 bp):
GCCGGAAAAGTTGGAAATGATTT
Found at i:26372716 original size:21 final size:22
Alignment explanation
Indices: 26372690--26372739 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
26372680 CAACCGAGAC
*
26372690 TATAAATTTT-TTAAAAAAAAT
1 TATAAATTTTATCAAAAAAAAT
*
26372711 TATAAATTTTATCAAAAAAATT
1 TATAAATTTTATCAAAAAAAAT
26372733 TATAAAT
1 TATAAAT
26372740 AGAAAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TATAAATTTTATCAAAAAAAAT
Found at i:26386437 original size:34 final size:34
Alignment explanation
Indices: 26386394--26386463 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
26386384 TCTTGAAATT
26386394 TTCTGAAGATTTTTCTTGTGTAAGCCTCTAAAGC
1 TTCTGAAGATTTTTCTTGTGTAAGCCTCTAAAGC
26386428 TTCTGAAGATTTTTCTTGTGTAAGCCTCTAAAGC
1 TTCTGAAGATTTTTCTTGTGTAAGCCTCTAAAGC
26386462 TT
1 TT
26386464 TTTCTCCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (34 bp):
TTCTGAAGATTTTTCTTGTGTAAGCCTCTAAAGC
Found at i:26392983 original size:9 final size:9
Alignment explanation
Indices: 26392969--26393000 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
26392959 TTCGCATCAT
26392969 TTTCTCTTA
1 TTTCTCTTA
26392978 TTTCTCTTA
1 TTTCTCTTA
*
26392987 TTTATCTTA
1 TTTCTCTTA
26392996 TTTCT
1 TTTCT
26393001 TAATAGCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTCTCTTA
Found at i:26398152 original size:183 final size:183
Alignment explanation
Indices: 26397838--26398539 Score: 1127
Period size: 183 Copynumber: 3.8 Consensus size: 183
26397828 TTAGCAATGA
* * * * * * *
26397838 ATATCGATATACCCAACAATTCGGCAATGTATAACCATTAATGAATCAAGTTCGACAATATATAA
1 ATATCCATATACCAAACAATTCGACAAGGTATAACCATTCACGAATCAAGTTCGGCAATATATAA
26397903 TCATATACAAATCCAATTCGGCATCCTATATTCATAAACAA-TCTAATATCGACAATATATAACC
66 TCATATACAAATCCAATTCGGCATCCTATATTCATAAACAATTC-AATATCGACAATATATAACC
* *
26397967 ATGTACAAATTAATTTCAACAAGGTACAACATTTACGAATCAATTCGACAACTT
130 ATGTACAAATTAATTTCAGCAAGGTACAACATATACGAATCAATTCGACAACTT
* ** * *
26398021 ATATCCATATACCAAACAATTTGGTAAGGTATAACCATTCACAAATCAAGTTTGGCAATATATAA
1 ATATCCATATACCAAACAATTCGACAAGGTATAACCATTCACGAATCAAGTTCGGCAATATATAA
* *
26398086 TCATATACAAATCCAATTCGGCATCCTATATTCGTAAACAATTCAATATCGATAATATATAACCA
66 TCATATACAAATCCAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCA
26398151 TGTACAAATTAATTTCAGCAAGGTACAACATATACGAATCAATTCGACAACTT
131 TGTACAAATTAATTTCAGCAAGGTACAACATATACGAATCAATTCGACAACTT
26398204 ATATCCATATACCAAACAATTCGACAAGGTATAACCATTCACGAATCAAGTTCGGCAATATATAA
1 ATATCCATATACCAAACAATTCGACAAGGTATAACCATTCACGAATCAAGTTCGGCAATATATAA
* * *
26398269 TCATATACAAATCCAATTCAGCATCTTATATTCATAAACAATTCAATATCAACAATATATAACCA
66 TCATATACAAATCCAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCA
* * *
26398334 TGTACAAATTAATTTCAGCAATGTATATAACATATATGAATCAATTCGACAACTT
131 TGTACAAATTAATTTCAGCAA-G-GTACAACATATACGAATCAATTCGACAACTT
*
26398389 ATATCCATATACCAAACAATTCGACAAGGTATAACCATTCACGAATCAAGTTTGGCAATATATAA
1 ATATCCATATACCAAACAATTCGACAAGGTATAACCATTCACGAATCAAGTTCGGCAATATATAA
* * *
26398454 TCATATCCAAATCCAATTCGGCATCCTATATTCATAAACAATTCAATATTGACAATAAATAACCA
66 TCATATACAAATCCAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCA
*
26398519 TGTACAAATTAATTTTAGCAA
131 TGTACAAATTAATTTCAGCAA
26398540 TGTATATAAC
Statistics
Matches: 481, Mismatches: 35, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
183 307 0.64
184 3 0.01
185 171 0.36
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (183 bp):
ATATCCATATACCAAACAATTCGACAAGGTATAACCATTCACGAATCAAGTTCGGCAATATATAA
TCATATACAAATCCAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCA
TGTACAAATTAATTTCAGCAAGGTACAACATATACGAATCAATTCGACAACTT
Found at i:26398215 original size:30 final size:29
Alignment explanation
Indices: 26398179--26398437 Score: 125
Period size: 30 Copynumber: 8.5 Consensus size: 29
26398169 CAAGGTACAA
26398179 CATATACGAATCAATTCGACAACTTATATC
1 CATATACGAATCAATTCGACAA-TTATATC
* * * *
26398209 CATATACCAAACAATTCGACAAGGTATAAC
1 CATATACGAATCAATTCGACAA-TTATATC
*
26398239 CAT-TCACGAATCAAGTTCGGCAATATATAAT-
1 CATAT-ACGAATCAA-TTCGACAAT-TAT-ATC
* * *
26398270 CATATACAAATCCAATTC-AGCATCTTATATT
1 CATATACGAAT-CAATTCGA-CA-ATTATATC
* * *
26398301 CATAAAC-AATTCAATATCAACAATATATAAC
1 CATATACGAA-TCAAT-TCGACAAT-TATATC
* * * *
26398332 CATGTACAAATTAATTTC-AGCAATGTATATAA
1 CATATACGAATCAA-TTCGA-CAAT-TATAT-C
*
26398364 CATATATGAATCAATTCGACAACTTATATC
1 CATATACGAATCAATTCGACAA-TTATATC
* * * *
26398394 CATATACCAAACAATTCGACAAGGTATAAC
1 CATATACGAATCAATTCGACAA-TTATATC
26398424 CAT-TCACGAATCAA
1 CATAT-ACGAATCAA
26398438 GTTTGGCAAT
Statistics
Matches: 173, Mismatches: 36, Indels: 40
0.69 0.14 0.16
Matches are distributed among these distances:
29 2 0.01
30 79 0.46
31 70 0.40
32 22 0.13
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (29 bp):
CATATACGAATCAATTCGACAATTATATC
Found at i:26398519 original size:368 final size:366
Alignment explanation
Indices: 26397838--26398539 Score: 1145
Period size: 368 Copynumber: 1.9 Consensus size: 366
26397828 TTAGCAATGA
* * * * *
26397838 ATATCGATATACCCAACAATTCGGCAATGTATAACCATTAATGAATCAAGTTCGACAATATATAA
1 ATATCCATATACCAAACAATTCGACAAGGTATAACCATTAACGAATCAAGTTCGACAATATATAA
* *
26397903 TCATATACAAATCCAATTCGGCATCCTATATTCATAAACAATCTAATATCGACAATATATAACCA
66 TCATATACAAATCCAATTCAGCATCCTATATTCATAAACAATCTAATATCAACAATATATAACCA
* *
26397968 TGTACAAATTAATTTCAACAAGGTACAACATTTACGAATCAATTCGACAACTTATATCCATATAC
131 TGTACAAATTAATTTCAACAAGATACAACATATACGAATCAATTCGACAACTTATATCCATATAC
* **
26398033 CAAACAATTTGGTAAGGTATAACCATTCACAAATCAAGTTTGGCAATATATAATCATATACAAAT
196 CAAACAATTCGACAAGGTATAACCATTCACAAATCAAGTTTGGCAATATATAATCATATACAAAT
* * *
26398098 CCAATTCGGCATCCTATATTCGTAAACAATTCAATATCGATAATATATAACCATGTACAAATTAA
261 CCAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATAAATAACCATGTACAAATTAA
26398163 TTTCAGCAAGGTACAACATATACGAATCAATTCGACAACTT
326 TTTCAGCAAGGTACAACATATACGAATCAATTCGACAACTT
* *
26398204 ATATCCATATACCAAACAATTCGACAAGGTATAACCATTCACGAATCAAGTTCGGCAATATATAA
1 ATATCCATATACCAAACAATTCGACAAGGTATAACCATTAACGAATCAAGTTCGACAATATATAA
*
26398269 TCATATACAAATCCAATTCAGCATCTTATATTCATAAACAAT-TCAATATCAACAATATATAACC
66 TCATATACAAATCCAATTCAGCATCCTATATTCATAAACAATCT-AATATCAACAATATATAACC
* * *
26398333 ATGTACAAATTAATTTCAGCAATGTATATAACATATATGAATCAATTCGACAACTTATATCCATA
130 ATGTACAAATTAATTTCAACAA-G-ATACAACATATACGAATCAATTCGACAACTTATATCCATA
* *
26398398 TACCAAACAATTCGACAAGGTATAACCATTCACGAATCAAGTTTGGCAATATATAATCATATCCA
193 TACCAAACAATTCGACAAGGTATAACCATTCACAAATCAAGTTTGGCAATATATAATCATATACA
*
26398463 AATCCAATTCGGCATCCTATATTCATAAACAATTCAATATTGACAATAAATAACCATGTACAAAT
258 AATCCAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATAAATAACCATGTACAAAT
*
26398528 TAATTTTAGCAA
323 TAATTTCAGCAA
26398540 TGTATATAAC
Statistics
Matches: 308, Mismatches: 25, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
365 1 0.00
366 138 0.45
367 1 0.00
368 168 0.55
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (366 bp):
ATATCCATATACCAAACAATTCGACAAGGTATAACCATTAACGAATCAAGTTCGACAATATATAA
TCATATACAAATCCAATTCAGCATCCTATATTCATAAACAATCTAATATCAACAATATATAACCA
TGTACAAATTAATTTCAACAAGATACAACATATACGAATCAATTCGACAACTTATATCCATATAC
CAAACAATTCGACAAGGTATAACCATTCACAAATCAAGTTTGGCAATATATAATCATATACAAAT
CCAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATAAATAACCATGTACAAATTAA
TTTCAGCAAGGTACAACATATACGAATCAATTCGACAACTT
Found at i:26401540 original size:26 final size:26
Alignment explanation
Indices: 26401504--26401564 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
26401494 ACCTACAGTA
26401504 GTTTCAGAATATCATAATATATATCT
1 GTTTCAGAATATCATAATATATATCT
* * *
26401530 GTTTTAGAATATCATAATATGTATCA
1 GTTTCAGAATATCATAATATATATCT
*
26401556 ATTTCAGAA
1 GTTTCAGAA
26401565 CACTTACAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (26 bp):
GTTTCAGAATATCATAATATATATCT
Found at i:26405989 original size:41 final size:41
Alignment explanation
Indices: 26405932--26406121 Score: 220
Period size: 41 Copynumber: 4.6 Consensus size: 41
26405922 TGAGTCCAAC
*
26405932 AGGCTTCGTGACGGTGTATTATACCAGGCTTTGTGCCTAGA
1 AGGCTTCGTGACGGTGTATTATATCAGGCTTTGTGCCTAGA
* **
26405973 AGGCTTCGTGACGGTGTATTATATCAGGCTTTGTGCTTATC
1 AGGCTTCGTGACGGTGTATTATATCAGGCTTTGTGCCTAGA
* * * * *
26406014 AGGCTTCGTGCCGGTATATTATATCAAGCGTTGTGCCTAGT
1 AGGCTTCGTGACGGTGTATTATATCAGGCTTTGTGCCTAGA
* * * * *
26406055 AGGCTTCATGTCGATGTGTTATATCAGGCTTTGAGCCTAGCA
1 AGGCTTCGTGACGGTGTATTATATCAGGCTTTGTGCCTAG-A
* *
26406097 A-GCTTCGTGACAGTGTATTGTATCA
1 AGGCTTCGTGACGGTGTATTATATCA
26406122 TGTAGGTTGT
Statistics
Matches: 122, Mismatches: 26, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
41 121 0.99
42 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (41 bp):
AGGCTTCGTGACGGTGTATTATATCAGGCTTTGTGCCTAGA
Found at i:26406015 original size:16 final size:16
Alignment explanation
Indices: 26405994--26406024 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26405984 CGGTGTATTA
*
26405994 TATCAGGCTTTGTGCT
1 TATCAGGCTTCGTGCT
26406010 TATCAGGCTTCGTGC
1 TATCAGGCTTCGTGC
26406025 CGGTATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.26, T:0.39
Consensus pattern (16 bp):
TATCAGGCTTCGTGCT
Found at i:26412711 original size:27 final size:27
Alignment explanation
Indices: 26412665--26412737 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
26412655 AATGTAGGAA
26412665 AAAAATGATAAAAATA--AAA-TTCAAT
1 AAAAAT-ATAAAAATATTAAATTTCAAT
* *
26412690 AAAAGT-TATAAAATGATTAAATTTTAAT
1 AAAAATATA-AAAAT-ATTAAATTTCAAT
26412718 AAAAATATAAAAATATTAAA
1 AAAAATATAAAAATATTAAA
26412738 AAATTAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 2 0.05
24 5 0.13
25 6 0.15
27 9 0.23
28 15 0.38
29 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (27 bp):
AAAAATATAAAAATATTAAATTTCAAT
Found at i:26412766 original size:20 final size:20
Alignment explanation
Indices: 26412743--26412785 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
26412733 TTAAAAAATT
26412743 AAAAAAATATAAAATTGTAA
1 AAAAAAATATAAAATTGTAA
* * *
26412763 AAAAAATTATAAGATTTTAA
1 AAAAAAATATAAAATTGTAA
26412783 AAA
1 AAA
26412786 GTCGTAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAAAAATATAAAATTGTAA
Found at i:26412843 original size:10 final size:10
Alignment explanation
Indices: 26412708--26412849 Score: 52
Period size: 10 Copynumber: 14.7 Consensus size: 10
26412698 TAAAATGATT
*
26412708 AAATTTTAATA
1 AAATTATAA-A
*
26412719 AAAATAT-AA
1 AAATTATAAA
26412728 AAA-TATTAAA
1 AAATTA-TAAA
26412738 AAATTA-AAA
1 AAATTATAAA
26412747 AAA-TAT-AA
1 AAATTATAAA
* *
26412755 AATTGTAAAAA
1 AAAT-TATAAA
26412766 AAATTAT--A
1 AAATTATAAA
* *
26412774 AGATTTTAAA
1 AAATTATAAA
* **
26412784 AAGTCGTAAGA
1 AAATTATAA-A
26412795 AAATTATAAA
1 AAATTATAAA
*
26412805 AAAATATAAA
1 AAATTATAAA
**
26412815 AAA--ATGTA
1 AAATTATAAA
*
26412823 AAATTCTTAAA
1 AAATT-ATAAA
26412834 AAATTAT-AA
1 AAATTATAAA
26412843 AAATTAT
1 AAATTAT
26412850 TGTAATAAAA
Statistics
Matches: 96, Mismatches: 22, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
8 20 0.21
9 20 0.21
10 30 0.31
11 26 0.27
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (10 bp):
AAATTATAAA
Found at i:26413063 original size:11 final size:12
Alignment explanation
Indices: 26413063--26413099 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
26413053 TTATAAAATT
*
26413063 TATAATTTTTTA
1 TATAAATTTTTA
26413075 -ATAAATTTTTA
1 TATAAATTTTTA
26413086 -ATAAATTTTTA
1 TATAAATTTTTA
26413097 TAT
1 TAT
26413100 TTTTATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 21 0.91
12 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATAAATTTTTA
Found at i:26413074 original size:19 final size:21
Alignment explanation
Indices: 26413049--26413098 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
26413039 TTTTTTTATG
26413049 ATTTTTATAAA-ATTT-ATAA
1 ATTTTTATAAATATTTAATAA
* *
26413068 TTTTTTAATAAATTTTTAATAA
1 ATTTTT-ATAAATATTTAATAA
26413090 ATTTTTATA
1 ATTTTTATA
26413099 TTTTTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 5 0.20
20 5 0.20
21 6 0.24
22 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTTATAAATATTTAATAA
Found at i:26413083 original size:12 final size:12
Alignment explanation
Indices: 26413066--26413095 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
26413056 TAAAATTTAT
26413066 AATTTTTTAATA
1 AATTTTTTAATA
26413078 AA-TTTTTAATA
1 AATTTTTTAATA
26413089 AATTTTT
1 AATTTTT
26413096 ATATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
AATTTTTTAATA
Found at i:26413143 original size:29 final size:29
Alignment explanation
Indices: 26413070--26413143 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
26413060 ATTTATAATT
* * *
26413070 TTTTAATAAATTTTTAATAAATTTTTATAT
1 TTTTATTAAA-TTTTAATAAATTTGTATAC
*
26413100 TTTTATTAAAATTTAAT-AATTTGTATAAC
1 TTTTATTAAATTTTAATAAATTTGTAT-AC
*
26413129 TTTTATTAACTTTTA
1 TTTTATTAAATTTTA
26413144 TTTTTTATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 8 0.22
29 20 0.54
30 9 0.24
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (29 bp):
TTTTATTAAATTTTAATAAATTTGTATAC
Found at i:26413157 original size:15 final size:17
Alignment explanation
Indices: 26413129--26413161 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
26413119 TTTGTATAAC
26413129 TTTTATTAACTTTTATT
1 TTTTATTAACTTTTATT
26413146 TTTTA-TAA-TTTTATT
1 TTTTATTAACTTTTATT
26413161 T
1 T
26413162 GCCACATGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTAACTTTTATT
Found at i:26416652 original size:20 final size:20
Alignment explanation
Indices: 26416623--26416667 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
26416613 AGAACTTGAC
26416623 AGAATAGAACAGCA-CAGAGT
1 AGAATAGAACAG-AGCAGAGT
* *
26416643 AGAATGGAACAGAGTAGAGT
1 AGAATAGAACAGAGCAGAGT
26416663 AGAAT
1 AGAAT
26416668 TGAATAGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.49, C:0.09, G:0.29, T:0.13
Consensus pattern (20 bp):
AGAATAGAACAGAGCAGAGT
Found at i:26420836 original size:98 final size:98
Alignment explanation
Indices: 26420667--26420850 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 98
26420657 NNNNNNNNNN
* *
26420667 ATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCTTCTAGAATCCC
1 ATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCTTCTAAAATCCC
26420732 AAACTCGGAATATTTCCTTTACTTTAAAAGAAC
66 AAACTCGGAATATTTCCTTTACTTTAAAAGAAC
* *
26420765 ATCCACTTATCCAAGATTTAAGAAATCACACTCAATACGTTAGGGCACAATTCCTT-TAAAATTC
1 ATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT-CTTCTAAAATCC
26420829 CAAACTCGGAATATTTCCTTTA
65 CAAACTCGGAATATTTCCTTTA
26420851 TTGCTTTTAG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 78 0.96
99 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (98 bp):
ATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCTTCTAAAATCCC
AAACTCGGAATATTTCCTTTACTTTAAAAGAAC
Found at i:26422868 original size:19 final size:19
Alignment explanation
Indices: 26422844--26422975 Score: 192
Period size: 19 Copynumber: 6.8 Consensus size: 19
26422834 AATCATATAT
26422844 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
26422863 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
26422882 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
26422901 TCTAAAATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
26422922 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
26422941 TCTAGGATTGCATATTATA
1 TCTAAGATTGCATATCATA
*
26422960 TCTAGGATTGCATATC
1 TCTAAGATTGCATATC
26422976 CTCAAAAATT
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
19 84 0.82
21 18 0.18
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:26422927 original size:59 final size:59
Alignment explanation
Indices: 26422855--26422974 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 59
26422845 CTAAGATTGC
*
26422855 ATATCATATCTAAGATTATATATCATATCTAAGATTGCATATCATATCTAAAATTGCAT
1 ATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAAATTGCAT
* * * **
26422914 ATATCATATCTAAGATTGCATATCATATCTAGGATTGCATATTATATCTAGGATTGCAT
1 ATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAAATTGCAT
26422973 AT
1 AT
26422975 CCTCAAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (59 bp):
ATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAAATTGCAT
Found at i:26423350 original size:43 final size:43
Alignment explanation
Indices: 26423279--26423381 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 43
26423269 GTTAGGATAT
* * *
26423279 TATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGA
1 TATTATAGGATATTATTTCTTAGCAATTTGACTCCTAATGGGA
* * *
26423322 TGTTATAGGTTATTATTTCTTAGCAATTTGACTCCTAATTGGA
1 TATTATAGGATATTATTTCTTAGCAATTTGACTCCTAATGGGA
*
26423365 TATTATGGGATATTATT
1 TATTATAGGATATTATT
26423382 ATGGGATATT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (43 bp):
TATTATAGGATATTATTTCTTAGCAATTTGACTCCTAATGGGA
Found at i:26423383 original size:13 final size:13
Alignment explanation
Indices: 26423365--26423393 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
26423355 CCTAATTGGA
26423365 TATTATGGGATAT
1 TATTATGGGATAT
26423378 TATTATGGGATAT
1 TATTATGGGATAT
26423391 TAT
1 TAT
26423394 CTCTTAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (13 bp):
TATTATGGGATAT
Found at i:26423386 original size:99 final size:99
Alignment explanation
Indices: 26423273--26423507 Score: 461
Period size: 99 Copynumber: 2.4 Consensus size: 99
26423263 GGGGATGTTA
26423273 GGATATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATGTTATAGGTTATTAT
1 GGATATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATGTTATAGGTTATTAT
26423338 TTCTTAGCAATTTGACTCCTAATTGGATATTATG
66 TTCTTAGCAATTTGACTCCTAATTGGATATTATG
26423372 GGATATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATGTTATAGGTTATTAT
1 GGATATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATGTTATAGGTTATTAT
26423437 TTCTTAGCAATTTGACTCCTAATTGGATATTATG
66 TTCTTAGCAATTTGACTCCTAATTGGATATTATG
*
26423471 GGATATTATTATGGGATATTATCTGTTAGCAATTTGA
1 GGATATTATTATGGGATATTATCTCTTAGCAATTTGA
26423508 CTTCTTCGTA
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 135 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (99 bp):
GGATATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATGTTATAGGTTATTAT
TTCTTAGCAATTTGACTCCTAATTGGATATTATG
Found at i:26423392 original size:56 final size:56
Alignment explanation
Indices: 26423332--26423437 Score: 158
Period size: 56 Copynumber: 1.9 Consensus size: 56
26423322 TGTTATAGGT
* * *
26423332 TATTATTTCTTAGCAATTTGACTCCTAATTGGATATTATGGGATATTATTATGGGA
1 TATTATCTCTTAGCAATTTGACTCCTAATGGGATATTATAGGATATTATTATGGGA
* * *
26423388 TATTATCTCTTAGCAATTTGATTCCTAATGGGATGTTATAGGTTATTATT
1 TATTATCTCTTAGCAATTTGACTCCTAATGGGATATTATAGGATATTATT
26423438 TCTTAGCAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 44 1.00
ACGTcount: A:0.27, C:0.09, G:0.17, T:0.46
Consensus pattern (56 bp):
TATTATCTCTTAGCAATTTGACTCCTAATGGGATATTATAGGATATTATTATGGGA
Found at i:26423442 original size:43 final size:43
Alignment explanation
Indices: 26423378--26423480 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 43
26423368 TATGGGATAT
* * *
26423378 TATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGA
1 TATTATAGGATATTATTTCTTAGCAATTTGACTCCTAATGGGA
* * *
26423421 TGTTATAGGTTATTATTTCTTAGCAATTTGACTCCTAATTGGA
1 TATTATAGGATATTATTTCTTAGCAATTTGACTCCTAATGGGA
*
26423464 TATTATGGGATATTATT
1 TATTATAGGATATTATT
26423481 ATGGGATATT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (43 bp):
TATTATAGGATATTATTTCTTAGCAATTTGACTCCTAATGGGA
Found at i:26423482 original size:13 final size:13
Alignment explanation
Indices: 26423464--26423492 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
26423454 CCTAATTGGA
26423464 TATTATGGGATAT
1 TATTATGGGATAT
26423477 TATTATGGGATAT
1 TATTATGGGATAT
26423490 TAT
1 TAT
26423493 CTGTTAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (13 bp):
TATTATGGGATAT
Found at i:26439185 original size:16 final size:16
Alignment explanation
Indices: 26439173--26439203 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
26439163 TTCTTTTGTG
26439173 TATTTACTCTTTTATA
1 TATTTACTCTTTTATA
26439189 TATTTACTCTTTTAT
1 TATTTACTCTTTTAT
26439204 GTTGATGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTACTCTTTTATA
Found at i:26441236 original size:29 final size:29
Alignment explanation
Indices: 26441204--26441261 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
26441194 TTTTCATTCC
26441204 ATCCATCTTCTTTCTTTCTTTTTTTTCTT
1 ATCCATCTTCTTTCTTTCTTTTTTTTCTT
26441233 ATCCATCTTCTTTCTTTCTTTTTTTTCTT
1 ATCCATCTTCTTTCTTTCTTTTTTTTCTT
26441262 CCTTTCGTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (29 bp):
ATCCATCTTCTTTCTTTCTTTTTTTTCTT
Found at i:26444455 original size:51 final size:50
Alignment explanation
Indices: 26444358--26444456 Score: 112
Period size: 51 Copynumber: 1.9 Consensus size: 50
26444348 TCAATTATTT
* *
26444358 TCTCAATTTCCTTCCAAATTTCTCTCAATTCCATATTTAATTTTATTTTGC
1 TCTCAATTTCCTTCCAAATTTCTCTAAATCCCATATTTAA-TTTATTTTGC
* *
26444409 TCTCAATTTCC-TCTTAAATTTCTCTTAAATCCCTATTTTTAA-TTATTT
1 TCTCAATTTCCTTC-CAAATTTCTC-TAAATCCC-ATATTTAATTTATTT
26444457 AAAAAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
50 2 0.05
51 26 0.63
52 6 0.15
53 7 0.17
ACGTcount: A:0.24, C:0.22, G:0.01, T:0.53
Consensus pattern (50 bp):
TCTCAATTTCCTTCCAAATTTCTCTAAATCCCATATTTAATTTATTTTGC
Found at i:26445249 original size:7 final size:7
Alignment explanation
Indices: 26445233--26445263 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
26445223 GGATCTGCCG
26445233 TAAACCC
1 TAAACCC
*
26445240 TAATCCC
1 TAAACCC
26445247 TAAACCC
1 TAAACCC
26445254 TAAACCC
1 TAAACCC
26445261 TAA
1 TAA
26445264 TCCATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:26445767 original size:18 final size:18
Alignment explanation
Indices: 26445732--26445771 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
26445722 AAATTTTGAT
26445732 TTTTTATATATTTTTTAA
1 TTTTTATATATTTTTTAA
26445750 TTTTTAT-TATTTTCTTAA
1 TTTTTATATATTTT-TTAA
26445768 TTTT
1 TTTT
26445772 GTAGAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTATATATTTTTTAA
Found at i:26447218 original size:32 final size:31
Alignment explanation
Indices: 26447182--26447291 Score: 100
Period size: 33 Copynumber: 3.4 Consensus size: 31
26447172 GGACTTAGAA
26447182 AATATAAAAATAAAATATTTGAAATATAATTT
1 AATATAAAAATAAAATATTT-AAATATAATTT
* *
26447214 AATAT-AAAATAATTAAT-TTCAAAATACAATTT
1 AATATAAAAATAA--AATATT-TAAATATAATTT
* *
26447246 AA-AGTAAAACTAAAAAATATTTTAATATAATTT
1 AATA-TAAAA--ATAAAATATTTAAATATAATTT
26447279 AATATAAAAATAA
1 AATATAAAAATAA
26447292 TTATATTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
31 11 0.18
32 20 0.32
33 25 0.40
34 3 0.05
35 3 0.05
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (31 bp):
AATATAAAAATAAAATATTTAAATATAATTT
Found at i:26447287 original size:33 final size:32
Alignment explanation
Indices: 26447182--26447287 Score: 101
Period size: 32 Copynumber: 3.3 Consensus size: 32
26447172 GGACTTAGAA
*
26447182 AATATAAAA-ATAAAATATTTGAAATATAATTT
1 AATATAAAATAAAAAATATTT-AAATATAATTT
** * *
26447214 AATATAAAATAATTAAT-TTCAAAATACAATTT
1 AATATAAAATAAAAAATATT-TAAATATAATTT
*
26447246 AA-AGTAAAACTAAAAAATATTTTAATATAATTT
1 AATA-TAAAA-TAAAAAATATTTAAATATAATTT
26447279 AATATAAAA
1 AATATAAAA
26447288 ATAATTATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
31 1 0.02
32 28 0.48
33 26 0.45
34 3 0.05
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (32 bp):
AATATAAAATAAAAAATATTTAAATATAATTT
Found at i:26447504 original size:59 final size:59
Alignment explanation
Indices: 26447287--26447527 Score: 185
Period size: 59 Copynumber: 4.1 Consensus size: 59
26447277 TTAATATAAA
* * * * *
26447287 AATAATTATATTAAAA-ATGTTATTAAATTATATATTTTTATTTTTATTAAATCATTTTTAAT
1 AATAATCATATTAAAATATG--ATTAAATTATTTA-TTAT-TTTTTATTAAATTATATTTAAT
* * ** **
26447349 AATAATTATAATAAAATATGATTAAATTATTTATTATTTATTCCTT--ATGCTA-TT-AT
1 AATAATCATATTAAAATATGATTAAATTATTTATTATTT-TTTATTAAATTATATTTAAT
* * * * ** *
26447405 AAT-ATC-TAATTTATATAAGAAT-AATTATATTAAGA-ATTTTATTAAATTATATTTAAT
1 AATAATCAT-ATTAAAATATGATTAAATTAT-TTATTATTTTTTATTAAATTATATTTAAT
*
26447462 AATAATCATATTAAAATATGATTAAATTATTTATTATTTTTTATTAAATTATTTTTAAT
1 AATAATCATATTAAAATATGATTAAATTATTTATTATTTTTTATTAAATTATATTTAAT
26447521 AATAATC
1 AATAATC
26447528 CGTTTAAAAT
Statistics
Matches: 138, Mismatches: 29, Indels: 27
0.71 0.15 0.14
Matches are distributed among these distances:
53 4 0.03
54 8 0.06
55 19 0.14
56 7 0.05
57 7 0.05
58 20 0.14
59 36 0.26
60 7 0.05
61 12 0.09
62 15 0.11
63 3 0.02
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (59 bp):
AATAATCATATTAAAATATGATTAAATTATTTATTATTTTTTATTAAATTATATTTAAT
Found at i:26448344 original size:34 final size:35
Alignment explanation
Indices: 26448300--26448366 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
26448290 CAGTAAAATA
*
26448300 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
26448334 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
26448367 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:26449814 original size:19 final size:19
Alignment explanation
Indices: 26449767--26449816 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
26449757 AAATTGATAA
*
26449767 AATCATGTTAAATGGTTTC
1 AATCATGTTAAATAGTTTC
* *
26449786 AATTGA-GTTAAATATTTTC
1 AA-TCATGTTAAATAGTTTC
26449805 AATCATGTTAAA
1 AATCATGTTAAA
26449817 AATGTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 2 0.08
19 21 0.84
20 2 0.08
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (19 bp):
AATCATGTTAAATAGTTTC
Found at i:26449979 original size:21 final size:21
Alignment explanation
Indices: 26449953--26450033 Score: 135
Period size: 21 Copynumber: 3.9 Consensus size: 21
26449943 AATTTTCACA
*
26449953 AAAAAGTATTGATACATTTAC
1 AAAAAGTATTGATACCTTTAC
*
26449974 AAAAAGTATTGATACCTTTAT
1 AAAAAGTATTGATACCTTTAC
26449995 AAAAAGTATTGATACCTTTAC
1 AAAAAGTATTGATACCTTTAC
*
26450016 AAAAAGTATCGATACCTT
1 AAAAAGTATTGATACCTT
26450034 CTACCAAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAAGTATTGATACCTTTAC
Found at i:26451042 original size:52 final size:52
Alignment explanation
Indices: 26450965--26451093 Score: 163
Period size: 52 Copynumber: 2.4 Consensus size: 52
26450955 GAGTTGGGAC
*
26450965 ACACGGCTGTGTCCTAGCCCGTGTCTCTACCCT-TGTAACTCACTGACTTGAG
1 ACACGGCTGTGTCCCAGCCCGTGTCTCTA-CCTGTGTAACTCACTGACTTGAG
*
26451017 ACACGG-TCGTGTCCCAGCCCGTGTCTCTACCTGTGTAACTCACTGACTTGGG
1 ACACGGCT-GTGTCCCAGCCCGTGTCTCTACCTGTGTAACTCACTGACTTGAG
* * *
26451069 TCACACGGCTATGTCACAGGCCGTG
1 --ACACGGCTGTGTCCCAGCCCGTG
26451094 CATACCTAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
51 4 0.06
52 44 0.66
54 18 0.27
55 1 0.01
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (52 bp):
ACACGGCTGTGTCCCAGCCCGTGTCTCTACCTGTGTAACTCACTGACTTGAG
Found at i:26451385 original size:23 final size:23
Alignment explanation
Indices: 26451359--26451437 Score: 113
Period size: 23 Copynumber: 3.3 Consensus size: 23
26451349 CTACTTAGGT
**
26451359 TACCAAACTTTAAGCTAAATGCA
1 TACCAAACTTTAAGCTAAACACA
26451382 TACCAAACTTTAAGCTAAACACA
1 TACCAAACTTTAAGCTAAACACA
*
26451405 TACCAAACTTTAAGCTAAGCTATCA
1 TACCAAACTTTAAGCTAAAC-A-CA
26451430 TACCAAAC
1 TACCAAAC
26451438 ATAACCTCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
23 40 0.78
24 1 0.02
25 10 0.20
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.24
Consensus pattern (23 bp):
TACCAAACTTTAAGCTAAACACA
Found at i:26470592 original size:22 final size:24
Alignment explanation
Indices: 26470549--26470592 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
26470539 TGATAATATG
26470549 TTTTGATATAACAAATTAAAGTAT
1 TTTTGATATAACAAATTAAAGTAT
*
26470573 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
26470593 TGAACATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTAT
Found at i:26483051 original size:38 final size:37
Alignment explanation
Indices: 26483000--26483071 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
26482990 GAGGGTTGAG
* *
26483000 TATTAAGGTTTGGGTAGAAACCTTAAGGTAGTTGCAA
1 TATTAAGGTTTGGGTAGAAACATTAAGGGAGTTGCAA
* *
26483037 TATTAAGAGTTTGGGTATAAATATTAAGGGAGTTG
1 TATTAAG-GTTTGGGTAGAAACATTAAGGGAGTTG
26483072 TAAGGTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 7 0.23
38 23 0.77
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (37 bp):
TATTAAGGTTTGGGTAGAAACATTAAGGGAGTTGCAA
Done.