Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 70 of 226
Found at i:26364032 original size:122 final size:123
Alignment explanation
Indices: 26363804--26364079 Score: 394
Period size: 122 Copynumber: 2.2 Consensus size: 123
26363794 ACCTTTCGGG
*
26363804 GCTTTAGCGGCGTTCTTTAAAAAAGCGCCGCTAATGCTCAGATCTTTAGCAGCGTTTTTGAAAAA
1 GCTTTAGCGGCGTT-TTTAAAAAAGCGCCGCGAATGCTCAGATCTTTAGCAGCGTTTTTGAAAAA
* *
26363869 GCGTCGCGAATGCCCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCG-TGAATGCTCATA
65 GCGCCGCGAATGCCCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCT-AATGCTCAGA
* * *
26363928 TC-TTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAG
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCGAATGCTCAGATCTTTAGCAGCGTTTTTGAAAAAG
* * * * * * *
26363992 CGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGGAAAAGTGCCGCTATTGCTCGGG
66 CGCCGCGAATGCCCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGA
*
26364050 GCTTTAGCGGCGTTTTTTAAAAAGCGCCGC
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
26364080 AAAAACATTT
Statistics
Matches: 135, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
122 96 0.71
123 38 0.28
124 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (123 bp):
GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCGAATGCTCAGATCTTTAGCAGCGTTTTTGAAAAAG
CGCCGCGAATGCCCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGA
Found at i:26364695 original size:89 final size:89
Alignment explanation
Indices: 26364602--26364777 Score: 262
Period size: 89 Copynumber: 2.0 Consensus size: 89
26364592 TTCAGTGTTA
*
26364602 GGTTAGGATTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGGGG
1 GGTTAGGATTTAGGATTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGGGG
26364667 TTAGGGGTTAGGGAATTGGGGTCG
66 TTAGGGGTTAGGGAATTGGGGTCG
* * ** *
26364691 GGTTAGGGTTTAGGATTTAAATTAATTAGTGTTTTTTAATTTATATATTCGATAAGGTTTAGGGG
1 GGTTAGGATTTAGGATTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGGGG
* * **
26364756 TTAGTGTTTAGGGGTTTGGGGT
66 TTAGGGGTTAGGGAATTGGGGT
26364778 TTGGGGTTAA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 77 1.00
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.43
Consensus pattern (89 bp):
GGTTAGGATTTAGGATTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGGGG
TTAGGGGTTAGGGAATTGGGGTCG
Found at i:26364814 original size:15 final size:15
Alignment explanation
Indices: 26364791--26364820 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26364781 GGGTTAAGAG
*
26364791 TTAGTGATTTAGGGT
1 TTAGAGATTTAGGGT
26364806 TTAGAGATTTAGGGT
1 TTAGAGATTTAGGGT
26364821 CGGGTTAGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (15 bp):
TTAGAGATTTAGGGT
Found at i:26365603 original size:119 final size:119
Alignment explanation
Indices: 26365460--26365679 Score: 397
Period size: 119 Copynumber: 1.8 Consensus size: 119
26365450 TTTTGCGGCA
26365460 TTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCA
1 TTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCA
*
26365525 AAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGAAGCAATAGCAGCG
66 AAACAGTGTCCTTTTATTCCAAATGAAATAATTTTTTGCGAAGCAATAGCAGCG
* *
26365579 TTTTTATAAAAAAACGCCAC-AAAAATAATTTTACTTTAAAAAAATAGCGCCCTTTTAGCATAGC
1 TTTTTAT-AAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGC
26365643 AAAACAGTGTCCTTTTATTCCAAATGAAATAATTTTT
65 AAAACAGTGTCCTTTTATTCCAAATGAAATAATTTTT
26365680 GCGGCGTTTT
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
119 85 0.88
120 12 0.12
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.33
Consensus pattern (119 bp):
TTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCA
AAACAGTGTCCTTTTATTCCAAATGAAATAATTTTTTGCGAAGCAATAGCAGCG
Found at i:26365817 original size:21 final size:21
Alignment explanation
Indices: 26365791--26365836 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
26365781 TAAAATTCCC
*
26365791 TCCCCCC-GAAATCCCCAACTT
1 TCCCCCCTAAAATCCCCAA-TT
*
26365812 TCCCCCCTAAAATCCCTAATT
1 TCCCCCCTAAAATCCCCAATT
26365833 TCCC
1 TCCC
26365837 ACATCCAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.24, C:0.50, G:0.02, T:0.24
Consensus pattern (21 bp):
TCCCCCCTAAAATCCCCAATT
Found at i:26369318 original size:85 final size:85
Alignment explanation
Indices: 26369143--26369369 Score: 357
Period size: 85 Copynumber: 2.6 Consensus size: 85
26369133 AAGTTATGTT
* *
26369143 TTTAGCGGCGTTTGTGGTAAAAGGCGCCGCTAAAGGTCTTGGTCTTTAGTGGCGTTTGTGAGAAA
1 TTTAGCGGCGTTTGTGG-AAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCG-TTGTGAGAAA
26369208 AGCGCCGCTAAAGGTCTTGGTC
64 AGCGCCGCTAAAGGTCTTGGTC
* *
26369230 TTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTGTG-GAATAA
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTGTGAGAA-AA
26369294 GCGCCGCTAAAGGTCTTGGTC
65 GCGCCGCTAAAGGTCTTGGTC
* * *
26369315 TTTAACGACGTTTGTGGAAAAAGCGCCGCTAAATGTCTTGGTCTTTAGCGGCGTT
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTT
26369370 TTTTTTATAA
Statistics
Matches: 130, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
84 3 0.02
85 78 0.60
86 33 0.25
87 16 0.12
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTGTGAGAAAAG
CGCCGCTAAAGGTCTTGGTC
Found at i:26369390 original size:43 final size:43
Alignment explanation
Indices: 26369143--26369370 Score: 352
Period size: 43 Copynumber: 5.3 Consensus size: 43
26369133 AAGTTATGTT
*
26369143 TTTAGCGGCGTTTGTGGTAAAAGGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAA-GCGCCGCTAAAGGTCTTGGTC
* *
26369187 TTTAGTGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
26369230 TTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
26369273 TTTAGCGGCG-TTGT-GGAATAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAA-AAGCGCCGCTAAAGGTCTTGGTC
* * * *
26369315 TTTAACGACGTTTGTGGAAAAAGCGCCGCTAAATGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
26369358 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
26369371 TTTTTATAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
41 4 0.02
42 35 0.21
43 107 0.64
44 22 0.13
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:26376312 original size:18 final size:18
Alignment explanation
Indices: 26376289--26376365 Score: 59
Period size: 18 Copynumber: 4.1 Consensus size: 18
26376279 CTTTTGGTAG
26376289 TTGGTATTTAGATTTATT
1 TTGGTATTTAGATTTATT
*
26376307 TTGGTATTATATATATT-TT
1 TTGGTATT-TAGAT-TTATT
* *
26376326 TT-CTATTTTAGTATTTGAAT
1 TTGGTA-TTTAG-ATTT-ATT
*
26376346 TTGGTAATTAGATTTATT
1 TTGGTATTTAGATTTATT
26376364 TT
1 TT
26376366 AATCCATGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
18 18 0.40
19 16 0.36
20 9 0.20
21 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.13, T:0.61
Consensus pattern (18 bp):
TTGGTATTTAGATTTATT
Found at i:26376567 original size:57 final size:59
Alignment explanation
Indices: 26376464--26376650 Score: 198
Period size: 58 Copynumber: 3.1 Consensus size: 59
26376454 TATAATATCC
* * * * *
26376464 GGTACCTGAACTTGATACTTTTTTCTAATTTGGTATCTAAACTTTTT-TTGGCCCAATTT
1 GGTACCTGAACTTGACAC-TTTTCCTAATTTGGCACCTAAACTTTTTCTAGGCCCAATTT
26376523 GGTACCTGAACTTGACAC-TTTCCTAATTTGGCACCTAAACTTTTTCTAGGCCCAATTT
1 GGTACCTGAACTTGACACTTTTCCTAATTTGGCACCTAAACTTTTTCTAGGCCCAATTT
* * * * * ***
26376581 GGTACTTGAACTTGACATTTTTTTTCCTAATTTGGTACCTGAGCTTTTTCTTAGATTCAATTT
1 GGTACCTGAACTTGACA---CTTTTCCTAATTTGGCACCTAAACTTTTTC-TAGGCCCAATTT
26376644 GGTACCT
1 GGTACCT
26376651 AAATTTGTTA
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
57 24 0.22
58 27 0.25
59 17 0.16
62 25 0.23
63 15 0.14
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (59 bp):
GGTACCTGAACTTGACACTTTTCCTAATTTGGCACCTAAACTTTTTCTAGGCCCAATTT
Found at i:26384316 original size:27 final size:27
Alignment explanation
Indices: 26384286--26384567 Score: 243
Period size: 27 Copynumber: 10.4 Consensus size: 27
26384276 TATAACAGTT
*
26384286 ATTTTACCTTATAGGGGTATTTCGATC
1 ATTTTACCCTATAGGGGTATTTCGATC
* * *
26384313 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATAGGGGTATTTCGATC
* *
26384340 ATTTTACCCTATAAGGGTATTT-TAGTC
1 ATTTTACCCTATAGGGGTATTTCGA-TC
* *
26384367 ATTTTACCTTAT-GAGGGTATTTCAATC
1 ATTTTACCCTATAG-GGGTATTTCGATC
* * *
26384394 ATTTTATCTTAT-GAGGGCATTTCGATC
1 ATTTTACCCTATAG-GGGTATTTCGATC
* * *
26384421 ATTTTACCCTATGGGGGTATTT-TAGTT
1 ATTTTACCCTATAGGGGTATTTCGA-TC
* * *
26384448 ATTTTACCTTATGGGGGTATTTCGGTC
1 ATTTTACCCTATAGGGGTATTTCGATC
* *
26384475 ATTTTACCCTATAGGGGTATTTTGGTC
1 ATTTTACCCTATAGGGGTATTTCGATC
* * * *
26384502 ATTTTAACCTATGGGGGTATTT-TAGTT
1 ATTTTACCCTATAGGGGTATTTCGA-TC
*
26384529 ATTTTACCCTATAGGAGTATTTC-AGTC
1 ATTTTACCCTATAGGGGTATTTCGA-TC
*
26384556 ATTTTATCCTAT
1 ATTTTACCCTAT
26384568 TTTGGGGTCT
Statistics
Matches: 211, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.00
27 208 0.99
28 2 0.01
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTATAGGGGTATTTCGATC
Found at i:26384358 original size:54 final size:54
Alignment explanation
Indices: 26384286--26384567 Score: 298
Period size: 54 Copynumber: 5.2 Consensus size: 54
26384276 TATAACAGTT
* * *
26384286 ATTTTACCTTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTAGTC
** * * * * *
26384340 ATTTTACCCTATAAGGGTATTT-TAGTCATTTTACCTTATGAGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTTAGTC
* * * * *
26384394 ATTTTATCTTATGAGGGCATTTCGATCATTTTACCCTATGGGGGTATTTTAGTT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTAGTC
* * * *
26384448 ATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTAGTC
* * * * * *
26384502 ATTTTAACCTATGGGGGTATTT-TAGTTATTTTACCCTATAGGAGTATTTCAGTC
1 ATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTTAGTC
*
26384556 ATTTTATCCTAT
1 ATTTTACCCTAT
26384568 TTTGGGGTCT
Statistics
Matches: 191, Mismatches: 34, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 189 0.99
55 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.45
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTAGTC
Found at i:26384423 original size:81 final size:80
Alignment explanation
Indices: 26384282--26384567 Score: 367
Period size: 81 Copynumber: 3.5 Consensus size: 80
26384272 GGGGTATAAC
* *
26384282 AGTTATTTTACCTTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGGTCATTTTAC
1 AGTTATTTTACCTTATA-GGGTATTTCAATCATTTTACCCTATGAGGGTATTTTGGTCATTTTAC
**
26384347 CCTATAAGGGTATTTT
65 CCTATGGGGGTATTTT
* * * * * *
26384363 AGTCATTTTACCTTATGAGGGTATTTCAATCATTTTATCTTATGAGGGCATTTCGATCATTTTAC
1 AGTTATTTTACCTTAT-AGGGTATTTCAATCATTTTACCCTATGAGGGTATTTTGGTCATTTTAC
26384428 CCTATGGGGGTATTTT
65 CCTATGGGGGTATTTT
* **
26384444 AGTTATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTAT-AGGGGTATTTTGGTCATTTTA
1 AGTTATTTTACCTTAT-AGGGTATTTCAATCATTTTACCCTATGA-GGGTATTTTGGTCATTTTA
*
26384508 ACCTATGGGGGTATTTT
64 CCCTATGGGGGTATTTT
* * *
26384525 AGTTATTTTACCCTATAGGAGTATTTCAGTCATTTTATCCTAT
1 AGTTATTTTACCTTATAGG-GTATTTCAATCATTTTACCCTAT
26384568 TTTGGGGTCT
Statistics
Matches: 178, Mismatches: 24, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
80 3 0.02
81 174 0.98
82 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.45
Consensus pattern (80 bp):
AGTTATTTTACCTTATAGGGTATTTCAATCATTTTACCCTATGAGGGTATTTTGGTCATTTTACC
CTATGGGGGTATTTT
Found at i:26389481 original size:4 final size:4
Alignment explanation
Indices: 26389469--26389500 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
26389459 CATTGTTTTT
26389469 TTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTT
26389501 TTGTTATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:26389804 original size:29 final size:29
Alignment explanation
Indices: 26389770--26389831 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
26389760 TCACACAATT
*
26389770 GAAATTCAGT-ATCTTTACTTTTAATTTTA
1 GAAATTCAGTCA-CTTTACTTTTAATTTCA
*
26389799 GAAATTTAGTCACTTTACTTTTAATTTCA
1 GAAATTCAGTCACTTTACTTTTAATTTCA
26389828 GAAA
1 GAAA
26389832 ATTTTTCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (29 bp):
GAAATTCAGTCACTTTACTTTTAATTTCA
Found at i:26400835 original size:2 final size:2
Alignment explanation
Indices: 26400824--26400853 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
26400814 CGCCTTGCAG
26400824 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26400854 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26400963 original size:27 final size:27
Alignment explanation
Indices: 26400933--26400984 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
26400923 GTTCAAAGAA
*
26400933 TCAAAAGAAAAAGAA-AAAAAACTTTTT
1 TCAAAA-AAAAACAATAAAAAACTTTTT
*
26400960 TCAAAAAAAATCAATAAAAAACTTT
1 TCAAAAAAAAACAATAAAAAACTTT
26400985 CCTTTCGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.23
Consensus pattern (27 bp):
TCAAAAAAAAACAATAAAAAACTTTTT
Found at i:26405455 original size:24 final size:23
Alignment explanation
Indices: 26405384--26405468 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 23
26405374 AAACCACTCA
26405384 ATTTTTTTTTTCACTCAATTATAT
1 ATTTTTTTTTTCACTCAATTAT-T
* *
26405408 ATTTTTTATTTTAATTACATAATTATT
1 ATTTTTT-TTTTCACT-C--AATTATT
*
26405435 GTCTTTTTTTTTCACTCAATTATT
1 AT-TTTTTTTTTCACTCAATTATT
**
26405459 AAATTTTTTT
1 ATTTTTTTTT
26405469 AATTTGTTCA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
23 7 0.15
24 14 0.29
25 6 0.12
26 2 0.04
27 8 0.17
28 11 0.23
ACGTcount: A:0.26, C:0.09, G:0.01, T:0.64
Consensus pattern (23 bp):
ATTTTTTTTTTCACTCAATTATT
Found at i:26405505 original size:30 final size:28
Alignment explanation
Indices: 26405438--26405505 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 28
26405428 AATTATTGTC
* *
26405438 TTTTTTT-TTCACTCAATTATTAAATTT
1 TTTTTTTGTTCACTCAATAATCAAATTT
26405465 TTTTAATTTGTTCACTCAACTAATCAAGATTT
1 TTTT--TTTGTTCACTCAA-TAATCAA-ATTT
26405497 TTTTTTTGT
1 TTTTTTTGT
26405506 CCATTTCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
27 4 0.12
29 3 0.09
30 14 0.41
31 5 0.15
32 8 0.24
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.59
Consensus pattern (28 bp):
TTTTTTTGTTCACTCAATAATCAAATTT
Found at i:26406754 original size:23 final size:25
Alignment explanation
Indices: 26406704--26406756 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
26406694 TAATTTTAAT
**
26406704 TAATTGGGTGACTAAAAAATAATGA
1 TAATTGGGTGACTAAAAAATAACCA
*
26406729 TAATTGGGTGA-TTAAAAA-AACCA
1 TAATTGGGTGACTAAAAAATAACCA
26406752 TAATT
1 TAATT
26406757 ATATAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.32
24 6 0.24
25 11 0.44
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (25 bp):
TAATTGGGTGACTAAAAAATAACCA
Found at i:26409275 original size:8 final size:8
Alignment explanation
Indices: 26409262--26409286 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26409252 AAAATTTTGT
26409262 ATTTTAAA
1 ATTTTAAA
26409270 ATTTTAAA
1 ATTTTAAA
26409278 ATTTTAAA
1 ATTTTAAA
26409286 A
1 A
26409287 GGATATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:26410948 original size:3 final size:3
Alignment explanation
Indices: 26410942--26410985 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
26410932 TCTTCATCAT
*
26410942 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
26410986 TAAATTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:26411060 original size:3 final size:3
Alignment explanation
Indices: 26411054--26411115 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
26411044 TTTTTTTAGC
*
26411054 TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26411102 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
26411116 TACTTATTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:26411335 original size:27 final size:26
Alignment explanation
Indices: 26411305--26411409 Score: 71
Period size: 26 Copynumber: 4.2 Consensus size: 26
26411295 TTATACATTC
26411305 TTTACCATATCTTATAATACGTATATA
1 TTTACCATATCTTATAATAC-TATATA
* *
26411332 TTTAACATGT-TTATACATTA-TATATA
1 TTTACCATATCTTATA-A-TACTATATA
* * * *
26411358 TATA-CACATGTT-T-ATAC-AT-TC
1 TTTACCATATCTTATAATACTATATA
26411379 TTTACCATATCTTATAATACGTATATA
1 TTTACCATATCTTATAATAC-TATATA
26411406 TTTA
1 TTTA
26411410 ATATATTTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 20
0.66 0.11 0.23
Matches are distributed among these distances:
21 4 0.07
22 10 0.17
23 2 0.03
24 4 0.07
25 4 0.07
26 18 0.31
27 14 0.24
28 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (26 bp):
TTTACCATATCTTATAATACTATATA
Found at i:26411345 original size:26 final size:27
Alignment explanation
Indices: 26411326--26411377 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
26411316 TTATAATACG
*
26411326 TATATATTTA-ACATGTTTATACATTA
1 TATATATATACACATGTTTATACATTA
26411352 TATATATATACACATGTTTATACATT
1 TATATATATACACATGTTTATACATT
26411378 CTTTACCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (27 bp):
TATATATATACACATGTTTATACATTA
Found at i:26435942 original size:5 final size:5
Alignment explanation
Indices: 26435884--26435961 Score: 84
Period size: 5 Copynumber: 15.6 Consensus size: 5
26435874 ATATATATAT
* * * * * * * *
26435884 ATTCC ATACC ATACC ATTCC ACTCT ATTCC ATACT ATTCC ATTTC ATACC
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC
26435934 ATTCC ATTCC ATTCC ATTCC ATTCC ATT
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATT
26435962 TCATCAAGCA
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 59 1.00
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (5 bp):
ATTCC
Found at i:26436995 original size:51 final size:51
Alignment explanation
Indices: 26436861--26437260 Score: 328
Period size: 51 Copynumber: 7.9 Consensus size: 51
26436851 ACTATTATCA
* * *
26436861 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * *
26436910 TTACGGTTCACGTTGTAGCTTTCACATAGTACTACATACGTGACTAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * *
26436962 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTAACC--ATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGC-TT
** * *
26437012 TATCAATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* ** * * * * * *
26437064 CTCGGTACATATTGTAGACGTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
* * *
26437114 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * * *** *
26437166 CTCGGTACACATTGTAGCCTTCACTTAGTACTACATATGTGACC-TTTCGT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * *
26437216 TCCAGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCA
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
26437261 TCACTTTCAC
Statistics
Matches: 265, Mismatches: 74, Indels: 22
0.73 0.20 0.06
Matches are distributed among these distances:
49 4 0.02
50 78 0.29
51 172 0.65
52 9 0.03
53 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (51 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
Found at i:26436997 original size:26 final size:26
Alignment explanation
Indices: 26436967--26437049 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
26436957 AGCTTTTCGG
26436967 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* * * *
26436993 TACACAT-GTAACCATCATTTA-TCAA
1 TACACATAGTAGCCTTCACTTAGT-AC
* * **
26437018 TTCACGTAGTAGCCTTCACACAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
26437044 TACACA
1 TACACA
26437050 CGTGACCAAA
Statistics
Matches: 40, Mismatches: 14, Indels: 6
0.67 0.23 0.10
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.29
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:26437053 original size:102 final size:102
Alignment explanation
Indices: 26436866--26437260 Score: 483
Period size: 102 Copynumber: 3.9 Consensus size: 102
26436856 TATCATTCGA
* * * * * ** *
26436866 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA--ATTTTTACGGTTCACGTTGTAGC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTAT-CAATTCACGTAGTAGC
* * * * *
26436929 TTTCACATAGTACTACATACGTGACTAAAGCTTTTCGG
65 CTTCACACAGTACTACACACGTGACCAAAGCTTCTCGG
*
26436967 TACACATAGTAGCCTTCACTTAGTACTACACATGTAACCATCATTTATCAATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATTCACGTAGTAGCC
26437032 TTCACACAGTACTACACACGTGACCAAAGCTTCTCGG
66 TTCACACAGTACTACACACGTGACCAAAGCTTCTCGG
* * * * * *
26437069 TACATATTGTAGACGTCACTTAGTACTACACATGTGACCATTATTTATCGATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATTCACGTAGTAGCC
26437134 TTCACACAGTACTACACACGTGACCAAAGCTTCTCGG
66 TTCACACAGTACTACACACGTGACCAAAGCTTCTCGG
* * * * * * *
26437171 TACACATTGTAGCCTTCACTTAGTACTACATATGTGACCTTTC-GTT-CCAGTACACGTAGTAGC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCAATTCACGTAGTAGC
* *
26437234 CTACACATAGTACTACACACGTGACCA
65 CTTCACACAGTACTACACACGTGACCA
26437261 TCACTTTCAC
Statistics
Matches: 257, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
101 73 0.28
102 178 0.69
103 6 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (102 bp):
TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATTCACGTAGTAGCC
TTCACACAGTACTACACACGTGACCAAAGCTTCTCGG
Found at i:26444109 original size:21 final size:21
Alignment explanation
Indices: 26444085--26444136 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
26444075 GCGGTGGCAA
* * *
26444085 TGAGATTAGTTACTGTTGCGG
1 TGAGATTAGATACTGTAGCAG
* *
26444106 TGAGATTGGATATTGTAGCAG
1 TGAGATTAGATACTGTAGCAG
26444127 TGAGATTAGA
1 TGAGATTAGA
26444137 AACAATGGTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.06, G:0.33, T:0.35
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCAG
Found at i:26446153 original size:16 final size:16
Alignment explanation
Indices: 26446113--26446153 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
26446103 GGCTTTTACT
26446113 TATATATTTTCAAAAA
1 TATATATTTTCAAAAA
*
26446129 TATAAATTTTCAATAAA
1 TATATATTTTCAA-AAA
26446146 T-TATATTT
1 TATATATTT
26446154 AAAATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATATTTTCAAAAA
Found at i:26452367 original size:10 final size:10
Alignment explanation
Indices: 26452352--26452402 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
26452342 TTTTTCAAAT
26452352 AATTATTAAA
1 AATTATTAAA
26452362 AATTA-TAGAA
1 AATTATTA-AA
* *
26452372 ATTTTTTAAA
1 AATTATTAAA
26452382 AATTATTAAAA
1 AATTATT-AAA
26452393 AATT-TTAAA
1 AATTATTAAA
26452402 A
1 A
26452403 TTAAAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
9 6 0.18
10 19 0.56
11 9 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
AATTATTAAA
Found at i:26452398 original size:20 final size:20
Alignment explanation
Indices: 26452352--26452402 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
26452342 TTTTTCAAAT
26452352 AATTATTAAAAATTATAGAAA
1 AATT-TTAAAAATTATAGAAA
**
26452373 TTTTTTAAAAATTATTA-AAA
1 AATTTTAAAAATTA-TAGAAA
26452393 AATTTTAAAA
1 AATTTTAAAA
26452403 TTAAAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
AATTTTAAAAATTATAGAAA
Found at i:26456581 original size:21 final size:23
Alignment explanation
Indices: 26456545--26456587 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
26456535 ACTATTATGT
26456545 TCTTTCGAGCTTTTTTT-TTTTG
1 TCTTTCGAGCTTTTTTTATTTTG
*
26456567 TCTTT-GAGTTTTTTTTATTTT
1 TCTTTCGAGCTTTTTTTATTTT
26456588 ATAATTCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.07, C:0.09, G:0.12, T:0.72
Consensus pattern (23 bp):
TCTTTCGAGCTTTTTTTATTTTG
Found at i:26461703 original size:23 final size:23
Alignment explanation
Indices: 26461679--26461724 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
26461669 TTTATATAAT
*
26461679 TTTTTTA-TCAATTTGACTTTTA
1 TTTTTTAGTAAATTTGACTTTTA
26461701 TTTTTTAGTTAAATTTGACTTTTA
1 TTTTTTAG-TAAATTTGACTTTTA
26461725 ACTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
24 14 0.67
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.63
Consensus pattern (23 bp):
TTTTTTAGTAAATTTGACTTTTA
Found at i:26462908 original size:16 final size:17
Alignment explanation
Indices: 26462887--26462930 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
26462877 TTTGGTTCGC
26462887 TGTAAT-GTAATAGAGG
1 TGTAATAGTAATAGAGG
26462903 TGTAATAG-AATAGAGG
1 TGTAATAGTAATAGAGG
*
26462919 CGTAATAGTAAT
1 TGTAATAGTAAT
26462931 TCAATTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.30
Consensus pattern (17 bp):
TGTAATAGTAATAGAGG
Found at i:26463642 original size:10 final size:11
Alignment explanation
Indices: 26463627--26463656 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
26463617 TATATATATT
26463627 TTTTATTTTC-
1 TTTTATTTTCA
26463637 TTTTATTTTCA
1 TTTTATTTTCA
26463648 TTTTATTTT
1 TTTTATTTT
26463657 TCCTAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:26464257 original size:3 final size:3
Alignment explanation
Indices: 26464251--26464309 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
26464241 GTTTTTTTAA
* *
26464251 ATT ATT ATT ATT ATT ATC ATTT ATT ATC ATT ATT ATT A-T ATT ATAT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT AT-T
*
26464297 ATT ATC ATT ATT A
1 ATT ATT ATT ATT A
26464310 CTGTTACTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:26464304 original size:24 final size:25
Alignment explanation
Indices: 26464254--26464309 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
26464244 TTTTTAAATT
*
26464254 ATTATTATTATTATCATTTATTATC
1 ATTATTATTATTATCATATATTATC
*
26464279 ATTATTATTA-TATTATATATTATC
1 ATTATTATTATTATCATATATTATC
26464303 ATTATTA
1 ATTATTA
26464310 CTGTTACTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 19 0.66
25 10 0.34
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTATTATTATTATCATATATTATC
Found at i:26464419 original size:2 final size:2
Alignment explanation
Indices: 26464414--26464438 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26464404 TTTTACAAAC
26464414 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
26464439 CATTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26464480 original size:22 final size:21
Alignment explanation
Indices: 26464433--26464475 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
26464423 TATATATATA
*
26464433 TATATACATTTTTTTGAATTAT
1 TATAAACATTTTTTT-AATTAT
26464455 TATAAACATTTTTTT-ATTAT
1 TATAAACATTTTTTTAATTAT
26464475 T
1 T
26464476 CTATATATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
22 14 0.70
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (21 bp):
TATAAACATTTTTTTAATTAT
Found at i:26466578 original size:19 final size:20
Alignment explanation
Indices: 26466534--26466578 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
26466524 AACGTCTCTT
*
26466534 TATGCA-TTCATTTCATGCA
1 TATGCATTTCATTACATGCA
26466553 T-TCGCATTTCATTACAT-CA
1 TAT-GCATTTCATTACATGCA
26466572 TATGCAT
1 TATGCAT
26466579 CAAAGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 1 0.05
19 11 0.50
20 10 0.45
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (20 bp):
TATGCATTTCATTACATGCA
Found at i:26469173 original size:47 final size:46
Alignment explanation
Indices: 26469110--26469200 Score: 155
Period size: 47 Copynumber: 2.0 Consensus size: 46
26469100 TAAAAGGTGG
* *
26469110 GACCAAGGTGAAAGCCTACAAAGGGCGCTTTGAGTCAAAAAAAAAGA
1 GACCAAGGTGAAAGCCTACAAAGGGAGCCTTGAGT-AAAAAAAAAGA
26469157 GACCAAGGTGAAAGCCTACAAAGGGAGCCTTGAGTAAAAAAAAA
1 GACCAAGGTGAAAGCCTACAAAGGGAGCCTTGAGTAAAAAAAAA
26469201 TGGAGAGGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
46 9 0.21
47 33 0.79
ACGTcount: A:0.46, C:0.16, G:0.25, T:0.12
Consensus pattern (46 bp):
GACCAAGGTGAAAGCCTACAAAGGGAGCCTTGAGTAAAAAAAAAGA
Found at i:26471010 original size:134 final size:134
Alignment explanation
Indices: 26470658--26471157 Score: 586
Period size: 134 Copynumber: 3.8 Consensus size: 134
26470648 ATGTATTGGC
* * * *
26470658 GTGAAGTAGATC-AGAGATACTAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 GTGAAGTAGATCGA-AGATACCAGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAA
* * * ***
26470722 ACAGATCTTTTCTTCATGTA-CTGGCGTGAAGTAGATCAGAG--ATACTAGATCTTGTCTTCATG
65 ACAGATCTTGTCTTCATGTATC-GGCGTGAAGTAGATCAAAGTCA-AC-AAATCTTGTCTTCCCA
*
26470784 TACTAG-C
127 TACTAGTG
* *
26470791 GTGAAGTAGATCAAAGATACCAGATCTTGTCTCCCCATACTGGTGGT---GTAGATCGAAGAAAG
1 GTGAAGTAGATCGAAGATACCAGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAA
* *
26470853 TAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCAAAGTCAACAAATCTTGCCTTCCCATACT
66 CAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCAAAGTCAACAAATCTTGTCTTCCCATACT
26470918 AGTG
131 AGTG
* * *
26470922 GCGAAGTAGATCGAAGATACCAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAG
1 GTGAAGTAGATCGAAGATACCAGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAA
* *
26470987 TAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCAAAGTCAACAAATCTTGTCTTCCCATATT
66 CAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCAAAGTCAACAAATCTTGTCTTCCCATACT
*
26471052 GGTG
131 AGTG
* ** * * * * *** * *
26471056 GTGAAGTAGATCGAAAATGGCAAATCTTATATTCATGTATTGGT-GTGAAGTAGATTGAAGAAAA
1 GTGAAGTAGATCGAAGATACCAGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAA
* *
26471120 CAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAA
66 CAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCAA
26471158 GAACGGTAGA
Statistics
Matches: 322, Mismatches: 37, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
130 66 0.20
131 48 0.15
132 1 0.00
133 93 0.29
134 114 0.35
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (134 bp):
GTGAAGTAGATCGAAGATACCAGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAA
CAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCAAAGTCAACAAATCTTGTCTTCCCATACT
AGTG
Found at i:26471142 original size:89 final size:89
Alignment explanation
Indices: 26470484--26471133 Score: 485
Period size: 89 Copynumber: 7.4 Consensus size: 89
26470474 TGCTGGTATC
* * * * *
26470484 GAAGTGGATCGAAG--ACCAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAA-AGT
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAA-AATAGC
*
26470546 AGATCTTGTCTTCATGTATCGGCGT
65 AGATCTTGTCTTCATGTATTGGCGT
* *
26470571 GAAGTAGATCAAAGTCAAAA-A-ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAAATGG
1 GAAGTAGATCGAAG--AAAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAAATAG
* * *
26470634 CAAATCTTATATTCATGTATTGGCGT
64 CAGATCTTGTCTTCATGTATTGGCGT
* * *
26470660 GAAGTAGATC--AGAGATACTAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA-A
1 GAAGTAGATCGAAGA-AAAC-AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAA-AATA
* * *
26470722 ACAGATCTTTTCTTCATGTACTGGCGT
63 GCAGATCTTGTCTTCATGTATTGGCGT
* *** * *
26470749 GAAGTAGATC--AGAGATACTAGATCTTGTCTTCATGTACTAG-CGTGAAGTAGATC-AAAGATA
1 GAAGTAGATCGAAGA-AAAC-AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAA-ATA
* * *** *
26470810 CCAGATCTTGTCTCCCCATACT-G-GT
63 GCAGATCTTGTCTTCATGTATTGGCGT
** ** *** * * *
26470835 GGTGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTA-TCGG-CGTGAAGTAGATC-AAAGTCAA
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCCCATACT-GGTGGTGAAGTAGATCGAAAAT-AG
* * * *
26470897 CAAATCTTGCCTTCCCATACTAGTGGC--
64 CAGATCTTGTCTT--CAT-GTATTGGCGT
* * * * *
26470924 GAAGTAGATCGAAGATACCAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAA-AGT
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAA-AATAGC
*
26470988 AGATCTTGTCTTCATGTATCGGCGT
65 AGATCTTGTCTTCATGTATTGGCGT
* ** * * *
26471013 GAAGTAGATCAAAGTCAACAAATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAAATGGCA
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAAATAGCA
* * * *
26471078 AATCTTATATTCATGTATTGGTGT
66 GATCTTGTCTTCATGTATTGGCGT
*
26471102 GAAGTAGATTGAAGAAAACAGATCTTGTCTTC
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTC
26471134 ATGTATTGGC
Statistics
Matches: 448, Mismatches: 87, Indels: 54
0.76 0.15 0.09
Matches are distributed among these distances:
85 3 0.01
86 59 0.13
87 24 0.05
88 40 0.09
89 291 0.65
90 27 0.06
91 3 0.01
92 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (89 bp):
GAAGTAGATCGAAGAAAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAAATAGCA
GATCTTGTCTTCATGTATTGGCGT
Found at i:26471169 original size:44 final size:43
Alignment explanation
Indices: 26470484--26471161 Score: 311
Period size: 44 Copynumber: 15.4 Consensus size: 43
26470474 TGCTGGTATC
* * *** * *
26470484 GAAGTGGATCGAAG-ACCAGATCTTGTCTCCCCATACTGGTGGT
1 GAAGTAGATCGAAGAACCAGATCTTGTCTTCATGTATTGG-CGT
* ** *
26470527 GGAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGT
1 GAAGTAGATCGAAG-AACCAGATCTTGTCTTCATGTATTGGCGT
* * * *** * *
26470571 GAAGTAGATCAAAGTCAA-AAAATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCGAAG--AACCAGATCTTGTCTTCATGTATTGG-CGT
* * * *
26470616 GAAGTAGATCGAA-AATGGCAAATCTTATATTCATGTATTGGCGT
1 GAAGTAGATCGAAGAA--CCAGATCTTGTCTTCATGTATTGGCGT
* * *** * * *
26470660 GAAGTAGATC-AGAGATACTAGATCTTGCCTTCCCATACTGGTGGC
1 GAAGTAGATCGA-AGA-ACCAGATCTTGTCTTCATGTATTGG-CGT
* * *
26470705 GAAGTAGATCGAAGAAAACAGATCTTTTCTTCATGTACTGGCGT
1 GAAGTAGATCGAAG-AACCAGATCTTGTCTTCATGTATTGGCGT
* * *
26470749 GAAGTAGATC-AGAGATACTAGATCTTGTCTTCATGTACTAGCGT
1 GAAGTAGATCGA-AGA-ACCAGATCTTGTCTTCATGTATTGGCGT
* * *** *
26470793 GAAGTAGATCAAAGATACCAGATCTTGTCTCCCCATACT-G-GT
1 GAAGTAGATCGAAGA-ACCAGATCTTGTCTTCATGTATTGGCGT
** ** *
26470835 GGTGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGT
1 GAAGTAGATCGAAG-AACCAGATCTTGTCTTCATGTATTGGCGT
* * * * *
26470879 GAAGTAGATCAAAGTCAA-CAAATCTTGCCTTCCCATACTAGTGGC--
1 GAAGTAGATCGAAG--AACCAGATCTTGTCTT--CAT-GTATTGGCGT
* *** * *
26470924 GAAGTAGATCGAAGATACCAGATCTTGTCTCCCCATACTGGTGGT
1 GAAGTAGATCGAAGA-ACCAGATCTTGTCTTCATGTATTGG-CGT
* ** *
26470969 GGAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGT
1 GAAGTAGATCGAAG-AACCAGATCTTGTCTTCATGTATTGGCGT
* * *** *
26471013 GAAGTAGATCAAAGTCAA-CAAATCTTGTCTTCCCATATTGGTGGT
1 GAAGTAGATCGAAG--AACCAGATCTTGTCTTCATGTATTGG-CGT
* * * * *
26471058 GAAGTAGATCGAA-AATGGCAAATCTTATATTCATGTATTGGTGT
1 GAAGTAGATCGAAGAA--CCAGATCTTGTCTTCATGTATTGGCGT
* * *
26471102 GAAGTAGATTGAAGAAAACAGATCTTGTCTTCATGTATTGGCAT
1 GAAGTAGATCGAAG-AACCAGATCTTGTCTTCATGTATTGGCGT
26471146 GAAGTAGATC-AAGAAC
1 GAAGTAGATCGAAGAAC
26471162 GGTAGATCAT
Statistics
Matches: 472, Mismatches: 127, Indels: 73
0.70 0.19 0.11
Matches are distributed among these distances:
42 39 0.08
43 23 0.05
44 225 0.48
45 171 0.36
46 9 0.02
47 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (43 bp):
GAAGTAGATCGAAGAACCAGATCTTGTCTTCATGTATTGGCGT
Found at i:26472108 original size:10 final size:11
Alignment explanation
Indices: 26472093--26472122 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
26472083 TATATATATT
26472093 TTTTATTTTC-
1 TTTTATTTTCA
26472103 TTTTATTTTCA
1 TTTTATTTTCA
26472114 TTTTATTTT
1 TTTTATTTT
26472123 TCCTAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:26472723 original size:3 final size:3
Alignment explanation
Indices: 26472717--26472778 Score: 72
Period size: 3 Copynumber: 20.3 Consensus size: 3
26472707 GTTTTTTTAA
* *
26472717 ATT ATT ATT ATT ATT ATT ATC ATTT ATT ATC ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
*
26472762 ATAT ATT ATC ATT ATT A
1 AT-T ATT ATT ATT ATT A
26472779 CTGTTACTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 43 0.86
4 5 0.10
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:26473284 original size:120 final size:121
Alignment explanation
Indices: 26473027--26473327 Score: 568
Period size: 120 Copynumber: 2.5 Consensus size: 121
26473017 ATACATACAT
26473027 TTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATGCTATAAAATATA
1 TTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATGCTATAAAATATA
26473092 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAA
66 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAA
26473148 TTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATGCTATAAAATATA
1 TTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATGCTATAAAATATA
*
26473213 A-TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTTATAAAA
66 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAA
* *
26473268 TTCTTAAAATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAA
1 TTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATGCTATAAA
26473328 GATAATGTAT
Statistics
Matches: 177, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
120 111 0.63
121 66 0.37
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (121 bp):
TTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATGCTATAAAATATA
ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAA
Found at i:26482928 original size:26 final size:27
Alignment explanation
Indices: 26482876--26482928 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
26482866 CCATTTACAA
* *
26482876 AAATATACAGGCCCAAATACATTACCC
1 AAATATACAAGCCCAAATACATAACCC
26482903 AAAT-TACAAGCCCAAACTAC-TAACCC
1 AAATATACAAGCCCAAA-TACATAACCC
26482929 TAGTCCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.45, C:0.32, G:0.06, T:0.17
Consensus pattern (27 bp):
AAATATACAAGCCCAAATACATAACCC
Found at i:26495620 original size:94 final size:90
Alignment explanation
Indices: 26495459--26495815 Score: 309
Period size: 87 Copynumber: 4.0 Consensus size: 90
26495449 TAAAATCACT
* * * *
26495459 ATAGCGAATCTTATCTCCCTAAAGTTGCAGT-GAGGCAGATTTAAGCTACAGATCTTA-CACCCT
1 ATAGCGAATCTTATCTCCTTAAAGTTGCAGTGGA-GCAGATTAAAGCTACAAATCTTATCTCCC-
* *
26495522 TGAAGTCGCAATGG-GACGGATTGAATCTACC
64 TGAAGTCGCAATGGAG-CAGATT-AA---AAC
* * *
26495553 ATAGCGAATCTTATCTTCTTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTCATCTTCCTG
1 ATAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTG
* * *
26495618 AAGTTGTAGTGGAGCAGATTAAAAC
66 AAGTCGCAATGGAGCAGATTAAAAC
* *
26495643 -TA-CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAA-CTACAAATCTTATCTCCCT
1 ATAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATT-AAAGCTACAAATCTTATCTCCCT
* ** * *
26495705 AAAGTTACAGT-GAGCAGATTAAAGC
65 GAAGTCGCAATGGAGCAGATTAAAAC
** * * * * **
26495730 -TA-AAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCTTATCTTGCTG
1 ATAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTG
* * *
26495793 AAGTTGCAGTGGAGAAGATTAAA
66 AAGTCGCAATGGAGCAGATTAAA
26495816 GTGACAAATC
Statistics
Matches: 227, Mismatches: 30, Indels: 18
0.83 0.11 0.07
Matches are distributed among these distances:
86 2 0.01
87 75 0.33
88 70 0.31
89 5 0.02
90 2 0.01
93 2 0.01
94 65 0.29
95 6 0.03
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (90 bp):
ATAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTG
AAGTCGCAATGGAGCAGATTAAAAC
Found at i:26495622 original size:44 final size:44
Alignment explanation
Indices: 26495559--26496037 Score: 384
Period size: 44 Copynumber: 10.6 Consensus size: 44
26495549 TACCATAGCG
* *
26495559 AATCTTATCTTCTTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
26495603 AATCTCATCTTCCTGAAGTTGTAGTGGAGCAGATTAAAACTACA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
26495647 AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGATTGAAA-CTACA
1 AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATT-AAAGCTACA
* * * *
26495691 AATCTTATCTCCCTAAAGTTACAGT-GAGCAGATTAAAGCTAAA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
26495734 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* *
26495778 AATCTTATCTTGCTGAAGTTGCAGTGGAGAAGATTAAAG-TGACA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACA
* * *
26495822 AATCTTATGCCT-CTGAAGTTACAGTGG-GTC-GAATTAAATCTACCA
1 AATCTTAT-CTTCCTGAAGTTGCAGTGGAG-CAG-ATTAAAGCTA-CA
* ** * *
26495867 TAGCGAGTTTTAT-TTCCCTGAAGTTGCAGTGAAATAGATTAAATCTACAAGTTACA
1 -A---A-TCTTATCTT-CCTGAAGTTGCAGTG-----GAGCAGAT-TA-AAGCTACA
* * *
26495923 AATCTTATCTCCCTGAACTTGCAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * **
26495967 AGTCCTATCTCCCTAAAGTTGCAGTGGAATAGATTGAAA-CTACA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTACA
* * *
26496011 ATTCCTATAC-CCCTGAAGTTGCAGTGG
1 AATCTTAT-CTTCCTGAAGTTGCAGTGG
26496038 GTTAGAATGA
Statistics
Matches: 355, Mismatches: 50, Indels: 60
0.76 0.11 0.13
Matches are distributed among these distances:
42 3 0.01
43 41 0.12
44 238 0.67
45 14 0.04
46 6 0.02
48 1 0.00
49 1 0.00
50 18 0.05
51 19 0.05
52 2 0.01
55 4 0.01
56 4 0.01
57 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:26495761 original size:131 final size:130
Alignment explanation
Indices: 26495559--26495992 Score: 415
Period size: 131 Copynumber: 3.2 Consensus size: 130
26495549 TACCATAGCG
* * * * * *
26495559 AATCTTATCTTCTTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTCATCTTCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTACAGT-GAGCAGATTAAAGCTAAAAATCTTATCTCCCTGAAGTTG
26495624 TAGTGGAGCAGATTAAAACTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAACTA
65 TAGTGGAGCAGATTAAAACTACAAATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTGAAACTA
26495689 CA
129 CA
26495691 AATCTTATCTCCCTAAAGTTACAGTGAGCAGATTAAAGCTAAAAATCTTATCTCCCTGAAGTTGT
1 AATCTTATCTCCCTAAAGTTACAGTGAGCAGATTAAAGCTAAAAATCTTATCTCCCTGAAGTTGT
* * * * *
26495756 AGTGGAGCAGATTGAAGCTACAAATCTTATCTTGCTGAAGTTGCAGTGGAGAAGATT-AAAGTGA
66 AGTGGAGCAGATTAAAACTACAAATCTTATC-TCCTGAAGTTGCAGTGGAGCAGATTGAAACT-A
26495820 CA
129 CA
* * * * * * *
26495822 AATCTTATGC-CTCTGAAGTTACAGTGGGTC-GAATTAAATCTACCATAGCGAGTTTTATTTCCC
1 AATCTTAT-CTCCCTAAAGTTACAGTGAG-CAG-ATTAAAGCTA--A-A---AATCTTATCTCCC
* * ** *
26495885 TGAAGTTGCAGTGAAATAGATTAAATCTACAAGTTACAAATCTTATCTCCCTGAACTTGCAGTGG
57 TGAAGTTGTAGTGGAGCAGATTAAA---AC----TACAAATCTTATCT-CCTGAAGTTGCAGTGG
*
26495950 AGCAGATTGAAGCTACA
114 AGCAGATTGAAACTACA
* * *
26495967 AGTCCTATCTCCCTAAAGTTGCAGTG
1 AATCTTATCTCCCTAAAGTTACAGTG
26495993 GAATAGATTG
Statistics
Matches: 247, Mismatches: 34, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
130 4 0.02
131 114 0.46
132 35 0.14
134 1 0.00
135 1 0.00
138 30 0.12
141 1 0.00
144 2 0.01
145 56 0.23
146 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (130 bp):
AATCTTATCTCCCTAAAGTTACAGTGAGCAGATTAAAGCTAAAAATCTTATCTCCCTGAAGTTGT
AGTGGAGCAGATTAAAACTACAAATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTGAAACTACA
Found at i:26496053 original size:44 final size:44
Alignment explanation
Indices: 26495919--26496053 Score: 128
Period size: 44 Copynumber: 3.1 Consensus size: 44
26495909 ATCTACAAGT
* * * * ** * *
26495919 TACAAATCTTATCTCCCTGAACTTGCAGTGGAGCAGATTGAAGC
1 TACAAGTCCTATCTCCCTAAAGTTGCAGTGGAATAGAATGAAAC
*
26495963 TACAAGTCCTATCTCCCTAAAGTTGCAGTGGAATAGATTGAAAC
1 TACAAGTCCTATCTCCCTAAAGTTGCAGTGGAATAGAATGAAAC
* * ** *
26496007 TACAATTCCTATAC-CCCTGAAGTTGCAGTGGGTTAGAATGAGAC
1 TACAAGTCCTAT-CTCCCTAAAGTTGCAGTGGAATAGAATGAAAC
26496051 TAC
1 TAC
26496054 TTCAGAAAGA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 76 0.99
45 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
TACAAGTCCTATCTCCCTAAAGTTGCAGTGGAATAGAATGAAAC
Found at i:26497683 original size:3 final size:3
Alignment explanation
Indices: 26497667--26497736 Score: 104
Period size: 3 Copynumber: 23.3 Consensus size: 3
26497657 TTGTTGCCCC
* * *
26497667 TAT TAT TAC CAT TAT TAT TAT TGT 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
*
26497715 CAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
26497737 TATTTTACTT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:26500353 original size:33 final size:33
Alignment explanation
Indices: 26500311--26500373 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
26500301 GGAAAGATAC
26500311 AAAGAATTATTACGGAAGCGCCCTCATCACAGA
1 AAAGAATTATTACGGAAGCGCCCTCATCACAGA
* * *
26500344 AAAGAATTATTATGGAAGTGCCCTTATCAC
1 AAAGAATTATTACGGAAGCGCCCTCATCAC
26500374 GGAATCCCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (33 bp):
AAAGAATTATTACGGAAGCGCCCTCATCACAGA
Found at i:26503391 original size:44 final size:42
Alignment explanation
Indices: 26503275--26503401 Score: 102
Period size: 44 Copynumber: 2.9 Consensus size: 42
26503265 AAGGCTTGTA
* *
26503275 CAATGCCAACGTCCCAGACATGGTCTTAC-CTGTAATCACATAT
1 CAATGCCAACGTCCTAGAC-TGGTCTTACAC-GTAATCACAAAT
*
26503318 CAATGCC-ACTGTCCTCA-A-TAGAGTTTTACACGTAAATCACAAAT
1 CAATGCCAAC-GTCCT-AGACT-G-GTCTTACACGT-AATCACAAAT
*
26503362 CGATGCCAACGTCCTAGACGTGGTCTTACACGATAA-CACA
1 CAATGCCAACGTCCTAGAC-TGGTCTTACACG-TAATCACA
26503402 CAATAGAATC
Statistics
Matches: 68, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 25 0.37
44 34 0.50
45 4 0.06
46 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (42 bp):
CAATGCCAACGTCCTAGACTGGTCTTACACGTAATCACAAAT
Found at i:26504687 original size:22 final size:23
Alignment explanation
Indices: 26504654--26504697 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
26504644 GAACATGTTG
26504654 AATTTTACTTAATTTTG-TAATA
1 AATTTTACTTAATTTTGATAATA
26504676 AATTTTGA-TTAATTTTGATAAT
1 AATTTT-ACTTAATTTTGATAAT
26504698 TTTCAATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (23 bp):
AATTTTACTTAATTTTGATAATA
Found at i:26508434 original size:21 final size:21
Alignment explanation
Indices: 26508396--26508435 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26508386 CTAAAGTTTG
**
26508396 GTTTCTTGCAAATTAAGTCAA
1 GTTTCTTGCAAAACAAGTCAA
26508417 GTTTCTTGCAAAACAAGTC
1 GTTTCTTGCAAAACAAGTC
26508436 GCTTTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
GTTTCTTGCAAAACAAGTCAA
Found at i:26516042 original size:2 final size:2
Alignment explanation
Indices: 26516035--26516072 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
26516025 ACTTCTCTTT
26516035 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26516073 ATCTTTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26519514 original size:2 final size:2
Alignment explanation
Indices: 26519507--26519542 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
26519497 TTGTACTATT
26519507 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26519543 GCATCTGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26520498 original size:2 final size:2
Alignment explanation
Indices: 26520491--26520519 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26520481 TAATCTAACA
26520491 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
26520520 AACCTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:26529706 original size:21 final size:21
Alignment explanation
Indices: 26529682--26529725 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
26529672 GCAACCCAAT
*
26529682 TTTTATT-TTTATTATTATTTA
1 TTTTATTCTTTACT-TTATTTA
*
26529703 TTTTTTTCTTTACTTTATTTA
1 TTTTATTCTTTACTTTATTTA
26529724 TT
1 TT
26529726 ACTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTATTCTTTACTTTATTTA
Found at i:26529719 original size:17 final size:17
Alignment explanation
Indices: 26529699--26529740 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
26529689 TTTATTATTA
*
26529699 TTTATTTTTTTCTTTAC
1 TTTATTTTTTACTTTAC
* *
26529716 TTTATTTATTACTTTAT
1 TTTATTTTTTACTTTAC
26529733 TTTATTTT
1 TTTATTTT
26529741 ATTTTACTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTTACTTTAC
Found at i:26529735 original size:27 final size:26
Alignment explanation
Indices: 26529689--26529752 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 26
26529679 AATTTTTATT
*
26529689 TTTATTATTATTTATTTTTTTCTTTAC
1 TTTATTATTATTTATTTTTAT-TTTAC
*
26529716 TTTATTTATTACTTTA-TTTTATTTTAT
1 TTTA-TTATTA-TTTATTTTTATTTTAC
26529743 TTTACTTATT
1 TTTA-TTATT
26529753 TGGATATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 17 0.53
28 11 0.34
29 4 0.12
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTATTATTATTTATTTTTATTTTAC
Found at i:26537502 original size:42 final size:42
Alignment explanation
Indices: 26537471--26537560 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
26537461 GGCCAGGAAT
*
26537471 ATGGGCGTGTGCCCAAGCCATGTGAGCCACACGAGCAAGGAC
1 ATGGGCGTATGCCCAAGCCATGTGAGCCACACGAGCAAGGAC
* ** * *
26537513 ATGGGCGTATGCCCAAGCCCTGTGAGTTACACGGGCAAAGAC
1 ATGGGCGTATGCCCAAGCCATGTGAGCCACACGAGCAAGGAC
26537555 ATGGGC
1 ATGGGC
26537561 ATGTGTCCAG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.27, G:0.33, T:0.14
Consensus pattern (42 bp):
ATGGGCGTATGCCCAAGCCATGTGAGCCACACGAGCAAGGAC
Found at i:26539773 original size:5 final size:5
Alignment explanation
Indices: 26539763--26539790 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
26539753 TAATAAGCAG
26539763 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
26539791 CATGTTGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:26541595 original size:44 final size:44
Alignment explanation
Indices: 26541522--26541880 Score: 278
Period size: 44 Copynumber: 8.0 Consensus size: 44
26541512 ACTCTCTGTG
* * *
26541522 GTAGATTTAATCTGAC-CCACTGCAACTTCAGAGG-TATAGGATTT
1 GTAGCTTTAATCT-ACTCCACTGCAACTTCAG-GGAGATAAGATTT
* * *
26541566 GTCGCTTTAATCTACTCCACTGCAGCTTCAGCGAGATAAGATTT
1 GTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTT
* * *
26541610 GTAGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATTAGATTT
1 GTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTT
* *
26541654 GTAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGATTT
1 GTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTT
* * * *
26541698 GTAGCTTTAA-CTTGCTCCACTACAACTTCAAGGAAATAAGATTCGCCAT
1 GTAGCTTTAATC-TACTCCACTGCAACTTCAGGGAGATAAGATT-----T
* * * * *
26541747 GGTAACTTTAATCCGACT-CACTGCAACTTTAGGG-TATAGGATATT
1 -GTAGCTTTAAT-CTACTCCACTGCAACTTCAGGGAGATAAGAT-TT
* * * ** * * * *
26541792 TTAGCTTCAATTTGTTCTACTACAACTTCAAGAAGATAAGATTT
1 GTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTT
* * * * *
26541836 GTGGCTTTAATCTGCTCTACTGTAGCTTCAGGGAGATAAGATTT
1 GTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTT
26541880 G
1 G
26541881 CCTTGGTAAC
Statistics
Matches: 250, Mismatches: 51, Indels: 28
0.76 0.16 0.09
Matches are distributed among these distances:
43 4 0.02
44 206 0.82
45 7 0.03
49 7 0.03
50 23 0.09
51 2 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (44 bp):
GTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTT
Found at i:26541740 original size:88 final size:87
Alignment explanation
Indices: 26541538--26541880 Score: 307
Period size: 88 Copynumber: 3.8 Consensus size: 87
26541528 TTAATCTGAC
* * * * * * *
26541538 CCACTGCAACTTCAGAGG-TATAGGATTTGTCGCTTTAATCTACTCCACTGCAGCTTCAGCGAGA
1 CCACTACAACTTCA-AGGAAATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
*
26541602 TAAGATTTGTAGTTTTAATCTGCT
65 TAAGATTTGTAGCTTTAAT-TGCT
* * * * *
26541626 CCACTGCAACTTCAGGGAGATTAGATTTGTAGCTTTAATATGCTCCACTGCAACTTCAGGGAGAT
1 CCACTACAACTTCAAGGAAATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
26541691 AAGATTTGTAGCTTTAACTTGCT
66 AAGATTTGTAGCTTTAA-TTGCT
* * *
26541714 CCACTACAACTTCAAGGAAATAAGATTCGCCATGGTAACTTTAATCCGACT-CACTGCAACTTTA
1 CCACTACAACTTCAAGGAAATAAGATT-----T-GTAGCTTTAATCTG-CTCCACTGCAACTTCA
* * * * *
26541778 GGG-TATAGGATATTTTAGCTTCAATTTGTT
59 GGGAGATAAGAT-TTGTAGCTTTAA-TTGCT
* * * * *
26541808 CTACTACAACTTCAA-GAAGATAAGATTTGTGGCTTTAATCTGCTCTACTGTAGCTTCAGGGAGA
1 CCACTACAACTTCAAGGAA-ATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
26541872 TAAGATTTG
65 TAAGATTTG
26541881 CCTTGGTAAC
Statistics
Matches: 207, Mismatches: 35, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
87 4 0.02
88 121 0.58
89 8 0.04
93 10 0.05
94 62 0.30
95 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (87 bp):
CCACTACAACTTCAAGGAAATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
AAGATTTGTAGCTTTAATTGCT
Found at i:26553418 original size:5 final size:5
Alignment explanation
Indices: 26553408--26553445 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
26553398 TAATAAGCAG
26553408 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
26553446 GAAACATGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:26556250 original size:10 final size:11
Alignment explanation
Indices: 26556221--26556248 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
26556211 GCCATGTTTG
26556221 AAAAAAATTTA
1 AAAAAAATTTA
26556232 AAAAAAATTTA
1 AAAAAAATTTA
26556243 AAAAAA
1 AAAAAA
26556249 TTAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAAAAATTTA
Found at i:26557254 original size:21 final size:23
Alignment explanation
Indices: 26557226--26557283 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 23
26557216 TTAACTTTAA
26557226 TTATAATTATTTATTAAA-AAAC
1 TTATAATTATTTATTAAATAAAC
*
26557248 TT-TAATTA-TAATTAAATAAAC
1 TTATAATTATTTATTAAATAAAC
26557269 TTATCAA-TATTTATT
1 TTAT-AATTATTTATT
26557284 TATAAATTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 5 0.17
23 6 0.20
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
TTATAATTATTTATTAAATAAAC
Found at i:26565051 original size:21 final size:21
Alignment explanation
Indices: 26565012--26565051 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
26565002 AGGTTATCGA
* **
26565012 TTTTTAATTTAATTGATTAAT
1 TTTTTAATTAAATAAATTAAT
26565033 TTTTTAATTAAATAAATTA
1 TTTTTAATTAAATAAATTA
26565052 CTAAAAATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTTAATTAAATAAATTAAT
Found at i:26567868 original size:16 final size:15
Alignment explanation
Indices: 26567847--26567876 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
26567837 AATTAAATAC
26567847 AACAACATTCATTAAT
1 AACAACATT-ATTAAT
26567863 AACAACATTATTAA
1 AACAACATTATTAA
26567877 GTTGAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (15 bp):
AACAACATTATTAAT
Found at i:26578582 original size:4 final size:4
Alignment explanation
Indices: 26578573--26578609 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
26578563 AATACAGATA
26578573 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
26578610 TCAGTAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:26580705 original size:21 final size:21
Alignment explanation
Indices: 26580681--26580722 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
26580671 ATTTTCAAAT
*
26580681 TAATTGCACATTGATTTGTAA
1 TAATTGCACATTAATTTGTAA
*
26580702 TAATTGCATATTAATTTGTAA
1 TAATTGCACATTAATTTGTAA
26580723 ATTTTTGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (21 bp):
TAATTGCACATTAATTTGTAA
Found at i:26582197 original size:32 final size:32
Alignment explanation
Indices: 26582161--26582231 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
26582151 TTGTTGGATT
*
26582161 TTGAAATTATTATGTTTTAAATTTGTTAGACA
1 TTGAAATTATTATGTTTTAAACTTGTTAGACA
* * *
26582193 TTGAATTTATTATGTTTTAAACTTGTTGGATA
1 TTGAAATTATTATGTTTTAAACTTGTTAGACA
26582225 TTGAAAT
1 TTGAAAT
26582232 GATTGAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (32 bp):
TTGAAATTATTATGTTTTAAACTTGTTAGACA
Found at i:26585176 original size:19 final size:19
Alignment explanation
Indices: 26585140--26585187 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
26585130 TTAGTAAAAT
*
26585140 ATTTAATATTACAATTTAA
1 ATTTAATAATACAATTTAA
*
26585159 TTTTAATAATA-AATTTTAA
1 ATTTAATAATACAA-TTTAA
*
26585178 AATTAATAAT
1 ATTTAATAAT
26585188 TTTAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTAATAATACAATTTAA
Found at i:26595214 original size:23 final size:24
Alignment explanation
Indices: 26595165--26595222 Score: 82
Period size: 23 Copynumber: 2.4 Consensus size: 24
26595155 ATAAAATATT
26595165 TAAAATATTTTAATATAATTTTAATA
1 TAAAATA--TTAATATAATTTTAATA
*
26595191 TAAAATATTAATTTAA-TTTAATA
1 TAAAATATTAATATAATTTTAATA
26595214 TAAAATATT
1 TAAAATATT
26595223 TTATTTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 16 0.52
24 8 0.26
26 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAAATATTAATATAATTTTAATA
Found at i:26595228 original size:24 final size:24
Alignment explanation
Indices: 26595165--26595301 Score: 100
Period size: 24 Copynumber: 5.3 Consensus size: 24
26595155 ATAAAATATT
*
26595165 TAAAATATTTTAATATAATTTTAATA
1 TAAAATATTTT-ATTTAA-TTTAATA
*
26595191 TAAAATA-TTAATTTAATTTAATA
1 TAAAATATTTTATTTAATTTAATA
*
26595214 TAAAATATTTTATTTCAAAATATAATTTGAAA
1 TAAAATATTTTATTT---AATTTAA--T---A
*
26595246 TAAAATATTTTATATAATTTAATA
1 TAAAATATTTTATTTAATTTAATA
*
26595270 TAAAATA-ATTATATT-ATTTAATAA
1 TAAAATATTTTAT-TTAATTTAAT-A
26595294 TAAAATAT
1 TAAAATAT
26595302 GATTAAATTA
Statistics
Matches: 91, Mismatches: 8, Indels: 25
0.73 0.06 0.20
Matches are distributed among these distances:
23 25 0.27
24 28 0.31
25 2 0.02
26 7 0.08
27 7 0.08
29 7 0.08
32 15 0.16
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (24 bp):
TAAAATATTTTATTTAATTTAATA
Found at i:26595306 original size:26 final size:25
Alignment explanation
Indices: 26595244--26595315 Score: 94
Period size: 24 Copynumber: 2.9 Consensus size: 25
26595234 TATAATTTGA
* *
26595244 AATAAAATATTTTATATAATTTAAT
1 AATAAAATATATTATATTATTTAAT
26595269 -ATAAAATA-ATTATATTATTTAAT
1 AATAAAATATATTATATTATTTAAT
*
26595292 AATAAAATATGATTAAATTATTTA
1 AATAAAATAT-ATTATATTATTTA
26595316 TTTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 13 0.32
24 16 0.39
26 12 0.29
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (25 bp):
AATAAAATATATTATATTATTTAAT
Found at i:26598073 original size:13 final size:13
Alignment explanation
Indices: 26598055--26598079 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26598045 TGTCAAATAA
26598055 TAAAAAATATTTT
1 TAAAAAATATTTT
26598068 TAAAAAATATTT
1 TAAAAAATATTT
26598080 CAAGCAATAC
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAAAATATTTT
Found at i:26598126 original size:20 final size:20
Alignment explanation
Indices: 26598101--26598148 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
26598091 ATATATATAT
26598101 ATCAATTTTTTTTTCAAAA-A
1 ATCAATTTTTTTTT-AAAAGA
**
26598121 ATCAATTCATTTTTAAAAGA
1 ATCAATTTTTTTTTAAAAGA
26598141 ATC-ATTTT
1 ATCAATTTT
26598149 CCGAATAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (20 bp):
ATCAATTTTTTTTTAAAAGA
Found at i:26598933 original size:20 final size:22
Alignment explanation
Indices: 26598910--26598960 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
26598900 GAAAATAACA
26598910 AAAATAATAA-GAAAAAT-TTT
1 AAAATAATAAGGAAAAATATTT
*
26598930 -AAA-AATAGAGGATAAATATTT
1 AAAATAATA-AGGAAAAATATTT
26598951 AAAATAATAA
1 AAAATAATAA
26598961 CTAAATAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 4 0.16
19 4 0.16
20 6 0.24
21 3 0.12
22 4 0.16
23 4 0.16
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (22 bp):
AAAATAATAAGGAAAAATATTT
Found at i:26600333 original size:20 final size:20
Alignment explanation
Indices: 26600298--26600348 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
26600288 ATATCCTAAT
* *
26600298 TTTATTTGATTCTAAT-CAA
1 TTTATTTAATTCTAATAAAA
*
26600317 TTTCATTTAATTTTAATAAAA
1 TTT-ATTTAATTCTAATAAAA
26600338 TTTATTTAATT
1 TTTATTTAATT
26600349 GCTCCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.11
20 19 0.70
21 5 0.19
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTATTTAATTCTAATAAAA
Found at i:26600784 original size:18 final size:18
Alignment explanation
Indices: 26600757--26600794 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
26600747 TTTATTTTAT
26600757 TTTATATATAGATATTTG
1 TTTATATATAGATATTTG
* *
26600775 TTTATTTATATATATTTG
1 TTTATATATAGATATTTG
26600793 TT
1 TT
26600795 CACTAACGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (18 bp):
TTTATATATAGATATTTG
Found at i:26608867 original size:5 final size:5
Alignment explanation
Indices: 26608857--26608915 Score: 59
Period size: 5 Copynumber: 11.8 Consensus size: 5
26608847 TATTAACATG
* * *
26608857 AAAAT AAAAT AAAAT AAAAT AAAGT AATAT ATAAT AAAAT AATAA- ATAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT A-AAAT
26608908 -AAAT AAAA
1 AAAAT AAAA
26608916 ATTGGGTTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 4 0.09
5 37 0.84
6 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:26615443 original size:17 final size:17
Alignment explanation
Indices: 26615421--26615454 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26615411 TAAATTCACG
*
26615421 CTTTTTGCCTCCAATTT
1 CTTTTTACCTCCAATTT
*
26615438 CTTTTTACCTTCAATTT
1 CTTTTTACCTCCAATTT
26615455 AGTCCCTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.26, G:0.03, T:0.56
Consensus pattern (17 bp):
CTTTTTACCTCCAATTT
Found at i:26631793 original size:33 final size:33
Alignment explanation
Indices: 26631753--26631821 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
26631743 GAAACACCAT
26631753 CACCACCCACAAATACTAAACCACAT-ATTGAAC
1 CACCACCCACAAATACTAAACCACATGA-TGAAC
*
26631786 CACCACCCACAAATACTGAACCACATGATGAAC
1 CACCACCCACAAATACTAAACCACATGATGAAC
26631819 CAC
1 CAC
26631822 ATATTGAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.43, C:0.38, G:0.06, T:0.13
Consensus pattern (33 bp):
CACCACCCACAAATACTAAACCACATGATGAAC
Found at i:26638818 original size:15 final size:15
Alignment explanation
Indices: 26638798--26638829 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26638788 ATAAACTAGA
*
26638798 TTCAACATTTAATTT
1 TTCAACACTTAATTT
26638813 TTCAACACTTAATTT
1 TTCAACACTTAATTT
26638828 TT
1 TT
26638830 TAGTTTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (15 bp):
TTCAACACTTAATTT
Found at i:26638992 original size:14 final size:14
Alignment explanation
Indices: 26638973--26639011 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
26638963 TTGTTTCACT
*
26638973 GAAAATGGCTTCCG
1 GAAAATGACTTCCG
* *
26638987 GAAAATGATTTCTG
1 GAAAATGACTTCCG
26639001 GAAAATGACTT
1 GAAAATGACTT
26639012 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:26639614 original size:18 final size:18
Alignment explanation
Indices: 26639576--26639611 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
26639566 TTATTATTTT
*
26639576 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
26639594 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
26639612 TAATTTATTA
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:26644224 original size:27 final size:27
Alignment explanation
Indices: 26644194--26644310 Score: 146
Period size: 27 Copynumber: 4.3 Consensus size: 27
26644184 ATCATCCTGG
26644194 CAGACTACTCC-ATGTTTAATGTCCCAT
1 CAGACTA-TCCTATGTTTAATGTCCCAT
* ** *
26644221 CAGACTATCCTGTGTTTAACATCCCGT
1 CAGACTATCCTATGTTTAATGTCCCAT
* *
26644248 CGGACTATCCTGTGTTTAATGTCCCAT
1 CAGACTATCCTATGTTTAATGTCCCAT
*
26644275 CAGACTATCCCATGTTTAATGTCCCAT
1 CAGACTATCCTATGTTTAATGTCCCAT
*
26644302 CACACTATC
1 CAGACTATC
26644311 TTCGATGTCA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 3 0.04
27 74 0.96
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (27 bp):
CAGACTATCCTATGTTTAATGTCCCAT
Found at i:26648203 original size:12 final size:12
Alignment explanation
Indices: 26648188--26648212 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26648178 ATAGTATAGG
26648188 TTAATCTTAAAA
1 TTAATCTTAAAA
26648200 TTAATCTTAAAA
1 TTAATCTTAAAA
26648212 T
1 T
26648213 AAGTAATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAATCTTAAAA
Found at i:26648282 original size:21 final size:21
Alignment explanation
Indices: 26648258--26648297 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
26648248 ATAAGTTAGG
26648258 TTAAGATAATAAATAAAAGGT
1 TTAAGATAATAAATAAAAGGT
* **
26648279 TTAATATAATCTATAAAAG
1 TTAAGATAATAAATAAAAG
26648298 AGAAAATTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAAGATAATAAATAAAAGGT
Found at i:26648371 original size:18 final size:16
Alignment explanation
Indices: 26648348--26648392 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
26648338 TTAAAATAAC
26648348 ATATATAAAATGATGTAT
1 ATATATAAAAT-ATGT-T
26648366 ATATATAAACATATGTT
1 ATATATAAA-ATATGTT
26648383 ATATA-AAAAT
1 ATATATAAAAT
26648393 TTAAAATGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.08
16 3 0.12
17 6 0.23
18 13 0.50
19 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (16 bp):
ATATATAAAATATGTT
Found at i:26652194 original size:12 final size:12
Alignment explanation
Indices: 26652177--26652216 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
26652167 TTTTGAACCT
*
26652177 CTGCTTCTATTG
1 CTGCTTCTATCG
*
26652189 CTGCTTCTCTCG
1 CTGCTTCTATCG
*
26652201 CTGCTTCTCTCG
1 CTGCTTCTATCG
26652213 CTGC
1 CTGC
26652217 GGCCTCTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.03, C:0.38, G:0.17, T:0.42
Consensus pattern (12 bp):
CTGCTTCTATCG
Found at i:26652227 original size:21 final size:21
Alignment explanation
Indices: 26652201--26652269 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
26652191 GCTTCTCTCG
*
26652201 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
26652222 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
26652243 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
26652264 CTGCTT
1 CTGCTT
26652270 TAAGTTGNNN
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.01, C:0.43, G:0.20, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:26657741 original size:16 final size:17
Alignment explanation
Indices: 26657720--26657818 Score: 73
Period size: 16 Copynumber: 5.9 Consensus size: 17
26657710 GATTTAGGAA
26657720 TAAGTTATGTA-TTATG
1 TAAGTTATGTAGTTATG
*
26657736 TAAGTTATGTAAGTTGTG
1 TAAGTTATGT-AGTTATG
* *
26657754 TAAGTTGTGTAAGTTGTG
1 TAAGTTATGT-AGTTATG
* *
26657772 T-A-TTATGAAACTTATG
1 TAAGTTATG-TAGTTATG
* *
26657788 TACGTTATGT-CTTATG
1 TAAGTTATGTAGTTATG
26657804 TAAGTTATGTA-TTAT
1 TAAGTTATGTAGTTAT
26657819 TATGTAAGTA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
16 39 0.57
17 2 0.03
18 27 0.40
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.47
Consensus pattern (17 bp):
TAAGTTATGTAGTTATG
Found at i:26657745 original size:9 final size:9
Alignment explanation
Indices: 26657720--26657827 Score: 86
Period size: 9 Copynumber: 12.6 Consensus size: 9
26657710 GATTTAGGAA
26657720 TAAGTTATG
1 TAAGTTATG
26657729 T-A-TTATG
1 TAAGTTATG
26657736 TAAGTTATG
1 TAAGTTATG
*
26657745 TAAGTTGTG
1 TAAGTTATG
*
26657754 TAAGTTGTG
1 TAAGTTATG
*
26657763 TAAGTTGTG
1 TAAGTTATG
26657772 T-A-TTATG
1 TAAGTTATG
* *
26657779 AAACTTATG
1 TAAGTTATG
*
26657788 TACGTTATG
1 TAAGTTATG
*
26657797 T--CTTATG
1 TAAGTTATG
26657804 TAAGTTATG
1 TAAGTTATG
26657813 TATTA-TTATG
1 TA--AGTTATG
26657823 TAAGT
1 TAAGT
26657828 AGGGATGTAG
Statistics
Matches: 82, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
7 16 0.20
8 5 0.06
9 53 0.65
10 7 0.09
11 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:26657908 original size:9 final size:9
Alignment explanation
Indices: 26657885--26657940 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
26657875 CTTATTTAAT
*
26657885 TTATGGATG
1 TTATGTATG
26657894 TTATGTATG
1 TTATGTATG
*
26657903 TTATGTATTA
1 TTATGTA-TG
*
26657913 TTATGTATTA
1 TTATGTA-TG
*
26657923 TTATGTAAG
1 TTATGTATG
26657932 TTAT-TATG
1 TTATGTATG
26657940 T
1 T
26657941 AGGTTATTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
8 4 0.10
9 19 0.46
10 18 0.44
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (9 bp):
TTATGTATG
Found at i:26657918 original size:10 final size:10
Alignment explanation
Indices: 26657894--26657953 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 10
26657884 TTTATGGATG
*
26657894 TTATGTA-TG
1 TTATGTATTA
26657903 TTATGTATTA
1 TTATGTATTA
26657913 TTATGTATTA
1 TTATGTATTA
26657923 TTATGTAAGTTA
1 TTATGT-A-TTA
26657935 TTATGTAGGTTA
1 TTATGTA--TTA
26657947 TTATGTA
1 TTATGTA
26657954 AGTCATTATG
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
9 7 0.15
10 17 0.37
11 2 0.04
12 20 0.43
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (10 bp):
TTATGTATTA
Found at i:26657937 original size:12 final size:12
Alignment explanation
Indices: 26657910--26657964 Score: 78
Period size: 12 Copynumber: 4.8 Consensus size: 12
26657900 ATGTTATGTA
26657910 TTATTATGT-A-
1 TTATTATGTAAG
26657920 TTATTATGTAAG
1 TTATTATGTAAG
*
26657932 TTATTATGTAGG
1 TTATTATGTAAG
26657944 TTATTATGTAAG
1 TTATTATGTAAG
*
26657956 TCATTATGT
1 TTATTATGT
26657965 TGGTTATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
10 9 0.22
11 1 0.03
12 30 0.75
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:26657952 original size:24 final size:24
Alignment explanation
Indices: 26657903--26657971 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
26657893 GTTATGTATG
26657903 TTATGT-A-TTATTATGTA--TTA
1 TTATGTAAGTTATTATGTAGGTTA
26657923 TTATGTAAGTTATTATGTAGGTTA
1 TTATGTAAGTTATTATGTAGGTTA
* *
26657947 TTATGTAAGTCATTATGTTGGTTA
1 TTATGTAAGTTATTATGTAGGTTA
26657971 T
1 T
26657972 GTAAGTTGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.14
21 1 0.02
22 10 0.23
24 26 0.60
ACGTcount: A:0.28, C:0.01, G:0.17, T:0.54
Consensus pattern (24 bp):
TTATGTAAGTTATTATGTAGGTTA
Found at i:26657973 original size:21 final size:22
Alignment explanation
Indices: 26657923--26657977 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
26657913 TTATGTATTA
*
26657923 TTATGTAAGTTATTATGTAGGTT
1 TTATGTAAGTCATTATGTAGG-T
*
26657946 ATTATGTAAGTCATTATGTTGG-
1 -TTATGTAAGTCATTATGTAGGT
26657968 TTATGTAAGT
1 TTATGTAAGT
26657978 TGTGATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
TTATGTAAGTCATTATGTAGGT
Found at i:26658264 original size:18 final size:17
Alignment explanation
Indices: 26658227--26658275 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
26658217 TTTAAGTTGT
* *
26658227 GTAAGTTATG-AATTAT
1 GTAAGATATGAAATTAC
26658243 GTAAGATATGTAAATTAC
1 GTAAGATATG-AAATTAC
26658261 GTAAGATATGAAATT
1 GTAAGATATGAAATT
26658276 TGAACTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 9 0.31
17 5 0.17
18 15 0.52
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (17 bp):
GTAAGATATGAAATTAC
Found at i:26658321 original size:35 final size:36
Alignment explanation
Indices: 26658282--26658383 Score: 98
Period size: 35 Copynumber: 2.8 Consensus size: 36
26658272 AATTTGAACT
**
26658282 TTAAAATAAATTTAATATTTAAAAAAT-ATTCGTGA
1 TTAAAATAAATAAAATATTTAAAAAATAATTCGTGA
* * **
26658317 TTAAAAAAAATAAAATATTTAATATTTAATTCGTGA
1 TTAAAATAAATAAAATATTTAAAAAATAATTCGTGA
* * *
26658353 GTAAAATAAAATAAAAAAATTTAAAATATAA
1 TTAAAAT-AAAT-AAAATATTTAAAAAATAA
26658384 CTTTAAATAC
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
35 21 0.40
36 13 0.25
37 4 0.08
38 15 0.28
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (36 bp):
TTAAAATAAATAAAATATTTAAAAAATAATTCGTGA
Found at i:26660131 original size:45 final size:45
Alignment explanation
Indices: 26660067--26660157 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
26660057 TGGAAGGAGG
* *
26660067 AAGGAGGCGATTTAGGGATTTCAGATTTCAAGAAATTAGGCAAGA
1 AAGGAGGCGATTTACGGATTTCAGAATTCAAGAAATTAGGCAAGA
* ** *
26660112 AAGGAGGCGATTTTCGGATTTGGGAATTCAAGAAATTGGGCAAGA
1 AAGGAGGCGATTTACGGATTTCAGAATTCAAGAAATTAGGCAAGA
26660157 A
1 A
26660158 GGACGCAACA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.24
Consensus pattern (45 bp):
AAGGAGGCGATTTACGGATTTCAGAATTCAAGAAATTAGGCAAGA
Found at i:26661358 original size:7 final size:7
Alignment explanation
Indices: 26661343--26661401 Score: 64
Period size: 7 Copynumber: 8.3 Consensus size: 7
26661333 TAAATTAAGT
26661343 ACCCTAA
1 ACCCTAA
*
26661350 ACCCCAA
1 ACCCTAA
*
26661357 ACCTTAA
1 ACCCTAA
*
26661364 ACCTTAA
1 ACCCTAA
*
26661371 ACCCCAA
1 ACCCTAA
26661378 ACTCCTAA
1 AC-CCTAA
26661386 ACCCTAA
1 ACCCTAA
*
26661393 ACCCAAA
1 ACCCTAA
26661400 AC
1 AC
26661402 ACCATAATCG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.14
Consensus pattern (7 bp):
ACCCTAA
Found at i:26661957 original size:114 final size:114
Alignment explanation
Indices: 26661810--26662237 Score: 483
Period size: 114 Copynumber: 3.8 Consensus size: 114
26661800 TTCTCGTGAA
* *
26661810 CGCCACTAATTCCAGTATACATCAAGATTTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGC
1 CGCCACTAATTCAAGTATACATCAAGATCTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGC
* * *
26661875 TTATAAGAAAGCGCCGCTAATAGTATACTTTTGCGTCGTTTACGGAAAG
66 TTATAAGAAAGCGCCGCTAATAGTATACTTTTGCGGCGTTTCCAGAAAG
* * *
26661924 CGCCACTAATTCAAGTATACGTCAAGATCTAAACGCAGCGTTTAGGTTAATATATCTTGCGGCGC
1 CGCCACTAATTCAAGTATACATCAAGATCTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGC
* * * * * *
26661989 TTCTAATAAAGCGCCGCTAATAATATAATTTAGCGGCGATTTCTCCTG-AA-
66 TTATAAGAAAGCGCCGCTAATAGTATACTTTTGCGGCG--TT-TCCAGAAAG
* * * *
26662039 CGCCACTAACTCCAGTATACATCAAGATTTAAACGCAGCGTTTCTGTTAATATATATTGCGGCGC
1 CGCCACTAATTCAAGTATACATCAAGATCTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGC
* * *
26662104 TTCTAAGAAAGCGACGCTAATAGTATACTTTTGCGGCGTTTCCATAAAG
66 TTATAAGAAAGCGCCGCTAATAGTATACTTTTGCGGCGTTTCCAGAAAG
* ** * * * * *
26662153 CGCCACTAATTCTAA-TATACCTCATTA-CCAAACTCTGCGTTTTGGTCT-GTATATATTGCGGC
1 CGCCACTAATTC-AAGTATACATCAAGATCTAAACGCAGCGTTTCGGT-TAATATATATTGCGGC
26662215 GCTTA-ACCA-AAAGCGCCGCTAAT
64 GCTTATA--AGAAAGCGCCGCTAAT
26662238 GCTGATATTT
Statistics
Matches: 264, Mismatches: 41, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
112 4 0.02
113 47 0.18
114 114 0.43
115 92 0.35
116 4 0.02
117 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (114 bp):
CGCCACTAATTCAAGTATACATCAAGATCTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGC
TTATAAGAAAGCGCCGCTAATAGTATACTTTTGCGGCGTTTCCAGAAAG
Found at i:26662081 original size:115 final size:114
Alignment explanation
Indices: 26661768--26662164 Score: 512
Period size: 115 Copynumber: 3.5 Consensus size: 114
26661758 GCTAACAAAT
* * *
26661768 AAGCGCCGCTAATAATATGATTTAGCGGTGATTTCTCGTGAACGCCACTAATTCCAGTATACATC
1 AAGCGCCGCTAATAATATAATTTAGCGGCG-TTTCTCCTGAACGCCACTAATTCCAGTATACATC
*
26661833 AAGATTTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGCTTATAAGA
65 AAGATTTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGCTTCTAAGA
* * * * * * * *
26661883 AAGCGCCGCTAATAGTATACTTTTGCGTCG-TT-TACGGAAAGCGCCACTAATTCAAGTATACGT
1 AAGCGCCGCTAATAATATAATTTAGCGGCGTTTCTCCTG-AA-CGCCACTAATTCCAGTATACAT
* * * *
26661946 CAAGATCTAAACGCAGCGTTTAGGTTAATATATCTTGCGGCGCTTCTAATA
64 CAAGATTTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGCTTCTAAGA
*
26661997 AAGCGCCGCTAATAATATAATTTAGCGGCGATTTCTCCTGAACGCCACTAACTCCAGTATACATC
1 AAGCGCCGCTAATAATATAATTTAGCGGCG-TTTCTCCTGAACGCCACTAATTCCAGTATACATC
*
26662062 AAGATTTAAACGCAGCGTTTCTGTTAATATATATTGCGGCGCTTCTAAGA
65 AAGATTTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGCTTCTAAGA
* * * * * *
26662112 AAGCGACGCTAATAGTATACTTTTGCGGCGTTTC-CATAAAGCGCCACTAATTC
1 AAGCGCCGCTAATAATATAATTTAGCGGCGTTTCTCCTGAA-CGCCACTAATTC
26662165 TAATATACCT
Statistics
Matches: 239, Mismatches: 37, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
112 2 0.01
113 8 0.03
114 107 0.45
115 115 0.48
116 4 0.02
117 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (114 bp):
AAGCGCCGCTAATAATATAATTTAGCGGCGTTTCTCCTGAACGCCACTAATTCCAGTATACATCA
AGATTTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGCTTCTAAGA
Found at i:26662155 original size:229 final size:229
Alignment explanation
Indices: 26661751--26662254 Score: 696
Period size: 229 Copynumber: 2.2 Consensus size: 229
26661741 TGAAGATCTT
* * *
26661751 TTGCGGCGCTAACAAATAAGCGCCGCTAATAATATGATTTAGCGGTGATTTCTCGTGAACGCCAC
1 TTGCGGCGCTAACAAATAAGCGCCGCTAATAATATAATTTAGCGGCGATTTCTCCTGAACGCCAC
*
26661816 TAATTCCAGTATACATCAAGATTTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGCTTATAA
66 TAACTCCAGTATACATCAAGATTTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGCTTATAA
* * *
26661881 GAAAGCGCCGCTAATAGTATACTTTTGCGTCGTTTACGGAAAGCGCCACTAATTC-AAGTATACG
131 GAAAGCGACGCTAATAGTATACTTTTGCGGCGTTTACAGAAAGCGCCACTAATTCTAA-TATACG
26661945 TCAAGATCTAAACGCAGCGTTTAGGTTAATATATC
195 TCAAGATCTAAACGCAGCGTTTAGGTTAATATATC
* *
26661980 TTGCGGCGCT-TCTAATAAAGCGCCGCTAATAATATAATTTAGCGGCGATTTCTCCTGAACGCCA
1 TTGCGGCGCTAACAAAT-AAGCGCCGCTAATAATATAATTTAGCGGCGATTTCTCCTGAACGCCA
* *
26662044 CTAACTCCAGTATACATCAAGATTTAAACGCAGCGTTTCTGTTAATATATATTGCGGCGCTTCTA
65 CTAACTCCAGTATACATCAAGATTTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGCTTATA
* * *
26662109 AGAAAGCGACGCTAATAGTATACTTTTGCGGCGTTTCCATAAAGCGCCACTAATTCTAATATACC
130 AGAAAGCGACGCTAATAGTATACTTTTGCGGCGTTTACAGAAAGCGCCACTAATTCTAATATACG
** * * * * * *
26662174 TCATTA-CCAAACTCTGCGTTTTGGTCT-GTATATA
195 TCAAGATCTAAACGCAGCGTTTAGGT-TAATATATC
* **
26662208 TTGCGGCGCTTAACCAA-AAGCGCCGCTAATGCTGAT-ATTTAGCGGCG
1 TTGCGGCGC-TAACAAATAAGCGCCGCTAATAAT-ATAATTTAGCGGCG
26662255 TTTTATTATA
Statistics
Matches: 243, Mismatches: 26, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
228 58 0.24
229 180 0.74
230 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (229 bp):
TTGCGGCGCTAACAAATAAGCGCCGCTAATAATATAATTTAGCGGCGATTTCTCCTGAACGCCAC
TAACTCCAGTATACATCAAGATTTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGCTTATAA
GAAAGCGACGCTAATAGTATACTTTTGCGGCGTTTACAGAAAGCGCCACTAATTCTAATATACGT
CAAGATCTAAACGCAGCGTTTAGGTTAATATATC
Found at i:26662207 original size:115 final size:113
Alignment explanation
Indices: 26661810--26662335 Score: 478
Period size: 114 Copynumber: 4.6 Consensus size: 113
26661800 TTCTCGTGAA
* * *
26661810 CGCCACTAATTCCAGTATACATCAAGATTTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGC
1 CGCCACTAATT-CAATATACATCAAGATCTAAACGCAGCGTTTTGGTTAATATATATTGCGGCGC
* * * **
26661875 TTATAAGAAAGCGCCGCTAATAGTATACTTTTGCGTCGTTTACGGAAAG
65 TTCTAAGAAAGCGCCGCTAATAGTATACTTTTGCGGCGTTTCCATAAAG
* * *
26661924 CGCCACTAATTCAAGTATACGTCAAGATCTAAACGCAGCGTTTAGGTTAATATATCTTGCGGCGC
1 CGCCACTAATTCAA-TATACATCAAGATCTAAACGCAGCGTTTTGGTTAATATATATTGCGGCGC
* * * * * *
26661989 TTCTAATAAAGCGCCGCTAATAATATAATTTAGCGGCGATTTCTCCTGAA-
65 TTCTAAGAAAGCGCCGCTAATAGTATACTTTTGCGGCG-TTTC-CATAAAG
* * *
26662039 CGCCACTAACTCCAGTATACATCAAGATTTAAACGCAGCGTTTCT-GTTAATATATATTGCGGCG
1 CGCCACTAA-TTCAATATACATCAAGATCTAAACGCAGCGTTT-TGGTTAATATATATTGCGGCG
*
26662103 CTTCTAAGAAAGCGACGCTAATAGTATACTTTTGCGGCGTTTCCATAAAG
64 CTTCTAAGAAAGCGCCGCTAATAGTATACTTTTGCGGCGTTTCCATAAAG
* ** * * * *
26662153 CGCCACTAATTCTAATATACCTCATTA-CCAAACTCTGCGTTTTGGTCT-GTATATATTGCGGCG
1 CGCCACTAATTC-AATATACATCAAGATCTAAACGCAGCGTTTTGGT-TAATATATATTGCGGCG
* * *
26662216 C-T-TAACCAAAAGCGCCGCTAAT-GCTGATA-TTTAGCGGCGTTT-TATTATAAG
64 CTTCTAA--GAAAGCGCCGCTAATAG-T-ATACTTTTGCGGCGTTTCCA-TA-AAG
* * * * * * * * *
26662267 CGCCAATAATT-ATATTGTACATCAAGACCAAAACGCTGAGTTTTGATTAAGATATATAGCGGCG
1 CGCCACTAATTCA-A-TATACATCAAGATCTAAACGCAGCGTTTTGGTTAATATATATTGCGGCG
26662331 CTTCT
64 CTTCT
26662336 GCTTGCGCGC
Statistics
Matches: 337, Mismatches: 54, Indels: 39
0.78 0.13 0.09
Matches are distributed among these distances:
111 3 0.01
112 5 0.01
113 65 0.19
114 138 0.41
115 118 0.35
116 7 0.02
117 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (113 bp):
CGCCACTAATTCAATATACATCAAGATCTAAACGCAGCGTTTTGGTTAATATATATTGCGGCGCT
TCTAAGAAAGCGCCGCTAATAGTATACTTTTGCGGCGTTTCCATAAAG
Found at i:26662334 original size:228 final size:224
Alignment explanation
Indices: 26661751--26662447 Score: 632
Period size: 229 Copynumber: 3.0 Consensus size: 224
26661741 TGAAGATCTT
* * * * * *
26661751 TTGCGGCGCTAACAAATAAGCGCCGCTAATAATATGATTTAGCGGTGATTTCTCGTGAACGCCAC
1 TTGCGGCGCTTA-AAA-AAGCGCCGCTAATAATATAATTTAGCGGCGATTTATCATGAACGCCAA
* * *** * * *
26661816 TAATTCCAGTATACATCAAGATTTAAACGCAGCGTTTCGGTTAATATATATTGCGGCGCTTATAA
64 TAACTACAGTATACATCAAGACCAAAACGCAGAGTTTCTGTTAATATATATTGCGGCGCTTCTAA
* * *
26661881 GAAAGCGCCGCTAATAGTATACTTTTGCGTCGTTTACGGAAAGCGCCACTAATTC-AAGTATACG
129 GAAAGCGCCGCTAATAGTATACTTTTGCGGCGTTTAC-TAAAGCGCCACTAATTCTAA-TATACA
* * * * * * *
26661945 TCAAGATCTAAACGCAGCGTTTAGGTTAATATATC
192 TCATGA-CCAAACTCTGCGTTTTGGTT-GTATATA
* * * *
26661980 TTGCGGCGCTTCTAATAAAGCGCCGCTAATAATATAATTTAGCGGCGATTTCTCCTGAACGCCAC
1 TTGCGGCGC-T-TAAAAAAGCGCCGCTAATAATATAATTTAGCGGCGATTTATCATGAACGCCAA
* *** *
26662045 TAACTCCAGTATACATCAAGATTTAAACGCAGCGTTTCTGTTAATATATATTGCGGCGCTTCTAA
64 TAACTACAGTATACATCAAGACCAAAACGCAGAGTTTCTGTTAATATATATTGCGGCGCTTCTAA
* * *
26662110 GAAAGCGACGCTAATAGTATACTTTTGCGGCGTTTCCATAAAGCGCCACTAATTCTAATATACCT
129 GAAAGCGCCGCTAATAGTATACTTTTGCGGCGTTTAC-TAAAGCGCCACTAATTCTAATATACAT
*
26662175 CATTACCAAACTCTGCGTTTTGGTCTGTATATA
193 CATGACCAAACTCTGCGTTTTGGT-TGTATATA
** * *
26662208 TTGCGGCGCTTAACCAAAAGCGCCGCTAATGCTGAT-ATTTAGCGGCGTTTTATTAT-AAGCGCC
1 TTGCGGCGCTTAA--AAAAGCGCCGCTAATAAT-ATAATTTAGCGGCGATTTATCATGAA-CGCC
* * * * * * *
26662271 AATAATTATATTGTACATCAAGACCAAAACGCTGAGTTT-TGATTAAGATATATAGCGGCGCTTC
62 AATAACTACAGTATACATCAAGACCAAAACGCAGAGTTTCTG-TTAATATATATTGCGGCGCTTC
****** * * * *
26662335 TGCTTGCGCGCCGCTAATAGTACT-CTTTAGCGGCGTTTGTCTGTAAGCGCCACTAATCCTAATA
126 TAAGAAAGCGCCGCTAATAGTA-TACTTTTGCGGCGTTT-ACT-AAAGCGCCACTAATTCTAATA
* *
26662399 TACATC-TAGACCATACTCTGCGTTTTGGTTGTCATATT
188 TACATCAT-GACCAAACTCTGCGTTTTGGTTGT-ATATA
26662437 TTGCGGCGCTT
1 TTGCGGCGCTT
26662448 TTAGTAAACG
Statistics
Matches: 397, Mismatches: 57, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
226 3 0.01
227 5 0.01
228 145 0.37
229 238 0.60
230 5 0.01
231 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (224 bp):
TTGCGGCGCTTAAAAAAGCGCCGCTAATAATATAATTTAGCGGCGATTTATCATGAACGCCAATA
ACTACAGTATACATCAAGACCAAAACGCAGAGTTTCTGTTAATATATATTGCGGCGCTTCTAAGA
AAGCGCCGCTAATAGTATACTTTTGCGGCGTTTACTAAAGCGCCACTAATTCTAATATACATCAT
GACCAAACTCTGCGTTTTGGTTGTATATA
Found at i:26662753 original size:40 final size:39
Alignment explanation
Indices: 26662699--26662792 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 39
26662689 AATTATGTTC
* *
26662699 TTTTACGGCGTTTTACTTGAAGCGCCGCTAATGCTAGAT
1 TTTTGCGGCGTTTTACTTGAAGCGCCGCTAATGCTACAT
* *** *
26662738 ATTTTGCGGCGTTTTATTTTTTGCGCCGCTAATGCTCCAT
1 -TTTTGCGGCGTTTTACTTGAAGCGCCGCTAATGCTACAT
26662778 TTTTAGCGGCGTTTT
1 TTTT-GCGGCGTTTT
26662793 CCGTCCAAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
39 4 0.09
40 42 0.91
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.43
Consensus pattern (39 bp):
TTTTGCGGCGTTTTACTTGAAGCGCCGCTAATGCTACAT
Found at i:26668360 original size:15 final size:15
Alignment explanation
Indices: 26668340--26668390 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
26668330 TTTATGGAAA
26668340 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
26668355 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
26668369 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
26668385 ATCAAA
1 ATCAAA
26668391 TATTAGAAAG
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.24
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:26668377 original size:30 final size:30
Alignment explanation
Indices: 26668336--26668415 Score: 142
Period size: 30 Copynumber: 2.7 Consensus size: 30
26668326 CATGTTTATG
*
26668336 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
26668366 GAAAGTCAAAGATATGGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
26668396 GAAAGTCAAAGATATGGGTA
1 GAAAGTCAAAGATATGGGTA
26668416 CCGAGATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.49, C:0.06, G:0.21, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:26672102 original size:39 final size:39
Alignment explanation
Indices: 26672048--26672123 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
26672038 CATGGCAGAG
26672048 TTAGTTTGTCTCAGAAGTAATATTTAAAGAAGATACTAC
1 TTAGTTTGTCTCAGAAGTAATATTTAAAGAAGATACTAC
26672087 TTAGTTTGTCTCAGAAGTAATATTTAAAGAAGATACT
1 TTAGTTTGTCTCAGAAGTAATATTTAAAGAAGATACT
26672124 CCAGAAGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (39 bp):
TTAGTTTGTCTCAGAAGTAATATTTAAAGAAGATACTAC
Found at i:26677150 original size:16 final size:17
Alignment explanation
Indices: 26677118--26677150 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
26677108 TCGTGTAGAC
26677118 CGCCCGTGTGGGGCCACA
1 CGCCCGTGT-GGGCCACA
26677136 CGCCCGTGT-GGCCAC
1 CGCCCGTGTGGGCCAC
26677151 CTGTGTGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.42, G:0.36, T:0.12
Consensus pattern (17 bp):
CGCCCGTGTGGGCCACA
Found at i:26677696 original size:3 final size:3
Alignment explanation
Indices: 26677683--26677716 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
26677673 TCATATCAAA
26677683 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26677717 GAAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:26680312 original size:12 final size:12
Alignment explanation
Indices: 26680295--26680321 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26680285 AAAATAAAAT
26680295 AATAATAAGAAA
1 AATAATAAGAAA
26680307 AATAATAAGAAA
1 AATAATAAGAAA
26680319 AAT
1 AAT
26680322 TTGCAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (12 bp):
AATAATAAGAAA
Done.