Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 34 of 290
Found at i:10996176 original size:11 final size:11
Alignment explanation
Indices: 10996162--10996190 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
10996152 AGATAAATAT
10996162 TATTTTATTAA
1 TATTTTATTAA
10996173 TATTTTATTAA
1 TATTTTATTAA
10996184 TATTTTA
1 TATTTTA
10996191 ATAAGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:10996201 original size:13 final size:13
Alignment explanation
Indices: 10996183--10996213 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
10996173 TATTTTATTA
10996183 ATATTTTAATAAG
1 ATATTTTAATAAG
10996196 ATATTTTAATAAG
1 ATATTTTAATAAG
10996209 ATATT
1 ATATT
10996214 CTATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (13 bp):
ATATTTTAATAAG
Found at i:10998468 original size:60 final size:60
Alignment explanation
Indices: 10998353--10998468 Score: 157
Period size: 61 Copynumber: 1.9 Consensus size: 60
10998343 AGTTATTTGT
* *
10998353 AAATTTCTTTTTTGGTCTCTAAATTATGAAAAGTTACAAAATGCTCACTCAACTATTAGG
1 AAATTTCTTTTTTGGTCCCTAAACTATGAAAAGTTACAAAATGCTCACTCAACTATTAGG
*
10998413 AAATTTCTTTTTTTGGTCACCT-AACTATGGAAAGTTACAAAATAG-TCACT-AACTAT
1 AAATTTC-TTTTTTGGTC-CCTAAACTATGAAAAGTTACAAAAT-GCTCACTCAACTAT
10998469 GCAATTTTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
60 13 0.26
61 34 0.68
62 3 0.06
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (60 bp):
AAATTTCTTTTTTGGTCCCTAAACTATGAAAAGTTACAAAATGCTCACTCAACTATTAGG
Found at i:11001230 original size:18 final size:18
Alignment explanation
Indices: 11001207--11001241 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11001197 CGTAGGCAAA
*
11001207 TCGGTTAGTTCCTCGATT
1 TCGGTTACTTCCTCGATT
*
11001225 TCGGTTCCTTCCTCGAT
1 TCGGTTACTTCCTCGAT
11001242 AACCTCGTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.29, G:0.20, T:0.43
Consensus pattern (18 bp):
TCGGTTACTTCCTCGATT
Found at i:11002915 original size:95 final size:92
Alignment explanation
Indices: 11002761--11002932 Score: 211
Period size: 95 Copynumber: 1.8 Consensus size: 92
11002751 CTTAAATTTT
* * **
11002761 AAAAAAAATAATTAAGCCCCTGATTTTTTTTGCACTTAATTGAGTACTTGTACTTTCAAAATGCA
1 AAAAAAAACAATTAAGCCCCTGATTTTTTTTGCACTCAATTGAAAACTTGTACTTTC-AAATGCA
* *
11002826 TCAAAAAGGCCCTCAAACTTTTTCAAAA
65 TAAAAAAAGCCCTCAAACTTTTTCAAAA
** * *
11002854 AAAAAAAACAATTAAGCCTTTGATTTTTTTTTTTCACTCAATTGAAAACTTG-ATTTGTCAAATG
1 AAAAAAAACAATTAAGCCCCTGA--TTTTTTTTGCACTCAATTGAAAACTTGTACTT-TCAAATG
11002918 CATAAAAAAAGCCCT
63 CATAAAAAAAGCCCT
11002933 TTAACCATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
93 20 0.30
94 21 0.32
95 25 0.38
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (92 bp):
AAAAAAAACAATTAAGCCCCTGATTTTTTTTGCACTCAATTGAAAACTTGTACTTTCAAATGCAT
AAAAAAAGCCCTCAAACTTTTTCAAAA
Found at i:11003112 original size:20 final size:19
Alignment explanation
Indices: 11003090--11003138 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
11003080 TTTTAGAATT
11003090 TTTTATAAAAATTCTAAAA
1 TTTTATAAAAATTCTAAAA
11003109 TTTTATAAATAA-TCATAAAA
1 TTTTATAAA-AATTC-TAAAA
*
11003129 ATTTATAAAA
1 TTTTATAAAA
11003139 TGCATCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTTATAAAAATTCTAAAA
Found at i:11003330 original size:9 final size:9
Alignment explanation
Indices: 11003316--11003421 Score: 56
Period size: 10 Copynumber: 11.1 Consensus size: 9
11003306 TTTTTAGTAC
11003316 ATAATTTTT
1 ATAATTTTT
11003325 ATAATTTTTTTT
1 ATAA---TTTTT
*
11003337 ATAAATTTT
1 ATAATTTTT
11003346 AT-ATTTCTT
1 ATAATTT-TT
11003355 -TACATTTTT
1 ATA-ATTTTT
11003364 AT-ATTTTT
1 ATAATTTTT
* * *
11003372 TTACTACTTT
1 ATAAT-TTTT
*
11003382 ATAAATTTT
1 ATAATTTTT
11003391 ATATATTTTT
1 ATA-ATTTTT
11003401 ATATATTTTGT
1 ATA-ATTTT-T
*
11003412 ATATTTTTT
1 ATAATTTTT
11003421 A
1 A
11003422 CTATTTTAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
8 11 0.15
9 23 0.31
10 28 0.37
11 4 0.05
12 9 0.12
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (9 bp):
ATAATTTTT
Found at i:11003356 original size:10 final size:9
Alignment explanation
Indices: 11003331--11003443 Score: 77
Period size: 9 Copynumber: 12.2 Consensus size: 9
11003321 TTTTATAATT
11003331 TTTTTTATA
1 TTTTTTATA
**
11003340 AATTTTATA
1 TTTTTTATA
*
11003349 TTTCTTTACA
1 TTT-TTTATA
11003359 -TTTTTATA
1 TTTTTTATA
11003367 TTTTTTTACTA
1 -TTTTTTA-TA
* * *
11003378 CTTTATAAA
1 TTTTTTATA
*
11003387 TTTTATATA
1 TTTTTTATA
11003396 TTTTTATATA
1 TTTTT-TATA
*
11003406 TTTTGTATA
1 TTTTTTATA
11003415 TTTTTTACTA
1 TTTTTTA-TA
**
11003425 TTTTAAATA
1 TTTTTTATA
11003434 TTTTTT-TA
1 TTTTTTATA
11003442 TT
1 TT
11003444 AAAATTTAAT
Statistics
Matches: 80, Mismatches: 18, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
8 9 0.11
9 38 0.47
10 31 0.39
11 2 0.03
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTTTATA
Found at i:11003369 original size:8 final size:8
Alignment explanation
Indices: 11003332--11003491 Score: 61
Period size: 9 Copynumber: 17.6 Consensus size: 8
11003322 TTTATAATTT
11003332 TTTTTATAA
1 TTTTTAT-A
*
11003341 ATTTTATA
1 TTTTTATA
*
11003349 TTTCTTTACA
1 -TT-TTTATA
11003359 TTTTTATA
1 TTTTTATA
11003367 TTTTTTTACTA
1 --TTTTTA-TA
* *
11003378 CTTTATAAA
1 -TTTTTATA
11003387 TTTTATATA
1 TTTT-TATA
11003396 TTTTTATATA
1 -TTTT-TATA
11003406 TTTTGTATA
1 TTTT-TATA
11003415 TTTTTTACTA
1 -TTTTTA-TA
*
11003425 TTTTAAATA
1 TTTT-TATA
*
11003434 TTTTTTTA
1 TTTTTATA
11003442 TTAAAATTTAATA
1 TT----TTT-ATA
11003455 TTTTTATA
1 TTTTTATA
*
11003463 ATTTTAT-
1 TTTTTATA
11003470 TTATTTATA
1 TT-TTTATA
*
11003479 TTTTTATC
1 TTTTTATA
11003487 TTTTT
1 TTTTT
11003492 TTACCACATG
Statistics
Matches: 117, Mismatches: 17, Indels: 35
0.69 0.10 0.21
Matches are distributed among these distances:
7 1 0.01
8 37 0.32
9 38 0.32
10 32 0.27
11 2 0.02
12 3 0.03
13 4 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.67
Consensus pattern (8 bp):
TTTTTATA
Found at i:11003389 original size:45 final size:46
Alignment explanation
Indices: 11003334--11003432 Score: 134
Period size: 45 Copynumber: 2.2 Consensus size: 46
11003324 TATAATTTTT
11003334 TTTATAAATTTTATAT-TTCTTTACAT-TTTTATAT-TTTTTTACTA
1 TTTATAAATTTTATATATT-TTTACATATTTTATATATTTTTTACTA
* *
11003378 CTTTATAAATTTTATATATTTTTATATATTTTGTATATTTTTTACTA
1 -TTTATAAATTTTATATATTTTTACATATTTTATATATTTTTTACTA
11003425 TTT-TAAAT
1 TTTATAAAT
11003433 ATTTTTTTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
45 27 0.55
46 12 0.24
47 10 0.20
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (46 bp):
TTTATAAATTTTATATATTTTTACATATTTTATATATTTTTTACTA
Found at i:11003401 original size:19 final size:19
Alignment explanation
Indices: 11003379--11003475 Score: 83
Period size: 19 Copynumber: 5.1 Consensus size: 19
11003369 TTTTTACTAC
11003379 TTTATAAATTTTATATATT
1 TTTATAAATTTTATATATT
* *
11003398 TTTATATATTTTGTATATT
1 TTTATAAATTTTATATATT
* *
11003417 TTT-TACTATTTTAAATATTTT
1 TTTATA-AATTTT--ATATATT
*
11003438 TTTATTAAAATTTA-ATATT
1 TTTA-TAAATTTTATATATT
*
11003457 TTTAT-AATTTTATTTATT
1 TTTATAAATTTTATATATT
11003475 T
1 T
11003476 ATATTTTTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
17 6 0.10
18 8 0.13
19 34 0.54
20 1 0.02
21 8 0.13
22 4 0.06
23 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (19 bp):
TTTATAAATTTTATATATT
Found at i:11003417 original size:28 final size:27
Alignment explanation
Indices: 11003333--11003437 Score: 70
Period size: 28 Copynumber: 3.8 Consensus size: 27
11003323 TTATAATTTT
* * *
11003333 TTTTATAAATTTTATATTTCTTTACAT-
1 TTTTATAATTTTTATATAT-TTTATATA
* * *
11003360 TTTTAT-ATTTTTTTACTACTTTATAAA
1 TTTTATAATTTTTATA-TATTTTATATA
*
11003387 TTTTATATATTTTTATATATTTTGTATA
1 TTTTATA-ATTTTTATATATTTTATATA
* * *
11003415 TTTTTTACTATTTTAAATATTTT
1 TTTTATAAT-TTTTATATATTTT
11003438 TTTATTAAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
26 12 0.20
27 14 0.23
28 26 0.43
29 8 0.13
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTTATAATTTTTATATATTTTATATA
Found at i:11009993 original size:10 final size:10
Alignment explanation
Indices: 11009978--11010037 Score: 86
Period size: 10 Copynumber: 6.0 Consensus size: 10
11009968 TAATTTTAGG
*
11009978 ATTTATTTTT
1 ATTTATCTTT
11009988 ATTTATCTTT
1 ATTTATCTTT
11009998 ATTTATCTTT
1 ATTTATCTTT
*
11010008 AATTATCTTT
1 ATTTATCTTT
11010018 ATTTAT-TTGT
1 ATTTATCTT-T
11010028 ATTTATCTTT
1 ATTTATCTTT
11010038 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:11022044 original size:4 final size:4
Alignment explanation
Indices: 11022019--11022083 Score: 76
Period size: 4 Copynumber: 16.2 Consensus size: 4
11022009 TATGGAAGTT
* * * *
11022019 TTTA TTTT TTTA TTTA TGTA TTTA TTTA CTTA TGTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
11022067 TGTA TTTA TTTA CTTA T
1 TTTA TTTA TTTA TTTA T
11022084 CATTCTTTTA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:11022046 original size:16 final size:16
Alignment explanation
Indices: 11022021--11022083 Score: 99
Period size: 16 Copynumber: 3.9 Consensus size: 16
11022011 TGGAAGTTTT
* *
11022021 TATTTTTTTATTTATG
1 TATTTATTTACTTATG
11022037 TATTTATTTACTTATG
1 TATTTATTTACTTATG
*
11022053 TATTTATTTATTTATG
1 TATTTATTTACTTATG
11022069 TATTTATTTACTTAT
1 TATTTATTTACTTAT
11022084 CATTCTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (16 bp):
TATTTATTTACTTATG
Found at i:11025184 original size:32 final size:32
Alignment explanation
Indices: 11025143--11025207 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
11025133 TCCATAGGTA
11025143 ATCATACATTGAGAATTCAACTAAAAGAACAT
1 ATCATACATTGAGAATTCAACTAAAAGAACAT
11025175 ATCATACATTGAGAATTCAACTAAAAGAACAT
1 ATCATACATTGAGAATTCAACTAAAAGAACAT
11025207 A
1 A
11025208 AAAGTTTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.25
Consensus pattern (32 bp):
ATCATACATTGAGAATTCAACTAAAAGAACAT
Found at i:11036751 original size:4 final size:4
Alignment explanation
Indices: 11036744--11036768 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11036734 GCAAGCATGG
11036744 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
11036769 AAAGCTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:11036905 original size:234 final size:227
Alignment explanation
Indices: 11036476--11036931 Score: 788
Period size: 234 Copynumber: 2.0 Consensus size: 227
11036466 TTTCAAGACA
11036476 TGCAAGCCTTTAATGTAACACTCCTTCCAAAACAAGCATGGAAACATACATACATACAAAAGCTA
1 TGCAAGCCTTTAATGTAACACTCCTTCCAAAACAAGCATGGAAACATACATACATACAAAAGCTA
*
11036541 TTAAATTTTATTGAAGCAAACAGAAAGGTTACAAACTTAAGTGATAGAACCAAGGAAACTACATG
66 TTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTAAGTGATAGAACCAAGGAAACTACATG
*
11036606 CACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCTAAGGAGAATAATCTAT
131 CACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCTAAGAAGAATAATCTAT
11036671 TTTGGCAAATCAATTTGGATTAAACCCGGACT
196 TTTGGCAAATCAATTTGGATTAAACCCGGACT
*
11036703 TGCAAGCCTTTAATGTAACACTCCTTCCAAAGCAAGCATGGATACATACATACATACATACATAC
1 TGCAAGCCTTTAATGTAACACTCCTTCCAAAACAAGCATGG------A-A-ACATACATACATAC
* *
11036768 AAAAGCTATTAAATTTTATTGAAGCAGAGAAAAAGGTTACAAACTTAAGTGATAGAACCAAGG-A
58 AAAAGCTATTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTAAGTGATAGAACCAAGGAA
11036832 ACTACATGCACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCTAAGAAGAA
123 ACTACATGCACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCTAAGAAGAA
11036897 TAATCTATTTTGGCAAATCAATTTGGATTAAACCC
188 TAATCTATTTTGGCAAATCAATTTGGATTAAACCC
11036932 AGATATGAAC
Statistics
Matches: 216, Mismatches: 5, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
227 40 0.19
233 1 0.00
234 101 0.47
235 74 0.34
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (227 bp):
TGCAAGCCTTTAATGTAACACTCCTTCCAAAACAAGCATGGAAACATACATACATACAAAAGCTA
TTAAATTTTATTGAAGCAAACAAAAAGGTTACAAACTTAAGTGATAGAACCAAGGAAACTACATG
CACTAATAAAACAACTTGGATTAAGCCTAAATATGAAGTAATAAACCCTAAGAAGAATAATCTAT
TTTGGCAAATCAATTTGGATTAAACCCGGACT
Found at i:11042850 original size:68 final size:68
Alignment explanation
Indices: 11042738--11042865 Score: 186
Period size: 68 Copynumber: 1.9 Consensus size: 68
11042728 TTTAACAAAA
* *
11042738 TTTTTTCTCTCATTTTCTTTGTTGCCAAACACCACTTGTTTTCTTCAAAACACATGGTTGCTGCC
1 TTTTTTCTCTCATTTTCTCTCTTGCCAAACACCACTTGTTTTCTTCAAAACACATGGTTGCTGCC
11042803 GTT
66 GTT
* * * *
11042806 TTTTTTCTCTCATTTTCTCTCTTGGCAAAGACCA-TTTTTCTTCTTCAAAACATATGGTTG
1 TTTTTTCTCTCATTTTCTCTCTTGCCAAACACCACTTGTT-TTCTTCAAAACACATGGTTG
11042866 GCTCATTTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 4 0.08
68 49 0.92
ACGTcount: A:0.19, C:0.23, G:0.11, T:0.47
Consensus pattern (68 bp):
TTTTTTCTCTCATTTTCTCTCTTGCCAAACACCACTTGTTTTCTTCAAAACACATGGTTGCTGCC
GTT
Found at i:11053843 original size:27 final size:27
Alignment explanation
Indices: 11053805--11053875 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
11053795 TCGAGTAGTA
* * *
11053805 GTAGTGGAAGTGAGAGTAGTGGAAGCG
1 GTAGCGGAAGTGAAAGTAGCGGAAGCG
* *
11053832 GTAGCGGTAGTGAAAGTAGCGGAAGTG
1 GTAGCGGAAGTGAAAGTAGCGGAAGCG
*
11053859 GTAGCGGAAGTGGAAGT
1 GTAGCGGAAGTGAAAGT
11053876 GAAAGCAGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.06, G:0.46, T:0.18
Consensus pattern (27 bp):
GTAGCGGAAGTGAAAGTAGCGGAAGCG
Found at i:11053864 original size:12 final size:12
Alignment explanation
Indices: 11053847--11053871 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11053837 GGTAGTGAAA
11053847 GTAGCGGAAGTG
1 GTAGCGGAAGTG
11053859 GTAGCGGAAGTG
1 GTAGCGGAAGTG
11053871 G
1 G
11053872 AAGTGAAAGC
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:0.24, C:0.08, G:0.52, T:0.16
Consensus pattern (12 bp):
GTAGCGGAAGTG
Found at i:11056171 original size:4 final size:4
Alignment explanation
Indices: 11056162--11056196 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
11056152 ATAAAAATAA
* *
11056162 AAAC AAAC AAAC AAAC AAAC AAAC ACAC ACAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAA
11056197 TAGATGTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:11059838 original size:17 final size:18
Alignment explanation
Indices: 11059804--11059838 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11059794 GTTAGAGCCT
*
11059804 ATATGTTGTGTCTTTATG
1 ATATGTTCTGTCTTTATG
11059822 ATATGTTCTGT-TTTATG
1 ATATGTTCTGTCTTTATG
11059839 TCAACATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.17, C:0.06, G:0.20, T:0.57
Consensus pattern (18 bp):
ATATGTTCTGTCTTTATG
Found at i:11074847 original size:17 final size:16
Alignment explanation
Indices: 11074809--11074841 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11074799 TGTGATTTTA
11074809 TAAT-TTTTATATAAT
1 TAATATTTTATATAAT
11074824 TAATATTTTA-ATAAT
1 TAATATTTTATATAAT
11074839 TAA
1 TAA
11074842 ACTATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATTTTATATAAT
Found at i:11075120 original size:2 final size:2
Alignment explanation
Indices: 11075113--11075139 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11075103 CTATGCTTAT
11075113 TA TA 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 T
11075140 TCCCATTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11078013 original size:21 final size:21
Alignment explanation
Indices: 11077987--11078027 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11077977 ATCTGCTCAA
* *
11077987 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11078008 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11078028 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11082985 original size:44 final size:44
Alignment explanation
Indices: 11082921--11083011 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
11082911 GTAGGTCAAA
* * *
11082921 TAATATTAAAATAGCTTACACTAATCAGAGTTTAAGTGAGAAAC
1 TAATATTAAAATAACATACACTAATCAGAATTTAAGTGAGAAAC
* *
11082965 TAATATTAAAATAACATACACTAATCATAATTTAAGTGGGAAAC
1 TAATATTAAAATAACATACACTAATCAGAATTTAAGTGAGAAAC
11083009 TAA
1 TAA
11083012 AAACAAAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACATACACTAATCAGAATTTAAGTGAGAAAC
Found at i:11084718 original size:21 final size:21
Alignment explanation
Indices: 11084672--11084717 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
11084662 TTTTTTTGTG
*
11084672 AAAAACCCTCCCGAAAAGGGT
1 AAAAACCCTCCCGAAAAGGAT
*
11084693 GAAAACCC-CCCGAAAAGGAT
1 AAAAACCCTCCCGAAAAGGAT
11084713 AAAAA
1 AAAAA
11084718 ATCACGGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.50, C:0.26, G:0.17, T:0.07
Consensus pattern (21 bp):
AAAAACCCTCCCGAAAAGGAT
Found at i:11088545 original size:131 final size:131
Alignment explanation
Indices: 11088311--11088566 Score: 422
Period size: 131 Copynumber: 2.0 Consensus size: 131
11088301 CTATTCATTC
*
11088311 AAAAATTCTTTAAAACGAAAGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTACCCTATCGTG
1 AAAAATTCTTCAAAACGAAAGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTACCCTATCGTG
* * * *
11088376 CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTTACTCATCTGTT
66 CTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATCTGTT
11088441 T
131 T
* * * *
11088442 AAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
1 AAAAATTCTTCAAAACGAAAGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTACCCTATCGTG
*
11088507 CTGGGTTGCAATTTCCCATTTGTTCAAAATAGTCGAATATCCCTTTAGAATTTCACTCAT
66 CTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCAT
11088567 GTTCTCTAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 115 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (131 bp):
AAAAATTCTTCAAAACGAAAGCAATGTTCGATGTTTGGAAATTCGGGGAATCGTACCCTATCGTG
CTGGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATCTGTT
T
Found at i:11099648 original size:25 final size:24
Alignment explanation
Indices: 11099615--11099664 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
11099605 TTAGGGTTAC
*
11099615 CGATCTCAGCTCTTAAGAGCTTAT
1 CGATCTCAGCTCGTAAGAGCTTAT
*
11099639 CGATACTCAGCTCGTATGAGCTTAT
1 CGAT-CTCAGCTCGTAAGAGCTTAT
11099664 C
1 C
11099665 ATTATTTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (24 bp):
CGATCTCAGCTCGTAAGAGCTTAT
Found at i:11101519 original size:24 final size:24
Alignment explanation
Indices: 11101487--11101533 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
11101477 CAAAGGTGCG
11101487 TGTTTACAAGTGTTAAGCTTTCTT
1 TGTTTACAAGTGTTAAGCTTTCTT
11101511 TGTTTACAAGTGTTAAGCTTTCT
1 TGTTTACAAGTGTTAAGCTTTCT
11101534 CCTTTAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (24 bp):
TGTTTACAAGTGTTAAGCTTTCTT
Found at i:11107743 original size:31 final size:31
Alignment explanation
Indices: 11107708--11107788 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
11107698 TTACAAAATG
* *
11107708 GTCATTTAACTATTCAAAAGTTTTCATTTAA
1 GTCATTAAACTATTCAAAAGCTTTCATTTAA
*
11107739 GTCATTGAACTATTCAAAAGCTTTCATTTAA
1 GTCATTAAACTATTCAAAAGCTTTCATTTAA
*
11107770 GTCATTAAACTATTAAAAA
1 GTCATTAAACTATTCAAAA
11107789 AAATTTAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (31 bp):
GTCATTAAACTATTCAAAAGCTTTCATTTAA
Found at i:11111722 original size:14 final size:14
Alignment explanation
Indices: 11111705--11111736 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11111695 TAAATTTTTA
*
11111705 TTTTTAAATTAATT
1 TTTTTAAAATAATT
11111719 TTTTTAAAATAATT
1 TTTTTAAAATAATT
11111733 TTTT
1 TTTT
11111737 CGCTATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTAAAATAATT
Found at i:11120266 original size:23 final size:22
Alignment explanation
Indices: 11120236--11120292 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
11120226 TACCAACATG
11120236 TTTTATTT-TTAAATTTTTATTT
1 TTTTATTTATTAAA-TTTTATTT
**
11120258 TTTTCATTTATTTTATTTTATTT
1 TTTT-ATTTATTAAATTTTATTT
*
11120281 TTTTACTTATTA
1 TTTTATTTATTA
11120293 TCCTAATATC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 10 0.34
23 16 0.55
24 3 0.10
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTATTTATTAAATTTTATTT
Found at i:11138793 original size:22 final size:22
Alignment explanation
Indices: 11138768--11138810 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11138758 TATCTAAATA
11138768 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
11138790 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
11138811 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:11138814 original size:11 final size:11
Alignment explanation
Indices: 11138775--11138815 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
11138765 ATAATAACAA
11138775 CAAAATAGTAG
1 CAAAATAGTAG
* *
11138786 CAACATAATAG
1 CAAAATAGTAG
*
11138797 TAAAATAGTAG
1 CAAAATAGTAG
11138808 CAAAATAG
1 CAAAATAG
11138816 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:11139457 original size:17 final size:17
Alignment explanation
Indices: 11139431--11139463 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11139421 GCATACTTAC
11139431 TTTTTAAAAAAATTTCG
1 TTTTTAAAAAAATTTCG
*
11139448 TTTTTTAAAAAATTTC
1 TTTTTAAAAAAATTTC
11139464 ATGTACTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (17 bp):
TTTTTAAAAAAATTTCG
Found at i:11140037 original size:16 final size:16
Alignment explanation
Indices: 11140016--11140083 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
11140006 TTTGGTTCGC
11140016 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
11140032 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
11140048 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11140064 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11140080 TGTA
1 TGTA
11140084 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11140467 original size:14 final size:15
Alignment explanation
Indices: 11140418--11140469 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
11140408 ATAAAATATA
11140418 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
11140433 TATTAAATATATTAT
1 AATTAAATATATTAT
11140448 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
11140461 AATTTAATA
1 AATTAAATA
11140470 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:11140471 original size:59 final size:58
Alignment explanation
Indices: 11140302--11140598 Score: 164
Period size: 59 Copynumber: 5.0 Consensus size: 58
11140292 ATCATATTTA
* * *
11140302 AACATAATTATTATTAGATATATTATAATTAAAATATA-GAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATG-ATTTAATAAAA-TATAAAT
* * * * *
11140361 AATCA-ATATTCTTATATGAATTTACTCA-AA-TAATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAA-AATATATGAT-TTAATAAAATATAAA-T
* * *
11140422 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * * *
11140481 AA-TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAAGATAATTT
1 AACATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATGAT-TTAATAAAATATAA-AT
* * *
11140542 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAA
11140599 ATAATTATAA
Statistics
Matches: 176, Mismatches: 38, Indels: 49
0.67 0.14 0.19
Matches are distributed among these distances:
57 10 0.06
58 11 0.06
59 53 0.30
60 34 0.19
61 46 0.26
62 13 0.07
63 9 0.05
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAAT
Found at i:11140517 original size:120 final size:121
Alignment explanation
Indices: 11140302--11140594 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 121
11140292 ATCATATTTA
* *
11140302 AACATAATTATTATTAGATATATTATAATTAAAATATAGAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
11140367 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
*
11140422 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
11140487 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
* * *
11140543 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
11140595 TAAAATAATT
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 161 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
Found at i:11143283 original size:8 final size:8
Alignment explanation
Indices: 11143270--11143304 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
11143260 TAAAGATTCT
11143270 AAAAAAGA
1 AAAAAAGA
11143278 AAAAAAGA
1 AAAAAAGA
*
11143286 AACAAAG-
1 AAAAAAGA
11143293 AAAAAAGA
1 AAAAAAGA
11143301 AAAA
1 AAAA
11143305 GTAGAATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:11143298 original size:15 final size:16
Alignment explanation
Indices: 11143273--11143302 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11143263 AGATTCTAAA
11143273 AAAGAAAAAAAGAAAC
1 AAAGAAAAAAAGAAAC
11143289 AAAG-AAAAAAGAAA
1 AAAGAAAAAAAGAAA
11143303 AAGTAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAGAAAC
Found at i:11150488 original size:25 final size:29
Alignment explanation
Indices: 11150460--11150512 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
11150450 GTAAGATGGA
11150460 ATAA-TTTTT-AA-TAAAA-AAAATATAC
1 ATAATTTTTTAAATTAAAATAAAATATAC
11150485 ATAATTTTTTAAATTAAAATAAAATATA
1 ATAATTTTTTAAATTAAAATAAAATATA
11150513 GTAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 4 0.17
26 5 0.21
27 2 0.08
28 5 0.21
29 8 0.33
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
ATAATTTTTTAAATTAAAATAAAATATAC
Found at i:11153415 original size:20 final size:19
Alignment explanation
Indices: 11153390--11153431 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
11153380 CACAAAGCCC
11153390 AAATACAAAATAACCCATCT
1 AAATACAAAATAACCCAT-T
* *
11153410 AAATACCAACTAACCCATT
1 AAATACAAAATAACCCATT
11153429 AAA
1 AAA
11153432 CCCCAATACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (19 bp):
AAATACAAAATAACCCATT
Found at i:11153437 original size:19 final size:20
Alignment explanation
Indices: 11153400--11153437 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
11153390 AAATACAAAA
*
11153400 TAACCCATCTAAATACCAAC
1 TAACCCATCTAAACACCAAC
*
11153420 TAACCCAT-TAAACCCCAA
1 TAACCCATCTAAACACCAA
11153438 TACCCGGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (20 bp):
TAACCCATCTAAACACCAAC
Found at i:11155138 original size:21 final size:21
Alignment explanation
Indices: 11155097--11155138 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11155087 TCTAATATAA
* *
11155097 ATATATATATCATATAGGTTT
1 ATATACATATCATACAGGTTT
*
11155118 ATATACATATCATACATGTTT
1 ATATACATATCATACAGGTTT
11155139 CATTATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
ATATACATATCATACAGGTTT
Found at i:11155335 original size:11 final size:11
Alignment explanation
Indices: 11155319--11155386 Score: 57
Period size: 11 Copynumber: 6.0 Consensus size: 11
11155309 TGTTTTTCAA
11155319 TATGTATATAT
1 TATGTATATAT
*
11155330 TATGTAAATATTT
1 TATGT--ATATAT
11155343 TGATGT-TATAT
1 T-ATGTATATAT
* *
11155354 TATATATGTAT
1 TATGTATATAT
* *
11155365 TTTTTATATAT
1 TATGTATATAT
11155376 TATGTATATAT
1 TATGTATATAT
11155387 ATATATTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
10 3 0.07
11 31 0.70
13 6 0.14
14 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (11 bp):
TATGTATATAT
Found at i:11155369 original size:26 final size:28
Alignment explanation
Indices: 11155318--11155405 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 28
11155308 TTGTTTTTCA
* * *
11155318 ATATGTATATAT-TATGTAAATATTTT-G
1 ATAT-TATATATATATATATATTTTTTAG
* * *
11155345 ATGTTATAT-TATATATGTATTTTTTAT
1 ATATTATATATATATATATATTTTTTAG
* *
11155372 ATATTATGTATATATATATATTTTTCA-
1 ATATTATATATATATATATATTTTTTAG
11155399 ATATTAT
1 ATATTAT
11155406 TAGTTTTTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
25 1 0.02
26 15 0.31
27 17 0.35
28 15 0.31
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.57
Consensus pattern (28 bp):
ATATTATATATATATATATATTTTTTAG
Found at i:11159648 original size:4 final size:4
Alignment explanation
Indices: 11159641--11159692 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
11159631 GACATTTATG
11159641 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT
11159689 CATT
1 CATT
11159693 GCATATCTCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CATT
Found at i:11168578 original size:28 final size:28
Alignment explanation
Indices: 11168528--11168640 Score: 88
Period size: 28 Copynumber: 3.9 Consensus size: 28
11168518 CCATTCAGAA
* *
11168528 ATCAGTGTTAA-CTAGGCCTTAGCCCAT
1 ATCAGTATTAATCTAGGCCATAGCCCAT
*
11168555 ATCAGTATTAATCTAGGCCATAGCCCCT
1 ATCAGTATTAATCTAGGCCATAGCCCAT
* *
11168583 -TACAGTAATAGAGTATACTGGGCC-TAGCCCAT
1 AT-CAGT-AT-TA--AT-CTAGGCCATAGCCCAT
* *
11168615 ATCAGTATCAATCTGGGCCATAGCCC
1 ATCAGTATTAATCTAGGCCATAGCCC
11168641 TATACAAGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 17
0.74 0.07 0.18
Matches are distributed among these distances:
27 18 0.26
28 26 0.37
29 2 0.03
30 2 0.03
31 2 0.03
32 13 0.19
33 7 0.10
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (28 bp):
ATCAGTATTAATCTAGGCCATAGCCCAT
Found at i:11176268 original size:14 final size:14
Alignment explanation
Indices: 11176249--11176282 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
11176239 GCTGAGGTAA
*
11176249 TTTCAATTTCTGTT
1 TTTCAATTTCTGCT
11176263 TTTCAATTTCTGCT
1 TTTCAATTTCTGCT
11176277 TTTCAA
1 TTTCAA
11176283 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTGCT
Found at i:11176302 original size:89 final size:84
Alignment explanation
Indices: 11176189--11176403 Score: 276
Period size: 89 Copynumber: 2.5 Consensus size: 84
11176179 GTATTTTGAT
11176189 TTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGG-GCATGCTGAGGTAATTT-
1 TTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-AGGTGCATGCTGAGGT-ATTTC
11176252 CAATTTCTGTTTTTCAATTTC-TG
64 CAATTTCTG-TTTT-AA-TTCATG
* * **
11176275 CTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTTATGCTGAGGTATTT
1 -TTTTC--AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTAGGTGCATGCTGAGGTATTT
11176340 CCAATTTCTGTTTTAATTCATG
63 CCAATTTCTGTTTTAATTCATG
*
11176362 TTTTCAAAAATCAACTCATATTACGAGAA-GTGAGTTGAGCCT
1 TTTTCAAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCT
11176404 TTTAATTTCG
Statistics
Matches: 116, Mismatches: 6, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
84 33 0.28
85 1 0.01
86 8 0.07
87 9 0.08
88 10 0.09
89 55 0.47
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (84 bp):
TTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTAGGTGCATGCTGAGGTATTTCCA
ATTTCTGTTTTAATTCATG
Found at i:11176431 original size:54 final size:54
Alignment explanation
Indices: 11176350--11176478 Score: 190
Period size: 54 Copynumber: 2.4 Consensus size: 54
11176340 CCAATTTCTG
11176350 TTTTAAT-TC-ATGTTTTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCC
1 TTTTAATGTCGAT-TTTTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCC
* * * *
11176403 TTTTAATTTCGGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATGTCGATTTTTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCC
*
11176457 TTTTAATGTCTATTTTTCAAAA
1 TTTTAATGTCGATTTTTCAAAA
11176479 TCTACTTTTC
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
53 7 0.10
54 60 0.88
55 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.40
Consensus pattern (54 bp):
TTTTAATGTCGATTTTTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCC
Found at i:11176651 original size:89 final size:90
Alignment explanation
Indices: 11176470--11176655 Score: 234
Period size: 89 Copynumber: 2.1 Consensus size: 90
11176460 TAATGTCTAT
* * * *
11176470 TTTTCAAAATCTACTTTTCAATTTATACTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTT
1 TTTTCAAAACCTACTTTTCAAATTATACGTTTCAAAAAATCAACTCATATAGCGAGAAGTGAGTT
* * *
11176535 GAGCCTCGGGTCACATAACGAGGTA
66 GAGCCTCGGCTCACAGAACGAGCTA
*
11176560 TTTTCAAAACCTACTTTTCAAATTA-A-GTTTCAAAAAAATCAACTCATATAGCGAGAGGTGAGT
1 TTTTCAAAACCTACTTTTCAAATTATACGTTTC-AAAAAATCAACTCATATAGCGAGAAGTGAGT
* **
11176623 TGAGCCTTGGCTCAC-GCGCTGAGCTA
65 TGAGCCTCGGCTCACAGAAC-GAGCTA
11176649 TTTTCAA
1 TTTTCAA
11176656 TTTTTATTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
88 5 0.06
89 55 0.66
90 23 0.28
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (90 bp):
TTTTCAAAACCTACTTTTCAAATTATACGTTTCAAAAAATCAACTCATATAGCGAGAAGTGAGTT
GAGCCTCGGCTCACAGAACGAGCTA
Found at i:11176970 original size:37 final size:37
Alignment explanation
Indices: 11176919--11177177 Score: 408
Period size: 37 Copynumber: 7.2 Consensus size: 37
11176909 ACATTAGAGA
*
11176919 AGATTGAAGCTACAAGGCGTATATCAGAAGATGCAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
11176956 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
*
11176993 AGATTGAAGTTACAAGGCGTATATCAGAAGATACAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
11177030 AGATTGAAGTTACAAGGCG----T-AG-AGA--CAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
*
11177059 AGATTGAAGTTACAAGGCGTATATCAGAAAATGCAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
11177096 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
* *
11177133 AGATTGAAGCTACAAGGCGTATATCAGAATATGCAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
*
11177170 GGATTGAA
1 AGATTGAA
11177178 CCAAAGCTAC
Statistics
Matches: 207, Mismatches: 7, Indels: 16
0.90 0.03 0.07
Matches are distributed among these distances:
29 23 0.11
31 3 0.01
32 2 0.01
33 2 0.01
34 2 0.01
35 2 0.01
37 173 0.84
ACGTcount: A:0.39, C:0.11, G:0.27, T:0.24
Consensus pattern (37 bp):
AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
Found at i:11177027 original size:21 final size:21
Alignment explanation
Indices: 11176924--11177027 Score: 57
Period size: 21 Copynumber: 5.4 Consensus size: 21
11176914 AGAGAAGATT
*
11176924 GAAGCTACAAGGCGTATATCA
1 GAAGATACAAGGCGTATATCA
* * *
11176945 GAAGATGC-A---GTAGAT-T
1 GAAGATACAAGGCGTATATCA
*
11176961 GAAGTTACAAGGCGTATATCA
1 GAAGATACAAGGCGTATATCA
* * *
11176982 GAAGATGC-A---GTAGAT-T
1 GAAGATACAAGGCGTATATCA
*
11176998 GAAGTTACAAGGCGTATATCA
1 GAAGATACAAGGCGTATATCA
11177019 GAAGATACA
1 GAAGATACA
11177028 GTAGATTGAA
Statistics
Matches: 56, Mismatches: 17, Indels: 20
0.60 0.18 0.22
Matches are distributed among these distances:
16 12 0.21
17 12 0.21
20 12 0.21
21 20 0.36
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.22
Consensus pattern (21 bp):
GAAGATACAAGGCGTATATCA
Found at i:11177095 original size:140 final size:140
Alignment explanation
Indices: 11176919--11177177 Score: 464
Period size: 140 Copynumber: 1.9 Consensus size: 140
11176909 ACATTAGAGA
*
11176919 AGATTGAAGCTACAAGGCGTATATCAGAAGATGCAGTAGATTGAAGTTACAAGGCGTATATCAGA
1 AGATTGAAGCTACAAGGCGTATATCAGAAAATGCAGTAGATTGAAGTTACAAGGCGTATATCAGA
*
11176984 AGATGCAGTAGATTGAAGTTACAAGGCGTATATCAGAAGATACAGTAGATTGAAGTTACAAGGCG
66 AGATGCAGTAGATTGAAGCTACAAGGCGTATATCAGAAGATACAGTAGATTGAAGTTACAAGGCG
11177049 TAGAGACAGT
131 TAGAGACAGT
*
11177059 AGATTGAAGTTACAAGGCGTATATCAGAAAATGCAGTAGATTGAAGTTACAAGGCGTATATCAGA
1 AGATTGAAGCTACAAGGCGTATATCAGAAAATGCAGTAGATTGAAGTTACAAGGCGTATATCAGA
* * *
11177124 AGATGCAGTAGATTGAAGCTACAAGGCGTATATCAGAATATGCAGTGGATTGAA
66 AGATGCAGTAGATTGAAGCTACAAGGCGTATATCAGAAGATACAGTAGATTGAA
11177178 CCAAAGCTAC
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 113 1.00
ACGTcount: A:0.39, C:0.11, G:0.27, T:0.24
Consensus pattern (140 bp):
AGATTGAAGCTACAAGGCGTATATCAGAAAATGCAGTAGATTGAAGTTACAAGGCGTATATCAGA
AGATGCAGTAGATTGAAGCTACAAGGCGTATATCAGAAGATACAGTAGATTGAAGTTACAAGGCG
TAGAGACAGT
Found at i:11177133 original size:103 final size:103
Alignment explanation
Indices: 11176952--11177153 Score: 377
Period size: 103 Copynumber: 2.0 Consensus size: 103
11176942 TCAGAAGATG
*
11176952 CAGTAGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGTAGATTGAAGTTACAAGGCGTATAT
1 CAGTAGATTGAAGTTACAAGGCGTATATCAGAAAATGCAGTAGATTGAAGTTACAAGGCGTATAT
*
11177017 CAGAAGATACAGTAGATTGAAGTTACAAGGCGTAGAGA
66 CAGAAGATACAGTAGATTGAAGCTACAAGGCGTAGAGA
11177055 CAGTAGATTGAAGTTACAAGGCGTATATCAGAAAATGCAGTAGATTGAAGTTACAAGGCGTATAT
1 CAGTAGATTGAAGTTACAAGGCGTATATCAGAAAATGCAGTAGATTGAAGTTACAAGGCGTATAT
*
11177120 CAGAAGATGCAGTAGATTGAAGCTACAAGGCGTA
66 CAGAAGATACAGTAGATTGAAGCTACAAGGCGTA
11177154 TATCAGAATA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.39, C:0.11, G:0.27, T:0.23
Consensus pattern (103 bp):
CAGTAGATTGAAGTTACAAGGCGTATATCAGAAAATGCAGTAGATTGAAGTTACAAGGCGTATAT
CAGAAGATACAGTAGATTGAAGCTACAAGGCGTAGAGA
Found at i:11177710 original size:17 final size:17
Alignment explanation
Indices: 11177688--11177725 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11177678 CACTGGCCAC
* *
11177688 CAGCCACCTGCCCACTG
1 CAGCCACCTACCCACTA
11177705 CAGCCACCTACCCACTA
1 CAGCCACCTACCCACTA
11177722 CAGC
1 CAGC
11177726 ACCGCCCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.53, G:0.13, T:0.11
Consensus pattern (17 bp):
CAGCCACCTACCCACTA
Found at i:11179142 original size:21 final size:21
Alignment explanation
Indices: 11179101--11179142 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11179091 TCTAATATAA
* *
11179101 ATATATATATCATATAGGTTT
1 ATATACATATCATACAGGTTT
*
11179122 ATATACATATCATACATGTTT
1 ATATACATATCATACAGGTTT
11179143 CATTATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
ATATACATATCATACAGGTTT
Found at i:11183330 original size:2 final size:2
Alignment explanation
Indices: 11183323--11183357 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11183313 AAATCATACA
11183323 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11183358 ATTGACCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11186694 original size:3 final size:3
Alignment explanation
Indices: 11186686--11186711 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11186676 AATCCTTCAA
11186686 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
11186712 AGAAACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11205184 original size:45 final size:45
Alignment explanation
Indices: 11205071--11205196 Score: 173
Period size: 45 Copynumber: 2.8 Consensus size: 45
11205061 AATGGCGAAT
*
11205071 CTTATCTCCCTGAAGT-TGCAGTGGAGCAGATTGAAGCCATTAAAC
1 CTTATCTCCCTGAAGTCT-CAGTGGAGCAGATTGAAGCCACTAAAC
* * *
11205116 ATTATCTCCCTGAATTCACAGTGGAGCAGATTGAAGCCACTAAAC
1 CTTATCTCCCTGAAGTCTCAGTGGAGCAGATTGAAGCCACTAAAC
* * *
11205161 CTTATCTCCCTGAAGTCTTAGTGGAGTAGGTTGAAG
1 CTTATCTCCCTGAAGTCTCAGTGGAGCAGATTGAAG
11205197 TTAAAGTCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTCTCAGTGGAGCAGATTGAAGCCACTAAAC
Found at i:11205443 original size:45 final size:45
Alignment explanation
Indices: 11205341--11205678 Score: 233
Period size: 45 Copynumber: 7.6 Consensus size: 45
11205331 CATATCAAGC
* * ** * *
11205341 CTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTA--AAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAGAT
*
11205384 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGGAGATAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAGAT
* * ** * * * * *
11205429 CTTATCTCCTTGAAGTTACAGCAGAATAGA-TCAAAGAAAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACT-GAAGATAGCAGAT
* * * **
11205474 CTTATCTCTCTGAAGTTGCTGTAGAGTAGGTTGAAG-TAGCA-AGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAGA-T
* * *
11205518 TTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGGAGATAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAGAT
* * ** * *
11205563 CTTATATCCATGAAGTTGCAGTGGAACAGATTGAAGCTA-CA-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAGAT
* * * * * * * *
11205606 CCTTATCTCTCTGAAGTTGCAGTAGAGCATGA-TAAAAATATACAAAC
1 -CTTATCTCCCTGAAGTTGCAGTGGAGTA-GACTGAAGATA-GCAGAT
11205653 CTTATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
11205679 CAGGTTGAAG
Statistics
Matches: 230, Mismatches: 53, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
43 36 0.16
44 63 0.27
45 102 0.44
46 28 0.12
47 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAGAT
Found at i:11205549 original size:134 final size:132
Alignment explanation
Indices: 11205340--11205681 Score: 407
Period size: 134 Copynumber: 2.6 Consensus size: 132
11205330 TCATATCAAG
* * *
11205340 CCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTAAAATCTTATCTCCCTGAAGTTGCAG
1 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTTAAAATCTTATCTCCCTGAAGTTGCAG
* * * *
11205405 TGGAGTAGACTGGAGATAGCAGATCTTATCTCCTTGAAGTTACAGCAGAATAGATCAAAGAAAGC
66 TGGAGCAGACTGGAGATAGCAGATCTTATATCCATGAAGTTACAGCAGAACAGATCAAAGAAA-C
11205470 AAA
130 AAA
* * * *
11205473 CCTTATCTCTCTGAAGTTGCTGTAGAGTAGGTTGAAG-TAGCAAGTTTTATCTCCCTGAAGTTGC
1 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTTA--AAATCTTATCTCCCTGAAGTTGC
* ** ** **
11205537 AGTGGAGCAGACTGGAGATAGCAGATCTTATATCCATGAAGTTGCAGTGGAACAGATTGAAGCTA
64 AGTGGAGCAGACTGGAGATAGCAGATCTTATATCCATGAAGTTACAGCAGAACAGATCAAAGAAA
*
11205602 CAAT
129 CAAA
* ** * *
11205606 CCTTATCTCTCTGAAGTTGCAGTAGAGCATGATAAAAATATACAAACCTTATCTCCCTGAAGTTG
1 CCTTATCTCTCTGAAGTTGCAGTAGAGCA-GGTTGAAGT-TA-AAATCTTATCTCCCTGAAGTTG
11205671 CAGTGGAGCAG
63 CAGTGGAGCAG
11205682 GTTGAAGTTA
Statistics
Matches: 176, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
132 2 0.01
133 62 0.35
134 79 0.45
135 31 0.18
136 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (132 bp):
CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTTAAAATCTTATCTCCCTGAAGTTGCAG
TGGAGCAGACTGGAGATAGCAGATCTTATATCCATGAAGTTACAGCAGAACAGATCAAAGAAACA
AA
Found at i:11205654 original size:179 final size:177
Alignment explanation
Indices: 11205162--11205706 Score: 430
Period size: 180 Copynumber: 3.0 Consensus size: 177
11205152 CCACTAAACC
*** * ** * * * ** *
11205162 TTATCTCCCTGAAGTCTTAGTGGAGTAGGTTGAAGTTAAAGTCTTATCTCTTTGAAGTTACAGTG
1 TTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGATAAAATCTTATATCCATGAAGTTGCAGTG
* * * * * * *
11205227 GAGCAAACTGAAGATAGC-GAATCTTATTTCCCTG-AGTTGCAGCAGAACAGATTGAAGCTATAA
66 GAACAGACTGAAGATAGCAG-ATCTTATCTCCTTGAAGTTACAGCAGAATAGA-T----C-AAAA
* * * * **
11205290 ATAAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA-GAT-CA-TATCAAGCC
124 AT-AACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTT
** * * *
11205342 TTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTAAAATCTTATCTCCCTGAAGTTGCAGTG
1 TTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGATAAAATCTTATATCCATGAAGTTGCAGTG
** * *
11205407 GAGTAGACTGGAGATAGCAGATCTTATCTCCTTGAAGTTACAGCAGAATAGATCAAAGAA-AGCA
66 GAACAGACTGAAGATAGCAGATCTTATCTCCTTGAAGTTACAGCAGAATAGATCAAA-AATAACA
* * *
11205471 AACCTTATCTCTCTGAAGTTGCTGTAGAGTAGGTTGAAGTAGCAAGTT
130 AACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTT
* * *
11205519 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGGAGATAGCAGATCTTATATCCATGAAGTTGCAG
1 TTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGATA--AAATCTTATATCCATGAAGTTGCAG
* * * *
11205584 TGGAACAGATTGAAGCTA-CA-ATCCTTATCT-CTCTGAAGTTGCAGTAGAGCAT-GAT-AAAAA
64 TGGAACAGACTGAAGATAGCAGAT-CTTATCTCCT-TGAAGTTACAGCAGA--ATAGATCAAAAA
* *
11205644 TATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAA-TT
125 TA-ACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TACCAAGTT
11205698 CTTATCTCC
1 -TTATCTCC
11205707 TTTGAGTTTC
Statistics
Matches: 303, Mismatches: 46, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
174 31 0.10
175 4 0.01
176 4 0.01
177 45 0.15
178 26 0.09
179 77 0.25
180 100 0.33
181 16 0.05
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (177 bp):
TTATCTCCCTGAAGTAGCAGTGGAGCAGACTGAAGATAAAATCTTATATCCATGAAGTTGCAGTG
GAACAGACTGAAGATAGCAGATCTTATCTCCTTGAAGTTACAGCAGAATAGATCAAAAATAACAA
ACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTACCAAGTT
Found at i:11205703 original size:269 final size:268
Alignment explanation
Indices: 11205384--11206124 Score: 692
Period size: 268 Copynumber: 2.8 Consensus size: 268
11205374 AAGTTAAAAT
* ** * * *
11205384 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGGAGATAGCAGA-TCTTATCTCCTTGAAGTTAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCA-ATTCTTATCTCCTTG-AGTTAC
** * ** *
11205448 -A-GCAGAATAGATCAAAG-AAAGCAAAC-CTTATCTCTCTGAAGTTGC-TGTAGAGTAGGTTGA
64 AACGCAGAATA-AT-AAAGCAAAG-AAACTCTTATC-CT-TGAAACTACAT-TAGAGTAAATCGA
* * * * ** * * * *
11205508 AGTAGCAAGT-TTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTGGAGATA-GCAGATCTTATAT
123 AATAGCAA-TCCTTATCTCCCTGAAGTTGCAATAGAGCAGGA-TAAAAATACACAAACCTTATAT
* ** * *
11205570 CCATGAAGTTGCAGTGGAACAGATTGAAGCTACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCA
186 CCATGAAGTTGCAATGGAACAGATCAAAGCCACAATACTTATCTCTCTGAAGTTGCAGTAGAGCA
* *
11205635 TGATAAAAATATACAAAC
251 GGATAAAAATACACAAAC
*
11205653 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTTGAGTTTCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCC-TTGAGTTACA
* * * * * * * *
11205718 ACGGAGTATAATAAAGCTATGAATCTCTTCTCCTTGAAACTACATTGGAGTAAATCGAAATCGCA
65 ACGCAGAATAATAAAGCAAAGAAACTCTTATCCTTGAAACTACATTAGAGTAAATCGAAATAGCA
* * * *
11205783 ATCCTTATCTCTCTGAAGTTGCAATAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGT
130 ATCCTTATCTCCCTGAAGTTGCAATAGAGCAGGATAAAAATACACAAACCTTATATCCATGAAGT
* * * *
11205848 TGTAATGGAGCAGATCAAAGCCACAATATTTATCTCTTTGAAGTTGCAGTAGAGCAGGATAAAAA
195 TGCAATGGAACAGATCAAAGCCACAATACTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAA
11205913 TACACAAAC
260 TACACAAAC
* * *
11205922 TTTATTTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAATT-TTATCTCCTTTGAGTTTCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCC-TTGAGTTACA
* * * * * * * * * * * *
11205986 GCGGAGTAGAATGAAGCTATGAATCTCTTCTCCTTGAAACTACATTGGAGTAAATTGAAATTGCA
65 ACGCAGAATAATAAAGCAAAGAAACTCTTATCCTTGAAACTACATTAGAGTAAATCGAAATAGCA
* * * * * *
11206051 ATCCTTATCTCTCTGAAGTTGTAGTAGAGTAGGATAAAAATACACAAACCTTATCTCCTTGAAGT
130 ATCCTTATCTCCCTGAAGTTGCAATAGAGCAGGATAAAAATACACAAACCTTATATCCATGAAGT
*
11206116 TGCAGTGGA
195 TGCAATGGA
11206125 GTAGGTTAAA
Statistics
Matches: 404, Mismatches: 58, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
267 1 0.00
268 198 0.49
269 186 0.46
270 13 0.03
271 6 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (268 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAGTTACAA
CGCAGAATAATAAAGCAAAGAAACTCTTATCCTTGAAACTACATTAGAGTAAATCGAAATAGCAA
TCCTTATCTCCCTGAAGTTGCAATAGAGCAGGATAAAAATACACAAACCTTATATCCATGAAGTT
GCAATGGAACAGATCAAAGCCACAATACTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAAT
ACACAAAC
Found at i:11205837 original size:46 final size:46
Alignment explanation
Indices: 11205785--11205951 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 46
11205775 AAATCGCAAT
* *
11205785 CCTTATCTCTCTGAAGTTGCAATAGAGTAGGATAAAAATACACAAA
1 CCTTATCTCCCTGAAGTTGCAATAGAGCAGGATAAAAATACACAAA
* * * **
11205831 CCTTATCTCCCTGAAGTTGTAATGGAGCA-GAT-CAAAGCCACAATA
1 CCTTATCTCCCTGAAGTTGCAATAGAGCAGGATAAAAATACACAA-A
* ** *
11205876 -TTTATCTCTTTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAA
1 CCTTATCTCCCTGAAGTTGCAATAGAGCAGGATAAAAATACACAAA
* * * *
11205921 CTTTATTTCCCTGAAGTTGCAGTGGAGCAGG
1 CCTTATCTCCCTGAAGTTGCAATAGAGCAGG
11205952 TTGAAGTTAC
Statistics
Matches: 97, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
44 30 0.31
45 8 0.08
46 59 0.61
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (46 bp):
CCTTATCTCCCTGAAGTTGCAATAGAGCAGGATAAAAATACACAAA
Found at i:11206243 original size:179 final size:178
Alignment explanation
Indices: 11205853--11206393 Score: 690
Period size: 179 Copynumber: 3.0 Consensus size: 178
11205843 GAAGTTGTAA
* ** *
11205853 TGGAGCAGATCAAAGCCACAATATTTATCTCTTTGAAGTTGCAGTAGAGCAGGATAAAAATACAC
1 TGGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACAC
* * * *
11205918 AAACTTTATTTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAATT-TTATCTCCTTTG-AG
66 AAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGTTACCAATTCTTATCTCC-TTGAAG
* **
11205981 TTTCAGCGGAGTAGAATGAAGCTATGAATCTCTTCTCCTTGAAACTACAT
130 TTCCAGCGGAGTA-AATGAAGCTACAAATCTCTTCTCCTTGAAACTACAT
* * * **** * *
11206031 TGGAGTAAATTGAAATTGCAATCCTTATCTCTCTGAAGTTGTAGTAGAGTAGGATAAAAATACAC
1 TGGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACAC
*
11206096 AAACCTTATCTCCTTGAAGTTGCAGTGGAGTAGGTTAAAGTTACCAATTCTTATCTCCTTGAAGT
66 AAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGTTACCAATTCTTATCTCCTTGAAGT
* * *
11206161 TCCAGCGGAGTAAATCGAAACTACAAATCTCTTCTCCTTGAGATTACAT
131 TCCAGCGGAGTAAAT-GAAGCTACAAATCTCTTCTCCTTGAAACTACAT
* * * * *
11206210 TGGAGCAGACCGAAGCCACAATCCTTATCTCTCTAAAGTTACATTAGAGCAGGATAAAAATACAT
1 TGGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACAC
* * * *
11206275 AAACGTTCTCTCCCTGAAGTTGTAGTGGAGTAGGTTAAAGTTACCAATTCTTATCTCCTTTAAGT
66 AAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGTTACCAATTCTTATCTCCTTGAAGT
* * ** *
11206340 TCCAACGGAGTAGATTGAAGCTACAAATCTCTTCTAATTGAAACTATAT
131 TCCAGCGGAGTA-AATGAAGCTACAAATCTCTTCTCCTTGAAACTACAT
11206389 TGGAG
1 TGGAG
11206394 TAAATCAAAG
Statistics
Matches: 308, Mismatches: 51, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
178 102 0.33
179 204 0.66
180 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (178 bp):
TGGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACAC
AAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGTTACCAATTCTTATCTCCTTGAAGT
TCCAGCGGAGTAAATGAAGCTACAAATCTCTTCTCCTTGAAACTACAT
Found at i:11206742 original size:27 final size:27
Alignment explanation
Indices: 11206707--11206761 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
11206697 AAAACCAAAG
11206707 AGCCCAAATTAGCCCTAAACCCAAACA
1 AGCCCAAATTAGCCCTAAACCCAAACA
11206734 AGCCCAAATTAGCCCTAAACCCAAACA
1 AGCCCAAATTAGCCCTAAACCCAAACA
11206761 A
1 A
11206762 ACCCTAACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.36, G:0.07, T:0.11
Consensus pattern (27 bp):
AGCCCAAATTAGCCCTAAACCCAAACA
Found at i:11206772 original size:16 final size:17
Alignment explanation
Indices: 11206746--11206780 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
11206736 CCCAAATTAG
11206746 CCCTAAACCCAAACAAA
1 CCCTAAACCCAAACAAA
*
11206763 CCCT-AACCCAAATAAA
1 CCCTAAACCCAAACAAA
11206779 CC
1 CC
11206781 TGGCCCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.43, G:0.00, T:0.09
Consensus pattern (17 bp):
CCCTAAACCCAAACAAA
Found at i:11207874 original size:15 final size:16
Alignment explanation
Indices: 11207850--11207884 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
11207840 TTTTCTCATG
11207850 TTTAAAATTTT-TTTA
1 TTTAAAATTTTATTTA
*
11207865 TTTAATATTTTATTTA
1 TTTAAAATTTTATTTA
11207881 TTTA
1 TTTA
11207885 TTTATTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAAAATTTTATTTA
Found at i:11208074 original size:15 final size:16
Alignment explanation
Indices: 11208054--11208091 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
11208044 TTCATCATTA
11208054 TTATTATTTATTA-CC
1 TTATTATTTATTACCC
11208069 TTATTA-TTATTACCC
1 TTATTATTTATTACCC
11208084 TT-TTATTT
1 TTATTATTT
11208092 TATTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTATTTATTACCC
Found at i:11212420 original size:27 final size:28
Alignment explanation
Indices: 11212390--11212444 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
11212380 CATTTTTTAA
* *
11212390 GGAATGAACTATATACATA-ATAGATTT
1 GGAAAGAAATATATACATAGATAGATTT
*
11212417 GGAAAGAAATATATACTTAGATAGATTT
1 GGAAAGAAATATATACATAGATAGATTT
11212445 TTAAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.33
Consensus pattern (28 bp):
GGAAAGAAATATATACATAGATAGATTT
Found at i:11212468 original size:10 final size:10
Alignment explanation
Indices: 11212453--11212479 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
11212443 TTTTAAATAT
11212453 ATATATATAC
1 ATATATATAC
11212463 ATATATATAC
1 ATATATATAC
11212473 ATATATA
1 ATATATA
11212480 CATACATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATATATAC
Found at i:11214048 original size:19 final size:20
Alignment explanation
Indices: 11214006--11214049 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
11213996 GACTGTGAAC
11214006 ATTTTATTGTTTTTGGGTTT
1 ATTTTATTGTTTTTGGGTTT
* *
11214026 -TTTTATT-TTTTTTGTTTT
1 ATTTTATTGTTTTTGGGTTT
11214044 ATTTTA
1 ATTTTA
11214050 GCTTTGGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.77
Consensus pattern (20 bp):
ATTTTATTGTTTTTGGGTTT
Found at i:11214660 original size:14 final size:14
Alignment explanation
Indices: 11214641--11214674 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
11214631 GGCTACCAAT
11214641 GATAGATTAGGACA
1 GATAGATTAGGACA
11214655 GATAGATTAGGACA
1 GATAGATTAGGACA
11214669 GATAGA
1 GATAGA
11214675 GGTTATCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.29, T:0.21
Consensus pattern (14 bp):
GATAGATTAGGACA
Found at i:11218013 original size:18 final size:18
Alignment explanation
Indices: 11217998--11218047 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
11217988 GTAGAAAAGG
*
11217998 AAATAAATAAATAAAAAT
1 AAATAAATAAAAAAAAAT
* *
11218016 AAAAAAATAAAATAAAAT
1 AAATAAATAAAAAAAAAT
11218034 AAAATAAATAAAAA
1 -AAATAAATAAAAA
11218048 GGACTGACGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (18 bp):
AAATAAATAAAAAAAAAT
Found at i:11218027 original size:5 final size:5
Alignment explanation
Indices: 11217998--11218046 Score: 54
Period size: 5 Copynumber: 10.6 Consensus size: 5
11217988 GTAGAAAAGG
11217998 AAAT- AAAT- AAATA AAA-A TAAA-A AAATA AAATA AAATA AAAT- AAATA
1 AAATA AAATA AAATA AAATA -AAATA AAATA AAATA AAATA AAATA AAATA
11218044 AAA
1 AAA
11218047 AGGACTGACG
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
4 16 0.39
5 25 0.61
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:11218046 original size:14 final size:14
Alignment explanation
Indices: 11217998--11218046 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
11217988 GTAGAAAAGG
11217998 AAAT-AAATAAATAA
1 AAATAAAATAAAT-A
11218012 AAATAAAA-AAATA
1 AAATAAAATAAATA
11218025 AAATAAAATAAA-A
1 AAATAAAATAAATA
11218038 TAAATAAAA
1 -AAATAAAA
11218047 AGGACTGACG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.31
14 19 0.59
15 3 0.09
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (14 bp):
AAATAAAATAAATA
Found at i:11222650 original size:45 final size:45
Alignment explanation
Indices: 11222600--11222695 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 45
11222590 CCAGAACAGG
* * *
11222600 ACAGAGCAGAACATG-ACAAAATAGAACAGAGCAGAGTAGAATGGA
1 ACAGAGCAAAAC-TGAACAAAACAGAACAGAGCAGAGCAGAATGGA
* * *
11222645 ACAGAGCAAAACTGAACAGAACATAACAGAGCAGAGCAGAATTGA
1 ACAGAGCAAAACTGAACAAAACAGAACAGAGCAGAGCAGAATGGA
11222690 ACAGAG
1 ACAGAG
11222696 TTACGCAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
44 2 0.05
45 42 0.95
ACGTcount: A:0.51, C:0.16, G:0.25, T:0.08
Consensus pattern (45 bp):
ACAGAGCAAAACTGAACAAAACAGAACAGAGCAGAGCAGAATGGA
Found at i:11222661 original size:15 final size:15
Alignment explanation
Indices: 11222643--11222695 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
11222633 GAGTAGAATG
11222643 GAACAGAGCAAAACT
1 GAACAGAGCAAAACT
* * *
11222658 GAACAGAACATAACA
1 GAACAGAGCAAAACT
* * *
11222673 GAGCAGAGCAGAATT
1 GAACAGAGCAAAACT
11222688 GAACAGAG
1 GAACAGAG
11222696 TTACGCAGAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.51, C:0.17, G:0.25, T:0.08
Consensus pattern (15 bp):
GAACAGAGCAAAACT
Found at i:11223131 original size:26 final size:24
Alignment explanation
Indices: 11223087--11223136 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
11223077 ATTTGTTTTA
*
11223087 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
11223111 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
11223137 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:11224460 original size:41 final size:41
Alignment explanation
Indices: 11224382--11224462 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
11224372 GCCGTGTAGC
* **
11224382 TCACACAACCTACCACACGGCCTGGTACACGGTCATGTGGT
1 TCACACAACCTACCACACGGCCTGGCACACGACCATGTGGT
* *
11224423 TCACACAACCTACCATACGGCCTGGCACATGACCATGTGG
1 TCACACAACCTACCACACGGCCTGGCACACGACCATGTGG
11224463 CATCGACAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.26, C:0.35, G:0.21, T:0.19
Consensus pattern (41 bp):
TCACACAACCTACCACACGGCCTGGCACACGACCATGTGGT
Found at i:11237556 original size:36 final size:36
Alignment explanation
Indices: 11237509--11237587 Score: 158
Period size: 36 Copynumber: 2.2 Consensus size: 36
11237499 AAATAACCTC
11237509 TAGCCCACACCTATTACAAACCCAATACAACTAAAT
1 TAGCCCACACCTATTACAAACCCAATACAACTAAAT
11237545 TAGCCCACACCTATTACAAACCCAATACAACTAAAT
1 TAGCCCACACCTATTACAAACCCAATACAACTAAAT
11237581 TAGCCCA
1 TAGCCCA
11237588 AACAATACCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.43, C:0.34, G:0.04, T:0.19
Consensus pattern (36 bp):
TAGCCCACACCTATTACAAACCCAATACAACTAAAT
Found at i:11238655 original size:3 final size:3
Alignment explanation
Indices: 11238647--11238683 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
11238637 CTACTTTAAT
*
11238647 TTA TTA TTA TTA TTA CTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
11238684 CTTCTAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.94
4 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:11238663 original size:22 final size:22
Alignment explanation
Indices: 11238638--11238691 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
11238628 TTCGTTACTC
11238638 TACTTTAATTTATTATTATTAT
1 TACTTTAATTTATTATTATTAT
*
11238660 TACTATTTA-TTATTATTATTAT
1 TACT-TTAATTTATTATTATTAT
11238682 TACTTCTAAT
1 TACTT-TAAT
11238692 GTGCCCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 23 0.85
23 3 0.11
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.61
Consensus pattern (22 bp):
TACTTTAATTTATTATTATTAT
Found at i:11238671 original size:16 final size:16
Alignment explanation
Indices: 11238650--11238682 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11238640 CTTTAATTTA
11238650 TTATTATTATTACTAT
1 TTATTATTATTACTAT
*
11238666 TTATTATTATTATTAT
1 TTATTATTATTACTAT
11238682 T
1 T
11238683 ACTTCTAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTATTATTACTAT
Found at i:11239081 original size:16 final size:15
Alignment explanation
Indices: 11239040--11239081 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
11239030 TATATTTCCC
11239040 TTATTTAT-TTTTTA
1 TTATTTATGTTTTTA
11239054 TTAGTTATATGTTTTTA
1 TTA-TT-TATGTTTTTA
11239071 TTATTTCATGT
1 TTATTT-ATGT
11239082 ACATATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 3 0.12
15 3 0.12
16 9 0.38
17 9 0.38
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.69
Consensus pattern (15 bp):
TTATTTATGTTTTTA
Found at i:11239171 original size:24 final size:26
Alignment explanation
Indices: 11239126--11239173 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
11239116 TTAATACATG
11239126 TTTTATATATGTATATATTATGTATA
1 TTTTATATATGTATATATTATGTATA
11239152 TTTTA-ATAT-TATAT-TATATGTA
1 TTTTATATATGTATATAT-TATGTA
11239174 CGTATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 11 0.52
25 4 0.19
26 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTTATATATGTATATATTATGTATA
Found at i:11239251 original size:21 final size:20
Alignment explanation
Indices: 11239217--11239255 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
11239207 TTTTGTACTA
*
11239217 TATTATTTTATTAGTTTTGC
1 TATTATTGTATTAGTTTTGC
11239237 TATTATTAGTATTAGTTTT
1 TATTATT-GTATTAGTTTT
11239256 AGTTTCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
TATTATTGTATTAGTTTTGC
Found at i:11251601 original size:47 final size:47
Alignment explanation
Indices: 11251550--11252016 Score: 679
Period size: 47 Copynumber: 9.7 Consensus size: 47
11251540 TTAAGATTCT
* * *
11251550 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
11251597 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
11251646 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
11251692 ATGTG-TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
11251738 ATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
11251785 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
11251832 ATGTGATCAATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTG----A--TG---AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
11251888 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
11251935 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
11251982 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
11252017 TCCCGAAGGG
Statistics
Matches: 387, Mismatches: 19, Indels: 28
0.89 0.04 0.06
Matches are distributed among these distances:
45 36 0.09
46 18 0.05
47 238 0.61
49 45 0.12
50 2 0.01
51 1 0.00
52 1 0.00
53 2 0.01
56 44 0.11
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:11251915 original size:103 final size:101
Alignment explanation
Indices: 11251736--11252016 Score: 414
Period size: 103 Copynumber: 2.8 Consensus size: 101
11251726 GCCTAATGGC
*
11251736 CAATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CAATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
11251801 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
66 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
11251837 ATCAATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 --CAATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
11251902 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
64 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * * *
11251940 --A--TG---AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 CAATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
11251998 AGTGTATAAATGTGATAAG
66 AGTGTATATATGTGATAAG
11252017 TCCCGAAGGG
Statistics
Matches: 169, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
94 66 0.39
97 2 0.01
99 1 0.01
103 100 0.59
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (101 bp):
CAATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:11251980 original size:150 final size:150
Alignment explanation
Indices: 11251699--11251980 Score: 501
Period size: 150 Copynumber: 1.9 Consensus size: 150
11251689 CCGATGTGTG
11251699 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATAAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATAAATGTGAAAGTGTATATA
* *
11251764 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGG
11251829 CCGATGTGATCAATGTGATA
131 CCGATGTGATCAATGTGATA
* *
11251849 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATAAATGTGAAAGTGTATATA
* * *
11251914 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
66 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGG
11251979 CC
131 CC
11251981 AACGTGATGG
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
150 125 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (150 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATAAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGG
CCGATGTGATCAATGTGATA
Found at i:11252204 original size:37 final size:37
Alignment explanation
Indices: 11252135--11252213 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
11252125 CCGAGCTCTA
* * *
11252135 AAGACCCGATGACTACGTATGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
* *
11252172 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
11252209 AAGAC
1 AAGAC
11252214 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
Found at i:11254702 original size:3 final size:3
Alignment explanation
Indices: 11254696--11254733 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11254686 TAAAAAAAAG
11254696 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
11254734 GGGGAATCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11255737 original size:14 final size:14
Alignment explanation
Indices: 11255718--11255752 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
11255708 CATTGAGGTA
11255718 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
*
11255732 TTTTCAATTTCTGT
1 TTTTCAATTTCTGC
11255746 TTTTCAA
1 TTTTCAA
11255753 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:11255782 original size:89 final size:87
Alignment explanation
Indices: 11255574--11255965 Score: 434
Period size: 86 Copynumber: 4.5 Consensus size: 87
11255564 CACTTCTGTC
* *
11255574 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACTGAGGTATTTTC-A
* * * ***
11255639 AATTCT-ATCTTT-AATTTTTACC
65 ATTTCTGCT-TTTCAATTTATGTT
* * * * *
11255661 TTTC-CAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTTAGAGCACATTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACTGAGGTATTTTCAA
*
11255725 TTTCTGCTTTTCAATTTCTGTT
66 TTTCTGCTTTTCAATTTATGTT
* * * *
11255747 TTTCAAAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAGAACACGCTGAGGTATCTTC
1 TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACTGAGGTATTTTC
* * * *
11255812 AATTTCCGTTTTTCAAGTTATGCT
64 AATTTCTGCTTTTCAATTTATGTT
* * *
11255836 TTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCAGGGCAC-CTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACTGAGGTATTTTCAA
* *
11255900 TTTCTGTTTCTTTCAATTTATATT
66 TTTCTG-CT-TTTCAATTTATGTT
*
11255924 TTTTAAAAATCAACTCATATTGC-ATGAGGTGAGTTGAGCCTC
1 TTTCAAAAATCAACTCATATTGCGA-GAGGTGAGTTGAGCCTC
11255966 GGGTCACATG
Statistics
Matches: 257, Mismatches: 40, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
85 9 0.04
86 81 0.32
87 47 0.18
88 48 0.19
89 72 0.28
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (87 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACACTGAGGTATTTTCAA
TTTCTGCTTTTCAATTTATGTT
Found at i:11255892 original size:175 final size:175
Alignment explanation
Indices: 11255578--11255965 Score: 500
Period size: 175 Copynumber: 2.2 Consensus size: 175
11255568 TCTGTCTTTC
*
11255578 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTGAGGTATTTTCAAAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTGAGGTATCTTCAAAATT
* * * * * *
11255643 CTATCTTTAATTTTTACCTTTCCAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTTAGAGCA
66 CCATCTTTAAGTTATACCTTTCAAAATCAACTCATATTGCAAGAGATGAGTTAAGCCTCAGAGCA
* * *
11255708 CATTGAGGTATTTTCAATTTCTG-CT-TTTCAATTTCTGTTTTTCAA
131 CACTGAGGTATTTTCAATTTCTGTCTCTTTCAATTTATATTTTT--A
* *
11255753 AAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAGAACACGCTGAGGTATCTTC-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTGAGGTATCTTCAAAATT
* * * * * *
11255817 CCGTTTTTCAAGTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAA-CCTCAGG
66 CCATCTTT-AAGTTATACCTTTC-AAAATCAACTCATATTGCAAGAGATGAGTT-AAGCCTCAGA
* *
11255881 GCAC-CTGAGGTATTTTCAATTTCTGTTTCTTTCAATTTATATTTTTT
128 GCACACTGAGGTATTTTCAATTTCTGTCTCTTTCAATTTATATTTTTA
11255928 AAAAATCAACTCATATTGC-ATGAGGTGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGA-GAGGTGAGTTGAGCCTC
11255966 GGGTCACATG
Statistics
Matches: 186, Mismatches: 21, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
174 10 0.05
175 122 0.66
176 37 0.20
177 17 0.09
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (175 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTGAGGTATCTTCAAAATT
CCATCTTTAAGTTATACCTTTCAAAATCAACTCATATTGCAAGAGATGAGTTAAGCCTCAGAGCA
CACTGAGGTATTTTCAATTTCTGTCTCTTTCAATTTATATTTTTA
Found at i:11256343 original size:81 final size:80
Alignment explanation
Indices: 11256104--11256347 Score: 195
Period size: 85 Copynumber: 3.0 Consensus size: 80
11256094 CTGTTTGTCA
* * * * * *
11256104 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTTGGCTCACGTGCAGAGCCACTTTCAATTT
1 AAAAGCAACTCATATTGCGAGAGGTGAGTTAAGCTTTGGCTCACGTGTAGAGCTATTTTCAATTT
*
11256169 CTATTTTTAATGTCCGTTTT
66 CTATTTTTAA-----GTTTC
* * * * * *** * * **
11256189 TAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTCGGGTCACACCTCGAGGTATTTTCAAAA
1 AAAAGCAACTCATATTGCGAGAGGTGAGTT-AAGCTTTGGCTCACGTGTAGAGCTATTTTCAATT
**
11256253 TCTGCTTTTAAGTTTC
65 TCTATTTTTAAGTTTC
* *
11256269 AAAAGCTAACTCATATTGCGAGAGGTGAGTTAAGCTTTGGCTCATGTGTTGAGCTATTTTCAATT
1 AAAAGC-AACTCATATTGCGAGAGGTGAGTTAAGCTTTGGCTCACGTGTAGAGCTATTTTCAATT
*
11256334 TCT-TTTTTTAGTTT
65 TCTATTTTTAAGTTT
11256348 ATGTTTTTGA
Statistics
Matches: 122, Mismatches: 34, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
80 19 0.16
81 47 0.39
85 55 0.45
86 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (80 bp):
AAAAGCAACTCATATTGCGAGAGGTGAGTTAAGCTTTGGCTCACGTGTAGAGCTATTTTCAATTT
CTATTTTTAAGTTTC
Found at i:11258097 original size:3 final size:3
Alignment explanation
Indices: 11258089--11258121 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
11258079 CTACTTTAAT
*
11258089 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11258122 CTTCTAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11258355 original size:23 final size:23
Alignment explanation
Indices: 11258297--11258357 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 23
11258287 ATATTGTGTT
*
11258297 TATA-TTTTAATACTATGCTATA
1 TATATTTTTAATATTATGCTATA
* *
11258319 TATGTTTTT-GTATTATG-TATA
1 TATATTTTTAATATTATGCTATA
11258340 TATATTTTTAAATATTAT
1 TATATTTTT-AATATTAT
11258358 ATATTGAGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 12 0.39
22 9 0.29
23 10 0.32
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (23 bp):
TATATTTTTAATATTATGCTATA
Found at i:11258691 original size:21 final size:20
Alignment explanation
Indices: 11258657--11258695 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
11258647 TTTTGTACTA
*
11258657 TATTATTTTATTAGTTTTGC
1 TATTATTGTATTAGTTTTGC
11258677 TATTATTAGTATTAGTTTT
1 TATTATT-GTATTAGTTTT
11258696 AGTTTCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
TATTATTGTATTAGTTTTGC
Found at i:11266236 original size:43 final size:43
Alignment explanation
Indices: 11266147--11266340 Score: 144
Period size: 43 Copynumber: 4.5 Consensus size: 43
11266137 ATGATGAGCT
* * * *
11266147 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACC
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATGTACAGATC
* * ** *
11266190 TTAAATCCCTAAGCAGTAGGGTAACAGGTTGAATGTATAGATC
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATGTACAGATC
* * * * *
11266233 TTAACCCCCTAAGTAGTAGGGAAAC-AGATCGAA-G-A-TGATGGGC
1 TTAAACCCCTAAGCAGTAGGGTAACAAG-CCGAATGTACAGAT---C
* * * *
11266276 TTTAACCTCCTAAACAGTAGGGTAACAAGCTGAATTTACAGATC
1 TTAAACC-CCTAAGCAGTAGGGTAACAAGCCGAATGTACAGATC
*
11266320 TTAAACCCCTAAGTAGTAGGG
1 TTAAACCCCTAAGCAGTAGGG
11266341 AAATAGATCG
Statistics
Matches: 114, Mismatches: 28, Indels: 18
0.71 0.17 0.11
Matches are distributed among these distances:
40 3 0.03
41 1 0.01
42 2 0.02
43 77 0.68
44 25 0.22
45 2 0.02
46 1 0.01
47 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (43 bp):
TTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATGTACAGATC
Found at i:11266252 original size:86 final size:86
Alignment explanation
Indices: 11266092--11266258 Score: 214
Period size: 86 Copynumber: 1.9 Consensus size: 86
11266082 AGAATCGGTG
11266092 AATTTACAACCTTAAACCCCTAAGCAATAGGGAAACAGATCGAAGATGATGAGCTTTAACCCCCT
1 AATTTACAACCTTAAACCCCTAAGCAATAGGGAAACAGATCGAAGATGATGAGCTTTAACCCCCT
*
11266157 AAGCAGTAGGGTAACAAGCCA
66 AAGCAGTAGGGAAACAAGCCA
* * * * * *
11266178 AATTTACAGACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTG-A-ATGTAT-AGATCTTAACCC
1 AATTTACA-ACCTTAAACCCCTAAGCAATAGGGAAACAGATCGAAGATG-ATGAGCT-TTAACCC
*
11266240 CCTAAGTAGTAGGGAAACA
63 CCTAAGCAGTAGGGAAACA
11266259 GATCGAAGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
85 6 0.09
86 35 0.50
87 29 0.41
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (86 bp):
AATTTACAACCTTAAACCCCTAAGCAATAGGGAAACAGATCGAAGATGATGAGCTTTAACCCCCT
AAGCAGTAGGGAAACAAGCCA
Found at i:11266270 original size:130 final size:130
Alignment explanation
Indices: 11266102--11266340 Score: 379
Period size: 130 Copynumber: 1.8 Consensus size: 130
11266092 AATTTACAAC
*
11266102 CTTAAACCCCTAAGCAATAGGGAAACAGATCGAAGATGATGAGCTTTAACCCCCTAAGCAGTAGG
1 CTTAAACCCCTAAGCAATAGGGAAACAGATCGAAGATGATGAGCTTTAACCCCCTAAACAGTAGG
*
11266167 GTAACAAGCCAAATTTACAGACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAATGTATAGAT
66 GTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATGTATAGAT
* * * * *
11266232 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCTCCTAAACAGTAGG
1 CTTAAACCCCTAAGCAATAGGGAAACAGATCGAAGATGATGAGCTTTAACCCCCTAAACAGTAGG
** * *
11266297 GTAACAAGCTGAATTTACAGATCTTAAACCCCTAAGTAGTAGGG
66 GTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGG
11266341 AAATAGATCG
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 98 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (130 bp):
CTTAAACCCCTAAGCAATAGGGAAACAGATCGAAGATGATGAGCTTTAACCCCCTAAACAGTAGG
GTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATGTATAGAT
Found at i:11266288 original size:87 final size:86
Alignment explanation
Indices: 11266196--11266409 Score: 293
Period size: 87 Copynumber: 2.4 Consensus size: 86
11266186 GACCTTAAAT
* *
11266196 CCCTAAGCAGTAGGGTAACAGGTTGAATGTATAGATCTTAACCCCCTAAGTAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAAT-TATAGATCTTAAACCCCTAAGTAGTAGGGAAACAGA
* *
11266261 TCGAAGATGATGGGCTTTAACC
65 TCGAAGATGATCGGCCTTAACC
* * * * *
11266283 TCCTAAACAGTAGGGTAACAAGCTGAATTTACAGATCTTAAACCCCTAAGTAGTAGGGAAATAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAA-TTATAGATCTTAAACCCCTAAGTAGTAGGGAAACAGA
*
11266348 TCGAGGATGATCGGCCTTAACC
65 TCGAAGATGATCGGCCTTAACC
*
11266370 CCCTAAGCAGTAGGGTAATAGGCTGAAAATTATAGATCTT
1 CCCTAAGCAGTAGGGTAACAGGCTG--AATTATAGATCTT
11266410 GTCTTCCTGA
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
87 96 0.88
88 11 0.10
89 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (86 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTATAGATCTTAAACCCCTAAGTAGTAGGGAAACAGAT
CGAAGATGATCGGCCTTAACC
Found at i:11266376 original size:44 final size:43
Alignment explanation
Indices: 11266101--11266390 Score: 128
Period size: 43 Copynumber: 6.7 Consensus size: 43
11266091 GAATTTACAA
* * *
11266101 CCTTAAACCCCTAAGCAATAGGGAAACAGATCGAAGATGAT-GAG
1 CCTTAACCCCCTAAGCAGTAGGGAAATAGATCG-AGATGATCG-G
* * * * * * * *
11266145 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAAAT-TTACAGA
1 CCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAGATGAT-C-GG
** * * * * * *
11266188 CCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGA-ATGTATAGA
1 CCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAGATG-ATCGG
* * * *
11266231 TCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGG
1 CCTTAACCCCCTAAGCAGTAGGGAAATAGATCG-AGATGATCGG
* * * * * *
11266275 CTTTAACCTCCTAAACAGTAGGGTAACA-AGCT-GA-AT-TTACAGA
1 CCTTAACCCCCTAAGCAGTAGGG-AA-ATAGATCGAGATGAT-C-GG
* * *
11266318 TCTTAAACCCCTAAGTAGTAGGGAAATAGATCGAGGATGATCGG
1 CCTTAACCCCCTAAGCAGTAGGGAAATAGATCGA-GATGATCGG
*
11266362 CCTTAACCCCCTAAGCAGTAGGGTAATAG
1 CCTTAACCCCCTAAGCAGTAGGGAAATAG
11266391 GCTGAAAATT
Statistics
Matches: 180, Mismatches: 49, Indels: 34
0.68 0.19 0.13
Matches are distributed among these distances:
41 3 0.02
42 10 0.06
43 78 0.43
44 75 0.42
45 12 0.07
46 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (43 bp):
CCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAGATGATCGG
Found at i:11266649 original size:42 final size:42
Alignment explanation
Indices: 11266603--11266685 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
11266593 AAAATGGCGT
* *
11266603 TGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
1 TGGAGCGGATAAAAGCCACAGCAGAACTCCTTGAAGTTTCAG
** **
11266645 TGGAGTTGATTGAAGCCACAGCAGAACTCCTTGAAGTTTCA
1 TGGAGCGGATAAAAGCCACAGCAGAACTCCTTGAAGTTTCA
11266686 ACGAAAAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (42 bp):
TGGAGCGGATAAAAGCCACAGCAGAACTCCTTGAAGTTTCAG
Found at i:11266698 original size:42 final size:42
Alignment explanation
Indices: 11266615--11266706 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
11266605 GAGCGGCTAA
* ** * ***
11266615 AAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAGTTGATTG
1 AAGCCACAGCAGAACTCCTTGAAGTTTCAACGAAAAAGATTG
11266657 AAGCCACAGCAGAACTCCTTGAAGTTTCAACGAAAAAGATTG
1 AAGCCACAGCAGAACTCCTTGAAGTTTCAACGAAAAAGATTG
*
11266699 AAGTCACA
1 AAGCCACA
11266707 AATCTTATCT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (42 bp):
AAGCCACAGCAGAACTCCTTGAAGTTTCAACGAAAAAGATTG
Found at i:11268351 original size:41 final size:40
Alignment explanation
Indices: 11268231--11268479 Score: 246
Period size: 41 Copynumber: 6.1 Consensus size: 40
11268221 GCAAAAATTG
* ****
11268231 TAAAACACAGAGCAATAGAGGCGTTTTACCAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
* * * *
11268272 TAAAAACAAAGCGATAGCTGCGTTTTTGTTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
*
11268312 TAAAAACAGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCG-TTTTTGGTAAAACGCCGC
* **
11268353 TAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGTTGC
1 TAAAAACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
* * * *
11268393 TAAAAGTCGGAGCAATAGCGGCGCTTTTGGTAAAACGCAGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
* * * * * * *
11268434 TAAAAGTCGGAGCATTAGCAGCGCTTTTGGTAAAATGCTGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
11268475 TAAAA
1 TAAAA
11268480 GTCATATAAC
Statistics
Matches: 183, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 65 0.36
41 118 0.64
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.22
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
Found at i:11268464 original size:82 final size:82
Alignment explanation
Indices: 11268262--11268482 Score: 257
Period size: 81 Copynumber: 2.7 Consensus size: 82
11268252 CGTTTTACCA
* * * * * * * * *
11268262 AAAACGCCGCTAAAAACAAAGCGATAGCTGCGTTTTTGTTAAAACGCCGCTAAAA-ACAGAGCAA
1 AAAACGCAGCTAAAAACAGAGCAATAGCAGCGCTTTTGGTAAAACGCTGCTAAAAGTCGGAGCAA
* *
11268326 TAGCGGCGTTTTTTGTT
66 TAGCGGCGTCTTTTGGT
* * *
11268343 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGTTGCTAAAAGTCGGAGCAA
1 AAAACGCAGCTAAAAACAGAGCAATAGCAGCGCTTTTGGTAAAACGCTGCTAAAAGTCGGAGCAA
11268408 TAGCGGCG-CTTTTGGT
66 TAGCGGCGTCTTTTGGT
* * * *
11268424 AAAACGCAGCTAAAAGTCGGAGCATTAGCAGCGCTTTTGGTAAAATGCTGCTAAAAGTC
1 AAAACGCAGCTAAAA-ACAGAGCAATAGCAGCGCTTTTGGTAAAACGCTGCTAAAAGTC
11268483 ATATAACCCC
Statistics
Matches: 120, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
81 68 0.57
82 52 0.43
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (82 bp):
AAAACGCAGCTAAAAACAGAGCAATAGCAGCGCTTTTGGTAAAACGCTGCTAAAAGTCGGAGCAA
TAGCGGCGTCTTTTGGT
Found at i:11268563 original size:37 final size:37
Alignment explanation
Indices: 11268521--11268592 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
11268511 AAAAATCATG
* * *
11268521 AACACTAATCTATAACTCCTAAAATACTAAACCCCTA
1 AACACTAAACCATAACTCCTAAAACACTAAACCCCTA
* *
11268558 AACACTAAACCATAACTTCTAAAACCCTAAACCCC
1 AACACTAAACCATAACTCCTAAAACACTAAACCCC
11268593 AAAAAGCGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (37 bp):
AACACTAAACCATAACTCCTAAAACACTAAACCCCTA
Found at i:11268717 original size:7 final size:7
Alignment explanation
Indices: 11268705--11268768 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
11268695 TTTATTTTTT
*
11268705 GGTTTAC
1 GGTTTAA
11268712 GGTTTAA
1 GGTTTAA
**
11268719 TATTTAA
1 GGTTTAA
11268726 GGTTTAA
1 GGTTTAA
* *
11268733 GGTCTAT
1 GGTTTAA
*
11268740 GGTTTAG
1 GGTTTAA
*
11268747 GGTTTTAT
1 GG-TTTAA
11268755 GGTTTAA
1 GGTTTAA
11268762 GGTTTAA
1 GGTTTAA
11268769 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:11268757 original size:15 final size:15
Alignment explanation
Indices: 11268721--11268771 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
11268711 CGGTTTAATA
*
11268721 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
11268735 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
11268750 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
11268765 TTAATGG
1 TTTATGG
11268772 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:11269370 original size:7 final size:7
Alignment explanation
Indices: 11269360--11269413 Score: 99
Period size: 7 Copynumber: 7.6 Consensus size: 7
11269350 AAATAAACTC
11269360 AAAATTT
1 AAAATTT
11269367 AAAAATTT
1 -AAAATTT
11269375 AAAATTT
1 AAAATTT
11269382 AAAATTT
1 AAAATTT
11269389 AAAATTT
1 AAAATTT
11269396 AAAATTT
1 AAAATTT
11269403 AAAATTT
1 AAAATTT
11269410 AAAA
1 AAAA
11269414 ATAAAAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
7 39 0.85
8 7 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAAATTT
Found at i:11269377 original size:21 final size:22
Alignment explanation
Indices: 11269360--11269448 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 22
11269350 AAATAAACTC
11269360 AAAATTTAAAAATTTAAAATTT-
1 AAAATTT-AAAATTTAAAATTTA
11269382 AAAATTTAAAATTTAAAATTT-
1 AAAATTTAAAATTTAAAATTTA
* * * *
11269403 AAAATTTAAAAATAAAAAATAA
1 AAAATTTAAAATTTAAAATTTA
* *
11269425 AAAACTTAAAAATTTAATATTTA
1 AAAA-TTTAAAATTTAAAATTTA
11269448 A
1 A
11269449 TATTTTAGTC
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
21 31 0.56
22 11 0.20
23 13 0.24
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATTTAAAATTTAAAATTTA
Found at i:11269388 original size:22 final size:22
Alignment explanation
Indices: 11269360--11269453 Score: 118
Period size: 22 Copynumber: 4.3 Consensus size: 22
11269350 AAATAAACTC
11269360 AAAATTTAAAAATTTAAAATTT
1 AAAATTTAAAAATTTAAAATTT
11269382 AAAATTT-AAAATTTAAAATTT
1 AAAATTTAAAAATTTAAAATTT
** **
11269403 AAAATTTAAAAATAAAAAATAA
1 AAAATTTAAAAATTTAAAATTT
* *
11269425 AAAACTTAAAAATTTAATATTT
1 AAAATTTAAAAATTTAAAATTT
*
11269447 AATATTT
1 AAAATTT
11269454 TAGTCCATAT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 21 0.36
22 38 0.64
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATTTAAAAATTTAAAATTT
Found at i:11269420 original size:14 final size:14
Alignment explanation
Indices: 11269360--11269441 Score: 92
Period size: 14 Copynumber: 5.6 Consensus size: 14
11269350 AAATAAACTC
11269360 AAAATTTAAAAATTT
1 AAAATTTAAAAA-TT
*
11269375 AAAATTTAAAATTT
1 AAAATTTAAAAATT
*
11269389 AAAATTTAAAATTT
1 AAAATTTAAAAATT
*
11269403 AAAATTTAAAAATA
1 AAAATTTAAAAATT
* *
11269417 AAAAATAAAAAACTT
1 AAAATTTAAAAA-TT
11269432 AAAAATTTAA
1 -AAAATTTAA
11269442 TATTTAATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
14 38 0.67
15 12 0.21
16 7 0.12
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAATTTAAAAATT
Done.