Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 34 of 145
Found at i:10956117 original size:15 final size:15
Alignment explanation
Indices: 10956082--10956134 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
10956072 TTAATCATAT
* *
10956082 TTAAACATAATTATTA
1 TTAAATATAATT-TAA
*
10956098 TTAAATATATTTTAA
1 TTAAATATAATTTAA
10956113 TTAAAATATAATTTAA
1 TT-AAATATAATTTAA
*
10956129 TAAAAT
1 TTAAAT
10956135 TCTTAATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 8 0.26
16 23 0.74
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATATAATTTAA
Found at i:10956272 original size:15 final size:15
Alignment explanation
Indices: 10956237--10956289 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
10956227 TTAATCATAT
* *
10956237 TTAAACATAATTATTA
1 TTAAATATAATT-TAA
*
10956253 TTAAATATATTTTAA
1 TTAAATATAATTTAA
10956268 TTAAAATATAATTTAA
1 TT-AAATATAATTTAA
*
10956284 TAAAAT
1 TTAAAT
10956290 TCTTAATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 8 0.26
16 23 0.74
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATATAATTTAA
Found at i:10956427 original size:15 final size:15
Alignment explanation
Indices: 10956392--10956444 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
10956382 TTAATCATAT
* *
10956392 TTAAACATAATTATTA
1 TTAAATATAATT-TAA
*
10956408 TTAAATATATTTTAA
1 TTAAATATAATTTAA
10956423 TTAAAATATAATTTAA
1 TT-AAATATAATTTAA
*
10956439 TAAAAT
1 TTAAAT
10956445 TCTTAATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 8 0.26
16 23 0.74
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATATAATTTAA
Found at i:10957392 original size:11 final size:11
Alignment explanation
Indices: 10957376--10957402 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10957366 GATTTTATCA
10957376 ATTGTTGAGAT
1 ATTGTTGAGAT
10957387 ATTGTTGAGAT
1 ATTGTTGAGAT
10957398 ATTGT
1 ATTGT
10957403 CATTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (11 bp):
ATTGTTGAGAT
Found at i:10960314 original size:26 final size:27
Alignment explanation
Indices: 10960285--10960339 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
10960275 TCCTGATTGG
*
10960285 TTTATTGATTTATTT-CTTTGTTTATT
1 TTTATTGATTTATTTACTTTCTTTATT
* *
10960311 TTTATTTATTTATTTATTTTCTTTATT
1 TTTATTGATTTATTTACTTTCTTTATT
10960338 TT
1 TT
10960340 ATTTTTATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (27 bp):
TTTATTGATTTATTTACTTTCTTTATT
Found at i:10960316 original size:18 final size:18
Alignment explanation
Indices: 10960293--10960343 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
10960283 GGTTTATTGA
* *
10960293 TTTATTTCTTTGTTTATT
1 TTTATTTATTTATTTATT
10960311 TTTATTTATTTATTTA-T
1 TTTATTTATTTATTTATT
*
10960328 TTTCTTTATTTTATTT
1 TTTATTTA-TTTATTT
10960344 TTATTCCATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTATTTATTTATTTATT
Found at i:10960318 original size:4 final size:4
Alignment explanation
Indices: 10960285--10960343 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
10960275 TCCTGATTGG
* * * *
10960285 TTTA TTGA TTTA TTTC TTTG TTTA -TT- TTTA TTTA TTTA TTTA TTTTC
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA
10960332 TTTA TTTTA TTT
1 TTTA -TTTA TTT
10960344 TTATTCCATC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
3 4 0.09
4 33 0.75
5 7 0.16
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:10960320 original size:22 final size:21
Alignment explanation
Indices: 10960292--10960343 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
10960282 TGGTTTATTG
* * *
10960292 ATTTATTTCTTTGTTTATTTTT
1 ATTTATTTATTTATTT-TCTTT
10960314 ATTTATTTATTTATTTTCTTT
1 ATTTATTTATTTATTTTCTTT
10960335 ATTTTATTT
1 A-TTTATTT
10960344 TTATTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (21 bp):
ATTTATTTATTTATTTTCTTT
Found at i:10960337 original size:9 final size:9
Alignment explanation
Indices: 10960305--10960343 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
10960295 TATTTCTTTG
10960305 TTTATTTTTA
1 TTTA-TTTTA
10960315 TTTA-TTTA
1 TTTATTTTA
*
10960323 TTTATTTTC
1 TTTATTTTA
10960332 TTTATTTTA
1 TTTATTTTA
10960341 TTT
1 TTT
10960344 TTATTCCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 8 0.31
9 14 0.54
10 4 0.15
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTTA
Found at i:10965377 original size:42 final size:43
Alignment explanation
Indices: 10965286--10965436 Score: 139
Period size: 43 Copynumber: 3.5 Consensus size: 43
10965276 AATGCCAAAT
* * *
10965286 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCACTG
* **
10965329 TCCCAGACAAGGTCTTACACGAAATCGTATA-CGATGCCGA-TG
1 TCCCAGACATGGTCTTACACGAAATCAAATATCGATGCC-ACTG
* * *
10965371 TCCCAGACATGGTCTTATACGTAAATCTCAA-ATCGACGCCAAC-G
1 TCCCAGACATGGTCTTACACG-AAATC-AAATATCGATGCC-ACTG
* *
10965415 TTCCAGACGTGGTCTTACACGA
1 TCCCAGACATGGTCTTACACGA
10965437 TAACTCATAT
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 28 0.32
43 33 0.38
44 27 0.31
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCACTG
Found at i:10981872 original size:39 final size:41
Alignment explanation
Indices: 10981750--10981886 Score: 127
Period size: 40 Copynumber: 3.4 Consensus size: 41
10981740 GTTTTGACAA
* * * *
10981750 AAAAACGCCACTAAAAATCGATCATTAGCGGCGCATT-ACG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTCAGG
* * * * *
10981790 TAAAATGCCGCTAAAGATCGATCATTTGCGGCGCTTTCAGG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTCAGG
* * **
10981831 -AAAGCGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTTGG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTCAGG
*
10981870 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
10981887 ACCTAAGCCC
Statistics
Matches: 78, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 17 0.22
40 59 0.76
41 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTCAGG
Found at i:10981879 original size:40 final size:40
Alignment explanation
Indices: 10981732--10981886 Score: 125
Period size: 40 Copynumber: 3.8 Consensus size: 40
10981722 AGCGGCATTT
** *
10981732 TTAGCGGCGTTTTGACAAAAAAACGCCACTAAAAATCGATCA
1 TTAGCGGCGTTTT-A-GGAAAAACGCCGCTAAAAATCGATCA
** * * * *
10981774 TTAGCGGCGCATTACGTAAAATGCCGCTAAAGATCGATCA
1 TTAGCGGCGTTTTAGGAAAAACGCCGCTAAAAATCGATCA
* * * *
10981814 TTTGCGGCGCTTTCAGG-AAAGCGCCGCTAAAAAT-GAGCA
1 TTAGCGGCG-TTTTAGGAAAAACGCCGCTAAAAATCGATCA
* *
10981853 TTAGCGGCGTTTTTTGGAAAAACGCCGCAAAAAA
1 TTAGCGGCG-TTTTAGGAAAAACGCCGCTAAAAA
10981887 ACCTAAGCCC
Statistics
Matches: 88, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
39 17 0.19
40 56 0.64
41 4 0.05
42 11 0.12
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGTTTTAGGAAAAACGCCGCTAAAAATCGATCA
Found at i:10982001 original size:41 final size:40
Alignment explanation
Indices: 10981924--10982078 Score: 204
Period size: 41 Copynumber: 3.8 Consensus size: 40
10981914 CCTTTCGGGG
10981924 CTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTT-AAAAAAGCGCCGCT-ATGCTCAGAT
* *
10981966 CTTTAGCAGCGTTTTTGAAAAAGCGCCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCT-ATGCTCAGAT
* * *
10982007 CTTTAGCGGCGTTTTTAAAGAAGCGCCGGTATTGCTGCAG-C
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTA-TGCT-CAGAT
*
10982048 CTTTAGCGGCGTTTTTAAAAAAGCGGCGCTA
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTA
10982079 GTNNNNNNNN
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
40 1 0.01
41 81 0.81
42 18 0.18
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTATGCTCAGAT
Found at i:10984886 original size:17 final size:17
Alignment explanation
Indices: 10984864--10984896 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10984854 ACCTGGTAAG
*
10984864 TTTGATGAATGGTTGTT
1 TTTGATGAATGATTGTT
10984881 TTTGATGAATGATTGT
1 TTTGATGAATGATTGT
10984897 GTTATGTTGC
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:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (17 bp):
TTTGATGAATGATTGTT
Found at i:10986350 original size:43 final size:43
Alignment explanation
Indices: 10986303--10986435 Score: 187
Period size: 43 Copynumber: 3.1 Consensus size: 43
10986293 ATAGACGCGT
* *
10986303 CGCTAAAGGTCTTGATCTTTAGCAGCGTTTGTGGTAAAAGCGC
1 CGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGC
* * **
10986346 CGCTAAAGGTCATGGTCTTTAGTGGCAATTGT-GTAAAATGCGC
1 CGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAA-GCGC
*
10986389 CGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGC
10986432 CGCT
1 CGCT
10986436 TGGTCTTTAG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 6 0.08
43 66 0.86
44 5 0.06
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (43 bp):
CGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGC
Found at i:10995387 original size:12 final size:13
Alignment explanation
Indices: 10995370--10995400 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
10995360 CATCAACTAA
10995370 TTATATATA-TTT
1 TTATATATACTTT
10995382 TTATATATACTTT
1 TTATATATACTTT
10995395 TTATAT
1 TTATAT
10995401 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATATATACTTT
Found at i:10995456 original size:48 final size:49
Alignment explanation
Indices: 10995404--10995501 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 49
10995394 TTTATATGTC
*
10995404 AAATAT-TTACTT-TTTGACCTATATTGTGGGTATCATAAATTCTAATAT
1 AAATATATT-CTTCTTTCACCTATATTGTGGGTATCATAAATTCTAATAT
* *
10995452 AAATATAATTGTTCTTTCACCTATATTGTGGGTATGATAAATTCTAATAT
1 AAATAT-ATTCTTCTTTCACCTATATTGTGGGTATCATAAATTCTAATAT
10995502 TATAAATTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 6 0.14
49 2 0.05
50 36 0.82
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (49 bp):
AAATATATTCTTCTTTCACCTATATTGTGGGTATCATAAATTCTAATAT
Found at i:10998751 original size:20 final size:20
Alignment explanation
Indices: 10998728--10998779 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
10998718 AGAGGAAATA
* * *
10998728 AACACGCAACAGCCAACGCC
1 AACAAGCAAAAGCAAACGCC
10998748 AACAAGCAAAAGCAAACG-C
1 AACAAGCAAAAGCAAACGCC
*
10998767 AAAAAGACAAAAG
1 AACAAG-CAAAAG
10998780 AAAATAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.56, C:0.29, G:0.15, T:0.00
Consensus pattern (20 bp):
AACAAGCAAAAGCAAACGCC
Found at i:10999992 original size:20 final size:20
Alignment explanation
Indices: 10999962--11000016 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
10999952 AATTAATATG
*
10999962 GTCATTGTTATTATTATT-T
1 GTCATTATTATTATTATTAT
* *
10999981 GGTGATTATTATTATAATTAT
1 -GTCATTATTATTATTATTAT
11000002 GTCATTATTATTATT
1 GTCATTATTATTATT
11000017 GTGTTCTATG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.11, T:0.58
Consensus pattern (20 bp):
GTCATTATTATTATTATTAT
Found at i:11001168 original size:20 final size:20
Alignment explanation
Indices: 11001143--11001182 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11001133 AATTTAAAAA
11001143 TTAAAAA-TCATTAAAGTTAT
1 TTAAAAAGT-ATTAAAGTTAT
*
11001163 TTAAAAAGTATTAAATTTAT
1 TTAAAAAGTATTAAAGTTAT
11001183 AAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
TTAAAAAGTATTAAAGTTAT
Found at i:11003051 original size:98 final size:98
Alignment explanation
Indices: 11002882--11003138 Score: 514
Period size: 98 Copynumber: 2.6 Consensus size: 98
11002872 GTACAATAAA
11002882 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
11002947 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
11002980 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
11003045 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
11003078 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCAC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCAC
11003139 NNNNNNNNNN
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 159 1.00
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.26
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:11011613 original size:24 final size:23
Alignment explanation
Indices: 11011568--11011613 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11011558 CAACTCAAGA
*
11011568 CAACACAGTAGCTGAAAAGACAG
1 CAACACAGTAACTGAAAAGACAG
*
11011591 CAACACAGTAACATGAAACGACA
1 CAACACAGTAAC-TGAAAAGACA
11011614 AGACCAACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.50, C:0.24, G:0.17, T:0.09
Consensus pattern (23 bp):
CAACACAGTAACTGAAAAGACAG
Found at i:11016810 original size:19 final size:19
Alignment explanation
Indices: 11016768--11016811 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
11016758 AATTTTGAAT
* *
11016768 AAAAATAGATAAAATTTTG
1 AAAAATAGATAAAAGTGTG
11016787 AAAAATAGAT-AAAGTGTG
1 AAAAATAGATAAAAGTGTG
11016805 AGAAAAT
1 A-AAAAT
11016812 GAGGGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (19 bp):
AAAAATAGATAAAAGTGTG
Found at i:11017773 original size:7 final size:8
Alignment explanation
Indices: 11017750--11017812 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
11017740 ATTTTGTATG
11017750 AATATTGT
1 AATATTGT
11017758 AATATTGT
1 AATATTGT
11017766 AA-ATTGTAT
1 AATATTG--T
11017775 GAATATTGT
1 -AATATTGT
* *
11017784 AATGTTGGG
1 AATATT-GT
11017793 ATATATTGT
1 A-ATATTGT
11017802 AATATTGT
1 AATATTGT
11017810 AAT
1 AAT
11017813 TTTTTGTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
7 4 0.09
8 25 0.56
9 6 0.13
10 6 0.13
11 4 0.09
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (8 bp):
AATATTGT
Found at i:11017779 original size:26 final size:27
Alignment explanation
Indices: 11017719--11017786 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
11017709 GTCGGGTCGT
*
11017719 TATGAATATTGTAATACTATAATTTTG
1 TATGAATATTGTAATACTATAATATTG
* *
11017746 TATGAATATTGTAATATTGTAA-ATTG
1 TATGAATATTGTAATACTATAATATTG
11017772 TATGAATATTGTAAT
1 TATGAATATTGTAAT
11017787 GTTGGGATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 18 0.47
27 20 0.53
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TATGAATATTGTAATACTATAATATTG
Found at i:11017859 original size:73 final size:69
Alignment explanation
Indices: 11017724--11017866 Score: 155
Period size: 73 Copynumber: 2.0 Consensus size: 69
11017714 GTCGTTATGA
* *
11017724 ATATTGTAATACTATAATTTTGTATGAATATTGTAATATTGTAAATTGTATGAATATTGTAATGT
1 ATATTGTAATACTATAATTTTGTATGAATATTGTAATATTGTAAATTATATG-ATATAGTAAT-T
11017789 TGGGAT
64 TGGGAT
* * * *
11017795 ATATTGTAATATTGTAATTTTTTGTATGAATATTGTAATTATTTTATAATTAATTTG-T-TAGTA
1 ATATTGTAATACTATAA--TTTTGTATGAATATTGTAA-TATTGTA-AATT-ATATGATATAGTA
11017858 ATTTGGGAT
61 ATTTGGGAT
11017867 TATGTTATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
71 15 0.25
72 7 0.11
73 25 0.41
74 7 0.11
75 4 0.07
76 3 0.05
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.50
Consensus pattern (69 bp):
ATATTGTAATACTATAATTTTGTATGAATATTGTAATATTGTAAATTATATGATATAGTAATTTG
GGAT
Found at i:11017908 original size:60 final size:60
Alignment explanation
Indices: 11017827--11017948 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
11017817 TGTATGAATA
* * * * * *
11017827 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTGGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
11017887 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
11017947 TT
1 TT
11017949 AGTTTANNNN
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 6 0.11
60 48 0.89
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:11018496 original size:19 final size:19
Alignment explanation
Indices: 11018493--11018639 Score: 77
Period size: 19 Copynumber: 7.1 Consensus size: 19
11018483 CATACAAAAT
11018493 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
11018512 TACAAAATAATAAATTACAATATTCA
1 TAC-----AA-A-ATTACAATATTCA
11018538 TACAAAAAATTACAATATTCA
1 TAC--AAAATTACAATATTCA
* *
11018559 TACAAAA-TACTA-ATCCAA
1 TACAAAATTACAATATTC-A
*
11018577 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
11018600 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
11018620 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
11018639 T
1 T
11018640 TGGCGCCTCT
Statistics
Matches: 101, Mismatches: 9, Indels: 36
0.69 0.06 0.25
Matches are distributed among these distances:
17 3 0.03
18 7 0.07
19 26 0.26
20 12 0.12
21 18 0.18
22 6 0.06
23 8 0.08
24 2 0.02
25 3 0.03
26 16 0.16
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:11018508 original size:27 final size:25
Alignment explanation
Indices: 11018472--11018567 Score: 137
Period size: 26 Copynumber: 3.9 Consensus size: 25
11018462 ATATCCCGAC
11018472 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAA-TA-AAA
11018499 ATTACAATATTCATACAAAATAATAA
1 ATTACAATATTCATACAAAATAA-AA
11018525 ATTACAATATTCATAC---A-AAAA
1 ATTACAATATTCATACAAAATAAAA
11018546 ATTACAATATTCATACAAAATA
1 ATTACAATATTCATACAAAATA
11018568 CTAATCCAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
21 18 0.28
22 2 0.03
23 1 0.02
24 1 0.02
25 2 0.03
26 20 0.31
27 20 0.31
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (25 bp):
ATTACAATATTCATACAAAATAAAA
Found at i:11018549 original size:21 final size:21
Alignment explanation
Indices: 11018496--11018565 Score: 95
Period size: 21 Copynumber: 3.1 Consensus size: 21
11018486 ACAAAATTAC
11018496 AAAATTACAATATTCATACAAAATA
1 AAAATTACAATATTCATAC---A-A
11018521 ATAAATTACAATATTCATACAA
1 A-AAATTACAATATTCATACAA
11018543 AAAATTACAATATTCATACAA
1 AAAATTACAATATTCATACAA
11018564 AA
1 AA
11018566 TACTAATCCA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
21 22 0.50
22 2 0.05
23 1 0.02
25 1 0.02
26 18 0.41
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATTACAATATTCATACAA
Found at i:11018560 original size:47 final size:48
Alignment explanation
Indices: 11018424--11018567 Score: 154
Period size: 47 Copynumber: 2.9 Consensus size: 48
11018414 ATTATAAAAT
*
11018424 AATTACAATATTCATACAAAAAATTACAATA-T--TACAATAT-ATCCCGA
1 AATTACAATATTCATACAAAAAATTACAATATTCATACAAAATAAT--C-A
*
11018471 CATTACAATATTCATACAAAATTACAAAATTACAATATTCATACAAAATAAT-A
1 AATTACAATATTCATAC---A--A-AAAATTACAATATTCATACAAAATAATCA
11018524 AATTACAATATTCATACAAAAAATTACAATATTCATACAAAATA
1 AATTACAATATTCATACAAAAAATTACAATATTCATACAAAATA
11018568 CTAATCCAAA
Statistics
Matches: 84, Mismatches: 3, Indels: 20
0.79 0.03 0.19
Matches are distributed among these distances:
47 41 0.49
48 1 0.01
50 2 0.02
52 1 0.01
53 29 0.35
54 1 0.01
56 7 0.08
57 2 0.02
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (48 bp):
AATTACAATATTCATACAAAAAATTACAATATTCATACAAAATAATCA
Found at i:11018701 original size:27 final size:27
Alignment explanation
Indices: 11018635--11018701 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
11018625 AATTACAATA
11018635 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
* *
11018662 TTCATTAGCGCCTCTCTGTGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
*
11018689 TTCATTGGGGCCT
1 TTCATTGGCGCCT
11018702 ACCTAATAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.13, C:0.31, G:0.24, T:0.31
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATGAGGCACC
Found at i:11019260 original size:21 final size:22
Alignment explanation
Indices: 11019222--11019263 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
11019212 CTGATTTTTA
11019222 CTAATTTATTGCAGATAAACTG
1 CTAATTTATTGCAGATAAACTG
11019244 CTAATTT-TTGC-GTATAAACT
1 CTAATTTATTGCAG-ATAAACT
11019264 TGTTGGTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.05
21 11 0.58
22 7 0.37
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (22 bp):
CTAATTTATTGCAGATAAACTG
Found at i:11022447 original size:31 final size:31
Alignment explanation
Indices: 11022410--11022472 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
11022400 CTTCTGAAAG
11022410 TATGTCTGAAAATTGTATTTGATATATTTGC
1 TATGTCTGAAAATTGTATTTGATATATTTGC
11022441 TATGTCTGAAAATTGTATTTGATATATTTGC
1 TATGTCTGAAAATTGTATTTGATATATTTGC
11022472 T
1 T
11022473 TATATAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.49
Consensus pattern (31 bp):
TATGTCTGAAAATTGTATTTGATATATTTGC
Found at i:11023497 original size:21 final size:22
Alignment explanation
Indices: 11023471--11023512 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11023461 AGCAGATAAA
*
11023471 ATCCAAA-TTTAAATTTGAATC
1 ATCCAAACATTAAATTTGAATC
11023492 ATCCAAACATTAAATTTGAAT
1 ATCCAAACATTAAATTTGAAT
11023513 TAATTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (22 bp):
ATCCAAACATTAAATTTGAATC
Found at i:11023992 original size:14 final size:15
Alignment explanation
Indices: 11023973--11024006 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11023963 ATTATTTTTA
*
11023973 AAATTCAAA-TTTCC
1 AAATTCAAAGGTTCC
11023987 AAATTCAAAGGTTCC
1 AAATTCAAAGGTTCC
11024002 AAATT
1 AAATT
11024007 GCCATGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (15 bp):
AAATTCAAAGGTTCC
Found at i:11038544 original size:27 final size:27
Alignment explanation
Indices: 11038514--11038567 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
11038504 ATTATATATA
*
11038514 TAAATAAATTTAAAAAA-TATAATAAAT
1 TAAATAAA-TTAAAAAATTAAAATAAAT
*
11038541 TAAATATATTAAAAAATTAAAATAAAT
1 TAAATAAATTAAAAAATTAAAATAAAT
11038568 ATTTATCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
TAAATAAATTAAAAAATTAAAATAAAT
Found at i:11038546 original size:9 final size:9
Alignment explanation
Indices: 11038514--11038567 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
11038504 ATTATATATA
11038514 TAAATAAATT
1 TAAATAAA-T
11038524 TAAA-AAA-
1 TAAATAAAT
11038531 TATAATAAAT
1 TA-AATAAAT
*
11038541 TAAATATAT
1 TAAATAAAT
11038550 TAAA-AAAT
1 TAAATAAAT
11038558 TAAAATAAAT
1 T-AAATAAAT
11038568 ATTTATCAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
7 2 0.05
8 6 0.16
9 19 0.51
10 10 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAATAAAT
Found at i:11038694 original size:22 final size:24
Alignment explanation
Indices: 11038669--11038712 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
11038659 ATTAACAATA
*
11038669 AAACAATACTA-ATA-TAATATCC
1 AAACAATAATACATAGTAATATCC
11038691 AAACAATAATACATAGTAATAT
1 AAACAATAATACATAGTAATAT
11038713 AATAGTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (24 bp):
AAACAATAATACATAGTAATATCC
Found at i:11048579 original size:27 final size:27
Alignment explanation
Indices: 11048549--11048602 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
11048539 ATTATATATA
*
11048549 TAAATAGATTTAAAAAA-TATAATAAAT
1 TAAATAGA-TTAAAAAATTAAAATAAAT
*
11048576 TAAATATATTAAAAAATTAAAATAAAT
1 TAAATAGATTAAAAAATTAAAATAAAT
11048603 ATTTATCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (27 bp):
TAAATAGATTAAAAAATTAAAATAAAT
Found at i:11048729 original size:22 final size:24
Alignment explanation
Indices: 11048704--11048747 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
11048694 ATTAACAATA
*
11048704 AAACAATACTA-ATA-TAATATCC
1 AAACAATAATACATAGTAATATCC
11048726 AAACAATAATACATAGTAATAT
1 AAACAATAATACATAGTAATAT
11048748 AATAGTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (24 bp):
AAACAATAATACATAGTAATATCC
Found at i:11055773 original size:45 final size:44
Alignment explanation
Indices: 11055689--11055774 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 44
11055679 ACAATATCAT
*
11055689 TCCATTCAACCAAACACAAGAATACTATTACAATTCTATTCTAG
1 TCCATTCAACCAAACACAAGAATACTATTACAACTCTATTCTAG
* *
11055733 TCCATTCAACCAAACA-ATTGAATTACTATTACAGCTCTATTC
1 TCCATTCAACCAAACACA-AGAA-TACTATTACAACTCTATTC
11055775 CATTACAGCG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 1 0.03
44 19 0.51
45 17 0.46
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (44 bp):
TCCATTCAACCAAACACAAGAATACTATTACAACTCTATTCTAG
Found at i:11055940 original size:14 final size:15
Alignment explanation
Indices: 11055921--11055950 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11055911 GTAACTTGCG
11055921 AATTTAGTC-ATTTT
1 AATTTAGTCAATTTT
11055935 AATTTAGTCAATTTT
1 AATTTAGTCAATTTT
11055950 A
1 A
11055951 GTCCCTATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (15 bp):
AATTTAGTCAATTTT
Found at i:11057699 original size:43 final size:43
Alignment explanation
Indices: 11057647--11057751 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 43
11057637 GTTTTTAGAA
*
11057647 ACAAACGCCGCTAAAGAATAAGACCTTTAACGGCGCTT-TTCCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAACGGCGCTTCTT-CC
* * *
11057690 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTTGC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAACGGCGCTTCTTCC
*
11057733 AAAAACGCCGCTAAA-AACA
1 ACAAACGCCGCTAAAGAACA
11057752 TACATTCAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
42 4 0.07
43 50 0.89
44 2 0.04
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.18
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACAAGACCTTTAACGGCGCTTCTTCC
Found at i:11061949 original size:41 final size:41
Alignment explanation
Indices: 11061892--11062004 Score: 208
Period size: 41 Copynumber: 2.8 Consensus size: 41
11061882 AGATTTTATT
11061892 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTATAAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTATAAGC
11061933 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTATAAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTATAAGC
**
11061974 ATTAGCGGCGCTTTTTGGAAAACGCCGCTAA
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
11062005 TACTTATTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTATAAGC
Found at i:11062773 original size:23 final size:24
Alignment explanation
Indices: 11062719--11062775 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
11062709 ATAGAAATGT
11062719 ATAAAATAAAATAATAATACCTAA
1 ATAAAATAAAATAATAATACCTAA
* *
11062743 A-AACATAAAATAAT-AT-CTTATA
1 ATAAAATAAAATAATAATACCTA-A
11062765 ATAAAATAAAA
1 ATAAAATAAAA
11062776 GGATCTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 3 0.11
22 4 0.14
23 20 0.71
24 1 0.04
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (24 bp):
ATAAAATAAAATAATAATACCTAA
Found at i:11062833 original size:3 final size:3
Alignment explanation
Indices: 11062804--11062867 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
11062794 TAAGAGGAAA
* * * *
11062804 AAT AA- AAT AA- AAT AAA AAG ACT AAT AAT AAT AAT AAT AAT GACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* *
11062848 AAT AAA AAT AAT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT AA
11062868 ACCAATTAAT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
2 4 0.09
3 41 0.87
4 2 0.04
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:11062847 original size:22 final size:21
Alignment explanation
Indices: 11062809--11062861 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
11062799 GGAAAAATAA
11062809 AATAA-AATAAAAAGACTAAT
1 AATAATAATAAAAAGACTAAT
*
11062829 AATAATAATAATAATGACTAAT
1 AATAATAATAA-AAAGACTAAT
*
11062851 AAAAATAATAA
1 AATAATAATAA
11062862 CAATAAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 5 0.17
21 5 0.17
22 19 0.66
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (21 bp):
AATAATAATAAAAAGACTAAT
Found at i:11068810 original size:20 final size:18
Alignment explanation
Indices: 11068760--11068811 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
11068750 CTTATAATTA
11068760 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
*
11068777 AACATTAAGA-TAATCATTTT
1 AATATTAA-ATTAAT-A-TTT
11068797 AATATTAAATTAATA
1 AATATTAAATTAATA
11068812 AAATAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 10 0.36
18 1 0.04
19 3 0.11
20 14 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:11072009 original size:13 final size:13
Alignment explanation
Indices: 11071980--11072016 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
11071970 AATTCGAATT
*
11071980 TCGAGTTAAACGAA
1 TCGAGTT-AATGAA
11071994 TCGAGTTAATGAA
1 TCGAGTTAATGAA
11072007 TCGAGTTAAT
1 TCGAGTTAAT
11072017 CGAGTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.30
Consensus pattern (13 bp):
TCGAGTTAATGAA
Found at i:11072019 original size:9 final size:9
Alignment explanation
Indices: 11072005--11072046 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
11071995 CGAGTTAATG
11072005 AATCGAGTT
1 AATCGAGTT
11072014 AATCGAGTT
1 AATCGAGTT
* *
11072023 ATTTGAGTT
1 AATCGAGTT
11072032 AATCGAGTT
1 AATCGAGTT
*
11072041 ATTCGA
1 AATCGA
11072047 ATCAACTCGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (9 bp):
AATCGAGTT
Found at i:11072032 original size:18 final size:18
Alignment explanation
Indices: 11072009--11072043 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11071999 TTAATGAATC
11072009 GAGTTAATCGAGTTATTT
1 GAGTTAATCGAGTTATTT
11072027 GAGTTAATCGAGTTATT
1 GAGTTAATCGAGTTATT
11072044 CGAATCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.43
Consensus pattern (18 bp):
GAGTTAATCGAGTTATTT
Found at i:11074912 original size:29 final size:26
Alignment explanation
Indices: 11074841--11074914 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 26
11074831 CACATTAGCA
*
11074841 ATTTATTAATTTTTAAAATTAAAACAAT
1 ATTT-TTAA-TTTTAAAATTAAAAAAAT
* *
11074869 ATTTTAAAATATTAAAATTATAAAAAAAT
1 ATTTT-TAATTTTAAAA-T-TAAAAAAAT
11074898 CATTTTTAATTTTAAAA
1 -ATTTTTAATTTTAAAA
11074915 ACTTAATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 8 0.22
28 7 0.19
29 17 0.46
30 5 0.14
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTTTTAATTTTAAAATTAAAAAAAT
Found at i:11078582 original size:12 final size:12
Alignment explanation
Indices: 11078521--11078573 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
11078511 TGATCATCAT
11078521 CAGCAACAGCAG
1 CAGCAACAGCAG
*
11078533 CAGCACCAGCAG
1 CAGCAACAGCAG
11078545 CAGCAACA--A-
1 CAGCAACAGCAG
*
11078554 CAGCAACAGCAA
1 CAGCAACAGCAG
11078566 CAGCAACA
1 CAGCAACA
11078574 TCATCAGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
9 8 0.22
10 1 0.03
11 1 0.03
12 26 0.72
ACGTcount: A:0.45, C:0.36, G:0.19, T:0.00
Consensus pattern (12 bp):
CAGCAACAGCAG
Found at i:11078585 original size:6 final size:6
Alignment explanation
Indices: 11078521--11078573 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
11078511 TGATCATCAT
* * *
11078521 CAGCAA CAGCAG CAGCAC CAGCAG CAGC-A -A-CAA CAGCAA CAGCAA
1 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA
11078566 CAGCAA CA
1 CAGCAA CA
11078574 TCATCAGCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 1 0.03
4 2 0.05
5 1 0.03
6 36 0.90
ACGTcount: A:0.45, C:0.36, G:0.19, T:0.00
Consensus pattern (6 bp):
CAGCAA
Found at i:11079305 original size:3 final size:3
Alignment explanation
Indices: 11079299--11079358 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
11079289 TGAATAATAT
* * * * *
11079299 GCA GCA GCA GCA GCA GCA GCA GCA GCA TCA ACA ACA GCA GCA ACA ACA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
*
11079347 ACA GCA GCA GCA
1 GCA GCA GCA GCA
11079359 ACATTATAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.42, C:0.33, G:0.23, T:0.02
Consensus pattern (3 bp):
GCA
Found at i:11079319 original size:15 final size:15
Alignment explanation
Indices: 11079303--11079361 Score: 82
Period size: 15 Copynumber: 3.9 Consensus size: 15
11079293 TAATATGCAG
* *
11079303 CAGCAGCAGCAGCAG
1 CAGCAGCAGCAACAA
*
11079318 CAGCAGCATCAACAA
1 CAGCAGCAGCAACAA
*
11079333 CAGCAGCAACAACAA
1 CAGCAGCAGCAACAA
11079348 CAGCAGCAGCAACA
1 CAGCAGCAGCAACA
11079362 TTATAAACTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.44, C:0.34, G:0.20, T:0.02
Consensus pattern (15 bp):
CAGCAGCAGCAACAA
Found at i:11079359 original size:18 final size:18
Alignment explanation
Indices: 11079312--11079361 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
11079302 GCAGCAGCAG
* *
11079312 CAGCAGCAGCAGCATCAA
1 CAGCAGCAGCAACAACAA
*
11079330 CAACAGCAGCAACAACAA
1 CAGCAGCAGCAACAACAA
11079348 CAGCAGCAGCAACA
1 CAGCAGCAGCAACA
11079362 TTATAAACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.46, C:0.34, G:0.18, T:0.02
Consensus pattern (18 bp):
CAGCAGCAGCAACAACAA
Found at i:11079692 original size:82 final size:81
Alignment explanation
Indices: 11079593--11079755 Score: 301
Period size: 82 Copynumber: 2.0 Consensus size: 81
11079583 TATATATACC
11079593 AAATCCTTTAGTAATATATATATATATATATATATTTTTGAATAAAGAGAGAAACGACCATAGTT
1 AAATCCTTTAGTAATATATATATATATATATATATTTTTGAATAAAGAGAGAAACGACCATAGTT
11079658 TCTTTTCTTTTTCTCT
66 TCTTTTCTTTTTCTCT
11079674 AAATCCTTTA-TAATATATATATATATATATATATATTTTTGAATAAAGAGAGAAACGACCATAG
1 AAATCCTTTAGT-A-ATATATATATATATATATATATTTTTGAATAAAGAGAGAAACGACCATAG
11079738 TTTCTTTTCTTTTTCTCT
64 TTTCTTTTCTTTTTCTCT
11079756 TTATCTCTTT
Statistics
Matches: 80, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
80 1 0.01
81 11 0.14
82 68 0.85
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (81 bp):
AAATCCTTTAGTAATATATATATATATATATATATTTTTGAATAAAGAGAGAAACGACCATAGTT
TCTTTTCTTTTTCTCT
Found at i:11080945 original size:10 final size:9
Alignment explanation
Indices: 11080900--11080966 Score: 52
Period size: 8 Copynumber: 7.7 Consensus size: 9
11080890 TTGGAAAGAG
*
11080900 AGAAAGAAC
1 AGAAAGAAA
*
11080909 A-AAAGGAA
1 AGAAAGAAA
*
11080917 A-AAAGAGA
1 AGAAAGAAA
*
11080925 AGAAAGTAA
1 AGAAAGAAA
11080934 AGTAAAGAAA
1 AG-AAAGAAA
11080944 AGAAAAGAAA
1 AG-AAAGAAA
11080954 AG-AAGAAA
1 AGAAAGAAA
11080962 A-AAAG
1 AGAAAG
11080967 CAGGAAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
8 22 0.47
9 8 0.17
10 17 0.36
ACGTcount: A:0.73, C:0.01, G:0.22, T:0.03
Consensus pattern (9 bp):
AGAAAGAAA
Found at i:11088511 original size:16 final size:17
Alignment explanation
Indices: 11088486--11088518 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11088476 ATGTTAGAGT
11088486 ATATAAATTTG-AAATC
1 ATATAAATTTGTAAATC
*
11088502 ATATATATTTGTAAATC
1 ATATAAATTTGTAAATC
11088519 TTTTCAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (17 bp):
ATATAAATTTGTAAATC
Found at i:11088719 original size:19 final size:20
Alignment explanation
Indices: 11088667--11088721 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
11088657 TTTTTGAAAC
* *
11088667 TTTTAAAAAATAATTTGGAA
1 TTTTAAAAAATTATTTTGAA
* *
11088687 TTTTCATAAA-TATTTTGAA
1 TTTTAAAAAATTATTTTGAA
11088706 TTTT-AAAAATTATTTT
1 TTTTAAAAAATTATTTT
11088722 TTTGTAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 4 0.14
19 17 0.59
20 8 0.28
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTAAAAAATTATTTTGAA
Found at i:11088722 original size:20 final size:19
Alignment explanation
Indices: 11088657--11088722 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
11088647 TTTAGGATTT
11088657 TTTTTGAAACTTTTAAAAAATA
1 TTTTTG-AA-TTTT-AAAAATA
* * *
11088679 ATTTGGAATTTTCATAAATA
1 TTTTTGAATTTT-AAAAATA
11088699 -TTTTGAATTTTAAAAATTA
1 TTTTTGAATTTTAAAAA-TA
11088718 TTTTT
1 TTTTT
11088723 TTGTAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 4 0.11
19 12 0.33
20 14 0.39
21 2 0.06
22 4 0.11
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (19 bp):
TTTTTGAATTTTAAAAATA
Found at i:11096248 original size:103 final size:104
Alignment explanation
Indices: 11096068--11096275 Score: 409
Period size: 103 Copynumber: 2.0 Consensus size: 104
11096058 TGATGAAAGA
11096068 ACTTTAAAATATATATAAATTAATAAAAAAAATATTTTTTTCACAATAAGAATGAACTTTGATCT
1 ACTTTAAAATATATATAAATTAATAAAAAAAATATTTTTTTCACAATAAGAATGAACTTTGATCT
11096133 ATGTCACCATCAGATTGACCATTAACGCCACATCAATAT
66 ATGTCACCATCAGATTGACCATTAACGCCACATCAATAT
11096172 ACTTTAAAAT-TATATAAATTAATAAAAAAAATATTTTTTTCACAATAAGAATGAACTTTGATCT
1 ACTTTAAAATATATATAAATTAATAAAAAAAATATTTTTTTCACAATAAGAATGAACTTTGATCT
11096236 ATGTCACCATCAGATTGACCATTAACGCCACATCAATAT
66 ATGTCACCATCAGATTGACCATTAACGCCACATCAATAT
11096275 A
1 A
11096276 AACTAATGGT
Statistics
Matches: 104, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
103 94 0.90
104 10 0.10
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (104 bp):
ACTTTAAAATATATATAAATTAATAAAAAAAATATTTTTTTCACAATAAGAATGAACTTTGATCT
ATGTCACCATCAGATTGACCATTAACGCCACATCAATAT
Found at i:11098986 original size:23 final size:24
Alignment explanation
Indices: 11098960--11099015 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
11098950 AAATAGTGAA
*
11098960 AAAAACAACAAGAA-AATAATAAC
1 AAAAACAACAAAAATAATAATAAC
** *
11098983 -AAAACAGTAAAAATAATAATAAT
1 AAAAACAACAAAAATAATAATAAC
11099006 AAAAACAACA
1 AAAAACAACA
11099016 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
22 10 0.40
23 8 0.32
24 7 0.28
ACGTcount: A:0.73, C:0.11, G:0.04, T:0.12
Consensus pattern (24 bp):
AAAAACAACAAAAATAATAATAAC
Found at i:11102058 original size:71 final size:71
Alignment explanation
Indices: 11101976--11102117 Score: 248
Period size: 71 Copynumber: 2.0 Consensus size: 71
11101966 TCCTTGGATT
* *
11101976 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
1 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
11102041 CTTGAG
66 CTTGAG
* *
11102047 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGATATCGTTTAAAA
1 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
11102112 CTTGAG
66 CTTGAG
11102118 TTTGAAAAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (71 bp):
AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
CTTGAG
Found at i:11102744 original size:3 final size:3
Alignment explanation
Indices: 11102738--11102768 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11102728 ATAATGAGTA
11102738 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11102769 GTATCAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11104704 original size:45 final size:44
Alignment explanation
Indices: 11104564--11104723 Score: 205
Period size: 44 Copynumber: 3.6 Consensus size: 44
11104554 ATTTTAATCC
* *
11104564 GCTCCACTGCAACTTCAGGGAGAT-AGGATTAGTAGCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGG-TTTGTATCTTCAGTCT
* * * *** **
11104608 ACTCCACTGTAACTTTAGGGAGATAAAACTTGTATCTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATCTTCAGTCT
11104652 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TATCTTCAGTCT
11104697 GCTCCACTGCAACTTCAGGGAGATAAG
1 GCTCCACTGCAACTTCAGGGAGATAAG
11104724 ACTTATTTTC
Statistics
Matches: 96, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
44 58 0.60
45 38 0.40
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATCTTCAGTCT
Found at i:11104717 original size:89 final size:88
Alignment explanation
Indices: 11104564--11104727 Score: 249
Period size: 89 Copynumber: 1.9 Consensus size: 88
11104554 ATTTTAATCC
* *
11104564 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTACTCCACTGTAACTTTAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTACTCCACTGCAACTTCAGGGA
11104629 GATAAAACTTGTATCTTCAACCT
66 GATAAAACTTGTATCTTCAACCT
* * *
11104652 GCTCCACTGCAACTTCAGGGAGATAAGG-TTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
1 GCTCCACTGCAACTTCAGGGAGAT-AGGATTAG-TAGCTTCAGTCTACTCCACTGCAACTTCAGG
*
11104716 GAGATAAGACTT
64 GAGATAAAACTT
11104728 ATTTTCGAAC
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
88 27 0.40
89 41 0.60
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (88 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTACTCCACTGCAACTTCAGGGA
GATAAAACTTGTATCTTCAACCT
Found at i:11105011 original size:35 final size:36
Alignment explanation
Indices: 11104943--11105011 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
11104933 AAGACTAGCT
11104943 GTCTTCAATCTTAACGCCAGGAAGATAAGATTCGCC
1 GTCTTCAATCTTAACGCCAGGAAGATAAGATTCGCC
* * *
11104979 GTCTTCAGTCTTAATG-CAGGGAGATAAGATTCG
1 GTCTTCAATCTTAACGCCAGGAAGATAAGATTCG
11105012 TTGCCTTCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (36 bp):
GTCTTCAATCTTAACGCCAGGAAGATAAGATTCGCC
Found at i:11105020 original size:35 final size:36
Alignment explanation
Indices: 11104945--11105021 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 36
11104935 GACTAGCTGT
* *
11104945 CTTCAATCTTAACGCCAGGAAGATAAGATTCGCCGT
1 CTTCAGTCTTAACGCCAGGAAGATAAGATTCGCCGC
* * **
11104981 CTTCAGTCTTAATG-CAGGGAGATAAGATTCGTTGC
1 CTTCAGTCTTAACGCCAGGAAGATAAGATTCGCCGC
11105016 CTTCAG
1 CTTCAG
11105022 CTTTAATCTG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (36 bp):
CTTCAGTCTTAACGCCAGGAAGATAAGATTCGCCGC
Found at i:11105102 original size:83 final size:82
Alignment explanation
Indices: 11104979--11105136 Score: 226
Period size: 83 Copynumber: 1.9 Consensus size: 82
11104969 AAGATTCGCC
* * * * * **
11104979 GTCTTCAGTCTTAATGCAGGGAGATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCTGCTACAAT
1 GTCTTCAATCTTAACGCAGGAAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTACAAT
11105044 GCCAAAGAAGACTAGTT
66 GCCAAAGAAGACTAGTT
* *
11105061 GTCTTCAATCTTAACGCCAGGAAGATAAGATTTGCTACCTTCAGCTTTAATCTGCTCCACTATAA
1 GTCTTCAATCTTAACG-CAGGAAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTACAA
11105126 TGCCAAAGAAG
65 TGCCAAAGAAG
11105137 TAAGATTCGT
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 14 0.21
83 52 0.79
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (82 bp):
GTCTTCAATCTTAACGCAGGAAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTACAAT
GCCAAAGAAGACTAGTT
Found at i:11105104 original size:118 final size:118
Alignment explanation
Indices: 11104844--11105092 Score: 453
Period size: 118 Copynumber: 2.1 Consensus size: 118
11104834 TACTACCTTG
*
11104844 GGAAGATAAGATTCGCCGTCTTCAATCTTAATGCAGGGAGATAAGATTCGCTGCCTTCAACTTTA
1 GGAAGATAAGATTCGCCGTCTTCAGTCTTAATGCAGGGAGATAAGATTCGCTGCCTTCAACTTTA
*
11104909 ATTTGCTCTGCTACAATGCCAAAGAAGACTAGCTGTCTTCAATCTTAACGCCA
66 ATCTGCTCTGCTACAATGCCAAAGAAGACTAGCTGTCTTCAATCTTAACGCCA
* *
11104962 GGAAGATAAGATTCGCCGTCTTCAGTCTTAATGCAGGGAGATAAGATTCGTTGCCTTCAGCTTTA
1 GGAAGATAAGATTCGCCGTCTTCAGTCTTAATGCAGGGAGATAAGATTCGCTGCCTTCAACTTTA
*
11105027 ATCTGCTCTGCTACAATGCCAAAGAAGACTAGTTGTCTTCAATCTTAACGCCA
66 ATCTGCTCTGCTACAATGCCAAAGAAGACTAGCTGTCTTCAATCTTAACGCCA
11105080 GGAAGATAAGATT
1 GGAAGATAAGATT
11105093 TGCTACCTTC
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 126 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (118 bp):
GGAAGATAAGATTCGCCGTCTTCAGTCTTAATGCAGGGAGATAAGATTCGCTGCCTTCAACTTTA
ATCTGCTCTGCTACAATGCCAAAGAAGACTAGCTGTCTTCAATCTTAACGCCA
Found at i:11105276 original size:100 final size:100
Alignment explanation
Indices: 11105133--11105975 Score: 1166
Period size: 100 Copynumber: 8.4 Consensus size: 100
11105123 TAATGCCAAA
** * * * * * * * **
11105133 GAAGTAAGATTCGTTGTCGTAGTTTCAATCTATTTAACTGCAATGTTGGGGAAACGTGATTCGCC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCC
* * *
11105198 GTCGTAGCTTCAATCTGTTCCACTACACCGCTAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
11105233 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCC
*
11105298 GTTGTAGCTTCAATCTGTTCTACTGCACCGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* * * * *
11105333 GAAGTAAGATTCACTGCTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGAAGCAAGATCCGCC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCC
* *
11105398 GTTGTAGCTTCAATTTGTTCCACTGCACCGCTAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* ** ***
11105433 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGAGGAAATAAGATTCATT
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCC
* * * *
11105498 GTCGTAGCTTCAATATGTTCCATTACACCGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* *
11105533 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTACAATGTTGGGGAAGCAAGATTCGCC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCC
*
11105598 GTTGTAGCTTCAATCTGTTCCACTGTACCGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* * * * **
11105633 GAAGTAAGATTCGCCGTTGTGGCTTAAATATTTTTAATTGCAATTTCGGGGTAGCAAGATTCATC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCC
* *
11105698 GTTGTAGCTTCAATCTATTCCACTGCACCGCTAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* * * *
11105733 GAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGTAATATCGGGGAAGCAAGATTCACC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCC
* * * *
11105798 GTTGTAGCTTCAATCTATTCCATTACACTGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* *
11105833 GAAGTAAGATTCACCGTTGTGGCTTCAAAT-TTTTTAATTACAATGTCGGGGAAGCAAGATTCGC
1 GAAGTAAGATTCGCCGTTGTGGCTTC-AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGC
*
11105897 CGTTGTAGCTTCAATCTGTTCTACTGCACCGCCAGG
65 CGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* *
11105933 GAAGTAAAATTCGCTGTTGTGGCTTCAATCTTTTTAATTGCAA
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAA
11105976 CCTTAGGGGT
Statistics
Matches: 654, Mismatches: 87, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
99 3 0.00
100 648 0.99
101 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (100 bp):
GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCC
GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
Found at i:11106891 original size:20 final size:22
Alignment explanation
Indices: 11106853--11106899 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
11106843 CTCCTTTTTC
*
11106853 TTTTTTCGTTCTTCTTTTCTTT
1 TTTTTTCGTTCTTCGTTTCTTT
11106875 TTTTTTC-TT-TTCGTTTCTTT
1 TTTTTTCGTTCTTCGTTTCTTT
11106895 TTTTT
1 TTTTT
11106900 CAAGTGAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 15 0.62
21 2 0.08
22 7 0.29
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (22 bp):
TTTTTTCGTTCTTCGTTTCTTT
Found at i:11106892 original size:28 final size:26
Alignment explanation
Indices: 11106847--11106898 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
11106837 TGGCCTCTCC
11106847 TTTTTCTTTTTTCGTTCTTCTTTTCT
1 TTTTTCTTTTTTCGTTCTTCTTTTCT
* *
11106873 TTTTTTTTCTTTTCGTTTCTTTTTTT
1 TTTTTCTT-TTTTCG-TTCTTCTTTT
11106899 TCAAGTGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 6 0.27
28 9 0.41
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (26 bp):
TTTTTCTTTTTTCGTTCTTCTTTTCT
Found at i:11110246 original size:71 final size:71
Alignment explanation
Indices: 11110130--11110271 Score: 257
Period size: 71 Copynumber: 2.0 Consensus size: 71
11110120 TCTTGGATTT
*
11110130 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
1 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
11110195 CTTGAG
66 CTTGAG
* *
11110201 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGATATCGTTTAAAA
1 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
11110266 CTTGAG
66 CTTGAG
11110272 TTTGAAAAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (71 bp):
AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
CTTGAG
Found at i:11111214 original size:51 final size:51
Alignment explanation
Indices: 11111106--11111223 Score: 127
Period size: 51 Copynumber: 2.3 Consensus size: 51
11111096 ATATATATGC
* * *
11111106 ATATAAAAATTATAAAATAATATATATAAGTATGTATACATATATTTGTAAA
1 ATATAAAAAATATAAAATAATATATATAAGTATGTATA-ATATAGTTATAAA
*
11111158 A-ATAAAAAATATAAATATAGATATATGT-AGATATGTAT-ATA-AGTTATAAA
1 ATATAAAAAATATAAA-ATA-ATATATATAAG-TATGTATAATATAGTTATAAA
11111208 ATATAAAAATATATAA
1 ATATAAAAA-ATATAA
11111224 GCATGTATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
50 8 0.14
51 23 0.40
52 12 0.21
53 14 0.25
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.36
Consensus pattern (51 bp):
ATATAAAAAATATAAAATAATATATATAAGTATGTATAATATAGTTATAAA
Found at i:11115495 original size:20 final size:20
Alignment explanation
Indices: 11115461--11115502 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11115451 AACTATTTAA
** *
11115461 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
11115481 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
11115501 AT
1 AT
11115503 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:11119922 original size:20 final size:20
Alignment explanation
Indices: 11119888--11119929 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11119878 AACTATTTAA
** *
11119888 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
11119908 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
11119928 AT
1 AT
11119930 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:11122547 original size:20 final size:20
Alignment explanation
Indices: 11122522--11122561 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11122512 CGTAAAATGA
*
11122522 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
11122542 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
11122562 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:11122551 original size:34 final size:35
Alignment explanation
Indices: 11122507--11122573 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
11122497 CAGTAAAATA
* *
11122507 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
11122541 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
11122574 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:11124113 original size:24 final size:24
Alignment explanation
Indices: 11124085--11124136 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11124075 TTCGTAGGTA
* *
11124085 AAATAAATTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11124109 AAATATACTATACTAATAGATACT
1 AAATAAACTATACTAATAAATACT
11124133 AAAT
1 AAAT
11124137 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11126085 original size:24 final size:24
Alignment explanation
Indices: 11126057--11126108 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
11126047 TTCGTAGGTA
* * *
11126057 AAATAAATTATGCTAATAAATGCT
1 AAATAAATAATACTAATAAATACT
* *
11126081 AAATATATAATACTAATAGATACT
1 AAATAAATAATACTAATAAATACT
11126105 AAAT
1 AAAT
11126109 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAAATAATACTAATAAATACT
Found at i:11154718 original size:24 final size:24
Alignment explanation
Indices: 11154686--11154734 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11154676 ATTTAAAACA
11154686 AGCATTTATCAAGGTGGCCCGATC
1 AGCATTTATCAAGGTGGCCCGATC
11154710 AGCATTTATCAAGGTGGCCCGATC
1 AGCATTTATCAAGGTGGCCCGATC
11154734 A
1 A
11154735 CACCTCATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (24 bp):
AGCATTTATCAAGGTGGCCCGATC
Found at i:11154744 original size:24 final size:24
Alignment explanation
Indices: 11154693--11154745 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
11154683 ACAAGCATTT
* *
11154693 ATCAAGGTGGCCCGATCAGCATTT
1 ATCAAGGTGGCCCGATCAGCACTC
11154717 ATCAAGGTGGCCCGATCA-CACCTC
1 ATCAAGGTGGCCCGATCAGCA-CTC
11154741 ATCAA
1 ATCAA
11154746 AAAGGATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (24 bp):
ATCAAGGTGGCCCGATCAGCACTC
Found at i:11157472 original size:20 final size:19
Alignment explanation
Indices: 11157440--11157477 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
11157430 AGAAGGAGAA
11157440 AAGAAAAGAAAAAGAAAAAG
1 AAGAAAAGAAAAA-AAAAAG
*
11157460 AAGAAAA-ATAAAAAAAAG
1 AAGAAAAGAAAAAAAAAAG
11157478 GCCAAGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (19 bp):
AAGAAAAGAAAAAAAAAAG
Found at i:11159234 original size:88 final size:88
Alignment explanation
Indices: 11158898--11159272 Score: 552
Period size: 89 Copynumber: 4.2 Consensus size: 88
11158888 AAATTTAAGC
*
11158898 CACCAGCCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTA
* **
11158963 CTGGCAGTGAAGTAGATAAAAAAA
66 CTGGCAGTGAAGCAGAT-CGAAAA
* *
11158987 CACCAGCCTTATCTCCCTGAGCAACAATGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTA
11159052 CTGGCAGTGAAGCAGATCGAAAA
66 CTGGCAGTGAAGCAGATCGAAAA
* * * *** *
11159075 CACTAGCCTTATCTCTCTAAATTTGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCATGT
1 CACCAGCCTTATCTCCCT-GAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGT
11159140 ACTGGCAGTGAAGCAGATCGAAAA
65 ACTGGCAGTGAAGCAGATCGAAAA
*
11159164 CACTAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTA
* * * *
11159229 TTGGCAGCGAAGTAGATCGAAGA
66 CTGGCAGTGAAGCAGATCGAAAA
**
11159252 CACCAGCCTTGCCTCCCTGAG
1 CACCAGCCTTATCTCCCTGAG
11159273 TTTTCAGTTA
Statistics
Matches: 257, Mismatches: 28, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
88 99 0.39
89 158 0.61
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (88 bp):
CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTA
CTGGCAGTGAAGCAGATCGAAAA
Found at i:11159306 original size:177 final size:176
Alignment explanation
Indices: 11158945--11159604 Score: 599
Period size: 177 Copynumber: 3.7 Consensus size: 176
11158935 TAAAGATTGT
* ** *
11158945 AGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATAAAAAAACACCAGCCTTATCTCCCTGAGCA
1 AGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGAT-CGAAAACACCAGCCTTACCTCCCTGAGC-
* * * * *
11159010 ACAATGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAA
64 ACAATGGAGCAGGTTAAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGA
* ** * * * * * * * * *
11159075 CACTAGCCTTATCTCTCTAAATTTGCAGTGGAGTAG-GTTAAAGATTGT
129 CACCAGCCTTGCCTCCCTGAGTTTACAGTGGAGCAGACTAAAAG-TAGC
* * *
11159123 AGATCTTGTCTTCATGTACTGGCAGTGAAGCAGATCGAAAACACTAGCCTTATCTCCCTGAGCAG
1 AGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTACCTCCCTGAGCA-
* * * *
11159188 CAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAC
65 CAATGGAGCAGGTTAAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGAC
* ** *
11159253 ACCAGCCTTGCCTCCCTGAGTTTTCAGTTAAGCAGACTAAAAGTAAC
130 ACCAGCCTTGCCTCCCTGAGTTTACAGTGGAGCAGACTAAAAGTAGC
* * * * * * * * *
11159300 AGATCTTATCTTCCTATATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCTTGAGTTT
1 AGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTACCTCCCTGAG--C
* * * * * * * * *
11159365 ACAACGAAACAGACTGAAAG-TAGTAGATCTTATCTTCCTCTATTGACAGCGAAGTAGATCGAAG
64 ACAATGGAGCAG-GTTAAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAG
* * * *
11159429 ACACCAACCTTGCCTCCTTGAGTTTACAGCGGAGCAGACTAAAAGCAGC
128 ACACCAGCCTTGCCTCCCTGAGTTTACAGTGGAGCAGACTAAAAGTAGC
* ** * * * **
11159478 AGGTCTTGTCTTTTTGTACTGGCAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCCGAGTTT
1 AGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTACCTCCCTGAG-CA
* * * * *
11159543 CAGTGGAGCAGATTGAAA-ATAGCAGATCTTGTCTTCTTGTGA-TGGCAGTGAAGCAGATCGAA
65 CAATGGAGCAGGTT-AAAGATAGTAGATCTTGTCTTCCTGT-ATTGGCAGCGAAGCAGATCGAA
11159605 ATAACAAACC
Statistics
Matches: 394, Mismatches: 80, Indels: 17
0.80 0.16 0.03
Matches are distributed among these distances:
176 2 0.01
177 208 0.53
178 178 0.45
179 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (176 bp):
AGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTACCTCCCTGAGCAC
AATGGAGCAGGTTAAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACA
CCAGCCTTGCCTCCCTGAGTTTACAGTGGAGCAGACTAAAAGTAGC
Found at i:11159324 original size:89 final size:89
Alignment explanation
Indices: 11159211--11159604 Score: 470
Period size: 89 Copynumber: 4.4 Consensus size: 89
11159201 TAAAGATTGT
11159211 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTT
* ** *
11159276 TCAGTTAAGCAGACTAAAAGTAAC
66 ACAGCGAAGCAGACTAAAAGTAGC
* * *
11159300 AGATCTTATCTTCCTATATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCTTGAGTTT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTT
* * * *
11159365 ACAACGAAACAGACTGAAAGTAGT
66 ACAGCGAAGCAGACTAAAAGTAGC
* * * * *
11159389 AGATCTTATCTTCCTCTATTGACAGCGAAGTAGATCGAAGACACCAACCTTGCCTCCTTGAGTTT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTT
* *
11159454 ACAGCGGAGCAGACTAAAAGCAGC
66 ACAGCGAAGCAGACTAAAAGTAGC
* ** * * * *
11159478 AGGTCTTGTCTTTTTGTACTGGCAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCCGAGTTT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTT
* * *
11159543 -CAGTGGAGCAGATTGAAAA-TAGC
66 ACAGCGAAGCAGACT-AAAAGTAGC
* * *
11159566 AGATCTTGTCTTCTTGTGA-TGGCAGTGAAGCAGATCGAA
1 AGATCTTGTCTTCCTGT-ATTGGCAGCGAAGTAGATCGAA
11159605 ATAACAAACC
Statistics
Matches: 266, Mismatches: 37, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
88 50 0.19
89 216 0.81
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (89 bp):
AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTT
ACAGCGAAGCAGACTAAAAGTAGC
Found at i:11159393 original size:266 final size:264
Alignment explanation
Indices: 11158898--11159605 Score: 674
Period size: 266 Copynumber: 2.7 Consensus size: 264
11158888 AAATTTAAGC
11158898 CACCAGCCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTA
1 CACCAGCCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTA
** * ** *** * * * *
11158963 CTGGCAGTGAAGTAGATAAAAAAACACCAGCCTTATCTCCCTGAGCAACAATGGAGTAG-GTTAA
66 CTGGCAGTGAAGTAGAT-CGAAGACACCAGCCTTGCCTCCCTGAGTTTCAGTGGAGCAGACTAAA
* * * *
11159027 AGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACTAGCCTTATCTCTC
130 AG-TAGCAGATCTTGTCTTCCTGTA-TGGCAGTGAAGCAGATCGAAAACACCAGCCTTACCTCTC
* ** * ** * * * * * * *
11159092 TAAATTTGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCATGTACTGGCAGTGAAGCAGA
193 TAAATTTACAACGAAACAGCTGAAAGATAGTAGATCTTATCTTCATCTACTGACAGCGAAGCAGA
11159157 TCGAAAA
258 TCGAAAA
* *
11159164 CACTAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTA
1 CACCAGCCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTA
* * **
11159229 TTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTTCAGTTAAGCAGACTAAA
66 CTGGCAGTGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAG-TTTCAGTGGAGCAGACTAAA
* * * * * * *
11159294 AGTAACAGATCTTATCTTCCTATATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTC-CT
130 AGTAGCAGATCTTGTCTTCCTGTA-TGGCAGTGAAGCAGATCGAAAACACCAGCCTTACCTCTC-
* * * * *
11159358 TGAGTTTACAACGAAACAGACTGAAAG-TAGTAGATCTTATCTTCCTCTATTGACAGCGAAGTAG
193 TAAATTTACAACGAAACAG-CTGAAAGATAGTAGATCTTATCTTCATCTACTGACAGCGAAGCAG
*
11159422 ATCGAAGA
257 ATCGAAAA
* ** * * * * * * * **
11159430 CACCAACCTTGCCTCCTTGAGTTTA-CAGCGGAGCAGACTAAAAGCA--GCAGGTCTTGTCTTTT
1 CACCAGCCTTATCTCCTTGAG--CAGCAGTGGAGTAG-GTTAAAG-ATTGTAGATCTTGTCTTCC
* * *
11159492 TGTACTGGCAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCCGAGTTTCAGTGGAGCAGATT
62 TGTACTGGCAGTGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTCAGTGGAGCAGACT
*
11159557 GAAAA-TAGCAGATCTTGTCTTCTTGTGATGGCAGTGAAGCAGATCGAAA
127 -AAAAGTAGCAGATCTTGTCTTCCTGT-ATGGCAGTGAAGCAGATCGAAA
11159606 TAACAAACCT
Statistics
Matches: 355, Mismatches: 77, Indels: 20
0.79 0.17 0.04
Matches are distributed among these distances:
265 23 0.06
266 245 0.69
267 80 0.23
268 6 0.02
269 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (264 bp):
CACCAGCCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCTTGTCTTCCTGTA
CTGGCAGTGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTCAGTGGAGCAGACTAAAA
GTAGCAGATCTTGTCTTCCTGTATGGCAGTGAAGCAGATCGAAAACACCAGCCTTACCTCTCTAA
ATTTACAACGAAACAGCTGAAAGATAGTAGATCTTATCTTCATCTACTGACAGCGAAGCAGATCG
AAAA
Found at i:11160020 original size:44 final size:44
Alignment explanation
Indices: 11159862--11160075 Score: 146
Period size: 44 Copynumber: 4.8 Consensus size: 44
11159852 ATAGGCTATA
* * ** * * ** *
11159862 AATCTTGTCTCCCTGAAGTTACAGTGGAGCAAATGAAAGCCACA
1 AATCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTAAAGATACC
* * ** * * *
11159906 AACCTTATCTCTCTGAAGTTGCAGTATAGCAGGTTGAA-ATAACA
1 AATCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTAAAGAT-ACC
*
11159950 AACCTTATCTCTCTGAAGTT-TCAGTGGAGCAGATTAAAGATACC
1 AATCTTATCTCTCTGAAGTTGT-AGTGGAGCAGATTAAAGATACC
* * *
11159994 AATCTTATCTCTCTGAAGATGTAGTGGAGTAGGTTGAAGACCGACTA-C
1 AATCTTATCTCTCTGAAGTTGTAGTGGAGCAGATT-AA-A--GA-TACC
*
11160042 AAGTCTTATCTCTCTAAAGTTGTAGTGGAGCAGA
1 AA-TCTTATCTCTCTGAAGTTGTAGTGGAGCAGA
11160076 CCGTTGATAG
Statistics
Matches: 134, Mismatches: 26, Indels: 15
0.77 0.15 0.09
Matches are distributed among these distances:
44 94 0.70
45 5 0.04
46 1 0.01
48 5 0.04
49 29 0.22
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGTAGTGGAGCAGATTAAAGATACC
Found at i:11160028 original size:88 final size:88
Alignment explanation
Indices: 11159869--11160031 Score: 209
Period size: 88 Copynumber: 1.9 Consensus size: 88
11159859 ATAAATCTTG
* * *
11159869 TCTCCCTGAAGTTACAGTGGAGCAAATGAAAGCCACAAACCTTATCTCTCTGAAGTTGCAGTATA
1 TCTCCCTGAAGTTACAGTGGAGCAAATGAAAGACACAAACCTTATCTCTCTGAAGATGCAGTAGA
11159934 GCAGGTTGAAATAACAAACCTTA
66 GCAGGTTGAAATAACAAACCTTA
* * * * * * * * *
11159957 TCTCTCTGAAGTTTCAGTGGAGCAGATTAAAGATACCAATCTTATCTCTCTGAAGATGTAGTGGA
1 TCTCCCTGAAGTTACAGTGGAGCAAATGAAAGACACAAACCTTATCTCTCTGAAGATGCAGTAGA
*
11160022 GTAGGTTGAA
66 GCAGGTTGAA
11160032 GACCGACTAC
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
88 62 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (88 bp):
TCTCCCTGAAGTTACAGTGGAGCAAATGAAAGACACAAACCTTATCTCTCTGAAGATGCAGTAGA
GCAGGTTGAAATAACAAACCTTA
Found at i:11163698 original size:6 final size:6
Alignment explanation
Indices: 11163684--11163728 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
11163674 TGTGTTTTGA
* * *
11163684 ATATGT ATATAT ATATGT ATATAT ATATGT ATATCT AT-TGT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
11163729 TTGATGAGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (6 bp):
ATATGT
Found at i:11163701 original size:12 final size:12
Alignment explanation
Indices: 11163684--11163728 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
11163674 TGTGTTTTGA
11163684 ATATGTATATAT
1 ATATGTATATAT
11163696 ATATGTATATAT
1 ATATGTATATAT
*
11163708 ATATGTATATCT
1 ATATGTATATAT
11163720 AT-TGTATAT
1 ATATGTATAT
11163729 TTGATGAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 7 0.22
12 25 0.78
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:11165109 original size:35 final size:36
Alignment explanation
Indices: 11165050--11165137 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 36
11165040 AGAAGGTTGT
* ** * *
11165050 GATCATAAATCAACGAACTGTTTAAGTAGAG-TCAC
1 GATCGTAAATCAATAAACTCTTTAAGAAGAGTTCAC
* * * *
11165085 GATTGTAAATCGATAAACTCTTTAAGAAGTGTTCAT
1 GATCGTAAATCAATAAACTCTTTAAGAAGAGTTCAC
11165121 GATCGTAAATCAATAAA
1 GATCGTAAATCAATAAA
11165138 TTGAAGCCGT
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
35 23 0.56
36 18 0.44
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (36 bp):
GATCGTAAATCAATAAACTCTTTAAGAAGAGTTCAC
Found at i:11166777 original size:134 final size:133
Alignment explanation
Indices: 11166438--11166793 Score: 462
Period size: 133 Copynumber: 2.7 Consensus size: 133
11166428 ATCAAATTGC
* *
11166438 TTAAGTGGAATCGTGATTGTAAATCGATGAACTCTTTAAGAAGTGTTCATAATTATAAATCAATG
1 TTAAGTGGAGTCGCGATTGTAAATCGATGAACTCTTTAAGAAGTGTTCATAATTATAAATCAATG
* * * * * * *
11166503 AACTAAAGTCGTGATCGTAAATCAACAGGCTTTAAACATGATAGTCGTGATACTAACTCAGCGAA
66 AACTGAAGCCGTGATCGTAAATCAACAAGCTTTAAAAATGAAAATCGTGATACTAAATCAGCGAA
11166568 ATG
131 ATG
* * * * * * *
11166571 TTAATTGTAGTCACGATTGTAAATCGGTGAACTCTTCAAGAAGTGTTCATGATCATAAATCAATG
1 TTAAGTGGAGTCGCGATTGTAAATCGATGAACTCTTTAAGAAGTGTTCATAATTATAAATCAATG
* ** *
11166636 AACTGAAGCCGTGATCGTAAATCAACAAGCTTTAAAAATGAAAATTGTGATTGTAAATTAGCGAA
66 AACTGAAGCCGTGATCGTAAATCAACAAGCTTTAAAAATGAAAATCGTGATACTAAATCAGCGAA
11166701 CTAT-
131 --ATG
* * *
11166705 TTAAGTGGAGTCGCGATCGTAAATCGATGAACTCTTTAAGAAGTGTTCATAATTGTAAATTAATG
1 TTAAGTGGAGTCGCGATTGTAAATCGATGAACTCTTTAAGAAGTGTTCATAATTATAAATCAATG
* *
11166770 AATTGAAGCCGCGATCGTAAATCA
66 AACTGAAGCCGTGATCGTAAATCA
11166794 GTAAATTGTT
Statistics
Matches: 189, Mismatches: 32, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
133 110 0.58
134 77 0.41
135 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (133 bp):
TTAAGTGGAGTCGCGATTGTAAATCGATGAACTCTTTAAGAAGTGTTCATAATTATAAATCAATG
AACTGAAGCCGTGATCGTAAATCAACAAGCTTTAAAAATGAAAATCGTGATACTAAATCAGCGAA
ATG
Found at i:11166827 original size:39 final size:39
Alignment explanation
Indices: 11166782--11166949 Score: 142
Period size: 39 Copynumber: 4.3 Consensus size: 39
11166772 TTGAAGCCGC
* * *
11166782 GATCGTAAATCAGTAAATTGTTAGAAACTCAAAGGTCGT
1 GATCGTAAATCAGTAAACTGTAAGAAACTCAAAGATCGT
* * *
11166821 GATCGTAAATCAGTAGACTGTAAGAAAGTCGAAGATCGT
1 GATCGTAAATCAGTAAACTGTAAGAAACTCAAAGATCGT
* * * * * *
11166860 GACCGTAAATTAGTGGAAC-ATAAGAAAGTCAAAGATCAT
1 GATCGTAAATCAGT-AAACTGTAAGAAACTCAAAGATCGT
* ** * *
11166899 GATCGTAAATTAGTGGACTGTAAGAAAGC-CAAAGGTCAT
1 GATCGTAAATCAGTAAACTGTAAGAAA-CTCAAAGATCGT
*
11166938 GATCATAAATCA
1 GATCGTAAATCA
11166950 ACAGACTATA
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
38 3 0.03
39 101 0.95
40 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (39 bp):
GATCGTAAATCAGTAAACTGTAAGAAACTCAAAGATCGT
Found at i:11166947 original size:78 final size:78
Alignment explanation
Indices: 11166804--11166947 Score: 189
Period size: 78 Copynumber: 1.8 Consensus size: 78
11166794 GTAAATTGTT
* * * * * *
11166804 AGAAACTCAAAGGTCGTGATCGTAAATCAGTAGACTGTAAGAAAGTCGAAGATCGTGACCGTAAA
1 AGAAACTCAAAGATCATGATCGTAAATCAGTAGACTGTAAGAAAGCCAAAGATCATGACCATAAA
11166869 TTAGTGGAACATA
66 TTAGTGGAACATA
* * * * *
11166882 AGAAAGTCAAAGATCATGATCGTAAATTAGTGGACTGTAAGAAAGCCAAAGGTCATGATCATAAA
1 AGAAACTCAAAGATCATGATCGTAAATCAGTAGACTGTAAGAAAGCCAAAGATCATGACCATAAA
11166947 T
66 T
11166948 CAACAGACTA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 55 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (78 bp):
AGAAACTCAAAGATCATGATCGTAAATCAGTAGACTGTAAGAAAGCCAAAGATCATGACCATAAA
TTAGTGGAACATA
Found at i:11171824 original size:54 final size:54
Alignment explanation
Indices: 11171741--11171850 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
11171731 TTAAAGCAAA
*
11171741 CACGATTGCAACTAACTCAAGGTCTTGTGTCAGATAATTTCTTTTGTGTGATTT
1 CACGATTGCAACTAACTCAAGGTCATGTGTCAGATAATTTCTTTTGTGTGATTT
*
11171795 CACGATTGCAACTAACTCAAGGTCATGTGTCGGATAATTTCTTTTGTGTGATTT
1 CACGATTGCAACTAACTCAAGGTCATGTGTCAGATAATTTCTTTTGTGTGATTT
11171849 CA
1 CA
11171851 ACTGACGAGA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (54 bp):
CACGATTGCAACTAACTCAAGGTCATGTGTCAGATAATTTCTTTTGTGTGATTT
Found at i:11181563 original size:69 final size:69
Alignment explanation
Indices: 11181295--11181563 Score: 290
Period size: 69 Copynumber: 3.9 Consensus size: 69
11181285 GACATTCGAG
* ** * *
11181295 TCATATTAAGGCTCGTAAGCAAAGAGTCGCAGCCTCCAACACAATTAGCGAGAGCAAAGCTCT-A
1 TCATATTAAGGCTCGTAGGTGAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTCA
11181359 CCTA
66 CCTA
* * * * * * *
11181363 TCATATTAAGGCTCGTCGGTGAAAAGCCACAACCTCCAACATAGTTAACGAGAACAAAGCTC-CT
1 TCATATTAAGGCTCGTAGGTGAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTC-
*
11181427 AGCTA
65 ACCTA
* ** * *
11181432 TCATATTAAGGCTCATAGCCGAAGAGCCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCTCA
1 TCATATTAAGGCTCGTAGGTGAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTCA
11181497 CCTA
66 CCTA
* * ** * * *
11181501 TCGTACTAAAACTCGTAGGTGAAGAGCCGCAGCCTCTAACACAATTAGTGAGAGCAAAGCTCT
1 TCATATTAAGGCTCGTAGGTGAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCT
11181564 AGCTGTCATA
Statistics
Matches: 164, Mismatches: 34, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
68 50 0.30
69 113 0.69
70 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (69 bp):
TCATATTAAGGCTCGTAGGTGAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTCA
CCTA
Found at i:11181566 original size:137 final size:137
Alignment explanation
Indices: 11181295--11181573 Score: 337
Period size: 137 Copynumber: 2.0 Consensus size: 137
11181285 GACATTCGAG
* * *
11181295 TCATATTAAGGCTCGTAAGCAAAGAGTCGCAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTAC
1 TCATATTAAGGCTCATAAGCAAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTAC
* ** * * *
11181360 CTATCATATTAAGGCTCGTCGGTGAAAAGCCACAACCTCCAACATAGTTAACGAGAACAAAGCTC
66 CTATCATACTAAAACTCGTAGGTGAAAAGCCACAACCTCCAACACAATTAACGAGAACAAAGCTC
11181425 CTAGCTA
131 CTAGCTA
* * *
11181432 TCATATTAAGGCTCAT-AGCCGAAGAGCCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCTC
1 TCATATTAAGGCTCATAAG-CAAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCT-
* * * * * ** *
11181496 ACCTATCGTACTAAAACTCGTAGGTGAAGAGCCGCAGCCTCTAACACAATTAGTGAGAGCAAAGC
64 ACCTATCATACTAAAACTCGTAGGTGAAAAGCCACAACCTCCAACACAATTAACGAGAACAAAGC
*
11181561 T-CTAGCTG
129 TCCTAGCTA
11181569 TCATA
1 TCATA
11181574 CTGAAGCTCA
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
136 2 0.02
137 65 0.55
138 52 0.44
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (137 bp):
TCATATTAAGGCTCATAAGCAAAGAGCCACAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTAC
CTATCATACTAAAACTCGTAGGTGAAAAGCCACAACCTCCAACACAATTAACGAGAACAAAGCTC
CTAGCTA
Found at i:11181583 original size:137 final size:137
Alignment explanation
Indices: 11181324--11181583 Score: 326
Period size: 138 Copynumber: 1.9 Consensus size: 137
11181314 CAAAGAGTCG
* ** *
11181324 CAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTACCTATCATATTAAGGCTCGTCGGTGAAAAG
1 CAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTACCTATCATACTAAAACTCGTAGGTGAAAAG
* * *
11181389 CCACAACCTCCAACATAGTTAACGAGAACAAAGCTCCTAGCTATCATATTAAGGCTCATAGCCGA
66 CCACAACCTCCAACACAATTAACGAGAACAAAGCTCCTAGCTATCATATGAAGGCTCATAGCCGA
11181454 AGAGCCA
131 AGAGCCA
* * * *
11181461 CAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCTCACCTATCGTACTAAAACTCGTAGGTGAAGA
1 CAGCCTCCAACACAATTAGCGAGAGCAAAGCTCT-ACCTATCATACTAAAACTCGTAGGTGAAAA
* * * ** * *
11181526 GCCGCAGCCTCTAACACAATTAGTGAGAGCAAAGCT-CTAGCTGTCATACTGAA-GCTCA
65 GCCACAACCTCCAACACAATTAACGAGAACAAAGCTCCTAGCTATCATA-TGAAGGCTCA
11181584 CAGGCAAAAA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
137 48 0.47
138 55 0.53
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (137 bp):
CAGCCTCCAACACAATTAGCGAGAGCAAAGCTCTACCTATCATACTAAAACTCGTAGGTGAAAAG
CCACAACCTCCAACACAATTAACGAGAACAAAGCTCCTAGCTATCATATGAAGGCTCATAGCCGA
AGAGCCA
Found at i:11181756 original size:58 final size:58
Alignment explanation
Indices: 11181666--11181982 Score: 483
Period size: 58 Copynumber: 5.5 Consensus size: 58
11181656 ACTATGTTAC
* * *
11181666 CTTTCAAAATTTTCACAAGTATAAAACAGCTCGGGGATTCACATCCCTAGTTGGTTAT
1 CTTTCAAAATTTTCACAAGTATAAAACAGCTCGTGGATTCACATCCCCAGTTGATTAT
* *
11181724 CTTTCAAAATTTGT-ACAAGTATAAAATAGCTCGCGGATTCACATCCCCAGTTGATTAT
1 CTTTCAAAATTT-TCACAAGTATAAAACAGCTCGTGGATTCACATCCCCAGTTGATTAT
* *
11181782 CTTTCAGAATTTTCACAAGCATAAAACAGCTCGTGGATTCACATCCCCAGTTGATTAT
1 CTTTCAAAATTTTCACAAGTATAAAACAGCTCGTGGATTCACATCCCCAGTTGATTAT
* *
11181840 CTTTCAGAATTTTCACAAGCATAAAACAGCTCGTGGATTCACATCCCCAGTTGATTAT
1 CTTTCAAAATTTTCACAAGTATAAAACAGCTCGTGGATTCACATCCCCAGTTGATTAT
* * * * *
11181898 CTTTCAGAATTTTCACAAGTATAAAACAGTTCGTAGATTCACATCCCTAATTGATTAT
1 CTTTCAAAATTTTCACAAGTATAAAACAGCTCGTGGATTCACATCCCCAGTTGATTAT
*
11181956 CTTTCAAATTTTTCACAAGTATAAAAC
1 CTTTCAAAATTTTCACAAGTATAAAAC
11181983 TATTTGTGGA
Statistics
Matches: 242, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
57 1 0.00
58 240 0.99
59 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (58 bp):
CTTTCAAAATTTTCACAAGTATAAAACAGCTCGTGGATTCACATCCCCAGTTGATTAT
Found at i:11189128 original size:2 final size:2
Alignment explanation
Indices: 11189121--11189171 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
11189111 TTTTAGTACC
*
11189121 AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11189163 AT AT AT AT A
1 AT AT AT AT A
11189172 CACGCATAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11190356 original size:42 final size:43
Alignment explanation
Indices: 11190255--11190409 Score: 167
Period size: 43 Copynumber: 3.6 Consensus size: 43
11190245 AGCTCGTACA
* * *
11190255 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATAAAATAATG
1 ATGCCAATGTCCCAGACTGTGGTCTTACATGTAATCAAAT-ACG
* * *
11190298 ATGCCACTGTCCCAGACTG-GGTCTTACACGTAATCATATACG
1 ATGCCAATGTCCCAGACTGTGGTCTTACATGTAATCAAATACG
* *
11190340 ATGCCAATGTCCCAGAC-ATGGTTTTACATGTAAATCCCAAAT-CG
1 ATGCCAATGTCCCAGACTGTGGTCTTACATGT-AAT--CAAATACG
11190384 ATGCCAATGTCCCAGA-TGTGGTCTTA
1 ATGCCAATGTCCCAGACTGTGGTCTTA
11190410 TACAAAATCA
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
42 28 0.30
43 35 0.38
44 26 0.28
45 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACTGTGGTCTTACATGTAATCAAATACG
Found at i:11194977 original size:25 final size:24
Alignment explanation
Indices: 11194947--11195063 Score: 80
Period size: 25 Copynumber: 4.8 Consensus size: 24
11194937 TCCTTCTCTC
11194947 GAGCCATATAATGGGAAGCTCATG
1 GAGCCATATAATGGGAAGCTCATG
* * *
11194971 TGAGCCATGTAACGGGAAGCTTATCCG
1 -GAGCCATATAATGGGAAGCTCAT--G
** *
11194998 G-GCTGTATAATGGGAAGCTCATAA
1 GAGCCATATAATGGGAAGCTCAT-G
11195022 GAGCC--ATAATCGGGAAGCTC-TG
1 GAGCCATATAAT-GGGAAGCTCATG
*
11195044 GATAGCCATATATTGGGAAG
1 G--AGCCATATAATGGGAAG
11195064 TTCAAGCGAG
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
22 1 0.01
23 6 0.08
24 14 0.20
25 44 0.62
26 5 0.07
27 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (24 bp):
GAGCCATATAATGGGAAGCTCATG
Found at i:11195040 original size:24 final size:24
Alignment explanation
Indices: 11195004--11195128 Score: 101
Period size: 24 Copynumber: 5.1 Consensus size: 24
11194994 TCCGGGCTGT
*
11195004 ATAAT-GGGAAGCTCATAAGAGCC
1 ATAATCGGGAAGCTCAAAAGAGCC
*** *
11195027 ATAATCGGGAAGCTCTGGATAGCC
1 ATAATCGGGAAGCTCAAAAGAGCC
* * ** *
11195051 ATATATTGGGAAGTTCAAGCGAGGC
1 ATA-ATCGGGAAGCTCAAAAGAGCC
11195076 AT-ATCGGGAAGCTCACAAAGAGCC
1 ATAATCGGGAAGCTCA-AAAGAGCC
*
11195100 TTTAATCGGGAAGCTCACAAAGAGCC
1 -ATAATCGGGAAGCTCA-AAAGAGCC
11195126 ATA
1 ATA
11195129 TAGTAGGACG
Statistics
Matches: 79, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
23 16 0.20
24 22 0.28
25 19 0.24
26 22 0.28
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (24 bp):
ATAATCGGGAAGCTCAAAAGAGCC
Found at i:11197183 original size:13 final size:13
Alignment explanation
Indices: 11197165--11197192 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11197155 ACTTTATAGC
11197165 ACCCCTTAGGCCG
1 ACCCCTTAGGCCG
11197178 ACCCCTTAGGCCG
1 ACCCCTTAGGCCG
11197191 AC
1 AC
11197193 TGAGGGGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.46, G:0.21, T:0.14
Consensus pattern (13 bp):
ACCCCTTAGGCCG
Found at i:11201804 original size:9 final size:9
Alignment explanation
Indices: 11201790--11201838 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
11201780 GTTAAACGAA
11201790 TCGAGTTAT
1 TCGAGTTAT
*
11201799 TCGAGTTAA
1 TCGAGTTAT
11201808 TCGAGTTAT
1 TCGAGTTAT
*
11201817 TCGAGTTAA
1 TCGAGTTAT
11201826 TCGAGTTAT
1 TCGAGTTAT
11201835 TCGA
1 TCGA
11201839 ATCAACTCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11201811 original size:18 final size:18
Alignment explanation
Indices: 11201788--11201838 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
11201778 GAGTTAAACG
11201788 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
11201806 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
11201824 AATCGAGTTATTCGA
1 AATCGAGTTATTCGA
11201839 ATCAACTCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:11201912 original size:9 final size:9
Alignment explanation
Indices: 11201893--11201929 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
11201883 TGAGTTTTCA
11201893 AATTCGAAT
1 AATTCGAAT
11201902 AACTT-GAAT
1 AA-TTCGAAT
11201911 AATTCGAAT
1 AATTCGAAT
11201920 AATTCGAAT
1 AATTCGAAT
11201929 A
1 A
11201930 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11210430 original size:21 final size:21
Alignment explanation
Indices: 11210393--11210432 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11210383 AAGAAAGAAA
*
11210393 GAAATCGGATTTAGATGAGGG
1 GAAATCGGAGTTAGATGAGGG
11210414 GAAATCGGAAGTT-GATGAG
1 GAAATCGG-AGTTAGATGAG
11210433 TAGTTGATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.35, C:0.05, G:0.38, T:0.23
Consensus pattern (21 bp):
GAAATCGGAGTTAGATGAGGG
Found at i:11210601 original size:36 final size:36
Alignment explanation
Indices: 11210503--11210604 Score: 106
Period size: 36 Copynumber: 2.9 Consensus size: 36
11210493 TTGAATTCAA
*
11210503 ATGTATATGTTTTATATATT-TCTGAATTGA-TT-TAT
1 ATGTATATG-TATATATATTGTC-GAATTGATTTGTAT
* * * *
11210538 ATGTAGA--TATATACATTGCCGACTTGATTTGTAT
1 ATGTATATGTATATATATTGTCGAATTGATTTGTAT
11210572 ATGTATATGTATATATATTGTCGAATTGATTTG
1 ATGTATATGTATATATATTGTCGAATTGATTTG
11210605 AGATCCCGTA
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
32 14 0.26
33 3 0.06
34 9 0.17
35 6 0.11
36 21 0.40
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.49
Consensus pattern (36 bp):
ATGTATATGTATATATATTGTCGAATTGATTTGTAT
Found at i:11210765 original size:96 final size:96
Alignment explanation
Indices: 11210601--11210780 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 96
11210591 GTCGAATTGA
*
11210601 TTTGAGATCCCGTATAAGACCATATCTGAGATATAACATCGGTCTCGATTTGAGATCCCGTATAA
1 TTTGAGATCCCATATAAGACCATATCTGAGATATAACATCGGTCTCGATTTGAGATCCCGTATAA
11210666 GACCATATCTAGGATATGGAATCGGCATCGG
66 GACCATATCTAGGATATGGAATCGGCATCGG
* ** * * **
11210697 TTTGAGATCCCATATAAGACCATATTTGAGATATGGCATCGG-CATTGATTTTAGATTTCGTATA
1 TTTGAGATCCCATATAAGACCATATCTGAGATATAACATCGGTC-TCGATTTGAGATCCCGTATA
*
11210761 AGACCATATCTGGGATATGG
65 AGACCATATCTAGGATATGG
11210781 CATTGATATG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 73 0.99
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (96 bp):
TTTGAGATCCCATATAAGACCATATCTGAGATATAACATCGGTCTCGATTTGAGATCCCGTATAA
GACCATATCTAGGATATGGAATCGGCATCGG
Found at i:11210780 original size:48 final size:48
Alignment explanation
Indices: 11210599--11210783 Score: 239
Period size: 48 Copynumber: 3.9 Consensus size: 48
11210589 TTGTCGAATT
**
11210599 GATTTGAGATCCCGTATAAGACCATATCTGAGATATAACATCGGTC-TC
1 GATTTGAGATCCCGTATAAGACCATATCTGAGATATGGCATCGG-CATC
*
11210647 GATTTGAGATCCCGTATAAGACCATATCT-AGGATATGGAATCGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTGA-GATATGGCATCGGCATC
* * * *
11210695 GGTTTGAGATCCCATATAAGACCATATTTGAGATATGGCATCGGCATT
1 GATTTGAGATCCCGTATAAGACCATATCTGAGATATGGCATCGGCATC
* ** *
11210743 GATTTTAGATTTCGTATAAGACCATATCTGGGATATGGCAT
1 GATTTGAGATCCCGTATAAGACCATATCTGAGATATGGCAT
11210784 TGATATGAGA
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
47 2 0.02
48 116 0.97
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (48 bp):
GATTTGAGATCCCGTATAAGACCATATCTGAGATATGGCATCGGCATC
Found at i:11210805 original size:42 final size:42
Alignment explanation
Indices: 11210737--11210870 Score: 162
Period size: 42 Copynumber: 3.1 Consensus size: 42
11210727 ATATGGCATC
* * *
11210737 GGCATTGATTTTAGATTTCGTATAAGACCATATCTGGGATAT
1 GGCATTGATATGAGATTTCGTGTAAGACCATATCTGGGATAT
*
11210779 GGCATTGATATGAGACTTT-GTGTAAGACCATAGCTGGGATATT
1 GGCATTGATATGAGA-TTTCGTGTAAGACCATATCTGGGATA-T
* * *
11210822 GACATCGATATGAGATTTCCATGTAAGACCATATCTGGGATAT
1 GGCATTGATATGAGATTT-CGTGTAAGACCATATCTGGGATAT
*
11210865 AGCATT
1 GGCATT
11210871 TTTACGATAC
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 36 0.47
43 21 0.27
44 20 0.26
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (42 bp):
GGCATTGATATGAGATTTCGTGTAAGACCATATCTGGGATAT
Found at i:11219177 original size:28 final size:29
Alignment explanation
Indices: 11219136--11219270 Score: 101
Period size: 30 Copynumber: 4.6 Consensus size: 29
11219126 TACCATCGGT
* * *
11219136 ACATAGTACCTGATAATTATAACA-CGAC
1 ACATAGTGCCTGATAAATATAACACCAAC
*
11219164 ACATAGTGCTTGATAAATATAACACCAAC
1 ACATAGTGCCTGATAAATATAACACCAAC
* * * *
11219193 ACATAGTGTCTGATACAACATGAACACCGAT
1 ACATAGTGCCTGATA-AATAT-AACACCAAC
* * * ***
11219224 ACAAAGTACCTAATAAATATAATCACCGGT
1 ACATAGTGCCTGATAAATATAA-CACCAAC
*
11219254 ACATAATGCCTGATAAA
1 ACATAGTGCCTGATAAA
11219271 CCCTAATGAC
Statistics
Matches: 84, Mismatches: 19, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
28 21 0.25
29 18 0.21
30 27 0.32
31 18 0.21
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.24
Consensus pattern (29 bp):
ACATAGTGCCTGATAAATATAACACCAAC
Found at i:11219206 original size:29 final size:27
Alignment explanation
Indices: 11219136--11219207 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 27
11219126 TACCATCGGT
* * *
11219136 ACATAGTACCTGATAATTATAACACGAC
1 ACATAGT-GCTGATAAATATAACACAAC
11219164 ACATAGTGCTTGATAAATATAACACCAAC
1 ACATAGTGC-TGATAAATATAACA-CAAC
11219193 ACATAGTGTCTGATA
1 ACATAGTG-CTGATA
11219208 CAACATGAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 1 0.03
28 20 0.53
29 16 0.42
30 1 0.03
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.26
Consensus pattern (27 bp):
ACATAGTGCTGATAAATATAACACAAC
Found at i:11221665 original size:31 final size:31
Alignment explanation
Indices: 11221630--11221690 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
11221620 AAAAATTATT
** * *
11221630 AAAAAATCTTAAAAAAATTATAAAGAATAAG
1 AAAAAATCAGAAAAAAATTACAAAAAATAAG
*
11221661 AAAAAATGAGAAAAAAATTACAAAAAATAA
1 AAAAAATCAGAAAAAAATTACAAAAAATAA
11221691 ACAATACTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.18
Consensus pattern (31 bp):
AAAAAATCAGAAAAAAATTACAAAAAATAAG
Done.