Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 45 of 222
Found at i:13452873 original size:79 final size:81
Alignment explanation
Indices: 13452729--13452909 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 81
13452719 GCTACTCGTT
* * * *
13452729 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTGAACCCGG
* *
13452794 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
* **
13452809 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTGAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAGCTCGCACAAATGCCTTCGGGA-CTGAACCC
* *
13452871 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
*
13452889 CAAA-GCGTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
13452910 TGGACATGAT
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.05
79 52 0.61
80 29 0.34
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTGAACCCGG
ATATAGTAACTTAGCA
Found at i:13464279 original size:25 final size:25
Alignment explanation
Indices: 13464231--13464279 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
13464221 GTTTTTTTAT
*
13464231 TATTTAATATTAACATAATTATTTC
1 TATTTAATATTAACATAATAATTTC
*
13464256 TATTTAAATATTAATATAA-AATTT
1 TATTT-AATATTAACATAATAATTT
13464280 AAATTTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTTAATATTAACATAATAATTTC
Found at i:13466594 original size:2 final size:2
Alignment explanation
Indices: 13466587--13466615 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13466577 TTACGTCCCC
13466587 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
13466616 TACTGAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:13469123 original size:13 final size:13
Alignment explanation
Indices: 13469105--13469130 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13469095 ATTTTAACTG
13469105 TTTTCATTTCTAT
1 TTTTCATTTCTAT
13469118 TTTTCATTTCTAT
1 TTTTCATTTCTAT
13469131 AGATAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCATTTCTAT
Found at i:13477469 original size:43 final size:43
Alignment explanation
Indices: 13477403--13477528 Score: 134
Period size: 41 Copynumber: 3.0 Consensus size: 43
13477393 GGCTCGTACA
*
13477403 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTGAACACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTGAACACATATCG
** *
13477446 ATGCCCCTGTCCCAGACAGGGTCTTACA--TGAATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTGAA-CACATATCG
* ** *
13477487 ATGCCAATGTCTCAGACATAGTCTTACATGTAAACACATATC
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTGAACACATATC
13477529 AAAAATCCTA
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
41 29 0.43
42 10 0.15
43 27 0.40
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTGAACACATATCG
Found at i:13478280 original size:10 final size:10
Alignment explanation
Indices: 13478267--13478292 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13478257 AAAAACATCA
13478267 AAAATCGAAC
1 AAAATCGAAC
13478277 AAAATCGAAC
1 AAAATCGAAC
13478287 AAAATC
1 AAAATC
13478293 CATACCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.19, G:0.08, T:0.12
Consensus pattern (10 bp):
AAAATCGAAC
Found at i:13478427 original size:23 final size:23
Alignment explanation
Indices: 13478400--13478445 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
13478390 TAATTTGTTA
13478400 TATTAA-ACATATATTAACCTTAT
1 TATTAATAC-TATATTAACCTTAT
13478423 TATTAATTTACTATATTAACCTT
1 TATTAA--TACTATATTAACCTT
13478446 TACTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAATACTATATTAACCTTAT
Found at i:13490368 original size:24 final size:24
Alignment explanation
Indices: 13490306--13490368 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
13490296 TCATGTACAT
* *
13490306 ATAAGCTCATAGGAGCTATGAATCG
1 ATAAGCTCATA-CAACTATGAATCG
* *
13490331 GTATGCTC-TCACAACTATGAATCG
1 ATAAGCTCAT-ACAACTATGAATCG
13490355 ATAAGCTCATACAA
1 ATAAGCTCATACAA
13490369 GCTGTGGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
24 22 0.73
25 8 0.27
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
ATAAGCTCATACAACTATGAATCG
Found at i:13498280 original size:3 final size:3
Alignment explanation
Indices: 13498272--13498330 Score: 84
Period size: 3 Copynumber: 19.3 Consensus size: 3
13498262 AATAGAAACA
*
13498272 AAC AAC AAC AAC AAC AAC AAC AAC AAA AAC AAC AAC AAC AAC AAC AGAGC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A-A-C
13498322 AAC AA- AAC A
1 AAC AAC AAC A
13498331 GTGACAGGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 2 0.04
3 45 0.88
4 2 0.04
5 2 0.04
ACGTcount: A:0.68, C:0.29, G:0.03, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:13498949 original size:23 final size:23
Alignment explanation
Indices: 13498913--13498958 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13498903 CCCCTCCACA
13498913 TTTTTAATTATTTTAATTCAATT
1 TTTTTAATTATTTTAATTCAATT
* * *
13498936 TTTTTTATTTTTTTTATTCAATT
1 TTTTTAATTATTTTAATTCAATT
13498959 AATAATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTAATTATTTTAATTCAATT
Found at i:13499158 original size:5 final size:5
Alignment explanation
Indices: 13499148--13499172 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13499138 AAAATCCAAT
13499148 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
13499173 TTATTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:13499265 original size:23 final size:22
Alignment explanation
Indices: 13499212--13499272 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
13499202 TTTAAGCTTG
*
13499212 ATATTATTTTAAATTCATCATTA
1 ATATTA-TTTAAATTTATCATTA
13499235 ATA-T-TTTAAATTTATCATATA
1 ATATTATTTAAATTTATCAT-TA
* *
13499256 TTATTATTTACATTTAT
1 ATATTATTTAAATTTAT
13499273 TGTCTATTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 13 0.41
21 4 0.12
22 2 0.06
23 13 0.41
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTATTTAAATTTATCATTA
Found at i:13503717 original size:41 final size:41
Alignment explanation
Indices: 13503672--13503815 Score: 121
Period size: 41 Copynumber: 3.3 Consensus size: 41
13503662 CTATATTTAA
13503672 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
1 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
* * ** *
13503713 ATTTT-TTAATATTATACATATATTCATTTACGTATGTAAGCTATATTTA-A
1 ATTTTATTAATA--ATA-A-AT-TT-A-TAACTTAAATAAG---TA-TTACT
13503763 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
1 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
*
13503804 ATTTTTTTAATA
1 ATTTTATTAATA
13503816 TTATACATAT
Statistics
Matches: 79, Mismatches: 11, Indels: 26
0.68 0.09 0.22
Matches are distributed among these distances:
40 9 0.11
41 18 0.23
42 3 0.04
43 1 0.01
44 11 0.14
45 3 0.04
46 3 0.04
47 11 0.14
48 1 0.01
49 3 0.04
50 7 0.09
51 9 0.11
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (41 bp):
ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
Found at i:13503751 original size:91 final size:92
Alignment explanation
Indices: 13503643--13503833 Score: 375
Period size: 91 Copynumber: 2.1 Consensus size: 92
13503633 GTTTAAAAGC
13503643 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
13503708 TTACTA-TTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
13503734 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
13503799 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
13503826 ATTCATTT
1 ATTCATTT
13503834 TATCGTGAGG
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 71 0.72
92 28 0.28
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (92 bp):
ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
TTACTATTTTTTTAATATTATACATAT
Found at i:13509146 original size:66 final size:65
Alignment explanation
Indices: 13509039--13509209 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
13509029 GAGCAAATTA
* * * *
13509039 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
13509103 G
65 G
* *
13509104 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
13509169 G
65 G
* * * * *
13509170 CAGCAGCTTAAAGCAGATGCGGCAGCAAAAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
13509210 CGGCAGCGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 85 0.93
67 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.12
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:13509223 original size:21 final size:21
Alignment explanation
Indices: 13509200--13509288 Score: 124
Period size: 21 Copynumber: 4.2 Consensus size: 21
13509190 GGCAGCAAAA
* *
13509200 GAAGCAGAGGCGGCAGCGAGA
1 GAAGCAGAGGCTGCAGCGAGG
* *
13509221 GAAGTACAGGCTGCAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
**
13509242 GAAGCAGAGGCTAAAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
13509263 GAAGCAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
13509284 GAAGC
1 GAAGC
13509289 CGAGCAGCGT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.33, C:0.18, G:0.45, T:0.04
Consensus pattern (21 bp):
GAAGCAGAGGCTGCAGCGAGG
Found at i:13509237 original size:42 final size:42
Alignment explanation
Indices: 13509191--13509279 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
13509181 AGCAGATGCG
** *
13509191 GCAGCAAAAGAAGCAGAGGCGGCAGCGAGAGAAGTACAGGCT
1 GCAGCAAAAGAAGCAGAGGCGAAAGCGAGAGAAGCACAGGCT
* ** * * *
13509233 GCAGCGAGGGAAGCAGAGGCTAAAGCGAGGGAAGCAGAGGCT
1 GCAGCAAAAGAAGCAGAGGCGAAAGCGAGAGAAGCACAGGCT
13509275 GCAGC
1 GCAGC
13509280 GAGGGAAGCC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.19, G:0.42, T:0.04
Consensus pattern (42 bp):
GCAGCAAAAGAAGCAGAGGCGAAAGCGAGAGAAGCACAGGCT
Found at i:13509675 original size:43 final size:42
Alignment explanation
Indices: 13509642--13509894 Score: 215
Period size: 43 Copynumber: 5.9 Consensus size: 42
13509632 AGGTGTTGGC
* * *
13509642 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGAT-ATGGT
* ** *
13509685 CTTTAGCAGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGAT-ATGGT
**
13509728 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGAT-TAGGTT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAT-GG-T
* * * * *
13509771 CTTTAGTGGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCG-TTTGTGGTCAAAGCGCCGCTAAAGAT-ATGGT
* **
13509815 CTATT-GCGGCGTTTGAGGGGAAAGCGCCGCTAAAGAT-TAGGTT
1 CT-TTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATAT-GG-T
* * * *
13509858 CTTTCGTGGCGTTTGTGGTCAAAGTGCCGCTATAGAT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGAT
13509895 CAGGGCCGCT
Statistics
Matches: 168, Mismatches: 33, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 6 0.04
43 128 0.76
44 29 0.17
45 4 0.02
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (42 bp):
CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATATGGT
Found at i:13509752 original size:86 final size:86
Alignment explanation
Indices: 13509617--13509875 Score: 295
Period size: 87 Copynumber: 3.0 Consensus size: 86
13509607 GCGTTTTTAA
* * ** * * * ** *
13509617 AAAAAACGCCACTAAAGGTGTTGGCCTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAG
1 AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAG
* **
13509682 GGTCTTTAGCAGCGTTTGTGG
66 GTTCTTTAGTGGCGTTTGTGG
13509703 AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAG
1 AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAG
*
13509768 GTTCTTTAGTGGCGTTTTGTTG
66 GTTCTTTAGTGGCG-TTTGTGG
*** * * * *
13509790 TCGAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGGGAAAGCGCCGCTAAAGATTA
1 AAAAAGCGCCACTAAAGATCATGGTCT-TTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTA
*
13509854 GGTTCTTTCGTGGCGTTTGTGG
65 GGTTCTTTAGTGGCGTTTGTGG
13509876 TCAAAGTGCC
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
86 72 0.49
87 74 0.50
88 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (86 bp):
AAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAG
GTTCTTTAGTGGCGTTTGTGG
Found at i:13509827 original size:87 final size:86
Alignment explanation
Indices: 13509662--13509899 Score: 325
Period size: 87 Copynumber: 2.8 Consensus size: 86
13509652 GTTTTTGGTC
* * ** ** * * *
13509662 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCAGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
*
13509727 TCTTTAGCGGCGTTTGTGGGG
66 TCTTTAGCGGCGTTTGAGGGG
* *
13509748 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCG-TTTGTGGTCAAAGCGCCGCTATAGATCAGG
13509813 GTCTATT-GCGGCGTTTGAGGGG
65 GTCT-TTAGCGGCGTTTGAGGGG
* *
13509835 AAAGCGCCGCTAAAGATTAGGTTCTTTCGTGGCGTTTGTGGTCAAAGTGCCGCTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
13509900 CCGCTAAAGG
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
86 58 0.43
87 74 0.55
88 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
TCTTTAGCGGCGTTTGAGGGG
Found at i:13509827 original size:130 final size:129
Alignment explanation
Indices: 13509642--13509894 Score: 321
Period size: 130 Copynumber: 2.0 Consensus size: 129
13509632 AGGTGTTGGC
*
13509642 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCAGCGTTTGTGGAAAA
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCAGCGTTTGAGGAAAA
*
13509707 AGCGCCACTAAAGATCATGG-TCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTT
66 AGCGCCACTAAAGATCA-GGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATTAGGTT
* * * * * **
13509771 CTTTAGTGGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGGG
1 CTTTAGTGGCGTTTT-TGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCAGCGTTTGAGGAA
* * * * * * *
13509835 AAAGCGCCGCTAAAGATTAGGTTCTTTCGTGGCGTTTGTGGTCAAAGTGCCGCTATAGAT
64 AAAGCGCCACTAAAGATCAGGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGAT
13509895 CAGGGCCGCT
Statistics
Matches: 105, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
129 17 0.16
130 86 0.82
131 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (129 bp):
CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCAGCGTTTGAGGAAAA
AGCGCCACTAAAGATCAGGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATTAGGTT
Found at i:13516828 original size:7 final size:7
Alignment explanation
Indices: 13516817--13516852 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
13516807 GATCAGTAGC
*
13516817 AAGTGAC
1 AAGTGAT
13516824 AAGTGAT
1 AAGTGAT
13516831 AAGTGAT
1 AAGTGAT
13516838 AAGTGAT
1 AAGTGAT
13516845 AAGTGAT
1 AAGTGAT
13516852 A
1 A
13516853 GCTTCAGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.28, T:0.25
Consensus pattern (7 bp):
AAGTGAT
Found at i:13516872 original size:65 final size:65
Alignment explanation
Indices: 13516762--13516896 Score: 182
Period size: 65 Copynumber: 2.1 Consensus size: 65
13516752 TGAGTACTTC
* * * * * *
13516762 TGATCAGTGATAAGTGATAATTGGTTGCTTTAACTACACTTATCTGATCAGT-AGCAAGTGACAA
1 TGATAAGTGATAAGTGATAAGTGATAGCTTCAACTACACTAATCTGATCAGTGA-CAAGTGACAA
13516826 G
65 G
* *
13516827 TGATAAGTGATAAGTGATAAGTGATAGCTTCAGCTACACTAATCTGATCAGTGACAAGTGATAAG
1 TGATAAGTGATAAGTGATAAGTGATAGCTTCAACTACACTAATCTGATCAGTGACAAGTGACAAG
13516892 TGATA
1 TGATA
13516897 GCTTCAGCTA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 60 0.98
66 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (65 bp):
TGATAAGTGATAAGTGATAAGTGATAGCTTCAACTACACTAATCTGATCAGTGACAAGTGACAAG
Found at i:13516895 original size:44 final size:44
Alignment explanation
Indices: 13516827--13516940 Score: 192
Period size: 44 Copynumber: 2.6 Consensus size: 44
13516817 AAGTGACAAG
* *
13516827 TGATAAGTGATAAGTGATAAGTGATAGCTTCAGCTACACTAATC
1 TGATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTAATC
*
13516871 TGATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTAATC
*
13516915 TGATCAGTGACAAGTGACAAGTGATA
1 TGATCAGTGACAAGTGATAAGTGATA
13516941 AGAGATAAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (44 bp):
TGATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTAATC
Found at i:13516938 original size:58 final size:57
Alignment explanation
Indices: 13516876--13517046 Score: 185
Period size: 58 Copynumber: 3.1 Consensus size: 57
13516866 TAATCTGATC
*
13516876 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATCAGTGACAAGTGACA
* * * * *
13516934 AGTGATAAGAGATAAGTGGTAGCATTAACTACACTTATCTAATCAGTG---A-TAAC-
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACAAGTGACA
* * * *
13516987 CG-G-CAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATTAGGGACAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACA
13517042 AGTGA
1 AGTGA
13517047 TCATACGTTA
Statistics
Matches: 89, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
50 20 0.22
51 16 0.18
52 1 0.01
53 2 0.02
54 5 0.06
55 2 0.02
56 1 0.01
58 40 0.45
59 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (57 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:13516951 original size:109 final size:106
Alignment explanation
Indices: 13516760--13517047 Score: 312
Period size: 109 Copynumber: 2.7 Consensus size: 106
13516750 TTTGAGTACT
* * * *
13516760 TCTGATCAGTGATAAGTGATAATTGGTTGCTTTAACTACACTTATCTGATCAGT-AGCAAGTGAC
1 TCTGATCAGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGA-CAAGTGAC
* * * *
13516824 AAGTGATAAGTGATAAGTGATAAGTGA-TAGCTTCAGC-TACACTAA
64 AAGTGATAAGAGATAAGTGAT-AG-CATTAACTACA-CTTA-ACTAA
*
13516869 TCTGATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATCAGTGACAAGTGACA
* *
13516934 AGTGATAAGAGATAAGTGGTAGCATTAACTACACTTATCTAA
65 AGTGATAAGAGATAAGTGATAGCATTAACTACACTTAACTAA
* ** * * * *
13516976 TCAGTGATAACCGGCAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATTAGGGACAAGTGAT
1 TC--TGATCAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGAC
13517041 AAGTGAT
64 AAGTGAT
13517048 CATACGTTAG
Statistics
Matches: 154, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
107 8 0.05
108 47 0.31
109 98 0.64
110 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (106 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACAA
GTGATAAGAGATAAGTGATAGCATTAACTACACTTAACTAA
Found at i:13523107 original size:14 final size:14
Alignment explanation
Indices: 13523088--13523151 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
13523078 TTGACCAAGT
13523088 ATAAATTATTAATA
1 ATAAATTATTAATA
13523102 ATAAA-TATTATATA
1 ATAAATTATTA-ATA
13523116 ATTAAATTAACTTTAAT-
1 A-TAAATT-A--TTAATA
* *
13523133 ATAAATAATTTATA
1 ATAAATTATTAATA
13523147 ATAAA
1 ATAAA
13523152 AACTATAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
13 9 0.22
14 14 0.34
15 5 0.12
16 6 0.15
17 2 0.05
18 2 0.05
19 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAAATTATTAATA
Found at i:13527308 original size:125 final size:125
Alignment explanation
Indices: 13527086--13527527 Score: 713
Period size: 125 Copynumber: 3.5 Consensus size: 125
13527076 GATAAAATCA
* * *
13527086 AAGCAGGATACTTTATCAGAAGAATTTCTGAAATCGCGCCCATGTTGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
**
13527151 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAACACTTC
* * * *
13527211 AAGCAGGATGTTTTATCAGAAGAATTTCTGAAATTGTGCCCATGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
13527276 AGGTCTTGAAAAAATAATTTCGAGTTGACGTTTCTGAGTGAATAGTATAAAAAACACTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAACACTTC
13527336 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
13527401 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCGAATAGTATAAAAAACACTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAACACTTC
* * * * * * *
13527461 AAGCATGATGCTTTATTAGAAGAATTTCTTAAATCGCACCCACATGGACGCACTTTTGCTATAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
13527526 AG
66 AG
13527528 CATGTTTAGG
Statistics
Matches: 294, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 294 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCGAATAGTATAAAAAACACTTC
Found at i:13529653 original size:21 final size:21
Alignment explanation
Indices: 13529606--13529658 Score: 88
Period size: 22 Copynumber: 2.5 Consensus size: 21
13529596 CTCTATCTGT
13529606 GTTAGGGTTTTTAAGTTAAGG
1 GTTAGGGTTTTTAAGTTAAGG
*
13529627 GCTTAGGGTTTTTAAGTTTAGG
1 G-TTAGGGTTTTTAAGTTAAGG
13529649 GTTAGGGTTT
1 GTTAGGGTTT
13529659 AGGGTTTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.45
Consensus pattern (21 bp):
GTTAGGGTTTTTAAGTTAAGG
Found at i:13529662 original size:7 final size:7
Alignment explanation
Indices: 13529642--13529672 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
13529632 GGGTTTTTAA
13529642 GTTTAGG
1 GTTTAGG
13529649 G-TTAGG
1 GTTTAGG
13529655 GTTTAGG
1 GTTTAGG
13529662 GTTTAGG
1 GTTTAGG
13529669 GTTT
1 GTTT
13529673 TTGTTAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.13, C:0.00, G:0.42, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:13529703 original size:7 final size:7
Alignment explanation
Indices: 13529691--13529730 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
13529681 GTTTGTCAAT
13529691 TAAATTA
1 TAAATTA
13529698 TAAATT-
1 TAAATTA
13529704 T-AATTA
1 TAAATTA
13529710 TAAATTA
1 TAAATTA
13529717 TAAATTTA
1 TAAA-TTA
13529725 TAAATT
1 TAAATT
13529731 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:13529703 original size:12 final size:12
Alignment explanation
Indices: 13529688--13529730 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
13529678 AAGGTTTGTC
13529688 AATTAAATTATA
1 AATTAAATTATA
*
13529700 AATTTAATTATA
1 AATTAAATTATA
13529712 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
13529727 AATT
1 AATT
13529731 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:13529830 original size:138 final size:138
Alignment explanation
Indices: 13529606--13529897 Score: 523
Period size: 138 Copynumber: 2.1 Consensus size: 138
13529596 CTCTATCTGT
* *
13529606 GTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTTAGGGTTAGGGTTTAGGGTTTAGGGT
1 GTTAGGGTTTTTAAGTTAAGGGCTTAGGATTTTTAAGTTTAGGGTTAGGGTTTAAGGTTTAGGGT
13529671 TTTTGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAA
66 TTTTGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAA
13529736 TAAATTAG
131 TAAATTAG
* * *
13529744 GTTAGGGTTTTTAAGTTAAGGGTTTATGATTTTTAAGTTTAGGGTTAGGGTTTAAGGTTTATGGT
1 GTTAGGGTTTTTAAGTTAAGGGCTTAGGATTTTTAAGTTTAGGGTTAGGGTTTAAGGTTTAGGGT
13529809 TTTTGTT-AGAGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTA
66 TTTTGTTAAG-GTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTA
13529873 ATAAATTAG
130 ATAAATTAG
13529882 GTTAGGGTTTTTAAGT
1 GTTAGGGTTTTTAAGT
13529898 AATAACTCAA
Statistics
Matches: 148, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
137 2 0.01
138 146 0.99
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (138 bp):
GTTAGGGTTTTTAAGTTAAGGGCTTAGGATTTTTAAGTTTAGGGTTAGGGTTTAAGGTTTAGGGT
TTTTGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAA
TAAATTAG
Found at i:13529841 original size:7 final size:7
Alignment explanation
Indices: 13529829--13529868 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
13529819 GTTTGTCAAT
13529829 TAAATTA
1 TAAATTA
13529836 TAAATT-
1 TAAATTA
13529842 T-AATTA
1 TAAATTA
13529848 TAAATTA
1 TAAATTA
13529855 TAAATTTA
1 TAAA-TTA
13529863 TAAATT
1 TAAATT
13529869 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:13529841 original size:12 final size:12
Alignment explanation
Indices: 13529826--13529868 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
13529816 AGAGTTTGTC
13529826 AATTAAATTATA
1 AATTAAATTATA
*
13529838 AATTTAATTATA
1 AATTAAATTATA
13529850 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
13529865 AATT
1 AATT
13529869 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:13532255 original size:22 final size:22
Alignment explanation
Indices: 13532230--13532325 Score: 72
Period size: 22 Copynumber: 4.4 Consensus size: 22
13532220 TAGGGATTTA
*
13532230 AGAGAAATTTAGGAGAAAATTG
1 AGAGAAATTTAGGAGGAAATTG
* ** * *
13532252 AGAGCAAATTAAATATGAATTTG
1 AGAG-AAATTTAGGAGGAAATTG
*
13532275 AGAGAAATTT-GGAAGGAAATTT
1 AGAGAAATTTAGG-AGGAAATTG
*
13532297 AGAGCAAATTGA-GAGGAAATTG
1 AGAG-AAATTTAGGAGGAAATTG
13532319 AGA-AAAT
1 AGAGAAAT
13532326 AATTGAGAGA
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
20 4 0.07
22 30 0.54
23 22 0.39
ACGTcount: A:0.49, C:0.02, G:0.25, T:0.24
Consensus pattern (22 bp):
AGAGAAATTTAGGAGGAAATTG
Found at i:13532266 original size:45 final size:45
Alignment explanation
Indices: 13532217--13532306 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
13532207 AAATAATTAA
*
13532217 AAATAGGGATTTAAGAGAAATTTAGG-AGAAAATTGAGAGCAAATT
1 AAATAGGAATTTAAGAGAAATTT-GGAAGAAAATTGAGAGCAAATT
* * * *
13532262 AAATATGAATTTGAGAGAAATTTGGAAGGAAATTTAGAGCAAATT
1 AAATAGGAATTTAAGAGAAATTTGGAAGAAAATTGAGAGCAAATT
13532307 GAGAGGAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 2 0.05
45 37 0.95
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (45 bp):
AAATAGGAATTTAAGAGAAATTTGGAAGAAAATTGAGAGCAAATT
Found at i:13535942 original size:21 final size:21
Alignment explanation
Indices: 13535901--13535944 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13535891 AATGTTTATA
13535901 AATATAAACATAAATTAAAAT
1 AATATAAACATAAATTAAAAT
* *
13535922 AATA-AAACAATATATTTAAAT
1 AATATAAAC-ATAAATTAAAAT
13535943 AA
1 AA
13535945 ATAGTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
AATATAAACATAAATTAAAAT
Found at i:13545068 original size:114 final size:113
Alignment explanation
Indices: 13544810--13545581 Score: 687
Period size: 114 Copynumber: 6.8 Consensus size: 113
13544800 AAATCTCAAG
* * * * * **
13544810 ACCAAAACGCATCATTTTTGTATTGATGTATACAATAATTAGTGGCGATTATGATAAAACGCCGC
1 ACCAAAACGCA-GAGTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
* * ** ** *
13544875 TAAAGTAA-GTAATAGCGGCGCATTGTGGGAAGCGCCGCAA-AAAT-CTTA
65 TAAAGTAACATATTAGCGGCGC-TTCAGTTAAGCGCCGCAAGATATGC-TA
* * *
13544923 ACCAAAACGCAGCGTTTTGGTATCGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCTGC
1 ACCAAAACGCAGAG-TTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
13544988 T-AAGTAACAATATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGC-A
65 TAAAGTAAC-ATATTAGCGGCGC-TTCAGTTAAGCGCCGCAAGATATGCTA
* * * * * **
13545037 CACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGTGCTTA-TAGGAAACGCCGC
1 -ACCAAAACGCAGAGTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
* * * * * * * *
13545101 TAAAGTATAC-TATTACCGGCGCTTCTAATAAAACGTCGCTATAT-TTCTTA
65 TAAAGTA-ACATATTAGCGGCGCTTC-AGTTAAGCGCCGCAAGATATGC-TA
* *
13545151 ACCAAAACTCAGAGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
1 ACCAAAACGCAGAG-TTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
13545216 TAAA-TAACAGTATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGC-A
65 TAAAGTAACA-TATTAGCGGCGC-TTCAGTTAAGCGCCGCAAGATATGCTA
* * * * ** *
13545265 CACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTA-TAGGAAATGCCGC
1 -ACCAAAACGCAGAGTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
* * * * * *
13545329 TAAAGTATAC-TATTACCGGCGCTTCTGATAAAGCGCCGCTATAT-TTCTTA
65 TAAAGTA-ACATATTAGCGGCGCTTCAG-TTAAGCGCCGCAAGATATGC-TA
* * * *
13545379 ACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGTTTACAATAAAACGCCGC
1 ACCAAAACGCAGAG-TTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGC
* * *
13545444 TACA-TAACAGTATTAGTGGCGCTTAACGTTAAGCGCCGCAAGATATGC-A
65 TAAAGTAACA-TATTAGCGGCGCTTCA-GTTAAGCGCCGCAAGATATGCTA
* * * **
13545493 CACCAAAACGCAGAGTTTGGTATTGATGTATATTAGAATTACTGGCGCTTATTGA-AAAACGCCG
1 -ACCAAAACGCAGAGTTTGGTATTGATGTATACTATAATTAGTGGCGCTTA-CAATAAAACGCCG
13545557 CTAAAGTATAC-TATTAGCGGCGCTT
64 CTAAAGTA-ACATATTAGCGGCGCTT
13545582 TCCTAGAAGC
Statistics
Matches: 527, Mismatches: 99, Indels: 65
0.76 0.14 0.09
Matches are distributed among these distances:
112 17 0.03
113 154 0.29
114 223 0.42
115 122 0.23
116 11 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (113 bp):
ACCAAAACGCAGAGTTTGGTATTGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGCT
AAAGTAACATATTAGCGGCGCTTCAGTTAAGCGCCGCAAGATATGCTA
Found at i:13545152 original size:228 final size:227
Alignment explanation
Indices: 13544918--13545581 Score: 1105
Period size: 228 Copynumber: 2.9 Consensus size: 227
13544908 GCCGCAAAAA
* * *
13544918 TCTTAACCAAAACGCAGCGTTTTGGTATCGATGTATACTATAATTAGTGGCGCTTACAATAAAAC
1 TCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACAATAAAAC
* *
13544983 GCTGCTAAGTAACAATATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCACACCAAAACGC
66 GCCGCTAA-TAACAGTATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCACACCAAAACGC
*
13545048 AGAGTTTGGTATTGAGGTATATTAGAATTAGTGGTGCTTATAGGAAACGCCGCTAAAGTATACTA
130 AGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGGAAACGCCGCTAAAGTATACTA
*
13545113 TTACCGGCGCTTCTAATAAAACGTCGCTATATT
195 TTACCGGCGCTTCTAATAAAACGCCGCTATATT
*
13545146 TCTTAACCAAAACTCAGAGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACAATAAAAC
1 TCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACAATAAAAC
13545211 GCCGCTAAATAACAGTATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCACACCAAAACGC
66 GCCGCT-AATAACAGTATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCACACCAAAACGC
*
13545276 AGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGGAAATGCCGCTAAAGTATACTA
130 AGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGGAAACGCCGCTAAAGTATACTA
* *
13545341 TTACCGGCGCTTCTGATAAAGCGCCGCTATATT
195 TTACCGGCGCTTCTAATAAAACGCCGCTATATT
*
13545374 TCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGTTTACAATAAAAC
1 TCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACAATAAAAC
* *
13545439 GCCGCTACATAACAGTATTAGTGGCGC-TTAACGTTAAGCGCCGCAAGATATGCACACCAAAACG
66 GCCGCTA-ATAACAGTATTAGCGGCGCTTTCA-GTTAAGCGCCGCAAGATATGCACACCAAAACG
* * * *
13545503 CAGAGTTTGGTATTGATGTATATTAGAATTACTGGCGCTTATTGAAAAACGCCGCTAAAGTATAC
129 CAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAG-GAAACGCCGCTAAAGTATAC
*
13545568 TATTAGCGGCGCTT
193 TATTACCGGCGCTT
13545582 TCCTAGAAGC
Statistics
Matches: 411, Mismatches: 21, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
227 4 0.01
228 374 0.91
229 33 0.08
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (227 bp):
TCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACAATAAAAC
GCCGCTAATAACAGTATTAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCACACCAAAACGCA
GAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGGAAACGCCGCTAAAGTATACTAT
TACCGGCGCTTCTAATAAAACGCCGCTATATT
Found at i:13546097 original size:14 final size:15
Alignment explanation
Indices: 13546062--13546101 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
13546052 GGTGTTTTGG
*
13546062 GTTTAGGGTTTAAGA
1 GTTTGGGGTTTAAGA
13546077 GTTTGGGGTTTAAGA
1 GTTTGGGGTTTAAGA
13546092 -TTTGGGGTTT
1 GTTTGGGGTTT
13546102 GGGGTTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (15 bp):
GTTTGGGGTTTAAGA
Found at i:13546513 original size:14 final size:17
Alignment explanation
Indices: 13546479--13546514 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
13546469 TATAATACAT
13546479 TAATTGAATAATATAAA
1 TAATTGAATAATATAAA
13546496 TAATT-AATAAT-T-AA
1 TAATTGAATAATATAAA
13546510 TAATT
1 TAATT
13546515 TTAAATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.37
15 1 0.05
16 6 0.32
17 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TAATTGAATAATATAAA
Found at i:13548981 original size:17 final size:17
Alignment explanation
Indices: 13548959--13549051 Score: 67
Period size: 17 Copynumber: 5.9 Consensus size: 17
13548949 TTATTTTCTA
13548959 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
13548976 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
*
13548990 -ATAATTTTTCTAAATT
1 TATAAGTTTTCTAAATT
* * **
13549006 TATTAG-TATAAAAATT
1 TATAAGTTTTCTAAATT
*
13549022 TAGT-AG-TAT-TAAATT
1 TA-TAAGTTTTCTAAATT
13549037 TATAAGTTTTCTAAA
1 TATAAGTTTTCTAAA
13549052 AAGTTGTTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
13 10 0.17
14 3 0.05
15 9 0.15
16 18 0.30
17 20 0.33
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:13548986 original size:30 final size:30
Alignment explanation
Indices: 13548952--13549069 Score: 98
Period size: 30 Copynumber: 3.9 Consensus size: 30
13548942 TAGTGTTTTA
*
13548952 TTTTCTATATAAGTTTTCTAAATTTATAAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
* *
13548982 TTTTCTAAATAATTTTTCTAAATTTATTAG
1 TTTTCTAAATAAGTTTTCTAAATTTATAAG
* ** * *
13549012 -TATAAAAATTTAGTAGTAT-TAAATTTATAAG
1 TTTTCTAAA-TAAGT--TTTCTAAATTTATAAG
*
13549043 TTTTCTAAA-AAGTTGTTCTAGATTTAT
1 TTTTCTAAATAAGTT-TTCTAAATTTAT
13549070 TATTAATAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
28 1 0.02
29 6 0.09
30 41 0.62
31 11 0.17
32 7 0.11
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (30 bp):
TTTTCTAAATAAGTTTTCTAAATTTATAAG
Found at i:13549002 original size:13 final size:13
Alignment explanation
Indices: 13548952--13549004 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
13548942 TAGTGTTTTA
*
13548952 TTTTCTATATAAG
1 TTTTCTAAATAAG
13548965 TTTTCTAAATTTATAAG
1 TTTTCT-AA---ATAAG
*
13548982 TTTTCTAAATAAT
1 TTTTCTAAATAAG
13548995 TTTTCTAAAT
1 TTTTCTAAAT
13549005 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 20 0.59
14 1 0.03
16 2 0.06
17 11 0.32
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (13 bp):
TTTTCTAAATAAG
Found at i:13549037 original size:15 final size:16
Alignment explanation
Indices: 13549000--13549038 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
13548990 ATAATTTTTC
*
13549000 TAAATTTATTAGTATA
1 TAAATTTAGTAGTATA
*
13549016 AAAATTTAGTAGTAT-
1 TAAATTTAGTAGTATA
13549031 TAAATTTA
1 TAAATTTA
13549039 TAAGTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (16 bp):
TAAATTTAGTAGTATA
Found at i:13549037 original size:61 final size:61
Alignment explanation
Indices: 13548970--13549117 Score: 178
Period size: 61 Copynumber: 2.4 Consensus size: 61
13548960 ATAAGTTTTC
*
13548970 TAAATTTATAAGTTTTCTAAATAATTTTTCTAAATTTATTAGT-ATAAAAATTTAGT-AGTAT
1 TAAATTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAAT-AAAATTTA-TAAGTAT
* *
13549031 TAAATTTATAAGTTTTCTAAA-AAGTTGTTCTAGATTTATTATTAATAAAATTTATAAGTAT
1 TAAATTTATAAGTTTTCTAAATAA-TTGTTCTAAATTTATTAGTAATAAAATTTATAAGTAT
* * *
13549092 CAATTTTACAAGTTTTGC-AAATAATT
1 TAAATTTATAAGTTTT-CTAAATAATT
13549118 ATATTTTTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
60 3 0.04
61 68 0.89
62 5 0.07
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTAATAAAATTTATAAGTAT
Found at i:13549238 original size:15 final size:15
Alignment explanation
Indices: 13549218--13549267 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
13549208 ACGATAACTT
13549218 ATAAATAATAACATA
1 ATAAATAATAACATA
13549233 ATAAAT--T-ACATA
1 ATAAATAATAACATA
*
13549245 ATACATAATAACATA
1 ATAAATAATAACATA
*
13549260 ATACATAA
1 ATAAATAA
13549268 CTTATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 10 0.32
13 1 0.03
14 1 0.03
15 19 0.61
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAATAATAACATA
Found at i:13549289 original size:21 final size:20
Alignment explanation
Indices: 13549263--13549320 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
13549253 TAACATAATA
*
13549263 CATAACTTATATATAAGCTTG
1 CATAACTTATATATAA-CTTC
* *
13549284 TATAACTTACATAATAACTTC
1 CATAACTTATAT-ATAACTTC
13549305 CATAACTTATATATAA
1 CATAACTTATATATAA
13549321 TCTGATAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.13
21 23 0.74
22 4 0.13
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (20 bp):
CATAACTTATATATAACTTC
Found at i:13549338 original size:83 final size:84
Alignment explanation
Indices: 13549242--13549397 Score: 278
Period size: 84 Copynumber: 1.9 Consensus size: 84
13549232 AATAAATTAC
* *
13549242 ATAATACATAATAACATAATACATAACTTATA-TATAAGCTTGTATAACTTACATAATAACTTCC
1 ATAATACATAATAACATAATACATAACTTATATTATAAGATTGCATAACTTACATAATAACTTCC
13549306 ATAACTTATATATAATCTG
66 ATAACTTATATATAATCTG
*
13549325 ATAATACATAATAACATAATACATAACTTATATTATAATATTGCATAACTTACATAATAACTTCC
1 ATAATACATAATAACATAATACATAACTTATATTATAAGATTGCATAACTTACATAATAACTTCC
13549390 ATAACTTA
66 ATAACTTA
13549398 ATACACCACT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 32 0.46
84 37 0.54
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.36
Consensus pattern (84 bp):
ATAATACATAATAACATAATACATAACTTATATTATAAGATTGCATAACTTACATAATAACTTCC
ATAACTTATATATAATCTG
Found at i:13549423 original size:9 final size:9
Alignment explanation
Indices: 13549405--13549865 Score: 313
Period size: 9 Copynumber: 51.1 Consensus size: 9
13549395 TTAATACACC
*
13549405 ACTTAAATA
1 ACTTACATA
13549414 ACTTACATA
1 ACTTACATA
* *
13549423 AATTAAATA
1 ACTTACATA
13549432 ACTTACATA
1 ACTTACATA
13549441 ACTTACATA
1 ACTTACATA
*
13549450 AATTA-AGTA
1 ACTTACA-TA
13549459 ACTTACATA
1 ACTTACATA
** *
13549468 AAATAAATA
1 ACTTACATA
*
13549477 ATTTACATA
1 ACTTACATA
13549486 ACTTACATA
1 ACTTACATA
* *
13549495 AATTAAATA
1 ACTTACATA
*
13549504 ACTTAAATA
1 ACTTACATA
*
13549513 ACTTGCATA
1 ACTTACATA
**
13549522 ACTTTGACCGA
1 AC-TT-ACATA
*
13549533 A-TTAAATA
1 ACTTACATA
13549541 ACTTACATA
1 ACTTACATA
13549550 ACTTACATA
1 ACTTACATA
*
13549559 AATTA-AGTA
1 ACTTACA-TA
13549568 ACTTACATA
1 ACTTACATA
** *
13549577 AAATAAATA
1 ACTTACATA
*
13549586 ATTTACATA
1 ACTTACATA
13549595 ACTTACATA
1 ACTTACATA
* *
13549604 AATTAAATA
1 ACTTACATA
*
13549613 ACTTAAATA
1 ACTTACATA
13549622 ACTTACATA
1 ACTTACATA
**
13549631 ACTTTGACCGA
1 AC-TT-ACATA
*
13549642 A-TTAAATA
1 ACTTACATA
13549650 ACTTACATAATA
1 ACTTAC---ATA
13549662 ACTTACATAA
1 ACTTACAT-A
*
13549672 AC-TAAATA
1 ACTTACATA
13549680 ACTTACATA
1 ACTTACATA
13549689 ACTTACATA
1 ACTTACATA
* *
13549698 AATTAAATA
1 ACTTACATA
13549707 ACTTACATA
1 ACTTACATA
13549716 ACTTACATAA
1 ACTTACAT-A
* *** *
13549726 ATTTGTTTC
1 ACTTACATA
13549735 ACTTACATA
1 ACTTACATA
13549744 ACTTACATAATA
1 ACTTAC---ATA
*
13549756 ACTTACATT
1 ACTTACATA
*
13549765 A--TACACA
1 ACTTACATA
*
13549772 ACTCACATA
1 ACTTACATA
13549781 A-TTA-AT-
1 ACTTACATA
* *
13549787 ATTATACACA
1 ACT-TACATA
13549797 ACTTACATA
1 ACTTACATA
*
13549806 A--TACATT
1 ACTTACATA
13549813 ACTTACATA
1 ACTTACATA
13549822 ACTTACAGT-
1 ACTTACA-TA
13549831 ACTTACATA
1 ACTTACATA
13549840 A--TACATA
1 ACTTACATA
13549847 ACTTACATA
1 ACTTACATA
13549856 ACTTACATA
1 ACTTACATA
13549865 A
1 A
13549866 TACATAAAAA
Statistics
Matches: 349, Mismatches: 72, Indels: 62
0.72 0.15 0.13
Matches are distributed among these distances:
6 1 0.00
7 21 0.06
8 16 0.05
9 269 0.77
10 17 0.05
11 7 0.02
12 18 0.05
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (9 bp):
ACTTACATA
Found at i:13549443 original size:27 final size:27
Alignment explanation
Indices: 13549405--13549872 Score: 352
Period size: 27 Copynumber: 17.4 Consensus size: 27
13549395 TTAATACACC
*
13549405 ACTTAAATAACTTACATAAATTAAATA
1 ACTTACATAACTTACATAAATTAAATA
*
13549432 ACTTACATAACTTACATAAATTAAGTA
1 ACTTACATAACTTACATAAATTAAATA
** * * *
13549459 ACTTACATAAAATAAATAATTTACATA
1 ACTTACATAACTTACATAAATTAAATA
* * *
13549486 ACTTACATAAATTAAATAACTTAAATA
1 ACTTACATAACTTACATAAATTAAATA
* **
13549513 ACTTGCATAACTTTGAC-CGAATTAAATA
1 ACTTACATAAC-TT-ACATAAATTAAATA
*
13549541 ACTTACATAACTTACATAAATTAAGTA
1 ACTTACATAACTTACATAAATTAAATA
** * * *
13549568 ACTTACATAAAATAAATAATTTACATA
1 ACTTACATAACTTACATAAATTAAATA
* * *
13549595 ACTTACATAAATTAAATAACTTAAATA
1 ACTTACATAACTTACATAAATTAAATA
**
13549622 ACTTACATAACTTTGAC-CGAATTAAATA
1 ACTTACATAAC-TT-ACATAAATTAAATA
*
13549650 ACTTACATAATAACTTACATAAACTAAATA
1 ACTTAC---ATAACTTACATAAATTAAATA
13549680 ACTTACATAACTTACATAAATTAAATA
1 ACTTACATAACTTACATAAATTAAATA
*** *
13549707 ACTTACATAACTTACATAAATTTGTTTC
1 ACTTACATAACTTACATAAA-TTAAATA
*
13549735 ACTTACATAACTTACAT-AA-TAACTTA
1 ACTTACATAACTTACATAAATTAA-ATA
* * *
13549761 CATTATACACAACTCACAT-AATT-AAT-
1 -ACT-TACATAACTTACATAAATTAAATA
* * * *
13549787 ATTATACACAACTTACAT-AA-TACATT
1 ACT-TACATAACTTACATAAATTAAATA
* *
13549813 ACTTACATAACTTACAGT-ACTTACATA
1 ACTTACATAACTTACA-TAAATTAAATA
* *
13549840 A--TACATAACTTACATAACTTACATA
1 ACTTACATAACTTACATAAATTAAATA
13549865 A--TACATAA
1 ACTTACATAA
13549873 AAATATATCA
Statistics
Matches: 366, Mismatches: 56, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.01
25 64 0.17
26 8 0.02
27 195 0.53
28 71 0.19
29 5 0.01
30 16 0.04
31 5 0.01
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (27 bp):
ACTTACATAACTTACATAAATTAAATA
Found at i:13549695 original size:94 final size:94
Alignment explanation
Indices: 13549566--13549763 Score: 308
Period size: 94 Copynumber: 2.1 Consensus size: 94
13549556 ATAAATTAAG
*
13549566 TAACTTACATAAAATAAATAATTTACATAACTTACATAAATTAAATAACTTAAATAACTTACATA
1 TAACTTACATAAAATAAATAACTTACATAACTTACATAAATTAAATAACTTAAATAACTTACATA
*
13549631 ACTTTG-ACCGAATTAAATAACTTACATAA
66 AATTTGTACC-AATTAAATAACTTACATAA
* *
13549660 TAACTTACATAAACTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACATA
1 TAACTTACATAAAATAAATAACTTACATAACTTACATAAATTAAATAACTTAAATAACTTACATA
** * *
13549725 AATTTGTTTCACTTACATAACTTACATAA
66 AATTTGTACCAATTAAATAACTTACATAA
13549754 TAACTTACAT
1 TAACTTACAT
13549764 TATACACAAC
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 94 0.99
95 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (94 bp):
TAACTTACATAAAATAAATAACTTACATAACTTACATAAATTAAATAACTTAAATAACTTACATA
AATTTGTACCAATTAAATAACTTACATAA
Found at i:13549816 original size:16 final size:16
Alignment explanation
Indices: 13549797--13549856 Score: 84
Period size: 16 Copynumber: 3.6 Consensus size: 16
13549787 ATTATACACA
13549797 ACTTACATAATACATT
1 ACTTACATAATACATT
*
13549813 ACTTACATAACTTACAGT
1 ACTTACATAA--TACATT
*
13549831 ACTTACATAATACATA
1 ACTTACATAATACATT
13549847 ACTTACATAA
1 ACTTACATAA
13549857 CTTACATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
16 24 0.62
18 15 0.38
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (16 bp):
ACTTACATAATACATT
Found at i:13549840 original size:34 final size:34
Alignment explanation
Indices: 13549797--13549862 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
13549787 ATTATACACA
*
13549797 ACTTACATAATACATTACTTACATAACTTACAGT
1 ACTTACATAATACATAACTTACATAACTTACAGT
13549831 ACTTACATAATACATAACTTACATAACTTACA
1 ACTTACATAATACATAACTTACATAACTTACA
13549863 TAATACATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (34 bp):
ACTTACATAATACATAACTTACATAACTTACAGT
Found at i:13555420 original size:12 final size:12
Alignment explanation
Indices: 13555403--13555429 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13555393 AGCAGATGTC
13555403 GCAGCGAGAGAA
1 GCAGCGAGAGAA
13555415 GCAGCGAGAGAA
1 GCAGCGAGAGAA
13555427 GCA
1 GCA
13555430 AATAGAAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.41, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:13555960 original size:85 final size:84
Alignment explanation
Indices: 13555863--13556155 Score: 281
Period size: 85 Copynumber: 3.5 Consensus size: 84
13555853 GTTTGTGAAA
*
13555863 CAAA-CGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTGAAC-AAGCGCCGCTATAGAACA
1 CAAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCATTTTT-AACTAAGCGCCGCTAAAGAACA
* *
13555924 TTA-CTTTTAGAGGCGTTTTCTTC
63 TGATCTTTT-GAGGCATTTT-TTC
* * **
13555947 CAAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGA
1 CAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTAACTAAGCGCCGCTAAAGAACATGA
* *
13556012 TCTTTTGCGGCATTTTTTT
66 TCTTTTGAGGCATTTTTTC
* * * ** * *
13556031 CTAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCCTAAGCACCGCTAAAGAAAATG
1 CAAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-ATTTTTAACTAAGCGCCGCTAAAGAACATG
* * *
13556096 ATCTTTAGCGGCGTTTTTTC
65 ATCTTTTGAGGCATTTTTTC
* * * * *
13556116 CTAAGCGCCACTAAAGAACATCATCTTTAGTGGCGTTTTT
1 CAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTT
13556156 TTCTGTAAGC
Statistics
Matches: 180, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
84 44 0.24
85 130 0.72
86 6 0.03
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (84 bp):
CAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTAACTAAGCGCCGCTAAAGAACATGA
TCTTTTGAGGCATTTTTTC
Found at i:13556085 original size:127 final size:126
Alignment explanation
Indices: 13555867--13556175 Score: 390
Period size: 127 Copynumber: 2.4 Consensus size: 126
13555857 GTGAAACAAA
** * *
13555867 CGCCGCTAAAGAACACTA-CTTTTAGCGGCATTTTTGAAC-AAGCGCCGCTATAGAACATTACTT
1 CGCCGCTAAAGAACA-TATCTTTT-GCGGCATTTTT-TTCTAAGCGCCGCTAAAGAACATGACTT
** *
13555930 TTAGAGGCGTTTTCTTCCAAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
63 TTAGAGGCGTTTTCTTCCAAAGCACCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCCTAAG
13555994 CGCCGCTAAAGAACATGATCTTTTGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTT
1 CGCCGCTAAAGAACAT-ATCTTTTGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGA-CTTT
* * *
13556059 T-GCGGCGTTTTTTTCCTAAGCACCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCCTAAG
64 TAGAGGCGTTTTCTTCCAAAGCACCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCCTAAG
* * * * *
13556121 CGCCACTAAAGAACATCATCTTTAGTGGCGTTTTTTTCTGTAAGCGCCGCAAAAG
1 CGCCGCTAAAGAACAT-ATCTTTTGCGGCATTTTTTTC--TAAGCGCCGCTAAAG
13556176 TTAGCGACGT
Statistics
Matches: 160, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
126 2 0.01
127 134 0.84
128 10 0.06
129 14 0.09
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (126 bp):
CGCCGCTAAAGAACATATCTTTTGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGACTTTTA
GAGGCGTTTTCTTCCAAAGCACCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCCTAAG
Found at i:13556142 original size:42 final size:42
Alignment explanation
Indices: 13555867--13556175 Score: 347
Period size: 42 Copynumber: 7.3 Consensus size: 42
13555857 GTGAAACAAA
* **
13555867 CGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTTTGAAC-AAG
1 CGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCCTAAG
* * * *
13555909 CGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCCAAAG
1 CGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCCTAAG
*
13555952 TGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
* * *
13555994 CGCCGCTAAAGAACATGATCTTTTGCGGCATTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
*
13556036 CGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCCTAAG
* *
13556079 CACCGCTAAAGAAAATGATCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
* * * *
13556121 CGCCACTAAAGAACATCATCTTTAGTGGCGTTTTTTTCTGTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC-CTAAG
*
13556165 CGCCGCAAAAG
1 CGCCGCTAAAG
13556176 TTAGCGACGT
Statistics
Matches: 233, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.00
42 141 0.61
43 77 0.33
44 14 0.06
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAG
Found at i:13556156 original size:85 final size:85
Alignment explanation
Indices: 13555929--13556158 Score: 336
Period size: 85 Copynumber: 2.7 Consensus size: 85
13555919 GAACATTACT
* * *
13555929 TTTAGAGGCGTTTTCTTCCAAAGTGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCCTAA
1 TTTAGCGGCGTTTT-TTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAA
* *
13555993 GCGCCGCTAAAGAACATGATC
65 GCACCGCTAAAGAAAATGATC
* * * *
13556014 TTTTGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTTGCGGCGTTTTTTTCCTAAG
1 TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAG
13556079 CACCGCTAAAGAAAATGATC
66 CACCGCTAAAGAAAATGATC
* * *
13556099 TTTAGCGGCGTTTTTTCCTAAGCGCCACTAAAGAACATCATCTTTAGTGGCGTTTTTTTC
1 TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
13556159 TGTAAGCGCC
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
84 34 0.27
85 94 0.73
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (85 bp):
TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAG
CACCGCTAAAGAAAATGATC
Found at i:13556882 original size:25 final size:25
Alignment explanation
Indices: 13556768--13556878 Score: 82
Period size: 25 Copynumber: 4.4 Consensus size: 25
13556758 CACACCACAA
** **
13556768 CTCGTATGAGCTTACTAATTTGTAG
1 CTCGTATGAGCTTACCGATTCATAG
13556793 CTCGTGA-GAGCTTACCGATTC-TCAG
1 CTCGT-ATGAGCTTACCGATTCAT-AG
* * * * *
13556818 CTCATATTAGCTTACCGATTTACAA
1 CTCGTATGAGCTTACCGATTCATAG
* * *
13556843 CTCGTAAGAGCATACTGATTCATAG
1 CTCGTATGAGCTTACCGATTCATAG
13556868 CTCGTATGAGC
1 CTCGTATGAGC
13556879 ATACATGTAC
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
24 2 0.03
25 62 0.95
26 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (25 bp):
CTCGTATGAGCTTACCGATTCATAG
Found at i:13562137 original size:32 final size:32
Alignment explanation
Indices: 13562096--13562160 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13562086 GTCGTCTGAC
13562096 CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
1 CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
13562128 CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
1 CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
13562160 C
1 C
13562161 TTTCTAATTT
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:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (32 bp):
CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
Found at i:13570538 original size:3 final size:3
Alignment explanation
Indices: 13570530--13570564 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
13570520 ATATATTACA
13570530 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13570565 CAGGAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13575786 original size:50 final size:50
Alignment explanation
Indices: 13575732--13575995 Score: 259
Period size: 50 Copynumber: 5.3 Consensus size: 50
13575722 GATTCGCTGT
* *
13575732 TGTGGCTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCATCGA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
** * * * *
13575782 TGTGGCTTTAAT-TTGTTCCACTGC-ATCGCCTGGGG-AGTAAGATTCGCCGT
1 TGTGGCTTTAATCTT-TTTAACTGCAAT-GTC-GGGGAAGCAAGATTCACCGA
** * *
13575832 TGTGGCTTTAGCCTTTTTAACTGCAATATCGGGGAAGCAAGATTCACCAA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
* ** * * * * *
13575882 TGTGGCTTTAATCTGTTCCACTGC-ATCGCCTGGGG-AGTAAGATTCTCTGT
1 TGTGGCTTTAATCTTTTTAACTGCAAT-GTC-GGGGAAGCAAGATTCACCGA
*
13575932 TGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
13575982 TGTGGCTTTAATCT
1 TGTGGCTTTAATCT
13575996 ATTCCACTAC
Statistics
Matches: 164, Mismatches: 40, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
49 14 0.09
50 136 0.83
51 14 0.09
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (50 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
Found at i:13575854 original size:100 final size:100
Alignment explanation
Indices: 13575685--13576003 Score: 505
Period size: 100 Copynumber: 3.2 Consensus size: 100
13575675 TGCTGTTGTA
* *
13575685 GCTTCAATCTGTTCCACTGCA-CTGCCTGGGAAAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTT
1 GCTTTAATCTGTTCCACTGCATC-GCCTGGG-GAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTT
*
13575749 TAACTGCAATGTCGGGGAAGCAAGATTCATCGATGTG
64 TAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * *
13575786 GCTTTAATTTGTTCCACTGCATCGCCTGGGGAGTAAGATTCGCCGTTGTGGCTTTAGCCTTTTTA
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTTTA
* *
13575851 ACTGCAATATCGGGGAAGCAAGATTCACCAATGTG
66 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * *
13575886 GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCTCTGTTGTAGCTTTAATCTTTTTA
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTTTA
13575951 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
66 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
*
13575986 GCTTTAATCTATTCCACT
1 GCTTTAATCTGTTCCACT
13576004 ACACCGCTTG
Statistics
Matches: 200, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
100 173 0.87
101 26 0.13
102 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (100 bp):
GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTTTA
ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
Found at i:13576365 original size:44 final size:44
Alignment explanation
Indices: 13576316--13576543 Score: 160
Period size: 44 Copynumber: 5.2 Consensus size: 44
13576306 CGATACAGGA
*
13576316 AGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
* * * * *** * * *
13576360 AGGCAAG-GCTAG-TGTCTTCGATCTGCTTTGCTGTCAGCGCAAGAG
1 AGGCAAGATCT-GCTATCTTCAACCTGCTCCACTG-CAAC-CGAGGG
* *
13576405 -GGCAAGATCTGCTATCTTTAACCTGCTCCACTGTAACCGAGGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
* * * * * ** *
13576448 AGGCAAGA-CTGGTATCTTCGATCTGCTTCGCTGTC-AGTGCAGGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTG-CAACCG-AGGG
* * *
13576492 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCTATGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
13576536 AGGCAAGA
1 AGGCAAGA
13576544 CTGGGGTCTT
Statistics
Matches: 130, Mismatches: 44, Indels: 20
0.67 0.23 0.10
Matches are distributed among these distances:
43 41 0.32
44 49 0.38
45 40 0.31
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
Found at i:13576519 original size:45 final size:45
Alignment explanation
Indices: 13576382--13576519 Score: 145
Period size: 45 Copynumber: 3.1 Consensus size: 45
13576372 TGTCTTCGAT
* * *
13576382 CTGCTTTGCTGTCAGCGCAAGAGGGCAAGATCTGCTATCTTTAAC
1 CTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTTAAC
* * * * * * ** *
13576427 CTGCTCCACTGTAACCG-AGGGAGGCAAGA-CTGGTATCTTCGAT
1 CTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTTAAC
*
13576470 CTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTTAAC
1 CTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTTAAC
13576515 CTGCT
1 CTGCT
13576520 CCACTGCAAC
Statistics
Matches: 69, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
43 22 0.32
44 20 0.29
45 27 0.39
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (45 bp):
CTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTTAAC
Found at i:13576690 original size:87 final size:87
Alignment explanation
Indices: 13576288--13576946 Score: 795
Period size: 87 Copynumber: 7.5 Consensus size: 87
13576278 ACTTGTAATC
* * * * *
13576288 TTCGATCTGTTTTGCTGTCGATACAGGAAGGCAAGATCTGCTATCTTCAACCTA-CTCCACTGCA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACC-AGCTCCACTGCA
* * *
13576352 ACCGAGGGAGGCAAGGCTAGTGTC
65 ACCGATGGAGGCAAGGCT-TTGTT
* ** * * * *
13576376 TTCGATCTGCTTTGCTGTCAGCGCAAGAGGGCAAGATCTGCTATCTTTAACCTGCTCCACTGTAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* * *
13576441 CCGAGGGAGGCAAGAC-TGGTAT
66 CCGATGGAGGCAAGGCTTTGT-T
* *
13576463 CTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCA
1 -TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCA
* * ** *
13576528 ACCTATGGAGGCAAGACTGGGGTC
65 ACCGATGGAGGCAAGGCT-TTGTT
* * * * * * *
13576552 TTCGATCTACTTCGCTGTCTATGCAGGAAGGTAAGATCTACTATCTTTAACCCGCTCTATTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
13576617 CCGATGGAGGCAAGGCTTTATT
66 CCGATGGAGGCAAGGCTTTGTT
* * * * *
13576639 TTTGATCTGCTTCACTGTCAATGCAGGAAAGCAAGATATGCTAT-TCTTAACCAGCTCAACTGCA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCT-TTAACCAGCTCCACTGCA
*
13576703 ACCGATAGAGGCAAGGCTTTGTT
65 ACCGATGGAGGCAAGGCTTTGTT
* *
13576726 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATATTTAACCAGCTCCATTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
13576791 CCAATGGAGGCAAGGCTTTGCTT
66 CCGATGGAGGCAAGGCTTTG-TT
* * *
13576814 TT-GATCTGCTTCACTGTCAATGCAGGAAAGCACGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
13576878 CCGGTGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
13576900 TTCTATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTACTATCTT
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
13576947 CACTGATCTG
Statistics
Matches: 492, Mismatches: 70, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
86 7 0.01
87 262 0.53
88 220 0.45
90 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:13579005 original size:14 final size:14
Alignment explanation
Indices: 13578974--13579004 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
13578964 TGGCCTCTCC
13578974 TTTTCTTTTTCCTT
1 TTTTCTTTTTCCTT
13578988 TTTTCTTTTT-CTT
1 TTTTCTTTTTCCTT
13579001 TTTT
1 TTTT
13579005 TTTCAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCTTTTTCCTT
Found at i:13580546 original size:285 final size:285
Alignment explanation
Indices: 13580036--13580605 Score: 1088
Period size: 285 Copynumber: 2.0 Consensus size: 285
13580026 AAAACTACAG
13580036 GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGCAAATATCTAACAATG
1 GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGCAAATATCTAACAATG
13580101 TCCCTTTTCATTTACTTTTTCGTCGATGTGAACGTTTCCTAACATTGTGTGTATGATTTCCTCGC
66 TCCCTTTTCATTTACTTTTTCGTCGATGTGAACGTTTCCTAACATTGTGTGTATGATTTCCTCGC
13580166 AGAGCTTCATCTCATTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTGG
131 AGAGCTTCATCTCATTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTGG
*
13580231 GTCTCGTACCCCTTCTCGTGATGGAACTCACCATGACTTCTTGTCTTTTCATAATTTTCACTTGA
196 GTCTCGTACCCCTTCTCGTGATGGAACTCACCATGACTTCTTGTCTTTCCATAATTTTCACTTGA
13580296 ATCAGAAATAACTAATCCCCTTCCT
261 ATCAGAAATAACTAATCCCCTTCCT
13580321 GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGCAAATATCTAACAATG
1 GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGCAAATATCTAACAATG
*
13580386 TCCCTTTTCATTTGCTTTTTCGTCGATGTGAACGTTT-CTCAACATTGTGTGTATGATTTCCTCG
66 TCCCTTTTCATTTACTTTTTCGTCGATGTGAACGTTTCCT-AACATTGTGTGTATGATTTCCTCG
*
13580450 CAGAGCTTCATCTCCTTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTG
130 CAGAGCTTCATCTCATTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTG
*
13580515 GGTCTCGTACCCCTTCTCGTGATGGAACTCACCATGGCTTCTTGTCTTTCCATAATTTTCACTTG
195 GGTCTCGTACCCCTTCTCGTGATGGAACTCACCATGACTTCTTGTCTTTCCATAATTTTCACTTG
13580580 AATCAGAAATAACTAATCCCCTTCCT
260 AATCAGAAATAACTAATCCCCTTCCT
13580606 CTTTCACGTC
Statistics
Matches: 280, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
284 2 0.01
285 278 0.99
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (285 bp):
GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGCAAATATCTAACAATG
TCCCTTTTCATTTACTTTTTCGTCGATGTGAACGTTTCCTAACATTGTGTGTATGATTTCCTCGC
AGAGCTTCATCTCATTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTGG
GTCTCGTACCCCTTCTCGTGATGGAACTCACCATGACTTCTTGTCTTTCCATAATTTTCACTTGA
ATCAGAAATAACTAATCCCCTTCCT
Found at i:13589825 original size:22 final size:22
Alignment explanation
Indices: 13589774--13589825 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
13589764 ATATTATTGT
** *
13589774 TACTATTTCTTTACTATTTTAC
1 TACTATTTCACTACTATATTAC
*
13589796 TA-TCATTTCACTATTATATTAC
1 TACT-ATTTCACTACTATATTAC
13589818 TACTATTT
1 TACTATTT
13589826 TTTTGTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (22 bp):
TACTATTTCACTACTATATTAC
Found at i:13597125 original size:4 final size:5
Alignment explanation
Indices: 13597075--13597126 Score: 54
Period size: 5 Copynumber: 10.6 Consensus size: 5
13597065 ATGGACAAGT
* * *
13597075 TTTAA TTTAA ATAAA TTTAA TTT-T TTATAA TTTAA TTTAA TTTAA -TTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT-TAA TTTAA TTTAA TTTAA TTTAA
13597124 TTT
1 TTT
13597127 TAATCTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 6 0.16
5 30 0.79
6 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:13597130 original size:25 final size:24
Alignment explanation
Indices: 13597074--13597135 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
13597064 CATGGACAAG
*
13597074 TTTTAATTTAAATAAATTTAATTT
1 TTTTAATTTAAATAAATTTAATTA
* *
13597098 TTTATAATTTAATTTAATTTAATTAA
1 TTT-TAATTTAAATAAATTTAATT-A
*
13597124 TTTTAATCTAAA
1 TTTTAATTTAAA
13597136 AGTATCACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 3 0.10
25 25 0.81
26 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTAATTTAAATAAATTTAATTA
Found at i:13600870 original size:26 final size:26
Alignment explanation
Indices: 13600834--13600887 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
13600824 AATTTTTAAC
13600834 ATAGTTTTCATCTCAATGAACTGAAA
1 ATAGTTTTCATCTCAATGAACTGAAA
13600860 ATAGTTTTCATCTCAATGAACTGAAA
1 ATAGTTTTCATCTCAATGAACTGAAA
13600886 AT
1 AT
13600888 CATTAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (26 bp):
ATAGTTTTCATCTCAATGAACTGAAA
Found at i:13603693 original size:14 final size:14
Alignment explanation
Indices: 13603676--13603705 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13603666 TGTTTGGCTT
*
13603676 AAAATGTTTTCCGA
1 AAAATATTTTCCGA
13603690 AAAATATTTTCCGA
1 AAAATATTTTCCGA
13603704 AA
1 AA
13603706 TTTTCGGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (14 bp):
AAAATATTTTCCGA
Found at i:13606023 original size:5 final size:5
Alignment explanation
Indices: 13606008--13606037 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
13605998 TGAAAGGACC
13606008 ATATAT ATATT ATATT ATATT ATATT ATAT
1 ATAT-T ATATT ATATT ATATT ATATT ATAT
13606038 ATTATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:13607060 original size:20 final size:20
Alignment explanation
Indices: 13607032--13607074 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
13607022 TACTCTTTTT
*
13607032 TTTTTACTATTTT-CTTATTA
1 TTTTCACTATTTTGC-TATTA
13607052 TTTTCACTATTTTGCTATTA
1 TTTTCACTATTTTGCTATTA
13607072 TTT
1 TTT
13607075 CAATAATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTCACTATTTTGCTATTA
Found at i:13607503 original size:17 final size:17
Alignment explanation
Indices: 13607483--13607519 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
13607473 AATTAACTGA
13607483 AAATTAATATTTTTAAT
1 AAATTAATATTTTTAAT
13607500 AAATTAATATTTTTAAT
1 AAATTAATATTTTTAAT
13607517 AAA
1 AAA
13607520 ATATGTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTAATATTTTTAAT
Found at i:13612050 original size:21 final size:21
Alignment explanation
Indices: 13612024--13612066 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13612014 TTTGGGTGGA
*
13612024 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
13612045 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
13612066 T
1 T
13612067 GGCGTGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.30, G:0.19, T:0.37
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:13615973 original size:20 final size:19
Alignment explanation
Indices: 13615944--13615983 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
13615934 CGAAAAACGA
13615944 TTTTTGAAAAATGATTTAC
1 TTTTTGAAAAATGATTTAC
13615963 TTTTCTGAAAAATGATTTAC
1 TTTT-TGAAAAATGATTTAC
13615983 T
1 T
13615984 AGAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (19 bp):
TTTTTGAAAAATGATTTAC
Found at i:13617430 original size:27 final size:29
Alignment explanation
Indices: 13617361--13617434 Score: 98
Period size: 32 Copynumber: 2.5 Consensus size: 29
13617351 TGCCAATTAT
*
13617361 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AAT-AA
13617393 TTCAATATCTAACAAGCTTAAAAC-AT-A
1 TTCAATATCTAACAAGCTTAAAACAATAA
13617420 TTCAATATCTAACAA
1 TTCAATATCTAACAA
13617435 ATTCAAGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 16 0.39
29 2 0.05
32 23 0.56
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (29 bp):
TTCAATATCTAACAAGCTTAAAACAATAA
Found at i:13618895 original size:27 final size:27
Alignment explanation
Indices: 13618835--13618895 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
13618825 ATACCACACA
**
13618835 AATATTTGATCACTATAAAAAAGATTT
1 AATATTTGATCACTATAAAAAAGATAC
* * *
13618862 AAAATTTGATCACTATAAAATATATAC
1 AATATTTGATCACTATAAAAAAGATAC
13618889 AATATTT
1 AATATTT
13618896 TAGATCGATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (27 bp):
AATATTTGATCACTATAAAAAAGATAC
Found at i:13620855 original size:25 final size:24
Alignment explanation
Indices: 13620801--13620855 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
13620791 GAAGAGGAAC
*
13620801 AGGAAATTTTCTAAGAAAGAGAGA
1 AGGAAATTTGCTAAGAAAGAGAGA
* *
13620825 AAGAAATTTGGCTGAGAAAGA-ATGA
1 AGGAAATTT-GCTAAGAAAGAGA-GA
13620850 AGGAAA
1 AGGAAA
13620856 GAAAAAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.51, C:0.04, G:0.27, T:0.18
Consensus pattern (24 bp):
AGGAAATTTGCTAAGAAAGAGAGA
Found at i:13620864 original size:18 final size:18
Alignment explanation
Indices: 13620841--13620880 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
13620831 TTTGGCTGAG
*
13620841 AAAGAATGAAGGAAA-GAA
1 AAAGAAAGAA-GAAAGGAA
13620859 AAAGAAAGAAGAAAGGAA
1 AAAGAAAGAAGAAAGGAA
13620877 AAAG
1 AAAG
13620881 GGGATCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.03
Consensus pattern (18 bp):
AAAGAAAGAAGAAAGGAA
Found at i:13622571 original size:29 final size:29
Alignment explanation
Indices: 13622529--13622586 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
13622519 AATACTAATG
*
13622529 ATAATATCATTATTGCTCAAGAGATTACT
1 ATAAAATCATTATTGCTCAAGAGATTACT
*
13622558 ATAAAATCATTATTGCTCAAGAGGTTACT
1 ATAAAATCATTATTGCTCAAGAGATTACT
13622587 CACTCCGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (29 bp):
ATAAAATCATTATTGCTCAAGAGATTACT
Found at i:13623335 original size:22 final size:23
Alignment explanation
Indices: 13623302--13623348 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
13623292 CCATTTGAGG
13623302 TTAATTTTCTCCAAAGTGCCAAT
1 TTAATTTTCTCCAAAGTGCCAAT
* *
13623325 TTAA-TTTCTCCAAGGTTCCAAT
1 TTAATTTTCTCCAAAGTGCCAAT
13623347 TT
1 TT
13623349 CAAATTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (23 bp):
TTAATTTTCTCCAAAGTGCCAAT
Found at i:13625964 original size:30 final size:28
Alignment explanation
Indices: 13625930--13626010 Score: 99
Period size: 30 Copynumber: 2.8 Consensus size: 28
13625920 TTAATATTTT
*
13625930 ATTAACTTATAATTTTATATCTTTAAAAAA
1 ATTAAATTATAATTTTAT-T-TTTAAAAAA
*
13625960 ATTAAATTAATAATTATTATTTTTAAAGAA
1 ATTAAATT-ATAATT-TTATTTTTAAAAAA
*
13625990 ATTAAAGTATAATTTTATTTT
1 ATTAAATTATAATTTTATTTT
13626011 ATATTAAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 7 0.15
29 6 0.13
30 22 0.48
31 7 0.15
32 4 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTAAATTATAATTTTATTTTTAAAAAA
Found at i:13637760 original size:3 final size:3
Alignment explanation
Indices: 13637703--13637741 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
13637693 TAAATATTTG
13637703 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13637742 TTTTAAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13637804 original size:38 final size:34
Alignment explanation
Indices: 13637717--13637808 Score: 103
Period size: 34 Copynumber: 2.6 Consensus size: 34
13637707 TAATAATAAT
** *
13637717 AATAATAATAATAATAATAATAATATTTTAAAAC
1 AATAATAATAGCAAAAATAATAATATTTTAAAAC
* *
13637751 AATAATAATAGCAAAAATAATGATATTGTTAAAATT
1 AATAATAATAGCAAAAATAATAATATT-TTAAAA-C
13637787 AATTAATTAATAGCAAAAATAA
1 AA-TAA-TAATAGCAAAAATAA
13637809 CAAAAAGGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 23 0.47
35 6 0.12
36 2 0.04
37 3 0.06
38 15 0.31
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (34 bp):
AATAATAATAGCAAAAATAATAATATTTTAAAAC
Found at i:13638947 original size:30 final size:30
Alignment explanation
Indices: 13638913--13638978 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
13638903 TGGGATTTTG
*
13638913 TTGGGCATCGGCTTGGGTTTGTAATGGGTT
1 TTGGGCATCGGCTAGGGTTTGTAATGGGTT
* * * * *
13638943 TTGGGTATTGGGTAGGTTTTTTAATGGGTT
1 TTGGGCATCGGCTAGGGTTTGTAATGGGTT
13638973 TTGGGC
1 TTGGGC
13638979 TGGGCACAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.11, C:0.06, G:0.39, T:0.44
Consensus pattern (30 bp):
TTGGGCATCGGCTAGGGTTTGTAATGGGTT
Found at i:13643596 original size:18 final size:18
Alignment explanation
Indices: 13643575--13643609 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13643565 AATATATAAA
13643575 AATTGATGA-ACCTGGAAT
1 AATTGA-GATACCTGGAAT
13643593 AATTGAGATACCTGGAA
1 AATTGAGATACCTGGAA
13643610 CAAATTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (18 bp):
AATTGAGATACCTGGAAT
Found at i:13649738 original size:2 final size:2
Alignment explanation
Indices: 13649731--13649757 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13649721 TGAAACAGTT
13649731 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
13649758 GATTCCAAAT
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:13653036 original size:20 final size:20
Alignment explanation
Indices: 13653008--13653052 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13652998 TAATATGTCT
*
13653008 TGTCCTAACTGAATTAATGG
1 TGTCTTAACTGAATTAATGG
* *
13653028 TGTCTTAACTTAATTAATTG
1 TGTCTTAACTGAATTAATGG
13653048 TGTCT
1 TGTCT
13653053 AGTTTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (20 bp):
TGTCTTAACTGAATTAATGG
Found at i:13654019 original size:22 final size:22
Alignment explanation
Indices: 13653953--13654110 Score: 93
Period size: 23 Copynumber: 7.1 Consensus size: 22
13653943 TTTGATCCAT
*
13653953 TTTCGTACCAAAACTTATACC-
1 TTTCGTACCAAAACCTATACCA
** * * * *
13653974 TTTTTTACCTACACCAAAATCCA
1 TTTCGTACCAAAACCTATA-CCA
*
13653997 TGTCGTACCAAAACCTATACCA
1 TTTCGTACCAAAACCTATACCA
* * * * *
13654019 TTTCGTACCTACACCAAAATCTA
1 TTTCGTACCAAAACCTATA-CCA
*
13654042 TTTTGTACCAAAACCTATACCA
1 TTTCGTACCAAAACCTATACCA
* * * *
13654064 TTTCGTACCTATACCAAAACCCA
1 TTTCGTACCAAAACCTATA-CCA
* * *
13654087 TTTCCTATCAAAACCGATACCA
1 TTTCGTACCAAAACCTATACCA
13654109 TT
1 TT
13654111 CCATAATTAA
Statistics
Matches: 96, Mismatches: 37, Indels: 7
0.69 0.26 0.05
Matches are distributed among these distances:
21 12 0.12
22 40 0.42
23 44 0.46
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.30
Consensus pattern (22 bp):
TTTCGTACCAAAACCTATACCA
Found at i:13654029 original size:45 final size:45
Alignment explanation
Indices: 13653947--13654110 Score: 213
Period size: 45 Copynumber: 3.6 Consensus size: 45
13653937 GACCTTTTTG
* **
13653947 ATCCATTTTCGTACCAAAACTTATACC-TTTTTTACCTACACCAAA
1 ATCCA-TTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
*
13653992 ATCCATGTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
1 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
* * *
13654037 ATCTATTTTGTACCAAAACCTATACCATTTCGTACCTATACCAAA
1 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
* * * *
13654082 ACCCATTTCCTATCAAAACCGATACCATT
1 ATCCATTTCGTACCAAAACCTATACCATT
13654111 CCATAATTAA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
44 19 0.18
45 85 0.82
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.30
Consensus pattern (45 bp):
ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
Found at i:13654049 original size:23 final size:23
Alignment explanation
Indices: 13653979--13654090 Score: 93
Period size: 22 Copynumber: 5.0 Consensus size: 23
13653969 ATACCTTTTT
*
13653979 TACCTACACCAAAATCCATGTCG
1 TACCTACACCAAAATCCATTTCG
* * * *
13654002 TACCAAAACCTATA-CCATTTCG
1 TACCTACACCAAAATCCATTTCG
* *
13654024 TACCTACACCAAAATCTATTTTG
1 TACCTACACCAAAATCCATTTCG
* * * *
13654047 TACCAAAACCTATA-CCATTTCG
1 TACCTACACCAAAATCCATTTCG
* *
13654069 TACCTATACCAAAACCCATTTC
1 TACCTACACCAAAATCCATTTC
13654091 CTATCAAAAC
Statistics
Matches: 66, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
22 33 0.50
23 33 0.50
ACGTcount: A:0.36, C:0.32, G:0.04, T:0.28
Consensus pattern (23 bp):
TACCTACACCAAAATCCATTTCG
Found at i:13658741 original size:47 final size:47
Alignment explanation
Indices: 13658675--13658959 Score: 446
Period size: 47 Copynumber: 6.1 Consensus size: 47
13658665 GAAATGATAG
13658675 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
13658722 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
13658769 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13658816 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
13658863 TAAGGCCTAATGGCTGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
13658909 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13658956 TAAG
1 TAAG
13658960 TCCCGAAGGG
Statistics
Matches: 220, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 39 0.18
47 181 0.82
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:13659134 original size:37 final size:37
Alignment explanation
Indices: 13659078--13659156 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
13659068 CCGAGCTCTA
* *
13659078 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
13659115 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
13659152 AAGAC
1 AAGAC
13659157 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:13660984 original size:40 final size:38
Alignment explanation
Indices: 13660901--13660986 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
13660891 GAAAAAACAA
* **
13660901 AAAAAAAGAGTGAAAATCAAAAGGAAAATAAAATTGAG
1 AAAAAAAGAGGGAAAATCAAAAGGAAAATAAAAGAGAG
13660939 AAAAAAAGAGGGAAAATTGCAAAA-GAAAATGAAAAGAGAG
1 AAAAAAAGAGGGAAAA-T-CAAAAGGAAAAT-AAAAGAGAG
13660979 TAAAAAAA
1 -AAAAAAA
13660987 AAGAAATCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 15 0.37
39 7 0.17
40 12 0.29
41 7 0.17
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.10
Consensus pattern (38 bp):
AAAAAAAGAGGGAAAATCAAAAGGAAAATAAAAGAGAG
Found at i:13665258 original size:22 final size:22
Alignment explanation
Indices: 13665227--13665341 Score: 122
Period size: 22 Copynumber: 5.1 Consensus size: 22
13665217 ACCAAAATCT
* *
13665227 ATTTCATACCAAAACCTATACC
1 ATTTCGTACCAAAACCAATACC
* * * *
13665249 ATTTAGTACCTACACCAAAATCC
1 ATTTCGTACCAAAACCAATA-CC
*
13665272 ATTTCGTACCAAAACCTATACC
1 ATTTCGTACCAAAACCAATACC
* * *
13665294 ATTTCGTACCTATACCAAAACCC
1 ATTTCGTACCAAAACCAATA-CC
13665317 ATTTCGTACCAAAACCAATACC
1 ATTTCGTACCAAAACCAATACC
13665339 ATT
1 ATT
13665342 CCATAATTAA
Statistics
Matches: 73, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
22 37 0.51
23 36 0.49
ACGTcount: A:0.38, C:0.31, G:0.03, T:0.27
Consensus pattern (22 bp):
ATTTCGTACCAAAACCAATACC
Found at i:13665276 original size:45 final size:45
Alignment explanation
Indices: 13665178--13665341 Score: 231
Period size: 45 Copynumber: 3.6 Consensus size: 45
13665168 GACCTTTTTG
* *
13665178 ATCCATTTTCATACCAAAACTTATACC-TTTCTTACCTACACCAAA
1 ATCCA-TTTCATACCAAAACCTATACCATTTCGTACCTACACCAAA
* *
13665223 ATCTATTTCATACCAAAACCTATACCATTTAGTACCTACACCAAA
1 ATCCATTTCATACCAAAACCTATACCATTTCGTACCTACACCAAA
* *
13665268 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTATACCAAA
1 ATCCATTTCATACCAAAACCTATACCATTTCGTACCTACACCAAA
* * *
13665313 ACCCATTTCGTACCAAAACCAATACCATT
1 ATCCATTTCATACCAAAACCTATACCATT
13665342 CCATAATTAA
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 20 0.19
45 88 0.81
ACGTcount: A:0.37, C:0.31, G:0.02, T:0.29
Consensus pattern (45 bp):
ATCCATTTCATACCAAAACCTATACCATTTCGTACCTACACCAAA
Found at i:13665333 original size:23 final size:22
Alignment explanation
Indices: 13665217--13665341 Score: 115
Period size: 23 Copynumber: 5.5 Consensus size: 22
13665207 TCTTACCTAC
* *
13665217 ACCAAAATCTATTTCATACCAAA
1 ACCAAAA-CCATTTCGTACCAAA
* * * * *
13665240 ACCTATACCATTTAGTACCTAC
1 ACCAAAACCATTTCGTACCAAA
13665262 ACCAAAATCCATTTCGTACCAAA
1 ACCAAAA-CCATTTCGTACCAAA
* * * *
13665285 ACCTATACCATTTCGTACCTAT
1 ACCAAAACCATTTCGTACCAAA
13665307 ACCAAAACCCATTTCGTACCAAA
1 ACCAAAA-CCATTTCGTACCAAA
*
13665330 ACCAATACCATT
1 ACCAAAACCATT
13665342 CCATAATTAA
Statistics
Matches: 79, Mismatches: 21, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
22 38 0.48
23 41 0.52
ACGTcount: A:0.39, C:0.31, G:0.03, T:0.26
Consensus pattern (22 bp):
ACCAAAACCATTTCGTACCAAA
Found at i:13665360 original size:45 final size:44
Alignment explanation
Indices: 13665217--13665373 Score: 138
Period size: 45 Copynumber: 3.5 Consensus size: 44
13665207 TCTTACCTAC
* * * * * *
13665217 ACCAAAATCTATTTCATACCAAAACCTATACCATT-TAGTACCTAC
1 ACCAAAA-CCATTTCGTACCAAAACCAATACCATTCCA-TAACTAA
* * * * *
13665262 ACCAAAATCCATTTCGTACCAAAACCTATACCATTTCGTACCTAT
1 ACCAAAA-CCATTTCGTACCAAAACCAATACCATTCCATAACTAA
*
13665307 ACCAAAACCCATTTCGTACCAAAACCAATACCATTCCATAATTAA
1 ACCAAAA-CCATTTCGTACCAAAACCAATACCATTCCATAACTAA
*
13665352 ACCTAAACCATATTCG-ACCAAA
1 ACCAAAACCAT-TTCGTACCAAA
13665374 CTTAGCCTAC
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
44 10 0.10
45 87 0.90
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.25
Consensus pattern (44 bp):
ACCAAAACCATTTCGTACCAAAACCAATACCATTCCATAACTAA
Found at i:13667367 original size:43 final size:42
Alignment explanation
Indices: 13667210--13667368 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 42
13667200 TATGTGATAT
*
13667210 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-AATTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA-A--TA
* * * * * * * *
13667254 TGTGTAAGACCATGTTTGGGACATAGGCATCGTATATGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGAATA
13667296 CGTGTAAGACC-CTGTCCT-GGACAG-TGGCATCGTTATTTGAATA
1 CGTGTAAGACCAC-GT-CTGGGAC-GTTGGCATCG-TATTTGAATA
* *
13667339 CATGTAAGACCACGTCTGAGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
13667369 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
42 27 0.31
43 29 0.33
44 28 0.32
45 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGAATA
Found at i:13669357 original size:36 final size:35
Alignment explanation
Indices: 13669312--13669427 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 35
13669302 GTTACACTGT
* *
13669312 TCCCGCACATGGAGGAAGGCTTACAGGGGGTCTGGC
1 TCCCACACATGGAGGAAGGCTTACAGAGGGTCT-GC
* *
13669348 TCCCACACATGGAGG-CGGCTTACA-AGAGTCCTGC
1 TCCCACACATGGAGGAAGGCTTACAGAGGGT-CTGC
*
13669382 TCCCACACATGG-GGAAGGCTTAC-GAGGGTTTTGC
1 TCCCACACATGGAGGAAGGCTTACAGAGGG-TCTGC
13669416 TCCCACACATGG
1 TCCCACACATGG
13669428 GGGACACTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
33 2 0.03
34 42 0.61
35 11 0.16
36 14 0.20
ACGTcount: A:0.22, C:0.28, G:0.31, T:0.19
Consensus pattern (35 bp):
TCCCACACATGGAGGAAGGCTTACAGAGGGTCTGC
Found at i:13672813 original size:20 final size:20
Alignment explanation
Indices: 13672775--13672813 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13672765 ACCTACATGA
* *
13672775 GACACACAGCTGTGTCACAT
1 GACACACAGCTGAGACACAT
*
13672795 GACACACGGCTGAGACACA
1 GACACACAGCTGAGACACA
13672814 CATCTGTGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.31, G:0.23, T:0.13
Consensus pattern (20 bp):
GACACACAGCTGAGACACAT
Found at i:13680317 original size:16 final size:16
Alignment explanation
Indices: 13680285--13680335 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
13680275 TCTATATATA
*
13680285 TTATAATTTACAT-ATT
1 TTATAA-TTAAATAATT
13680301 TTATAATTAAATAATTT
1 TTATAATTAAATAA-TT
13680318 TTATTAA-TAAATAATT
1 TTA-TAATTAAATAATT
13680334 TT
1 TT
13680336 CAAAAAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 5 0.16
16 11 0.35
17 12 0.39
18 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATAATTAAATAATT
Found at i:13680321 original size:17 final size:17
Alignment explanation
Indices: 13680299--13680335 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13680289 AATTTACATA
13680299 TTTTA-TAATTAAATAAT
1 TTTTATTAA-TAAATAAT
13680316 TTTTATTAATAAATAAT
1 TTTTATTAATAAATAAT
13680333 TTT
1 TTT
13680336 CAAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTATTAATAAATAAT
Found at i:13683103 original size:22 final size:22
Alignment explanation
Indices: 13683078--13683119 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
13683068 TAATGAAATG
13683078 ACAGCAAAACAGTGAGAAAACA
1 ACAGCAAAACAGTGAGAAAACA
*
13683100 ACAGCAAAACTGTGAGAAAA
1 ACAGCAAAACAGTGAGAAAA
13683120 TGGCAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.17, G:0.19, T:0.07
Consensus pattern (22 bp):
ACAGCAAAACAGTGAGAAAACA
Found at i:13684988 original size:22 final size:21
Alignment explanation
Indices: 13684938--13684988 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
13684928 TATAAAATAT
13684938 TAAAAAATATAAATACTTTGA
1 TAAAAAATATAAATACTTTGA
*
13684959 -AAAAAATATAAATTA-TTTTA
1 TAAAAAATATAAA-TACTTTGA
13684979 TAAAATAATA
1 TAAAA-AATA
13684989 ATATTTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 16 0.62
21 6 0.23
22 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
TAAAAAATATAAATACTTTGA
Found at i:13687078 original size:4 final size:4
Alignment explanation
Indices: 13687069--13687157 Score: 97
Period size: 4 Copynumber: 22.2 Consensus size: 4
13687059 GAGAATTTGT
* **
13687069 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGCC
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * *
13687117 TGCA TGTA TGCA TGCA TGCA TGCA TGCA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
13687158 ACTTGTGTGT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 79 1.00
ACGTcount: A:0.24, C:0.10, G:0.25, T:0.42
Consensus pattern (4 bp):
TGTA
Found at i:13690340 original size:25 final size:25
Alignment explanation
Indices: 13690312--13690361 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
13690302 GAATTGTTCC
*
13690312 AGAAACCTTTAT-ATGGATTTATTTG
1 AGAAACCTTTATGGT-GATTTATTTG
*
13690337 AGAAGCCTTTATGGTGATTTATTTG
1 AGAAACCTTTATGGTGATTTATTTG
13690362 GGGAAGCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (25 bp):
AGAAACCTTTATGGTGATTTATTTG
Found at i:13690408 original size:51 final size:51
Alignment explanation
Indices: 13690339--13690504 Score: 199
Period size: 51 Copynumber: 3.3 Consensus size: 51
13690329 TTTATTTGAG
* *
13690339 AAGCCTTTATGGTGATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
1 AAGCCTTTGTGGTAATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
* * * *
13690390 AATCCTTTGTGGTAATTTATTTGGGAAAGCCTTTGTGCCAAGTCACTTGTA
1 AAGCCTTTGTGGTAATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
* * * * * *
13690441 CAGCCTTTGTGGCAATTTA-TTCGGGAAGCCTTTGTGGCAGGTTATCTGTA
1 AAGCCTTTGTGGTAATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
* *
13690491 ACGCCTTTATGGTA
1 AAGCCTTTGTGGTA
13690505 GGCTACCTGT
Statistics
Matches: 95, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 34 0.36
51 61 0.64
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (51 bp):
AAGCCTTTGTGGTAATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
Found at i:13690470 original size:25 final size:24
Alignment explanation
Indices: 13690328--13690479 Score: 81
Period size: 25 Copynumber: 6.0 Consensus size: 24
13690318 CTTTATATGG
* * **
13690328 ATTTATTTGAGAAGCCTTTATGGTG
1 ATTTA-TTGGGAAGCCTTTGTGGCA
13690353 ATTTATTTGGGGAAGCCTTTGTGGCA
1 ATTTA-TT-GGGAAGCCTTTGTGGCA
* * * ** * *
13690379 AGTCACCTGTAAATCCTTTGTGGTA
1 ATTTA-TTGGGAAGCCTTTGTGGCA
*
13690404 ATTTATTTGGGAAAGCCTTTGTGCCA
1 ATTTA-TTGGG-AAGCCTTTGTGGCA
* * *
13690430 AGTCACTT-GTACAGCCTTTGTGGCA
1 ATTTA-TTGGGA-AGCCTTTGTGGCA
13690455 ATTTATTCGGGAAGCCTTTGTGGCA
1 ATTTATT-GGGAAGCCTTTGTGGCA
13690480 GGTTATCTGT
Statistics
Matches: 93, Mismatches: 29, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
24 3 0.03
25 55 0.59
26 35 0.38
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.38
Consensus pattern (24 bp):
ATTTATTGGGAAGCCTTTGTGGCA
Found at i:13690528 original size:25 final size:25
Alignment explanation
Indices: 13690466--13690528 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
13690456 TTTATTCGGG
* * *
13690466 AAGCCTTTGTGGCAGGTTATCTGTA
1 AAGCCTTTGTGGTAGGCTACCTGTA
* *
13690491 ACGCCTTTATGGTAGGCTACCTGTA
1 AAGCCTTTGTGGTAGGCTACCTGTA
*
13690516 AAGCCTATGTGGT
1 AAGCCTTTGTGGT
13690529 GTAATGTCTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (25 bp):
AAGCCTTTGTGGTAGGCTACCTGTA
Found at i:13692863 original size:17 final size:18
Alignment explanation
Indices: 13692828--13692863 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13692818 CTCAAAAGAC
*
13692828 ATTATTTTAAAAATATAT
1 ATTATTTAAAAAATATAT
13692846 ATTATTTAAAAAAT-TAT
1 ATTATTTAAAAAATATAT
13692863 A
1 A
13692864 AAAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATTTAAAAAATATAT
Found at i:13693669 original size:6 final size:7
Alignment explanation
Indices: 13693632--13693675 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
13693622 ATATTTGAAA
*
13693632 TTTAATC
1 TTTAATT
* *
13693639 TTTGATC
1 TTTAATT
13693646 TTTAAGTT
1 TTTAA-TT
13693654 TTTAATT
1 TTTAATT
13693661 TTTAATT
1 TTTAATT
13693668 TTTAATT
1 TTTAATT
13693675 T
1 T
13693676 AATAATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (7 bp):
TTTAATT
Found at i:13698920 original size:15 final size:16
Alignment explanation
Indices: 13698900--13698953 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 16
13698890 ATTGAATATT
13698900 AATAT-TTAAATAATA
1 AATATATTAAATAATA
*
13698915 AATATTTATTACAATTATA
1 AATA--TATTA-AATAATA
13698934 AATATATT-AATAATA
1 AATATATTAAATAATA
13698949 AATAT
1 AATAT
13698954 TTTGTAGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 15 0.45
17 5 0.15
18 3 0.09
19 10 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATTAAATAATA
Found at i:13710224 original size:36 final size:36
Alignment explanation
Indices: 13710177--13710249 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
13710167 TTTTTAAAAC
13710177 AAATAAACGAAGCAAAGAAGAAGGGGAAAAGTTCTT
1 AAATAAACGAAGCAAAGAAGAAGGGGAAAAGTTCTT
13710213 AAATAAACGAAGCAAAGAAGAAGGGGAAAAGTTCTT
1 AAATAAACGAAGCAAAGAAGAAGGGGAAAAGTTCTT
13710249 A
1 A
13710250 CCGGTGGCAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.53, C:0.08, G:0.25, T:0.14
Consensus pattern (36 bp):
AAATAAACGAAGCAAAGAAGAAGGGGAAAAGTTCTT
Found at i:13710805 original size:3 final size:3
Alignment explanation
Indices: 13710797--13710835 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
13710787 TTTCAATAGA
13710797 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13710836 TCCATACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Done.